[Identification of new conserved and variable regions in the 16S rRNA gene of acetic acid bacteria and acetobacteraceae family].

PubMed

Chakravorty, S; Sarkar, S; Gachhui, R

2015-01-01

The Acetobacteraceae family of the class Alpha Proteobacteria is comprised of high sugar and acid tolerant bacteria. The Acetic Acid Bacteria are the economically most significant group of this family because of its association with food products like vinegar, wine etc. Acetobacteraceae are often hard to culture in laboratory conditions and they also maintain very low abundances in their natural habitats. Thus identification of the organisms in such environments is greatly dependent on modern tools of molecular biology which require a thorough knowledge of specific conserved gene sequences that may act as primers and or probes. Moreover unconserved domains in genes also become markers for differentiating closely related genera. In bacteria, the 16S rRNA gene is an ideal candidate for such conserved and variable domains. In order to study the conserved and variable domains of the 16S rRNA gene of Acetic Acid Bacteria and the Acetobacteraceae family, sequences from publicly available databases were aligned and compared. Near complete sequences of the gene were also obtained from Kombucha tea biofilm, a known Acetobacteraceae family habitat, in order to corroborate the domains obtained from the alignment studies. The study indicated that the degree of conservation in the gene is significantly higher among the Acetic Acid Bacteria than the whole Acetobacteraceae family. Moreover it was also observed that the previously described hypervariable regions V1, V3, V5, V6 and V7 were more or less conserved in the family and the spans of the variable regions are quite distinct as well.

Interaction of the putative tyrosine recombinases RipX (UU145), XerC (UU222), and CodV (UU529) of Ureaplasma parvum serovar 3 with specific DNA

PubMed Central

Zimmerman, Carl-Ulrich R; Rosengarten, Renate; Spergser, Joachim

2013-01-01

Phase variation of two loci (‘mba locus’ and ‘UU172 phase-variable element’) in Ureaplasma parvum serovar 3 has been suggested as result of site-specific DNA inversion occurring at short inverted repeats. Three potential tyrosine recombinases (RipX, XerC, and CodV encoded by the genes UU145, UU222, and UU529) have been annotated in the genome of U. parvum serovar 3, which could be mediators in the proposed recombination event. We document that only orthologs of the gene xerC are present in all strains that show phase variation in the two loci. We demonstrate in vitro binding of recombinant maltose-binding protein fusions of XerC to the inverted repeats of the phase-variable loci, of RipX to a direct repeat that flanks a 20-kbp region, which has been proposed as putative pathogenicity island, and of CodV to a putative dif site. Co-transformation of the model organism Mycoplasma pneumoniae M129 with both the ‘mba locus’ and the recombinase gene xerC behind an active promoter region resulted in DNA inversion in the ‘mba locus’. Results suggest that XerC of U. parvum serovar 3 is a mediator in the proposed DNA inversion event of the two phase-variable loci. PMID:23305333

Arginine insertion and loss of N-linked glycosylation site in HIV-1 envelope V3 region confer CXCR4-tropism

PubMed Central

Tsuchiya, Kiyoto; Ode, Hirotaka; Hayashida, Tsunefusa; Kakizawa, Junko; Sato, Hironori; Oka, Shinichi; Gatanaga, Hiroyuki

2013-01-01

The third variable region (V3) of HIV-1 envelope glycoprotein gp120 plays a key role in determination of viral coreceptor usage (tropism). However, which combinations of mutations in V3 confer a tropism shift is still unclear. A unique pattern of mutations in antiretroviral therapy-naive HIV-1 patient was observed associated with the HIV-1 tropism shift CCR5 to CXCR4. The insertion of arginine at position 11 and the loss of the N-linked glycosylation site were indispensable for acquiring pure CXCR4-tropism, which were confirmed by cell-cell fusion assay and phenotype analysis of recombinant HIV-1 variants. The same pattern of mutations in V3 and the associated tropism shift were identified in two of 53 other patients (3.8%) with CD4+ cell count <200/mm3. The combination of arginine insertion and loss of N-linked glycosylation site usually confers CXCR4-tropism. Awareness of this rule will help to confirm the tropism prediction from V3 sequences by conventional rules. PMID:23925152

Human heavy chain disease protein WIS: implications for the organization of immunoglobulin genes.

PubMed Central

Franklin, E C; Prelli, F; Frangione, B

1979-01-01

Protein WIS is a human gamma3 heavy (H) chain disease immunoglobulin variant whose amino acid sequence is most readily interpreted by postulating that three residues of the amino terminus are followed by a deletion of most of the variable (VH) domain, which ends at the variable-constant (VC) joining region. Then there is a stretch of eight residues, three of which are unusual, while the other five have striking homology to the VC junction sequence. This is followed by a second deletion, which ends at the beginning of the quadruplicated hinge region. These findings are consistent with mutations resulting in deletions of most of the gene coding for the V region and CH1 domain followed by splicing at the VC joining region and at the hinge. These structural features fit well the notion of genetic discontinuity between V and C genes and also suggest similar mechanisms of excision and splicing in the interdomain regions of the C gene of the heavy chain. PMID:106391

Overlapping hotspots in CDRs are critical sites for V region diversification.

PubMed

Wei, Lirong; Chahwan, Richard; Wang, Shanzhi; Wang, Xiaohua; Pham, Phuong T; Goodman, Myron F; Bergman, Aviv; Scharff, Matthew D; MacCarthy, Thomas

2015-02-17

Activation-induced deaminase (AID) mediates the somatic hypermutation (SHM) of Ig variable (V) regions that is required for the affinity maturation of the antibody response. An intensive analysis of a published database of somatic hypermutations that arose in the IGHV3-23*01 human V region expressed in vivo by human memory B cells revealed that the focus of mutations in complementary determining region (CDR)1 and CDR2 coincided with a combination of overlapping AGCT hotspots, the absence of AID cold spots, and an abundance of polymerase eta hotspots. If the overlapping hotspots in the CDR1 or CDR2 did not undergo mutation, the frequency of mutations throughout the V region was reduced. To model this result, we examined the mutation of the human IGHV3-23*01 biochemically and in the endogenous heavy chain locus of Ramos B cells. Deep sequencing revealed that IGHV3-23*01 in Ramos cells accumulates AID-induced mutations primarily in the AGCT in CDR2, which was also the most frequent site of mutation in vivo. Replacing the overlapping hotspots in CDR1 and CDR2 with neutral or cold motifs resulted in a reduction in mutations within the modified motifs and, to some degree, throughout the V region. In addition, some of the overlapping hotspots in the CDRs were at sites in which replacement mutations could change the structure of the CDR loops. Our analysis suggests that the local sequence environment of the V region, and especially of the CDR1 and CDR2, is highly evolved to recruit mutations to key residues in the CDRs of the IgV region.

Highly sensitive and unbiased approach for elucidating antibody repertoires

PubMed Central

Lin, Sherry G.; Ba, Zhaoqing; Du, Zhou; Zhang, Yu; Hu, Jiazhi; Alt, Frederick W.

2016-01-01

Developing B lymphocytes undergo V(D)J recombination to assemble germ-line V, D, and J gene segments into exons that encode the antigen-binding variable region of Ig heavy (H) and light (L) chains. IgH and IgL chains associate to form the B-cell receptor (BCR), which, upon antigen binding, activates B cells to secrete BCR as an antibody. Each of the huge number of clonally independent B cells expresses a unique set of IgH and IgL variable regions. The ability of V(D)J recombination to generate vast primary B-cell repertoires results from a combinatorial assortment of large numbers of different V, D, and J segments, coupled with diversification of the junctions between them to generate the complementary determining region 3 (CDR3) for antigen contact. Approaches to evaluate in depth the content of primary antibody repertoires and, ultimately, to study how they are further molded by secondary mutation and affinity maturation processes are of great importance to the B-cell development, vaccine, and antibody fields. We now describe an unbiased, sensitive, and readily accessible assay, referred to as high-throughput genome-wide translocation sequencing-adapted repertoire sequencing (HTGTS-Rep-seq), to quantify antibody repertoires. HTGTS-Rep-seq quantitatively identifies the vast majority of IgH and IgL V(D)J exons, including their unique CDR3 sequences, from progenitor and mature mouse B lineage cells via the use of specific J primers. HTGTS-Rep-seq also accurately quantifies DJH intermediates and V(D)J exons in either productive or nonproductive configurations. HTGTS-Rep-seq should be useful for studies of human samples, including clonal B-cell expansions, and also for following antibody affinity maturation processes. PMID:27354528

Variable Copy Number, Intra-Genomic Heterogeneities and Lateral Transfers of the 16S rRNA Gene in Pseudomonas

PubMed Central

Bodilis, Josselin; Nsigue-Meilo, Sandrine; Besaury, Ludovic; Quillet, Laurent

2012-01-01

Even though the 16S rRNA gene is the most commonly used taxonomic marker in microbial ecology, its poor resolution is still not fully understood at the intra-genus level. In this work, the number of rRNA gene operons, intra-genomic heterogeneities and lateral transfers were investigated at a fine-scale resolution, throughout the Pseudomonas genus. In addition to nineteen sequenced Pseudomonas strains, we determined the 16S rRNA copy number in four other Pseudomonas strains by Southern hybridization and Pulsed-Field Gel Electrophoresis, and studied the intra-genomic heterogeneities by Denaturing Gradient Gel Electrophoresis and sequencing. Although the variable copy number (from four to seven) seems to be correlated with the evolutionary distance, some close strains in the P. fluorescens lineage showed a different number of 16S rRNA genes, whereas all the strains in the P. aeruginosa lineage displayed the same number of genes (four copies). Further study of the intra-genomic heterogeneities revealed that most of the Pseudomonas strains (15 out of 19 strains) had at least two different 16S rRNA alleles. A great difference (5 or 19 nucleotides, essentially grouped near the V1 hypervariable region) was observed only in two sequenced strains. In one of our strains studied (MFY30 strain), we found a difference of 12 nucleotides (grouped in the V3 hypervariable region) between copies of the 16S rRNA gene. Finally, occurrence of partial lateral transfers of the 16S rRNA gene was further investigated in 1803 full-length sequences of Pseudomonas available in the databases. Remarkably, we found that the two most variable regions (the V1 and V3 hypervariable regions) had probably been laterally transferred from another evolutionary distant Pseudomonas strain for at least 48.3 and 41.6% of the 16S rRNA sequences, respectively. In conclusion, we strongly recommend removing these regions of the 16S rRNA gene during the intra-genus diversity studies. PMID:22545126

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification.

PubMed

Ziesemer, Kirsten A; Mann, Allison E; Sankaranarayanan, Krithivasan; Schroeder, Hannes; Ozga, Andrew T; Brandt, Bernd W; Zaura, Egija; Waters-Rist, Andrea; Hoogland, Menno; Salazar-García, Domingo C; Aldenderfer, Mark; Speller, Camilla; Hendy, Jessica; Weston, Darlene A; MacDonald, Sandy J; Thomas, Gavin H; Collins, Matthew J; Lewis, Cecil M; Hofman, Corinne; Warinner, Christina

2015-11-13

To date, characterization of ancient oral (dental calculus) and gut (coprolite) microbiota has been primarily accomplished through a metataxonomic approach involving targeted amplification of one or more variable regions in the 16S rRNA gene. Specifically, the V3 region (E. coli 341-534) of this gene has been suggested as an excellent candidate for ancient DNA amplification and microbial community reconstruction. However, in practice this metataxonomic approach often produces highly skewed taxonomic frequency data. In this study, we use non-targeted (shotgun metagenomics) sequencing methods to better understand skewed microbial profiles observed in four ancient dental calculus specimens previously analyzed by amplicon sequencing. Through comparisons of microbial taxonomic counts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets, we demonstrate that extensive length polymorphisms in the V3 region are a consistent and major cause of differential amplification leading to taxonomic bias in ancient microbiome reconstructions based on amplicon sequencing. We conclude that systematic amplification bias confounds attempts to accurately reconstruct microbiome taxonomic profiles from 16S rRNA V3 amplicon data generated using universal primers. Because in silico analysis indicates that alternative 16S rRNA hypervariable regions will present similar challenges, we advocate for the use of a shotgun metagenomics approach in ancient microbiome reconstructions.

Intrinsic challenges in ancient microbiome reconstruction using 16S rRNA gene amplification

PubMed Central

Ziesemer, Kirsten A.; Mann, Allison E.; Sankaranarayanan, Krithivasan; Schroeder, Hannes; Ozga, Andrew T.; Brandt, Bernd W.; Zaura, Egija; Waters-Rist, Andrea; Hoogland, Menno; Salazar-García, Domingo C.; Aldenderfer, Mark; Speller, Camilla; Hendy, Jessica; Weston, Darlene A.; MacDonald, Sandy J.; Thomas, Gavin H.; Collins, Matthew J.; Lewis, Cecil M.; Hofman, Corinne; Warinner, Christina

2015-01-01

To date, characterization of ancient oral (dental calculus) and gut (coprolite) microbiota has been primarily accomplished through a metataxonomic approach involving targeted amplification of one or more variable regions in the 16S rRNA gene. Specifically, the V3 region (E. coli 341–534) of this gene has been suggested as an excellent candidate for ancient DNA amplification and microbial community reconstruction. However, in practice this metataxonomic approach often produces highly skewed taxonomic frequency data. In this study, we use non-targeted (shotgun metagenomics) sequencing methods to better understand skewed microbial profiles observed in four ancient dental calculus specimens previously analyzed by amplicon sequencing. Through comparisons of microbial taxonomic counts from paired amplicon (V3 U341F/534R) and shotgun sequencing datasets, we demonstrate that extensive length polymorphisms in the V3 region are a consistent and major cause of differential amplification leading to taxonomic bias in ancient microbiome reconstructions based on amplicon sequencing. We conclude that systematic amplification bias confounds attempts to accurately reconstruct microbiome taxonomic profiles from 16S rRNA V3 amplicon data generated using universal primers. Because in silico analysis indicates that alternative 16S rRNA hypervariable regions will present similar challenges, we advocate for the use of a shotgun metagenomics approach in ancient microbiome reconstructions. PMID:26563586

Evolutionary and Structural Features of the C2, V3 and C3 Envelope Regions Underlying the Differences in HIV-1 and HIV-2 Biology and Infection

PubMed Central

Bártolo, Inês; Marcelino, José Maria; Família, Carlos; Quintas, Alexandre; Taveira, Nuno

2011-01-01

Background Unlike in HIV-1 infection, the majority of HIV-2 patients produce broadly reactive neutralizing antibodies, control viral replication and survive as elite controllers. The identification of the molecular, structural and evolutionary footprints underlying these very distinct immunological and clinical outcomes may lead to the development of new strategies for the prevention and treatment of HIV infection. Methodology/Principal Findings We performed a side-by-side molecular, evolutionary and structural comparison of the C2, V3 and C3 envelope regions from HIV-1 and HIV-2. These regions contain major antigenic targets and are important for receptor binding. In HIV-2, these regions also have immune modulatory properties. We found that these regions are significantly more variable in HIV-1 than in HIV-2. Within each virus, C3 is the most entropic region followed by either C2 (HIV-2) or V3 (HIV-1). The C3 region is well exposed in the HIV-2 envelope and is under strong diversifying selection suggesting that, like in HIV-1, it may harbour neutralizing epitopes. Notably, however, extreme diversification of C2 and C3 seems to be deleterious for HIV-2 and prevent its transmission. Computer modelling simulations showed that in HIV-2 the V3 loop is much less exposed than C2 and C3 and has a retractile conformation due to a physical interaction with both C2 and C3. The concealed and conserved nature of V3 in the HIV-2 is consistent with its lack of immunodominancy in vivo and with its role in preventing immune activation. In contrast, HIV-1 had an extended and accessible V3 loop that is consistent with its immunodominant and neutralizing nature. Conclusions/Significance We identify significant structural and functional constrains to the diversification and evolution of C2, V3 and C3 in the HIV-2 envelope but not in HIV-1. These studies highlight fundamental differences in the biology and infection of HIV-1 and HIV-2 and in their mode of interaction with the human immune system and may inform new vaccine and therapeutic interventions against these viruses. PMID:21283793

Mrk 421 after the Giant X-Ray Outburst in 2013

NASA Astrophysics Data System (ADS)

Kapanadze, B.; Dorner, D.; Romano, P.; Vercellone, S.; Kapanadze, S.; Tabagari, L.

2017-10-01

We present the results of the Swift observations of the nearby BL Lac object Mrk 421 during 2013 November-2015 June. The source exhibited a strong long-term variability in the 0.3-10 keV band, with a maximum-to-minimum flux ratio of 13, and underwent X-ray flares by a factor of 1.8-5.2 on timescales of a few weeks or shorter. The source showed 48 instances of intraday flux variability in this period, which sometimes was observed within the 1 ks observational run. It was characterized by fractional amplitudes of 1.5(0.3)%-38.6(0.4)% and flux doubling/halving times of 2.6-20.1 hr. The X-ray flux showed a lack of correlation with the TeV flux on some occasions (strong TeV flares were not accompanied by comparable X-ray activity and vice versa), indicating that the high-energy emission in Mrk 421 was generated from an emission region more complex than a single zone. The best fits of the 0.3-10 keV spectra were mainly obtained using the log-parabola model, showing a strong spectral variability that generally followed a “harder-when-brighter” trend. The position of the synchrotron spectral energy distribution peak showed an extreme range from a few eV to ˜10 keV that happens rarely in blazars.

Molecular genetic analysis of the V kappa Ser group associated with two mouse light chain genetic markers. Complementary DNA cloning and southern hybridization analysis

PubMed Central

1985-01-01

Previous studies (21) have shown that two mouse kappa light (L) chain variable (V) region polymorphisms, the IB-peptide and Efla markers, reflect expression of a characteristic group of V kappa regions, called V kappa Ser, by some inbred strains and not others. Expression of V kappa Ser is controlled by a locus on chromosome 6, the chromosome that contains the kappa locus. To further characterize this V kappa group and begin to analyze the basis for its strain-specific expression, full- length complementary DNA (cDNA) copies were produced of L chain mRNA from the M75 myeloma that had been induced in the C.C58 strain of mice, and which produces a V kappa Ser L chain. The C.C58 strain is congenic with BALB/cAn, differing in the region of chromosome 6 that controls expression of the V kappa polymorphisms and the Lyt-2 and Lyt-3 T cell alloantigens. The complete nucleotide sequence of this cloned cDNA was determined and compared with the nucleotide sequences the most closely related BALB/c myeloma L chains known. Results indicated significant differences throughout the variable region, but particularly toward the 5' portion of the sequence. A probe corresponding to 200 bp of the 5' end of the cloned V kappa Ser cDNA was used in Southern hybridizations of restriction digests of liver DNA from a number of inbred, recombinant, and recombinant inbred strains. Under stringent hybridization conditions, one strongly-hybridizing fragment was observed in Bam HI, Hind III, and Eco RI digests, and based on the size of the fragments, strains could be organized into two groups. The presence of strongly hybridizing Bam HI, Hind III, and Eco RI fragments of 3.2, 2.8, and 2.1 kb, respectively, was found to correlate completely with expression by the strain of the IB-peptide and Efla markers. All nonexpressor strains yielded hybridizing fragments of 7.8, 8.4, and 2.8 kb, respectively. Possible explanations for strain- specific expression of V kappa Ser-associated phenotypic markers are discussed. PMID:3926938

A complementarity-determining region synthetic peptide acts as a miniantibody and neutralizes human immunodeficiency virus type 1 in vitro.

PubMed Central

Levi, M; Sällberg, M; Rudén, U; Herlyn, D; Maruyama, H; Wigzell, H; Marks, J; Wahren, B

1993-01-01

A complementarity-determining region (CDR) of the mouse monoclonal antibody (mAb) F58 was constructed with specificity to a neutralization-inducing region of human immunodeficiency virus type 1 (HIV-1). The mAb has its major reactivity to the amino acid sequence I--GPGRA in the V3 viral envelope region. All CDRs including several framework amino acids were synthesized from the sequence deduced by cloning and sequencing mAb F58 heavy- and light-chain variable domains. Peptides derived from the third heavy-chain domain (CDR-H3) alone or in combination with the other CDR sequences competed with F58 mAb for the V3 region. The CDR-H3 peptide was chemically modified by cyclization and then inhibited HIV-1 replication as well as syncytium formation by infected cells. Both the homologous IIIB viral strain to which the F58 mAb was induced and the heterologous SF2 strain were inhibited. This synthetic peptide had unexpectedly potent antiviral activity and may be a potential tool for treatment of HIV-infected persons. PMID:7685100

The three-dimensional structure of a T-cell antigen receptor V alpha V beta heterodimer reveals a novel arrangement of the V beta domain.

PubMed Central

Housset, D; Mazza, G; Grégoire, C; Piras, C; Malissen, B; Fontecilla-Camps, J C

1997-01-01

The crystal structure of a mouse T-cell antigen receptor (TCR) Fv fragment complexed to the Fab fragment of a specific anti-clonotypic antibody has been determined to 2.6 A resolution. The polypeptide backbone of the TCR V alpha domain is very similar to those of other crystallographically determined V alphas, whereas the V beta structure is so far unique among TCR V beta domains in that it displays a switch of the c" strand from the inner to the outer beta-sheet. The beta chain variable region of this TCR antigen-binding site is characterized by a rather elongated third complementarity-determining region (CDR3beta) that packs tightly against the CDR3 loop of the alpha chain, without leaving any intervening hydrophobic pocket. Thus, the conformation of the CDR loops with the highest potential diversity distinguishes the structure of this TCR antigen-binding site from those for which crystallographic data are available. On the basis of all these results, we infer that a significant conformational change of the CDR3beta loop found in our TCR is required for binding to its cognate peptide-MHC ligand. PMID:9250664

X-ray Variability of the Magnetic Cataclysmic Variable V1432 Aql and the Seyfert Galaxy NGC 6814

NASA Technical Reports Server (NTRS)

Mukai, K.; Hellier, C.; Madejski, G.; Patterson, J.; Skillman, D. R.

2003-01-01

V1432 Aquilae (=RX J1940.2-1025) is the X-ray bright, eclipsing magnetic cataclysmic variable approximately 37 (sup) away from the Seyfert galaxy, NGC 6814. Due to a 0.3% difference between the orbital (12116.3 s) and the spin (12150 s) periods: the accretion geometry changes over the approximately 50 day beat period. Here we report the results of an RXTE campaign to observe the eclipse 25 times, as well as of archival observations with ASCA and BeppoSAX. Having confirmed that the eclipse is indeed caused by the secondary, we use the eclipse timings and profiles to map the accretion geometry as a function of the beat phase. We find that the accretion region is compact, and that it moves relative to the center of white dwarf on the beat period. The amplitude of this movement suggest a low-mass white dwarf, in contrast to the high mass previously estimated from its X-ray spectrum. The size of the X-ray emission region appears to be larger than in other eclipsing magnetic CVs. We also report on the RXTE data as well as the long-term behavior of NGC 6814, indicating flux variability by a factor of at least 10 on time scales of years.

Retinotopic Maps, Spatial Tuning, and Locations of Human Visual Areas in Surface Coordinates Characterized with Multifocal and Blocked fMRI Designs

PubMed Central

Henriksson, Linda; Karvonen, Juha; Salminen-Vaparanta, Niina; Railo, Henry; Vanni, Simo

2012-01-01

The localization of visual areas in the human cortex is typically based on mapping the retinotopic organization with functional magnetic resonance imaging (fMRI). The most common approach is to encode the response phase for a slowly moving visual stimulus and to present the result on an individual's reconstructed cortical surface. The main aims of this study were to develop complementary general linear model (GLM)-based retinotopic mapping methods and to characterize the inter-individual variability of the visual area positions on the cortical surface. We studied 15 subjects with two methods: a 24-region multifocal checkerboard stimulus and a blocked presentation of object stimuli at different visual field locations. The retinotopic maps were based on weighted averaging of the GLM parameter estimates for the stimulus regions. In addition to localizing visual areas, both methods could be used to localize multiple retinotopic regions-of-interest. The two methods yielded consistent retinotopic maps in the visual areas V1, V2, V3, hV4, and V3AB. In the higher-level areas IPS0, VO1, LO1, LO2, TO1, and TO2, retinotopy could only be mapped with the blocked stimulus presentation. The gradual widening of spatial tuning and an increase in the responses to stimuli in the ipsilateral visual field along the hierarchy of visual areas likely reflected the increase in the average receptive field size. Finally, after registration to Freesurfer's surface-based atlas of the human cerebral cortex, we calculated the mean and variability of the visual area positions in the spherical surface-based coordinate system and generated probability maps of the visual areas on the average cortical surface. The inter-individual variability in the area locations decreased when the midpoints were calculated along the spherical cortical surface compared with volumetric coordinates. These results can facilitate both analysis of individual functional anatomy and comparisons of visual cortex topology across studies. PMID:22590626

Maternal Binding and Neutralizing IgG Responses Targeting the C-Terminal Region of the V3 Loop Are Predictive of Reduced Peripartum HIV-1 Transmission Risk.

PubMed

Martinez, David R; Vandergrift, Nathan; Douglas, Ayooluwa O; McGuire, Erin; Bainbridge, John; Nicely, Nathan I; Montefiori, David C; Tomaras, Georgia D; Fouda, Genevieve G; Permar, Sallie R

2017-05-01

The development of an effective maternal HIV-1 vaccine that could synergize with antiretroviral therapy (ART) to eliminate pediatric HIV-1 infection will require the characterization of maternal immune responses capable of blocking transmission of autologous HIV to the infant. We previously determined that maternal plasma antibody binding to linear epitopes within the variable loop 3 (V3) region of HIV envelope (Env) and neutralizing responses against easy-to-neutralize tier 1 viruses were associated with reduced risk of peripartum HIV infection in the historic U.S. Woman and Infant Transmission Study (WITS) cohort. Here, we defined the fine specificity and function of the potentially protective maternal V3-specific IgG antibodies associated with reduced peripartum HIV transmission risk in this cohort. The V3-specific IgG binding that predicted low risk of mother-to-child-transmission (MTCT) was dependent on the C-terminal flank of the V3 crown and particularly on amino acid position 317, a residue that has also been associated with breakthrough transmission in the RV144 vaccine trial. Remarkably, the fine specificity of potentially protective maternal plasma V3-specific tier 1 virus-neutralizing responses was dependent on the same region in the V3 loop. Our findings suggest that MTCT risk is associated with neutralizing maternal IgG that targets amino acid residues in the C-terminal region of the V3 loop crown, suggesting the importance of the region in immunogen design for maternal vaccines to prevent MTCT. IMPORTANCE Efforts to curb HIV-1 transmission in pediatric populations by antiretroviral therapy (ART) have been highly successful in both developed and developing countries. However, more than 150,000 infants continue to be infected each year, likely due to a combination of late maternal HIV diagnosis, lack of ART access or adherence, and drug-resistant viral strains. Defining the fine specificity of maternal humoral responses that partially protect against MTCT of HIV is required to inform the development of a maternal HIV vaccine that will enhance these responses during pregnancy. In this study, we identified amino acid residues targeted by potentially protective maternal V3-specific IgG binding and neutralizing responses, localizing the potentially protective response in the C-terminal region of the V3 loop crown. Our findings have important implications for the design of maternal vaccination strategies that could synergize with ART during pregnancy to achieve the elimination of pediatric HIV infections. Copyright © 2017 American Society for Microbiology.

Ultraviolet spectroscopy of symbiotic nova V1016 Cyg with IUE and HST

NASA Astrophysics Data System (ADS)

Sanad, M. R.

2017-04-01

We present International Ultraviolet Explorer (IUE) & Hubble Space Telescope Space Telescope Imaging Spectrograph (HST STIS) observations of the symbiotic nova V1016 Cyg through the period 1978 - 2000. Four spectra at different times revealing the changes in line fluxes are presented. The outflow velocity of the emitting region was calculated to be 900-2000 km s-1 (FWHM). The reddening of V1016 Cyg was determined from 2200 Å absorption feature to be E (B-V) = 0.36 ± 0.02. We calculated the fluxes of CIV 1550 Å & CIII] 1909 Å emission lines produced in a stellar wind from the hot white dwarf. We determined the average wind mass loss rate to be ˜2.3 × 10-6 M⊙, the average temperature of the emitting region to be ˜1.3 × 105 K, and an average ultraviolet luminosity to be ˜2 × 1035 erg s-1. The results show that there are modulations of line fluxes with time. We attributed these spectral modulations to the changes of density and temperature in the emitting region as a result of the variable stellar wind.

Intercomparison of the Extended Reconstructed Sea Surface Temperature v4 and v3b Datasets

NASA Astrophysics Data System (ADS)

Wang, Jinping; Chen, Xianyao

2018-04-01

Version 4 (v4) of the Extended Reconstructed Sea Surface Temperature (ERSST) dataset is compared with its precedent, the widely used version 3b (v3b). The essential upgrades applied to v4 lead to remarkable differences in the characteristics of the sea surface temperature (SST) anomaly (SSTa) in both the temporal and spatial domains. First, the largest discrepancy of the global mean SSTa values around the 1940s is due to ship-observation corrections made to reconcile observations from buckets and engine intake thermometers. Second, differences in global and regional mean SSTa values between v4 and v3b exhibit a downward trend (around -0.032°C per decade) before the 1940s, an upward trend (around 0.014°C per decade) during the period of 1950-2015, interdecadal oscillation with one peak around the 1980s, and two troughs during the 1960s and 2000s, respectively. This does not derive from treatments of the polar or the other data-void regions, since the difference of the SSTa does not share the common features. Third, the spatial pattern of the ENSO-related variability of v4 exhibits a wider but weaker cold tongue in the tropical region of the Pacific Ocean compared with that of v3b, which could be attributed to differences in gap-filling assumptions since the latter features satellite observations whereas the former features in situ ones. This intercomparison confirms that the structural uncertainty arising from underlying assumptions on the treatment of diverse SST observations even in the same SST product family is the main source of significant SST differences in the temporal domain. Why this uncertainty introduces artificial decadal oscillations remains unknown.

Prime-Boost Immunization of Rabbits with HIV-1 gp120 Elicits Potent Neutralization Activity against a Primary Viral Isolate

PubMed Central

Narayan, Kristin M.; Agrawal, Nitish; Du, Sean X.; Muranaka, Janelle E.; Bauer, Katherine; Leaman, Daniel P.; Phung, Pham; Limoli, Kay; Chen, Helen; Boenig, Rebecca I.; Wrin, Terri; Zwick, Michael B.; Whalen, Robert G.

2013-01-01

Development of a vaccine for HIV-1 requires a detailed understanding of the neutralizing antibody responses that can be experimentally elicited to difficult-to-neutralize primary isolates. Rabbits were immunized with the gp120 subunit of HIV-1 JR-CSF envelope (Env) using a DNA-prime protein-boost regimen. We analyzed five sera that showed potent autologous neutralizing activity (IC50s at ∼103 to 104 serum dilution) against pseudoviruses containing Env from the primary isolate JR-CSF but not from the related isolate JR-FL. Pseudoviruses were created by exchanging each variable and constant domain of JR-CSF gp120 with that of JR-FL or with mutations in putative N-glycosylation sites. The sera contained different neutralizing activities dependent on C3 and V5, C3 and V4, or V4 regions located on the glycan-rich outer domain of gp120. All sera showed enhanced neutralizing activity toward an Env variant that lacked a glycosylation site in V4. The JR-CSF gp120 epitopes recognized by the sera are generally distinct from those of several well characterized mAbs (targeting conserved sites on Env) or other type-specific responses (targeting V1, V2, or V3 variable regions). The activity of one serum requires specific glycans that are also important for 2G12 neutralization and this serum blocked the binding of 2G12 to gp120. Our findings show that different fine specificities can achieve potent neutralization of HIV-1, yet this strong activity does not result in improved breadth. PMID:23326351

Crystal Structures of T Cell Receptor (Beta) Chains Related to Rheumatoid Arthritis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li,H.; van Vranken, S.; Zhao, Y.

The crystal structures of the V{beta}17+ {beta} chains of two human T cell receptors (TCRs), originally derived from the synovial fluid (SF4) and tissue (C5-1) of a patient with rheumatoid arthritis (RA), have been determined in native (SF4) and mutant (C5-1{sub F104{yields}Y/C187{yields}S}) forms, respectively. These TCR {beta} chains form homo-dimers in solution and in crystals. Structural comparison reveals that the main-chain conformations in the CDR regions of the C5-1 and SF4 V{beta}17 closely resemble those of a V{beta}17 JM22 in a bound form; however, the CDR3 region shows different conformations among these three V{beta}17 structures. At the side-chain level, conformationalmore » differences were observed at the CDR2 regions between our two ligand-free forms and the bound JM22 form. Other significant differences were observed at the V{beta} regions 8-12, 40-44, and 82-88 between C5-1/SF4 and JM22 V{beta}17, implying that there is considerable variability in the structures of very similar {beta} chains. Structural alignments also reveal a considerable variation in the V{beta}-C{beta} associations, and this may affect ligand recognition. The crystal structures also provide insights into the structure basis of T cell recognition of Mycoplasma arthritidis mitogen (MAM), a superantigen that may be implicated in the development of human RA. Structural comparisons of the V{beta} domains of known TCR structures indicate that there are significant similarities among V{beta} regions that are MAM-reactive, whereas there appear to be significant structural differences among those V{beta} regions that lack MAM-reactivity. It further reveals that CDR2 and framework region (FR) 3 are likely to account for the binding of TCR to MAM.« less

Experimental investigations of low-energy (4 to 40 eV) collisions of O(-)(P2) ions and O(P3) atoms with surfaces

NASA Technical Reports Server (NTRS)

Chutjian, A.; Orient, O. J.; Murad, E.

1990-01-01

Using a newly-developed, magnetically confined source, low-energy, ground state oxygen negative ions and neutral atoms are generated. The energy range is variable, and atom and neutrals have been generated at energies varying from 2 eV to 40 eV and higher. It was found that the interaction of these low-energy species with a solid magnesium fluoride target leads to optical emissions in the (at least) visible and infrared regions of the spectrum. Researchers describe y details of the photodetachment source, and present spectra of the neutral and ion glows in the wavelength range 250 to 850 nm (for O(-)) and 600 to 850 nm (for O), and discuss the variability of the emissions for incident energies between 4 and 40 eV.

Experimental investigations of low-energy (4-40 eV) collisions of O-(2P) ions and O(3P) atoms with surfaces

NASA Technical Reports Server (NTRS)

Orient, O. J.; Chutjian, A.; Murad, E.

1990-01-01

Using a newly-developed, magnetically confined source, low-energy, ground state oxygen negative ions and neutral atoms are generated. The energy range is variable, and atom and neutrals have been generated at energies varying from 2 eV to 40 eV and higher. It was found that the interaction of these low-energy species with a solid magnesium fluoride target leads to optical emissions in the (at least) visible and infrared regions of the spectrum. Researchers describe y details of the photodetachment source, and present spectra of the neutral and ion glows in the wavelength range 250 to 850 nm (for O/-/) and 600 to 850 nm (for O), and discuss the variability of the emissions for incident energies between 4 and 40 eV.

Globular cluster photometry with the Hubble Space Telescope. 3: Blue stragglers and variable stars in the core of M3

NASA Technical Reports Server (NTRS)

Guhathakurta, Puragra; Yanny, Brian; Bahcall, John N.; Schneider, Donald P.

1994-01-01

This paper describes Hubble Space Telescope (HST)/Planetary Camera-I images of the core of the dense globular cluster M3 (NGC 5272). Stellar photometry in the F555W (V) and F785LP (I) bands, with a 1-sigma photometric accuracy of about 0.1 mag, has been used to construct color-magnitude diagrams of about 4700 stars above the main-sequence turnoff within r less than or approximately equal to 1 min of the cluster center. We have also analyzed archival HST F336W (U) images of M3 obtained by the Wide Field/Planetary Camera-I Instrument Definition Team. The UVI data are used to identify 28 blue straggler (BS) stars within the central 0.29 sq. arcmin. The specific frequency of BSs in this region of M3, N(sub BS)/N(sub V less than (V(HB)+2)) = 0.094 +/- 0.019, is about a factor of 2 - 3 higher than that found by Bolte et al. in a recent ground-based study of the same region, but comparable to that seen in the sparse outer parts of the same cluster and in HST observations of the core of the higher density cluster 47 Tuc. The BSs in M3 are slightly more centrally concentrated than red giant branch stars while horizontal branch stars are somewhat less concentrated red giants. The radial distribution of V-selected subgiant and turnoff stars is well fit by a King model with a core radius r(sub core) = 28 arcmin +/- 2 arcmin (90% confidence limits), which corresponds to 1.4 pc. Red giant and horizontal branch stars selected in the ultraviolet data (U less than 18) have a somewhat more compact distribution (r(sub core) = 22.5 arcmin). The HST U data consist of 17 exposures acquired over a span of three days. We have used these data to isolate 40 variable stars for which relative astrometry, brightnesses, colors, and light curves are presented. A Kolmogorov-Smirnov test indicates that, typically, the variability for each star is significant at the 95% level. We identify two variable BS candidates (probably of the SX Phe type), out of a sample of approximately 25 BSs in which variability could have been detected. Most of the variables are RR Lyrae stars on the horizontal branch. All of them have periods P greater than or approximately equal 8 h.

Mrk 421 after the Giant X-Ray Outburst in 2013

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kapanadze, B.; Kapanadze, S.; Tabagari, L.

2017-10-20

We present the results of the Swift observations of the nearby BL Lac object Mrk 421 during 2013 November–2015 June. The source exhibited a strong long-term variability in the 0.3–10 keV band, with a maximum-to-minimum flux ratio of 13, and underwent X-ray flares by a factor of 1.8–5.2 on timescales of a few weeks or shorter. The source showed 48 instances of intraday flux variability in this period, which sometimes was observed within the 1 ks observational run. It was characterized by fractional amplitudes of 1.5(0.3)%–38.6(0.4)% and flux doubling/halving times of 2.6–20.1 hr. The X-ray flux showed a lack ofmore » correlation with the TeV flux on some occasions (strong TeV flares were not accompanied by comparable X-ray activity and vice versa), indicating that the high-energy emission in Mrk 421 was generated from an emission region more complex than a single zone. The best fits of the 0.3–10 keV spectra were mainly obtained using the log-parabola model, showing a strong spectral variability that generally followed a “harder-when-brighter” trend. The position of the synchrotron spectral energy distribution peak showed an extreme range from a few eV to ∼10 keV that happens rarely in blazars.« less

Mutations in the E2 and NS5A regions in patients infected with hepatitis C virus genotype 1a and their correlation with response to treatment.

PubMed

Yahoo, Neda; Sabahi, Farzaneh; Shahzamani, Kiana; Malboobi, Mohamad Ali; Jabbari, Hossain; Sharifi, Houshang; Mousavi-Fard, Seyed Hossein; Merat, Shahin

2011-08-01

Heterogeneity of subgenomic regions of hepatitis C virus (HCV) may be associated with response to interferon (IFN) therapy. The amino acid sequences of the PKR/eIF-2α phosphorylation homology domain (pePHD), IFN sensitivity determining region (ISDR), PKR binding domain (PKRBD), and variable region 3 (V3) were studied in 19 patients before and after 4 weeks of treatment. All patients were infected with HCV genotype 1a and were treated with pegylated-IFN and ribavirin. Thirteen patients achieved sustained viral response (responders) and six failed to clear viral RNA (nonresponders). The amino acid sequences in the pePHD and ISDR were identical in responders and nonresponders. However, amino acid substitution at position 2252 of PKRBD was significantly different between responders and nonresponders (P = 0.044). A larger number of mutations were observed in the V3 region of responders (P < 0.001). In this region, the amino acid in position 2364 differed between responders and nonresponders (responders: aspartic acid and serine, nonresponders: asparagine, P = 0.018). The amino acid sequences in the regions which were studied did not change after 4 weeks of treatment. It is concluded that the presence of specific amino acids in position 2252 of PKRBD and position 2364 of V3 might be associated with clinical response to IFN. Copyright © 2011 Wiley-Liss, Inc.

Analysis of simian immunodeficiency virus sequence variation in tissues of rhesus macaques with simian AIDS.

PubMed Central

Kodama, T; Mori, K; Kawahara, T; Ringler, D J; Desrosiers, R C

1993-01-01

One rhesus macaque displayed severe encephalomyelitis and another displayed severe enterocolitis following infection with molecularly cloned simian immunodeficiency virus (SIV) strain SIVmac239. Little or no free anti-SIV antibody developed in these two macaques, and they died relatively quickly (4 to 6 months) after infection. Manifestation of the tissue-specific disease in these macaques was associated with the emergence of variants with high replicative capacity for macrophages and primary infection of tissue macrophages. The nature of sequence variation in the central region (vif, vpr, and vpx), the env gene, and the nef long terminal repeat (LTR) region in brain, colon, and other tissues was examined to see whether specific genetic changes were associated with SIV replication in brain or gut. Sequence analysis revealed strong conservation of the intergenic central region, nef, and the LTR. However, analysis of env sequences in these two macaques and one other revealed significant, interesting patterns of sequence variation. (i) Changes in env that were found previously to contribute to the replicative ability of SIVmac for macrophages in culture were present in the tissues of these animals. (ii) The greatest variability was located in the regions between V1 and V2 and from "V3" through C3 in gp120, which are different in location from the variable regions observed previously in animals with strong antibody responses and long-term persistent infection. (iii) The predominant sequence change of D-->N at position 385 in C3 is most surprising, since this change in both SIV and human immunodeficiency virus type 1 has been associated with dramatically diminished affinity for CD4 and replication in vitro. (iv) The nature of sequence changes at some positions (146, 178, 345, 385, and "V3") suggests that viral replication in brain and gut may be facilitated by specific sequence changes in env in addition to those that impart a general ability to replicate well in macrophages. These results demonstrate that complex selective pressures, including immune responses and varying cell and tissue specificity, can influence the nature of sequence changes in env. Images PMID:8411355

Construction and characterization of VL-VH tail-parallel genetically engineered antibodies against staphylococcal enterotoxins.

PubMed

He, Xianzhi; Zhang, Lei; Liu, Pengchong; Liu, Li; Deng, Hui; Huang, Jinhai

2015-03-01

Staphylococcal enterotoxins (SEs) produced by Staphylococcus aureus have increasingly given rise to human health and food safety. Genetically engineered small molecular antibody is a useful tool in immuno-detection and treatment for clinical illness caused by SEs. In this study, we constructed the V(L)-V(H) tail-parallel genetically engineered antibody against SEs by using the repertoire of rearranged germ-line immunoglobulin variable region genes. Total RNA were extracted from six hybridoma cell lines that stably express anti-SEs antibodies. The variable region genes of light chain (V(L)) and heavy chain (V(H)) were cloned by reverse transcription PCR, and their classical murine antibody structure and functional V(D)J gene rearrangement were analyzed. To construct the eukaryotic V(H)-V(L) tail-parallel co-expression vectors based on the "5'-V(H)-ivs-IRES-V(L)-3'" mode, the ivs-IRES fragment and V(L) genes were spliced by two-step overlap extension PCR, and then, the recombined gene fragment and V(H) genes were inserted into the pcDNA3.1(+) expression vector sequentially. And then the constructed eukaryotic expression clones termed as p2C2HILO and p5C12HILO were transfected into baby hamster kidney 21 cell line, respectively. Two clonal cell lines stably expressing V(L)-V(H) tail-parallel antibodies against SEs were obtained, and the antibodies that expressed intracytoplasma were evaluated by enzyme-linked immunosorbent assay, immunofluorescence assay, and flow cytometry. SEs can stimulate the expression of some chemokines and chemokine receptors in porcine IPEC-J2 cells; mRNA transcription level of four chemokines and chemokine receptors can be blocked by the recombinant SE antibody prepared in this study. Our results showed that it is possible to get functional V(L)-V(H) tail-parallel genetically engineered antibodies in same vector using eukaryotic expression system.

Measurement of the F 2 structure function in deep inelastic e + p scattering using 1994 data from the ZEUS detector at HERA

NASA Astrophysics Data System (ADS)

Derrick, M.; Krakauer, D.; Magill, S.; Mikunas, D.; Musgrave, B.; Okrasinski, J. R.; Repond, J.; Stanek, R.; Talaga, R. L.; Zhang, H.; Mattingly, M. C. K.; Anselmo, F.; Antonioli, P.; Bari, G.; Basile, M.; Bellagamba, L.; Boscherini, D.; Bruni, A.; Bruni, G.; Bruni, P.; Romeo, G. Cara; Castellini, G.; Cifarelli, L.; Cindolo, F.; Contin, A.; Corradi, M.; Gialas, I.; Giusti, P.; Iacobucci, G.; Laurenti, G.; Levi, G.; Margotti, A.; Massam, T.; Nania, R.; Palmonari, F.; Pesci, A.; Polini, A.; Sartorelli, G.; Garcia, Y. Zamora; Zichichi, A.; Amelung, C.; Bornheim, A.; Crittenden, J.; Deffner, R.; Doeker, T.; Eckert, M.; Feld, L.; Frey, A.; Geerts, M.; Grothe, M.; Hartmann, H.; Heinloth, K.; Heinz, L.; Hilger, E.; Jakob, H.-P.; Katz, U. F.; Mengel, S.; Paul, E.; Pfeiffer, M.; Rembser, Ch.; Schramm, D.; Stamm, J.; Wedemeyer, R.; Campbell-Robson, S.; Cassidy, A.; Cottingham, W. N.; Dyce, N.; Foster, B.; George, S.; Hayes, M. E.; Heath, G. P.; Heath, H. F.; Piccioni, D.; Roff, D. G.; Tapper, R. J.; Yoshida, R.; Arneodo, M.; Ayad, R.; Capua, M.; Garfagnini, A.; Iannotti, L.; Schioppa, M.; Susinno, G.; Caldwell, A.; Cartiglia, N.; Jing, Z.; Liu, W.; Parsons, J. A.; Ritz, S.; Sciulli, F.; Straub, P. B.; Wai, L.; Yang, S.; Zhu, Q.; Borzemski, P.; Chwastowski, J.; Eskreys, A.; Jakubowski, Z.; Przybycień, M. B.; Zachara, M.; Zawiejski, L.; Adamczyk, L.; Bednarek, B.; Jeleń, K.; Kisielewska, D.; Kowalski, T.; Przybycien, M.; Rulikowska-Zarębska, E.; Suszycki, L.; Zając, J.; Duliński, Z.; Kotański, A.; Abbiendi, G.; Bauerdick, L. A. T.; Behrens, U.; Beier, H.; Bienlein, J. K.; Cases, G.; Deppe, O.; Desler, K.; Drews, G.; Flasiński, M.; Gilkinson, D. J.; Glasman, C.; Göttlicher, P.; Große-Knetter, J.; Haas, T.; Hain, W.; Hasell, D.; Heßling, H.; Iga, Y.; Johnson, K. F.; Joos, P.; Kasemann, M.; Klanner, R.; Koch, W.; Kötz, U.; Kowalski, H.; Labs, J.; Ladage, A.; Löhr, B.; Löwe, M.; Lüke, D.; Mainusch, J.; Mańczak, O.; Milewski, J.; Monteiro, T.; Ng, J. S. T.; Notz, D.; Ohrenberg, K.; Piotrzkowski, K.; Roco, M.; Rohde, M.; Roldán, J.; Schneekloth, U.; Schulz, W.; Selonke, F.; Surrow, B.; Tassi, E.; Voß, T.; Westphal, D.; Wolf, G.; Wollmer, U.; Youngman, C.; Zeuner, W.; Grabosch, H. J.; Kharchilava, A.; Mari, S. M.; Meyer, A.; Schlenstedt, S.; Wulff, N.; Barbagli, G.; Gallo, E.; Pelfer, P.; Maccarrone, G.; de Pasquale, S.; Votano, L.; Bamberger, A.; Eisenhardt, S.; Trefzger, T.; Wölfle, S.; Bromley, J. T.; Brook, N. H.; Bussey, P. J.; Doyle, A. T.; Saxon, D. H.; Sinclair, L. E.; Utley, M. L.; Wilson, A. S.; Dannemann, A.; Holm, U.; Horstmann, D.; Sinkus, R.; Wick, K.; Burow, B. D.; Hagge, L.; Lohrmann, E.; Poelz, G.; Schott, W.; Zetsche, F.; Bacon, T. C.; Brümmer, N.; Butterworth, I.; Harris, V. L.; Howell, G.; Hung, B. H. Y.; Lamberti, L.; Long, K. R.; Miller, D. B.; Pavel, N.; Prinias, A.; Sedgbeer, J. K.; Sideris, D.; Whitfield, A. F.; Mallik, U.; Wang, M. Z.; Wang, S. M.; Wu, J. T.; Cloth, P.; Filges, D.; An, S. H.; Cho, G. H.; Ko, B. J.; Lee, S. B.; Nam, S. W.; Park, H. S.; Park, S. K.; Kartik, S.; Kim, H.-J.; McNeil, R. R.; Metcalf, W.; Nadendla, V. K.; Barreiro, F.; Fernandez, J. P.; Graciani, R.; Hernández, J. M.; Hervás, L.; Labarga, L.; Martinez, M.; Del Peso, J.; Puga, J.; Terron, J.; de Trocóniz, J. F.; Corriveau, F.; Hanna, D. S.; Hartmann, J.; Hung, L. W.; Lim, J. N.; Matthews, C. G.; Patel, P. M.; Riveline, M.; Stairs, D. G.; St-Laurent, M.; Ullmann, R.; Zacek, G.; Tsurugai, T.; Bashkirov, V.; Dolgoshein, B. A.; Stifutkin, A.; Bashindzhagyan, G. L.; Ermolov, P. F.; Gladilin, L. K.; Golubkov, Yu. A.; Kobrin, V. D.; Korzhavina, I. A.; Kuzmin, V. A.; Lukina, O. Yu.; Proskuryakov, A. S.; Savin, A. A.; Shcheglova, L. M.; Solomin, A. N.; Zotov, N. P.; Botje, M.; Chlebana, F.; Engelen, J.; de Kamps, M.; Kooijman, P.; Kruse, A.; van Sighem, A.; Tiecke, H.; Verkerke, W.; Vossebeld, J.; Vreeswijk, M.; Wiggers, L.; de Wolf, E.; van Woudenberg, R.; Acosta, D.; Bylsma, B.; Durkin, L. S.; Gilmore, J.; Li, C.; Ling, T. Y.; Nylander, P.; Park, I. H.; Romanowski, T. A.; Bailey, D. S.; Cashmore, R. J.; Cooper-Sarkar, A. M.; Devenish, R. C. E.; Harnew, N.; Lancaster, M.; Lindemann, L.; McFall, J. D.; Nath, C.; Noyes, V. A.; Quadt, A.; Tickner, J. R.; Uijterwaal, H.; Walczak, R.; Waters, D. S.; Wilson, F. F.; Yip, T.; Bertolin, A.; Brugnera, R.; Carlin, R.; Dal Corso, F.; de Giorgi, M.; Dosselli, U.; Limentani, S.; Morandin, M.; Posocco, M.; Stanco, L.; Stroili, R.; Voci, C.; Zuin, F.; Bulmahn, J.; Feild, R. G.; Oh, B. Y.; Whitmore, J. J.; D'Agostini, G.; Marini, G.; Nigro, A.; Hart, J. C.; McCubbin, N. A.; Shah, T. P.; Barberis, E.; Dubbs, T.; Heusch, C.; van Hook, M.; Lockman, W.; Rahn, J. T.; Sadrozinski, H. F.-W.; Seiden, A.; Williams, D. C.; Biltzinger, J.; Seifert, R. J.; Schwarzer, O.; Walenta, A. H.; Zech, G.; Abramowicz, H.; Briskin, G.; Dagan, S.; Levy, A.; Fleck, J. I.; Inuzuka, M.; Ishii, T.; Kuze, M.; Mine, S.; Nakao, M.; Suzuki, I.; Tokushuku, K.; Umemori, K.; Yamada, S.; Yamazaki, Y.; Chiba, M.; Hamatsu, R.; Hirose, T.; Homma, K.; Kitamura, S.; Matsushita, T.; Yamauchi, K.; Cirio, R.; Costa, M.; Ferrero, M. I.; Maselli, S.; Peroni, C.; Sacchi, R.; Solano, A.; Staiano, A.; Dardo, M.; Bailey, D. C.; Benard, F.; Brkic, M.; Fagerstroem, C.-P.; Hartner, G. F.; Joo, K. K.; Levman, G. M.; Martin, J. F.; Orr, R. S.; Polenz, S.; Sampson, C. R.; Simmons, D.; Teuscher, R. J.; Butterworth, J. M.; Catterall, C. D.; Jones, T. W.; Kaziewicz, P. B.; Lane, J. B.; Saunders, R. L.; Shulman, J.; Sutton, M. R.; Lu, B.; Mo, L. W.; Bogusz, W.; Ciborowski, J.; Gajewski, J.; Grzelak, G.; Kasprzak, M.; Krzyżanowski, M.; Muchorowski, K.; Nowak, R. J.; Pawlak, J. M.; Tymieniecka, T.; Wróblewski, A. K.; Zakrzewski, J. A.; Żarnecki, A. F.; Adamus, M.; Coldewey, C.; Eisenberg, Y.; Hochman, D.; Karshon, U.; Revel, D.; Zer-Zion, D.; Badgett, W. F.; Breitweg, J.; Chapin, D.; Cross, R.; Dasu, S.; Foudas, C.; Loveless, R. J.; Mattingly, S.; Reeder, D. D.; Silverstein, S.; Smith, W. H.; Vaiciulis, A.; Wodarczyk, M.; Bhadra, S.; Cardy, M. L.; Frisken, W. R.; Khakzad, M.; Murray, W. N.; Schmidke, W. B.

1996-09-01

We present measurements of the structure function F 2 in e + p scattering at HERA in the range 3.5 GeV2< Q 2<5000 GeV2. A new reconstruction method has allowed a significant improvement in the resolution of the kinematic variables and an extension of the kinematic region covered by the experiment. At Q 2<35 GeV2 the range in x now spans 6.3·10-5< x<0.08 providing overlap with measurements from fixed target experiments. At values of Q 2 above 1000 GeV2 the x range extends to 0.5. Systematic errors below 5% have been achieved for most of the kinematic region. The structure function rises as x decreases; the rise becomes more pronounced as Q 2 increases. The behaviour of the structure function data is well described by next-to-leading order perturbative QCD as implemented in the DGLAP evolution equations.

Photo electron emission microscopy of polarity-patterned materials

NASA Astrophysics Data System (ADS)

Yang, W.-C.; Rodriguez, B. J.; Gruverman, A.; Nemanich, R. J.

2005-04-01

This study presents variable photon energy photo electron emission microscopy (PEEM) of polarity-patterned epitaxial GaN films, and ferroelectric LiNbO3 (LNO) single crystals and PbZrTiO3 (PZT) thin films. The photo electrons were excited with spontaneous emission from the tunable UV free electron laser (FEL) at Duke University. We report PEEM observation of polarity contrast and measurement of the photothreshold of each polar region of the materials. For a cleaned GaN film with laterally patterned Ga- and N-face polarities, we found a higher photoelectric yield from the N-face regions compared with the Ga-face regions. Through the photon energy dependent contrast in the PEEM images of the surfaces, we can deduce that the threshold of the N-face region is less than ~4.9 eV while that of the Ga-face regions is greater than 6.3 eV. In both LNO and PZT, bright emission was detected from the negatively poled domains, indicating that the emission threshold of the negative domain is lower than that of the positive domain. For LNO, the measured photothreshold was ~4.6 eV at the negative domain and ~6.2 eV at the positive domain, while for PZT, the threshold of the negative domain was less than 4.3 eV. Moreover, PEEM observation of the PZT surface at elevated temperatures displayed that the domain contrast disappeared near the Curie temperature of ~300 °C. The PEEM polarity contrast of the polar materials is discussed in terms of internal screening from free carriers and defects and the external screening due to adsorbed ions.

Impact of spectral nudging on regional climate simulation over CORDEX East Asia using WRF

NASA Astrophysics Data System (ADS)

Tang, Jianping; Wang, Shuyu; Niu, Xiaorui; Hui, Pinhong; Zong, Peishu; Wang, Xueyuan

2017-04-01

In this study, the impact of the spectral nudging method on regional climate simulation over the Coordinated Regional Climate Downscaling Experiment East Asia (CORDEX-EA) region is investigated using the Weather Research and Forecasting model (WRF). Driven by the ERA-Interim reanalysis, five continuous simulations covering 1989-2007 are conducted by the WRF model, in which four runs adopt the interior spectral nudging with different wavenumbers, nudging variables and nudging coefficients. Model validation shows that WRF has the ability to simulate spatial distributions and temporal variations of the surface climate (air temperature and precipitation) over CORDEX-EA domain. Comparably the spectral nudging technique is effective in improving the model's skill in the following aspects: (1), the simulated biases and root mean square errors of annual mean temperature and precipitation are obviously reduced. The SN3-UVT (spectral nudging with wavenumber 3 in both zonal and meridional directions applied to U, V and T) and SN6 (spectral nudging with wavenumber 6 in both zonal and meridional directions applied to U and V) experiments give the best simulations for temperature and precipitation respectively. The inter-annual and seasonal variances produced by the SN experiments are also closer to the ERA-Interim observation. (2), the application of spectral nudging in WRF is helpful for simulating the extreme temperature and precipitation, and the SN3-UVT simulation shows a clear advantage over the other simulations in depicting both the spatial distributions and inter-annual variances of temperature and precipitation extremes. With the spectral nudging, WRF is able to preserve the variability in the large scale climate information, and therefore adjust the temperature and precipitation variabilities toward the observation.

An unusual cysteine VL87 affects the antibody fragment conformations without interfering with the disulfide bond formation.

PubMed

Attallah, Carolina; Aguilar, María Fernanda; Garay, A Sergio; Herrera, Fernando E; Etcheverrigaray, Marina; Oggero, Marcos; Rodrigues, Daniel E

2017-10-01

The Cys residues are almost perfectly conserved in all antibodies. They contribute significantly to the antibody fragment stability. The relevance of two natural contiguous Cys residues of an anti-recombinant human-follicle stimulation hormone (rhFSH) in a format of single-chain variable fragment (scFv) was studied. This scFv contains 5 Cys residues: V H 22 and V H 92 in the variable heavy chain (V H ) and V L 23, V L 87 and V L 88 in the variable light chain (V L ). The influence of two unusual contiguous Cys at positions V L 87 and V L 88 was studied by considering the wild type fragment and mutant variants: V L -C88S, V L -C87S, V L -C87Y. The analysis was carried out using antigen-binding ability measurement by indirect specific ELISA and a detailed molecular modeling that comprises homology methods, long molecular dynamics simulations and docking. We found that V L -C87 affected the antibody fragment stability without interfering with the disulfide bond formation. The effect of mutating the V L -C87 by a usual residue at this position like Tyr caused distant structural changes at the V H region that confers a higher mobility to the V H -CDR2 and V H -CDR3 loops improving the scFv binding to the antigen. Copyright © 2017 Elsevier Ltd. All rights reserved.

Constraints on the Genetic and Antigenic Variability of Measles Virus.

PubMed

Beaty, Shannon M; Lee, Benhur

2016-04-21

Antigenic drift and genetic variation are significantly constrained in measles virus (MeV). Genetic stability of MeV is exceptionally high, both in the lab and in the field, and few regions of the genome allow for rapid genetic change. The regions of the genome that are more tolerant of mutations (i.e., the untranslated regions and certain domains within the N, C, V, P, and M proteins) indicate genetic plasticity or structural flexibility in the encoded proteins. Our analysis reveals that strong constraints in the envelope proteins (F and H) allow for a single serotype despite known antigenic differences among its 24 genotypes. This review describes some of the many variables that limit the evolutionary rate of MeV. The high genomic stability of MeV appears to be a shared property of the Paramyxovirinae, suggesting a common mechanism that biologically restricts the rate of mutation.

Constraints on the Genetic and Antigenic Variability of Measles Virus

PubMed Central

Beaty, Shannon M.; Lee, Benhur

2016-01-01

Antigenic drift and genetic variation are significantly constrained in measles virus (MeV). Genetic stability of MeV is exceptionally high, both in the lab and in the field, and few regions of the genome allow for rapid genetic change. The regions of the genome that are more tolerant of mutations (i.e., the untranslated regions and certain domains within the N, C, V, P, and M proteins) indicate genetic plasticity or structural flexibility in the encoded proteins. Our analysis reveals that strong constraints in the envelope proteins (F and H) allow for a single serotype despite known antigenic differences among its 24 genotypes. This review describes some of the many variables that limit the evolutionary rate of MeV. The high genomic stability of MeV appears to be a shared property of the Paramyxovirinae, suggesting a common mechanism that biologically restricts the rate of mutation. PMID:27110809

Effect of glycosylation on an immunodominant region in the V1V2 variable domain of the HIV-1 envelope gp120 protein

DOE PAGES

Tian, Jianhui; Lopez, Cesar Augusto; Derdeyn, Cynthia A.; ...

2016-10-07

Heavy glycosylation of the envelope (Env) surface subunit, gp120, is a key adaptation of HIV-1; however, the precise effects of glycosylation on the folding, conformation and dynamics of this protein are poorly understood. Here we explore the patterns of HIV-1 Env gp120 glycosylation, and particularly the enrichment in glycosylation sites proximal to the disulfide linkages at the base of the surface-exposed variable domains. To dissect the influence of glycans on the conformation these regions, we focused on an antigenic peptide fragment from a disulfide bridge-bounded region spanning the V1 and V2 hyper-variable domains of HIV-1 gp120. We used replica exchangemore » molecular dynamics (MD) simulations to investigate how glycosylation influences its conformation and stability. Simulations were performed with and without N-linked glycosylation at two sites that are highly conserved across HIV-1 isolates (N156 and N160); both are contacts for recognition by V1V2-targeted broadly neutralizing antibodies against HIV-1. Glycosylation stabilized the pre-existing conformations of this peptide construct, reduced its propensity to adopt other secondary structures, and provided resistance against thermal unfolding. Simulations performed in the context of the Env trimer also indicated that glycosylation reduces flexibility of the V1V2 region, and provided insight into glycan-glycan interactions in this region. These stabilizing effects were influenced by a combination of factors, including the presence of a disulfide bond between the Cysteines at 131 and 157, which increased the formation of beta-strands. Together, these results provide a mechanism for conservation of disulfide linkage proximal glycosylation adjacent to the variable domains of gp120 and begin to explain how this could be exploited to enhance the immunogenicity of those regions. Furthermore, these studies suggest that glycopeptide immunogens can be designed to stabilize the most relevant Env conformations to focus the immune response on key neutralizing epitopes.« less

Effect of glycosylation on an immunodominant region in the V1V2 variable domain of the HIV-1 envelope gp120 protein

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tian, Jianhui; Lopez, Cesar Augusto; Derdeyn, Cynthia A.

Heavy glycosylation of the envelope (Env) surface subunit, gp120, is a key adaptation of HIV-1; however, the precise effects of glycosylation on the folding, conformation and dynamics of this protein are poorly understood. Here we explore the patterns of HIV-1 Env gp120 glycosylation, and particularly the enrichment in glycosylation sites proximal to the disulfide linkages at the base of the surface-exposed variable domains. To dissect the influence of glycans on the conformation these regions, we focused on an antigenic peptide fragment from a disulfide bridge-bounded region spanning the V1 and V2 hyper-variable domains of HIV-1 gp120. We used replica exchangemore » molecular dynamics (MD) simulations to investigate how glycosylation influences its conformation and stability. Simulations were performed with and without N-linked glycosylation at two sites that are highly conserved across HIV-1 isolates (N156 and N160); both are contacts for recognition by V1V2-targeted broadly neutralizing antibodies against HIV-1. Glycosylation stabilized the pre-existing conformations of this peptide construct, reduced its propensity to adopt other secondary structures, and provided resistance against thermal unfolding. Simulations performed in the context of the Env trimer also indicated that glycosylation reduces flexibility of the V1V2 region, and provided insight into glycan-glycan interactions in this region. These stabilizing effects were influenced by a combination of factors, including the presence of a disulfide bond between the Cysteines at 131 and 157, which increased the formation of beta-strands. Together, these results provide a mechanism for conservation of disulfide linkage proximal glycosylation adjacent to the variable domains of gp120 and begin to explain how this could be exploited to enhance the immunogenicity of those regions. Furthermore, these studies suggest that glycopeptide immunogens can be designed to stabilize the most relevant Env conformations to focus the immune response on key neutralizing epitopes.« less

CD38 expression and immunoglobulin variable region mutations are independent prognostic variables in chronic lymphocytic leukemia, but CD38 expression may vary during the course of the disease.

PubMed

Hamblin, Terry J; Orchard, Jenny A; Ibbotson, Rachel E; Davis, Zadie; Thomas, Peter W; Stevenson, Freda K; Oscier, David G

2002-02-01

Although the presence or absence of somatic mutations in the immunoglobulin variable region (IgV(H)) genes in chronic lymphocytic leukemia (B-CLL) identifies subtypes with very different prognoses, the assay is technically complex and unavailable to most laboratories. CD38 expression has been suggested as a surrogate marker for the 2 subtypes. IgV(H) mutations and CD38 expression in 145 patients with B-CLL with a long follow-up were compared. The 2 assays gave discordant results in 41 patients (28.3%). Multivariate analysis demonstrated that Binet stage, IgV(H) mutations and CD38 were independent prognostic indicators. Median survival time in patients whose cells had unmutated IgV(H) genes and expressed CD38 was 8 years; in those with mutated IgV(H) genes not expressing CD38, it was 26 years. For those with discordant results, median survival time was 15 years. Thus, although CD38 expression does not identify the same 2 subsets as IgV(H) mutations in CLL, it is an independent risk factor that can be used with IgV(H) mutations and clinical stage to select patients with B-CLL with the worst prognoses. Using cryopreserved cells taken at intervals during the course of the disease, however, changes of CD38 expression over time were demonstrated in 10 of 41 patients. Causes of the variation of CD38 expression require further study. Additional prospective studies are required for comparing CD38 expression with other prognostic factors and for taking sequential measurements during the course of the disease.

Long term X-ray variability characteristics of the narrow-line Seyfert 1 galaxy RE J1034+396

NASA Astrophysics Data System (ADS)

Chaudhury, K.; Chitnis, V. R.; Rao, A. R.; Singh, K. P.; Bhattacharyya, Sudip; Dewangan, G. C.; Chakraborty, S.; Chandra, S.; Stewart, G. C.; Mukerjee, K.; Dey, R. K.

2018-05-01

We present the results of our study of the long term X-ray variability characteristics of the Narrow Line Seyfert 1 galaxy RE J1034+396. We use data obtained from the AstroSat satellite along with the light curves obtained from XMM-Newton and Swift-XRT. We use the 0.3 - 7.0 keV and 3 - 20 keV data, respectively, from the SXT and the LAXPC of AstroSat. The X-ray spectra in the 0.3 - 20 keV region are well fit with a model consisting of a power-law and a soft excess described by a thermal-Compton emission with a large optical depth, consistent with the earlier reported results. We have examined the X-ray light curves in the soft and hard X-ray bands of SXT and LAXPC, respectively, and find that the variability is slightly larger in the hard band. To investigate the variability characteristics of this source at different time scales, we have used X-ray light curves obtained from XMM-Newton data (200 s to 100 ks range) and Swift-XRT data (1 day to 100 day range) and find that there are evidences to suggest that the variability sharply increases at longer time scales. We argue that the mass of the black hole in RE J1034+396 is likely to be ˜3 × 106 M⊙, based on the similarity of the observed QPO to the high frequency QPO seen in the Galactic black hole binary, GRS 1915+105.

Low temperature magneto-dielectric measurements on BiFeO{sub 3} lightly substituted by cobalt

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ray, J.; Biswal, A. K.; Vishwakarma, P. N., E-mail: prakashn@nitrkl.ac.in, E-mail: pnviisc@gmail.com

2015-04-07

Dielectric and magnetodielectric measurements are done on BiFe{sub 1−x}Co{sub x}O{sub 3}: x = 0, 0.01, and 0.02 in the temperature range 70–300 K and up to magnetic field 1.3 T. The dielectric data are well described by Haverliak–Negami expression plus an additional term for the Maxwell Wagner (MW) type relaxations, whose contribution is dominant near room temperature. The parameters obtained from the fitting of data using the above mentioned expression, suggest slowing down of relaxation and approach towards ideal Debye type relaxations, as the temperature is lowered. The dielectric relaxations obey polaronic variable range hopping model with distinct activation energies (E{sub a}) in themore » extrinsic (6.67T{sup 3/4 }meV) and intrinsic (2.88T{sup 3/4 }meV) regions for the parent sample (x = 0), and thus a distinct transition from extrinsic to intrinsic behavior is seen at 215 K while lowering the temperature. This distinct transition is missing for Co substituted samples probably due to the extrinsic region values of E{sub a} (3.42T{sup 3/4 }meV and 2.42T{sup 3/4 }meV for x = 0.01 and 0.02, respectively) comparable to that of the intrinsic region (see x = 0). The magnetodielectric measurement shows positive magnetodielectricity (MD) in the intrinsic region (T < 215 K for x = 0) and negative MD in the extrinsic region (T > 215 K for x = 0). The extrinsic region is found to be dominated by MW and magnetoresistance effects, whereas MD in intrinsic regions is due to the spin reorientation transitions. The Co substitution is found to increase the extrinsic and non-Debye contributions to dielectricity, which becomes so large that no spin reorientation transitions are seen in x = 0.02 sample. The pyroelectric active region in x = 0 is found to be dominated by the diffusive behavior having contribution of the form ω{sup −0.5}.« less

Development of an Analysis Pipeline Characterizing Multiple Hypervariable Regions of 16S rRNA Using Mock Samples.

PubMed

Barb, Jennifer J; Oler, Andrew J; Kim, Hyung-Suk; Chalmers, Natalia; Wallen, Gwenyth R; Cashion, Ann; Munson, Peter J; Ames, Nancy J

2016-01-01

There is much speculation on which hypervariable region provides the highest bacterial specificity in 16S rRNA sequencing. The optimum solution to prevent bias and to obtain a comprehensive view of complex bacterial communities would be to sequence the entire 16S rRNA gene; however, this is not possible with second generation standard library design and short-read next-generation sequencing technology. This paper examines a new process using seven hypervariable or V regions of the 16S rRNA (six amplicons: V2, V3, V4, V6-7, V8, and V9) processed simultaneously on the Ion Torrent Personal Genome Machine (Life Technologies, Grand Island, NY). Four mock samples were amplified using the 16S Ion Metagenomics Kit™ (Life Technologies) and their sequencing data is subjected to a novel analytical pipeline. Results are presented at family and genus level. The Kullback-Leibler divergence (DKL), a measure of the departure of the computed from the nominal bacterial distribution in the mock samples, was used to infer which region performed best at the family and genus levels. Three different hypervariable regions, V2, V4, and V6-7, produced the lowest divergence compared to the known mock sample. The V9 region gave the highest (worst) average DKL while the V4 gave the lowest (best) average DKL. In addition to having a high DKL, the V9 region in both the forward and reverse directions performed the worst finding only 17% and 53% of the known family level and 12% and 47% of the genus level bacteria, while results from the forward and reverse V4 region identified all 17 family level bacteria. The results of our analysis have shown that our sequencing methods using 6 hypervariable regions of the 16S rRNA and subsequent analysis is valid. This method also allowed for the assessment of how well each of the variable regions might perform simultaneously. Our findings will provide the basis for future work intended to assess microbial abundance at different time points throughout a clinical protocol.

Worldwide increased prevalence of human adenovirus type 3 (HAdV-3) respiratory infections is well correlated with heterogeneous hypervariable regions (HVRs) of hexon.

PubMed

Haque, Ezazul; Banik, Urmila; Monwar, Tahmina; Anthony, Leela; Adhikary, Arun Kumar

2018-01-01

Human adenovirus type 3 (HAdV-3) respiratory infections occurs worldwide in both children and adults, leading to severe morbidity and mortality, particularly in the paediatric age group and especially in neonates. During HAdV infection, neutralizing antibodies are formed against the epitopes located in the hyper variable regions (HVRs) of the hexon protein. These neutralizing antibodies provide protection against reinfection by viruses of the same type. Therefore it is reasonable to speculate that variations of HAdV-3 in the HVRs could impair the immunity acquired by previous infection with a different strain with variation in its HVRs. HAdV-3 has recently become the major agent of acute respiratory infection worldwide, being responsible for 15% to 87% of all adenoviral respiratory infections. However, despite the increased prevalence of HAdV-3 as respiratory pathogen, the diversity of hexon proteins in circulating strains remains unexplored. This study was designed to explore the variation in HVRs of hexon among globally distributed strains of HAdV-3 as well as to discover possible relationship among them, thus possibly shedding light on the cause for the increased prevalence of HAdV-3. In this study, for the first time we analysed the hexon proteins of all 248 available strains of HAdV-3 from the NCBI database and compared them with those of the HAdV-3 prototype (GB stain). We found that the HVRs of HAdV-3 strains circulating worldwide were highly heterogeneous and have been mutating continuously since -their original isolation. Based on their immense heterogeneity, the strains can be categorized into 25 hexon variants (3Hv-1 to 3Hv-25), 4 of which (3Hv-1 to 3Hv-4) comprises 80% of the strains. This heterogeneity may explain why HAdV-3 has become the most prevalent HAdVs type worldwide. The heterogeneity of hexon proteins also shows that the development of a vaccine against HAdV-3 might be challenging. The data on hexon variants provided here may be useful for the future epidemiological study of HAdV-3 infection.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tanimoto, Naho

The production cross section and the kinematic properties of the decay products of Wγ in the W → μv decay channel from pmore » $$\\bar{p}$$ collisions at √s = 1.96 TeV are presented. The measurement use the high p T muon data from the upgraded Collider Detector at Fermilab (CDF). The data were collected between March 2002 and September 2003. The total integrated luminosities are 192 pb -1 with the muon detector which covers the pseudorapidity region of |η| ≤ 0.6 and 175 pb -1 with the muon detector covering the region 0.6 ≤ |η| ≤ 1.0. In the Standard Model the μvγ final states occur due to Wγ → μvγ production and via muon Bremsstrahlung, W → μv → μvγ. W bosons are selected in their muon decay mode. Additionally, photons with transverse energy above 7 GeV, pseudorapidity in the central region (|η| < 1.1) and muon-photon angular separation ΔR(μ,γ) > 0.7 are selected. The author observes a total of 128 Wγ candidates, whereas the Standard Model expectation is 142.4 ± 9.5 events. The Wγ production cross section is found to be σ(p$$\\bar{p}$$ → μvγ) = 16.3 ± 2.3(stat.) ± 1.8(syst.) ± 1.2(lum.) [pb]. The theoretical prediction for this cross section is σ(p$$\\bar{p}$$ → lvγ) = 19.3 ± 1.4(th.) [pb]. The Standard Model predictions for several kinematic + variables are compared with data for E T γ > 7 GeV and ΔR(μ,γ) > 0.7. The measured cross section and the photon and W boson production kinematics are found to agree with the Standard Model predictions.« less

Vaccine-induced Human Antibodies Specific for the Third Variable Region of HIV-1 gp120 Impose Immune Pressure on Infecting Viruses

PubMed Central

Zolla-Pazner, Susan; Edlefsen, Paul T.; Rolland, Morgane; Kong, Xiang-Peng; deCamp, Allan; Gottardo, Raphael; Williams, Constance; Tovanabutra, Sodsai; Sharpe-Cohen, Sandra; Mullins, James I.; deSouza, Mark S.; Karasavvas, Nicos; Nitayaphan, Sorachai; Rerks-Ngarm, Supachai; Pitisuttihum, Punnee; Kaewkungwal, Jaranit; O'Connell, Robert J.; Robb, Merlin L.; Michael, Nelson L.; Kim, Jerome H.; Gilbert, Peter

2014-01-01

To evaluate the role of V3-specific IgG antibodies (Abs) in the RV144 clinical HIV vaccine trial, which reduced HIV-1 infection by 31.2%, the anti-V3 Ab response was assessed. Vaccinees' V3 Abs were highly cross-reactive with cyclic V3 peptides (cV3s) from diverse virus subtypes. Sieve analysis of CRF01_AE breakthrough viruses from 43 vaccine- and 66 placebo-recipients demonstrated an estimated vaccine efficacy of 85% against viruses with amino acids mismatching the vaccine at V3 site 317 (p = 0.004) and 52% against viruses matching the vaccine at V3 site 307 (p = 0.004). This analysis was supported by data showing that vaccinees' plasma Abs were less reactive with I307 when replaced with residues found more often in vaccinees' breakthrough viruses. Simultaneously, viruses with mutations at F317 were less infectious, possibly due to the contribution of F317 to optimal formation of the V3 hydrophobic core. These data suggest that RV144-induced V3-specific Abs imposed immune pressure on infecting viruses and inform efforts to design an HIV vaccine. PMID:25599085

Development of single chain variable fragment (scFv) antibodies against Xylella fastidiosa subsp. pauca by phage display.

PubMed

Yuan, Qing; Jordan, Ramon; Brlansky, Ronald H; Istomina, Olga; Hartung, John

2015-10-01

Xylella fastidiosa is a member of the gamma proteobacteria. It is fastidious, insect-vectored and xylem-limited and causes a variety of diseases, some severe, on a wide range of economically important perennial crops, including grape and citrus. Antibody based detection assays are commercially available for X. fastidiosa, and are effective at the species, but not at the subspecies level. We have made a library of scFv antibody fragments directed against X. fastidiosa subsp. pauca strain 9a5c (citrus) by using phage display technology. Antibody gene repertoires were PCR-amplified using 23 primers for the heavy chain variable region (V(H)) and 21 primers for the light chain variable region (V(L)). The V(H) and V(L) were joined by overlap extension PCR, and then the genes of the scFv library were ligated into the phage vector pKM19. The library contained 1.2×10(7) independent clones with full-length scFv inserts. In each of 3cycles of affinity-selection with 9a5c, about 1.0×10(12) phage were used for panning with 4.1×10(6), 7.1×10(6), 2.1×10(7) phage recovered after the first, second and third cycles, respectively. Sixty-six percent of clones from the final library bound X. fastidiosa 9a5c in an ELISA. Some of these scFv antibodies recognized strain 9a5c and did not recognize X. fastidiosa strains that cause Pierce's disease of grapevine. Published by Elsevier B.V.

Structural analysis of the nurse shark (new) antigen receptor (NAR): molecular convergence of NAR and unusual mammalian immunoglobulins.

PubMed

Roux, K H; Greenberg, A S; Greene, L; Strelets, L; Avila, D; McKinney, E C; Flajnik, M F

1998-09-29

We recently have identified an antigen receptor in sharks called NAR (new or nurse shark antigen receptor) that is secreted by splenocytes but does not associate with Ig light (L) chains. The NAR variable (V) region undergoes high levels of somatic mutation and is equally divergent from both Ig and T cell receptors (TCR). Here we show by electron microscopy that NAR V regions, unlike those of conventional Ig and TCR, do not form dimers but rather are independent, flexible domains. This unusual feature is analogous to bona fide camelid IgG in which modifications of Ig heavy chain V (VH) sequences prevent dimer formation with L chains. NAR also displays a uniquely flexible constant (C) region. Sequence analysis and modeling show that there are only two types of expressed NAR genes, each having different combinations of noncanonical cysteine (Cys) residues in the V domains that likely form disulfide bonds to stabilize the single antigen-recognition unit. In one NAR class, rearrangement events result in mature genes encoding an even number of Cys (two or four) in complementarity-determining region 3 (CDR3), which is analogous to Cys codon expression in an unusual human diversity (D) segment family. The NAR CDR3 Cys generally are encoded by preferred reading frames of rearranging D segments, providing a clear design for use of preferred reading frame in antigen receptor D regions. These unusual characteristics shared by NAR and unconventional mammalian Ig are most likely the result of convergent evolution at the molecular level.

Histone H3.3 promotes IgV gene diversification by enhancing formation of AID-accessible single-stranded DNA.

PubMed

Romanello, Marina; Schiavone, Davide; Frey, Alexander; Sale, Julian E

2016-07-01

Immunoglobulin diversification is driven by activation-induced deaminase (AID), which converts cytidine to uracil within the Ig variable (IgV) regions. Central to the recruitment of AID to the IgV genes are factors that regulate the generation of single-stranded DNA (ssDNA), the enzymatic substrate of AID Here, we report that chicken DT40 cells lacking variant histone H3.3 exhibit reduced IgV sequence diversification. We show that this results from impairment of the ability of AID to access the IgV genes due to reduced formation of ssDNA during IgV transcription. Loss of H3.3 also diminishes IgV R-loop formation. However, reducing IgV R-loops by RNase HI overexpression in wild-type cells does not affect IgV diversification, showing that these structures are not necessary intermediates for AID access. Importantly, the reduction in the formation of AID-accessible ssDNA in cells lacking H3.3 is independent of any effect on the level of transcription or the kinetics of RNAPII elongation, suggesting the presence of H3.3 in the nucleosomes of the IgV genes increases the chances of the IgV DNA becoming single-stranded, thereby creating an effective AID substrate. © 2016 MRC Laboratory of Molecular Biology. Published under the terms of the CC BY 4.0 license.

123I-5-IA-85380 SPECT measurement of nicotinic acetylcholine receptors in human brain by the constant infusion paradigm: feasibility and reproducibility.

PubMed

Staley, Julie K; van Dyck, Christopher H; Weinzimmer, David; Brenner, Eric; Baldwin, Ronald M; Tamagnan, Gilles D; Riccardi, Patrizia; Mitsis, Effie; Seibyl, John P

2005-09-01

(123)I-5-IA-85380 ((123)I-5-IA; [(123)I]-5-iodo-3-[2(S)-azetidinylmethoxy]pyridine) is a promising SPECT radiotracer for imaging beta(2)-containing nicotinic acetylcholine receptors (beta(2)-nAChRs) in brain. Beta(2)-nAChRs are the initial site of action of nicotine and are implicated in various neuropsychiatric disorders. The feasibility and reproducibility of the bolus-plus-constant-infusion paradigm for equilibrium modeling of (123)I-5-IA using SPECT in healthy nonsmokers was studied. Ten healthy nonsmokers (mean age +/- SD, 43.7 +/- 9.9 y) underwent two (123)I-5-IA SPECT scans within 4 wk. (123)I-5-IA was administered as a bolus (125.8 +/- 14.6 MBq) plus constant infusion (18.1 +/- 1.5 MBq/h). SPECT acquisitions (30 min) and venous blood sampling were performed every 60 min throughout the infusion (10-14 h). The test-retest variability and reliability of plasma activity (kBq/mL), the regional brain activity reflected by units of kBq/mL and %ID/mL (injected dose/mL brain tissue), and the equilibrium outcome measures V(T)' (ratio of total uptake to total plasma parent concentration) and V(T) (ratio of total uptake to free plasma parent concentration) were evaluated in 4 brain areas, including thalamus, striatum, cortex, and cerebellum. Linear regression analysis revealed that time-activity curves for both plasma and brain (123)I-5-IA activity stabilized by 5 h, with an average change of [2.5%/h between 6 and 8 h of infusion, permitting equilibrium modeling. The plasma free fraction (f(1)), total parent, and clearance demonstrated good test-retest variability (mean, 10.9%-12.5%), whereas the variability of free parent was greater (mean, 24.3%). Regional brain activity (kBq/mL) demonstrated good test-retest variability (11.1%-16.4%) that improved when corrected for infusion rate (mean, 8.2%-9.9%) or for injected dose (mean, 9.5%-13.3%). V(T)' demonstrated better test-retest variability (mean, 7.0%-8.9%) than V(T) (mean, 12.9%-14.6%). Reliability assessed by the intraclass correlation coefficient (ICC) was superior for kBq/mL (ICC = 0.83-0.90) and %ID/mL (ICC = 0.93-0.96) compared with V(T)' (ICC = 0.30-0.64) and V(T) (ICC = 0.28-0.60). The lower reliability of V(T) was attributed to the poor reliability of the free fraction (ICC = 0.35) and free parent (ICC = 0.68). These results support the feasibility and reproducibility of equilibrium imaging with (123)I-5-IA for measurement of beta(2)-nAChRs in human brain.

Towards standardization of 18F-FET PET imaging: do we need a consistent method of background activity assessment?

PubMed

Unterrainer, Marcus; Vettermann, Franziska; Brendel, Matthias; Holzgreve, Adrien; Lifschitz, Michael; Zähringer, Matthias; Suchorska, Bogdana; Wenter, Vera; Illigens, Ben M; Bartenstein, Peter; Albert, Nathalie L

2017-12-01

PET with O-(2- 18 F-fluoroethyl)-L-tyrosine ( 18 F-FET) has reached increasing clinical significance for patients with brain neoplasms. For quantification of standard PET-derived parameters such as the tumor-to-background ratio, the background activity is assessed using a region of interest (ROI) or volume of interest (VOI) in unaffected brain tissue. However, there is no standardized approach regarding the assessment of the background reference. Therefore, we evaluated the intra- and inter-reader variability of commonly applied approaches for clinical 18 F-FET PET reading. The background activity of 20 18 F-FET PET scans was independently evaluated by 6 readers using a (i) simple 2D-ROI, (ii) spherical VOI with 3.0 cm diameter, and (iii) VOI consisting of crescent-shaped ROIs; each in the contralateral, non-affected hemisphere including white and gray matter in line with the European Association of Nuclear Medicine (EANM) and German guidelines. To assess intra-reader variability, each scan was evaluated 10 times by each reader. The coefficient of variation (CoV) was assessed for determination of intra- and inter-reader variability. In a second step, the best method was refined by instructions for a guided background activity assessment and validated by 10 further scans. Compared to the other approaches, the crescent-shaped VOIs revealed most stable results with the lowest intra-reader variabilities (median CoV 1.52%, spherical VOI 4.20%, 2D-ROI 3.69%; p < 0.001) and inter-reader variabilities (median CoV 2.14%, spherical VOI 4.02%, 2D-ROI 3.83%; p = 0.001). Using the guided background assessment, both intra-reader variabilities (median CoV 1.10%) and inter-reader variabilities (median CoV 1.19%) could be reduced even more. The commonly applied methods for background activity assessment show different variability which might hamper 18 F-FET PET quantification and comparability in multicenter settings. The proposed background activity assessment using a (guided) crescent-shaped VOI allows minimization of both intra- and inter-reader variability and might facilitate comprehensive methodological standardization of amino acid PET which is of interest in the light of the anticipated EANM technical guidelines.

Electrical characterizations of MIS structures based on variable-gap n(p)-HgCdTe grown by MBE on Si(0 1 3) substrates

NASA Astrophysics Data System (ADS)

Voitsekhovskii, A. V.; Nesmelov, S. N.; Dzyadukh, S. M.; Varavin, V. S.; Dvoretskii, S. A.; Mikhailov, N. N.; Yakushev, M. V.; Sidorov, G. Yu.

2017-12-01

Metal-insulator-semiconductor (MIS) structures based on n(p)-Hg1-xCdxTe (x = 0.22-0.40) with near-surface variable-gap layers were grown by the molecular-beam epitaxy (MBE) technique on the Si (0 1 3) substrates. Electrical properties of MIS structures were investigated experimentally at various temperatures (9-77 K) and directions of voltage sweep. The ;narrow swing; technique was used to determine the spectra of fast surface states with the exception of hysteresis effects. It is established that the density of fast surface states at the MCT/Al2O3 interface at a minimum does not exceed 3 × 1010 eV-1 × cm-2. For MIS structures based on n-MCT/Si(0 1 3), the differential resistance of the space-charge region in strong inversion mode in the temperature range 50-90 K is limited by the Shockley-Read-Hall generation in the space-charge region.

Determination of biodiesel content in biodiesel/diesel blends using NIR and visible spectroscopy with variable selection.

PubMed

Fernandes, David Douglas Sousa; Gomes, Adriano A; Costa, Gean Bezerra da; Silva, Gildo William B da; Véras, Germano

2011-12-15

This work is concerned of evaluate the use of visible and near-infrared (NIR) range, separately and combined, to determine the biodiesel content in biodiesel/diesel blends using Multiple Linear Regression (MLR) and variable selection by Successive Projections Algorithm (SPA). Full spectrum models employing Partial Least Squares (PLS) and variables selection by Stepwise (SW) regression coupled with Multiple Linear Regression (MLR) and PLS models also with variable selection by Jack-Knife (Jk) were compared the proposed methodology. Several preprocessing were evaluated, being chosen derivative Savitzky-Golay with second-order polynomial and 17-point window for NIR and visible-NIR range, with offset correction. A total of 100 blends with biodiesel content between 5 and 50% (v/v) prepared starting from ten sample of biodiesel. In the NIR and visible region the best model was the SPA-MLR using only two and eight wavelengths with RMSEP of 0.6439% (v/v) and 0.5741 respectively, while in the visible-NIR region the best model was the SW-MLR using five wavelengths and RMSEP of 0.9533% (v/v). Results indicate that both spectral ranges evaluated showed potential for developing a rapid and nondestructive method to quantify biodiesel in blends with mineral diesel. Finally, one can still mention that the improvement in terms of prediction error obtained with the procedure for variables selection was significant. Copyright © 2011 Elsevier B.V. All rights reserved.

Elimination of endogenous aberrant kappa chain transcripts from sp2/0-derived hybridoma cells by specific ribozyme cleavage: utility in genetic therapy of HIV-1 infections.

PubMed Central

Duan, L; Pomerantz, R J

1994-01-01

The pooled degenerate-primer polymerase chain reaction (PCR) technology is now widely used in the amplification and cloning of murine hybridoma-specific immunoglobulin gene cDNAs. The design of primers is mainly based on the highly conserved 5' terminus of immunoglobulin gene variable regions and the constant region in the 3' terminus. Of note, most murine hybridoma cell lines are derived from the Sp2/0 cell line, which is demonstrated to express endogenous aberrant kappa chains (abV kappa). This high-level endogenous abV kappa mixes with specific kappa chains in the hybridomas and interferes with the efficiency of the reverse transcriptase (RT)-PCR cloning strategy. In this report, during the cloning of murine anti-human immunodeficiency virus type I (HIV-1) hybridoma immunoglobulin cDNAs, a specific primer-PCR screening system was developed, based on the abV kappa complementarity-defining region (CDR), to eliminate abV kappa-carrying plasmids. Furthermore, an abV kappa sequence-specific derived ribozyme was developed and packaged in a retroviral expression vector system. This abV kappa ribozyme can be transduced into different murine hybridomas, and expressed intracellularly to potently eliminate endogenous abV kappa RNA. Images PMID:7816635

X ray spectra of cataclysmic variables

NASA Technical Reports Server (NTRS)

Patterson, Joseph; Halpern, Jules

1990-01-01

X ray spectral parameters of cataclysmic variables observed with the 'Einstein' imaging proportional counter were determined by fitting an optically thin, thermal bremsstrahlung spectrum to the raw data. Most of the sources show temperatures of order a few keV, while a few sources exhibit harder spectra with temperatures in excess of 10 keV. Estimated 0.1 to 3.5 keV luminosities are generally in the range from 10(exp 30) to 10(exp 32) erg/sec. The results are consistent with the x rays originating in a disk/white dwarf boundary layer of non-magnetic systems, or in a hot, post-shock region in the accretion column of DQ Her stars, with a negligible contribution from the corona of the companion. In a few objects column densities were found that are unusually high for interstellar material. It was suggested that the absorption occurs in the system itself.

Recombinant human B7.2 IgV-like domain expressed in bacteria maintains its co-stimulatory activity in vitro.

PubMed

Yan, Xiaocai; Ma, Jun; Zheng, Jin; Lai, Baochang; Geng, Yiping; Wang, Yili; Si, Lüsheng

2002-07-01

To investigate which of the two immunoglobulin (Ig)-like domains, the immunoglobulin variable region homologous domain IgV (hB7.2 IgV) and the immunoglobulin constant region homologous domain IgC (hB7.2 IgC) on the human B7.2 molecule contains receptor binding sites, and to evaluate whether the B7.2 protein expressed in bacteria has biological activity in vitro. Three fragments of hB7.2 IgV,hB7.2 IgC and the complete extracellular region of human B7.2 containing both the IgV and IgC domains,hB7.2 Ig (V+C), were amplified by PCR and subcloned into pGEM-Teasy. Three recombinants,pGEX-4T-3-hB7.2 IgV,pGEX-4T-3-hB7.2 IgC and pGEX-4T-3-hB7.2 Ig (V+C), were generated by cloning the fragments into a prokaryote expression plasmid (pGEX-4T-3) and transformed into the host strain E. coli DH5alpha. The relevant target fusion proteins consisting of GST and hB7.2 IgV,hB7.2 IgC and hB7.2 Ig (V+C), were identified by SDS-PAGE and Western blotting. With the presence of the first signal imitated by anti-CD3 antibody, T cell activation was observed by exposing purified T lymphocytes to each soluble form of the three bacterially-produced human B7.2 fusion proteins by [(3)H]-TdR incorporation. Three recombinant fusion proteins of human B7.2, GST-hB7.2 IgV, GST-hB7.2 IgC and GST-hB7.2 Ig (V+C) were produced and detected in inclusion body form from engineered bacteria. With the first signal present,T lymphocytes proliferated when co-stimulated by bacterially-produced either GST-hB7.2 Ig (V+C) or GST-hB7.2 IgV fusion proteins, but not by GST-hB7.2 IgC. Functional human B7.2 fusion protein can be produced in bacteria. The IgV-like domain of human B7.2 is sufficient for B7.2 to interact with its counter-receptors and co-stimulate T lymphocytes.

Reconstruction of the accretion disk in six cataclysmic variable stars

NASA Astrophysics Data System (ADS)

Rutten, R. G. M.; van Paradijs, J.; Tinbergen, J.

1992-07-01

The maximum-entropy eclipse-mapping algorithm is used to reconstruct images of the accretion disks of the novalike variable stars RW Tri, UX UMa, SW Sex, LX Ser, V 1315 Aql, and V363 Aur. The 2D disk intensity maps deduced from the light curves reveal the size of the disk and its radial intensity dependence. Black-body temperature maps deduced from the intensity maps at different wavelengths show that the disks in RW Tri, UX UMa, and V363 Aur have a radial temperature dependence which closely matches the fundamental theoretical run of the effective temperature with radial distance from disk center: T(eff) varies as R exp -3/4. The system V1315 Aql and SW Sex exhibit a much flatter run of T(R) in the inner region of the disk, while LX Ser appears to hold a position in between these two extremes. The consequences of these results for accretion disk models are also discussed.

Crystal structure of a 3B3 variant - A broadly neutralizing HIV-1 scFv antibody

DOE Office of Scientific and Technical Information (OSTI.GOV)

Clark, K. Reed; Walsh, Scott T.R.; NCH)

2009-12-10

We present the crystal structure determination of an anti-HIV-1 gp120 single-chain variable fragment antibody variant, 3B3, at 2.5 {angstrom} resolution. This 3B3 variant was derived from the b12 antibody, using phage display and site-directed mutagenesis of the variable heavy chain (V{sub H}) complementary-determining regions (CDRs). 3B3 exhibits enhanced binding affinity and neutralization activity against several cross-clade primary isolates of HIV-1 by interaction with the recessed CD4-binding site on the gp120 envelope protein. Comparison with the structures of the unbound and bound forms of b12, the 3B3 structure closely resembles these structures with minimal differences with two notable exceptions. First, theremore » is a reorientation of the CDR-H3 of the V{sub H} domain where the primary sequences evolved from b12 to 3B3. The structural changes in CDR-H3 of 3B3, in light of the b12-gp120 complex structure, allow for positioning an additional Trp side chain in the binding interface with gp120. Finally, the second region of structural change involves two peptide bond flips in CDR-L3 of the variable light (VL) domain triggered by a point mutation in CDR-H3 of Q100eY resulting in changes in the intramolecular hydrogen bonding patterning between the VL and VH domains. Thus, the enhanced binding affinities and neutralization capabilities of 3B3 relative to b12 probably result from higher hydrophobic driving potential by burying more aromatic residues at the 3B3-gp120 interface and by indirect stabilization of intramolecular contacts of the core framework residues between the VL and VH domains possibly through more favorable entropic effect through the expulsion of water.« less

Reaping the redox switching capability of vanadium in Li3V2(PO4)3/HHC composite to demonstrate the rocking chair electrode performance

NASA Astrophysics Data System (ADS)

Saravanan, Karuppiah; Kalaiselvi, Nallathamby

2017-10-01

The study exploits the functional advantages of vanadium with variable oxidation states to extract maximum energy from Li3V2(PO4)3/HHC composite containing human hair derived carbon. Vanadium, present in the form of V3+ in Li3V2(PO4)3 stabilizes itself electrochemically as V4+ by forming LiV2(PO4)3 through oxidation in the potential range 3.0-4.5 V and as V1+ by forming Li7V2(PO4)3 due to the reduction of V3+ into V1+ in the 0.01-3.0 V region, thus qualifying LVP as a rocking chair electrode. In other words, Li3V2(PO4)3/HHC composite demonstrates itself as anode and as cathode for lithium-ion batteries. Li3V2(PO4)3/HHC cathode exhibits ultra high capacity, excellent rate capability at 50C and retains about 99% capacity up to 1000 cycles. As anode, Li3V2(PO4)3/HHC delivers a capacity of 428 mAh g-1 at 50 mA g-1 and tolerates 5 A g-1 condition up to 1000 cycles with a negligible capacity fade. The dual electrode behavior of Li3V2(PO4)3/HHC may be attributed to the unique architecture of HHC that provides high electronic conductivity, facilitates rapid diffusion of lithium ions and admits volume changes during intercalation/deintercalation. More importantly, HHC is a cheap and eco-friendly carbon additive derived from filthy human hair, which in turn offers ample scope for the commercial exploitation of title electrode.

The nuclear 18S ribosomal RNA gene as a source of phylogenetic information in the genus Taenia.

PubMed

Yan, Hongbin; Lou, Zhongzi; Li, Li; Ni, Xingwei; Guo, Aijiang; Li, Hongmin; Zheng, Yadong; Dyachenko, Viktor; Jia, Wanzhong

2013-03-01

Most species of the genus Taenia are of considerable medical and veterinary significance. In this study, complete nuclear 18S rRNA gene sequences were obtained from seven members of genus Taenia [Taenia multiceps, Taenia saginata, Taenia asiatica, Taenia solium, Taenia pisiformis, Taenia hydatigena, and Taenia taeniaeformis] and a phylogeny inferred using these sequences. Most of the variable sites fall within the variable regions, V1-V5. We show that sequences from the nuclear 18S ribosomal RNA gene have considerable promise as sources of phylogenetic information within the genus Taenia. Furthermore, given that almost all the variable sites lie within defined variable portions of that gene, it will be appropriate and economical to sequence only those regions for additional species of Taenia.

Design of a 1200-V ultra-thin partial SOI LDMOS with n-type buried layer

NASA Astrophysics Data System (ADS)

Qiao, Ming; Wang, Yuru; Li, Yanfei; Zhang, Bo; Li, Zhaoji

2014-11-01

A novel 1200-V ultra-thin partial silicon-on-insulator (PSOI) lateral double-diffusion metal oxide semiconductor (LDMOS) with n-type buried (n-buried) layer (NBL PSOI LDMOS) is proposed in this paper. The new PSOI LDMOS features an n-buried layer underneath the n-type drift (n-drift) region close to the source side, providing a large conduction region for majority carriers and a silicon window to improve self-heating effect (SHE). A combination of uniform and linear variable doping (ULVD) profile is utilized in the n-drift region, which alleviates the inherent tradeoff between specific on-resistance (Ron,sp) and breakdown voltage (BV). With the n-drift region length of 80 μm, the NBL PSOI LDMOS obtains a high BV of 1243 V which is improved by around 105 V in comparison to the conventional SOI LDMOS with linear variable doping (LVD) profile for the n-drift region (LVD SOI LDMOS). Besides, the 1200-V NBL PSOI LDMOS has a lower maximum temperature (Tmax) of 333 K at a power (P) of 1 mW/μm which is reduced by around 61 K. Meanwhile, Ron,sp and Tmax of the NBL PSOI LDMOS are lower than those of the conventional LVD SOI LDMOS for a wide range of BV.

Somatic diversification in the heavy chain variable region genes expressed by human autoantibodies bearing a lupus-associated nephritogenic anti-DNA idiotype

DOE Office of Scientific and Technical Information (OSTI.GOV)

Demaison, C.; Chastagner, P.; Theze, J.

1994-01-18

Monoclonal anti-DNA antibodies bearing a lupus nephritis-associated idiotype were derived from five patients with systemic lupus erythematosus (SLE). Genes encoding their heavy (H)-chain variable (V[sub H]) regions were cloned and sequenced. When compared with their closest V[sub h] germ-line gene relatives, these sequences exhibit a number of silent (S) and replacement (R) substitutions. The ratios of R/S mutations were much higher in the complementarity-determining regions (CDRs) of the antibodies than in the framework regions. Molecular amplification of genomic V[sub H] genes and Southern hybridization with somatic CDR2-specific oligonucleotide probes showed that the configuration of the V[sub H] genes corresponding tomore » V[sub H] sequences in the nephritogenic antibodies is not present in the patient's own germ-line DNA, implying that the B-cell clones underwent somatic mutation in vivo. These findings, together with the characteristics of the diversity and junctional gene elements utilized to form the antibody, indicate that these autoantibodies have been driven through somatic selection processes reminiscent of those that govern antibody responses triggered by exogenous stimuli.« less

Precipitation Seasonality over the Indian Subcontinent: Assessment of Gauge, Reanalyses and Satellite Products

NASA Astrophysics Data System (ADS)

Renwick, J. A.; Rana, S.; McGregor, J.

2015-12-01

This work addresses the seasonal (winter, pre-monsoon, monsoon and post-monsoon) performance of seven precipitation products from three different data sources: gridded station data, satellite-derived data and reanalyses products over the Indian Subcontinent, for a period of 10 years (1997/98 to 2006/07). Precipitation products evaluated are the Asian Precipitation - Highly Resolved Observational Data Integration Towards Evaluation of Water Resources (APHRODITE), the Climate Prediction Center unified gauge (CPC-uni), the Global Precipitation Climatology project (GPCP), Tropical Rainfall Measuring Mission (TRMM) post real-time research products (3B42-V6 and 3B42-V7), the Climate Forecast System Reanalysis (CFSR) and the European Centre for Medium-Range Weather Forecasts (ECMWF) Interim Re-Analysis (ERA-Interim). Several verification measures are employed to assess the accuracy of the data. All datasets capture the large-scale characteristics of the seasonal mean precipitation distribution, albeit with pronounced seasonal and/or regional differences. Compared to APHRODITE, the gauge-only (CPC-uni) and the satellite-derived precipitation products (GPCP, 3B42-V6 and 3B42-V7) capture the summer monsoon rainfall variability better than CFSR and ERA-Interim. Similar conclusions were drawn for the post-monsoon season, with the exception of 3B42-V7, which underestimates post-monsoon precipitation. Over mountainous regions 3B42-V7 shows an appreciable improvement over 3B42-V6 and other gauge-based precipitation products. Significantly large biases/errors occur during the winter months, which is likely related to the uncertainty in observations that artificially inflate the existing error in reanalyses and satellite retrievals.

Biologic, Antigenic, and Full-Length Genomic Characterization of a Bovine-Like Coronavirus Isolated from a Giraffe▿

PubMed Central

Hasoksuz, Mustafa; Alekseev, Konstantin; Vlasova, Anastasia; Zhang, Xinsheng; Spiro, David; Halpin, Rebecca; Wang, Shiliang; Ghedin, Elodie; Saif, Linda J.

2007-01-01

Coronaviruses (CoVs) possess large RNA genomes and exist as quasispecies, which increases the possibility of adaptive mutations and interspecies transmission. Recently, CoVs were recognized as important pathogens in captive wild ruminants. This is the first report of the isolation and detailed genetic, biologic, and antigenic characterization of a bovine-like CoV from a giraffe (Giraffa camelopardalis) in a wild-animal park in the United States. CoV particles were detected by immune electron microscopy in fecal samples from three giraffes with mild-to-severe diarrhea. From one of the three giraffe samples, a CoV (GiCoV-OH3) was isolated and successfully adapted to serial passage in human rectal tumor 18 cell cultures. Hemagglutination assays, receptor-destroying enzyme activity, hemagglutination inhibition, and fluorescence focus neutralization tests revealed close biological and antigenic relationships between the GiCoV-OH3 isolate and selected respiratory and enteric bovine CoV (BCoV) strains. When orally inoculated into a BCoV-seronegative gnotobiotic calf, GiCoV-OH3 caused severe diarrhea and virus shedding within 2 to 3 days. Sequence comparisons and phylogenetic analyses were performed to assess its genetic relatedness to other CoVs. Molecular characterization confirmed that the new isolate belongs to group 2a of the mammalian CoVs and revealed closer genetic relatedness between GiCoV-OH3 and the enteric BCoVs BCoV-ENT and BCoV-DB2, whereas BCoV-Mebus was more distantly related. Detailed sequence analysis of the GiCoV-OH3 spike gene demonstrated the presence of a deletion in the variable region of the S1 subunit (from amino acid 543 to amino acid 547), which is a region associated with pathogenicity and tissue tropism for other CoVs. The point mutations identified in the structural proteins (by comparing GiCoV-OH3, BCoV-ENT, BCoV-DB2, and BCoV-Mebus) were most conserved among GiCoV-OH3, BCoV-ENT, and BCoV-DB2, whereas most of the point mutations in the nonstructural proteins were unique to GiCoV-OH3. Our results confirm the existence of a bovine-like CoV transmissible to cattle from wild ruminants, namely, giraffes, but with certain genetic properties different from those of BCoVs. PMID:17344285

Genetic analysis of human immunodeficiency virus type 1 envelope V3 region isolates from mothers and infants after perinatal transmission.

PubMed Central

Ahmad, N; Baroudy, B M; Baker, R C; Chappey, C

1995-01-01

The human immunodeficiency virus type 1 (HIV-1) sequences from variable region 3 (V3) of the envelope gene were analyzed from seven infected mother-infant pairs following perinatal transmission. The V3 region sequences directly derived from the DNA of the uncultured peripheral blood mononuclear cells from infected mothers displayed a heterogeneous population. In contrast, the infants' sequences were less diverse than those of their mothers. In addition, the sequences from the younger infants' peripheral blood mononuclear cell DNA were more homogeneous than the older infants' sequences. All infants' sequences were different but displayed patterns similar to those seen in their mothers. In the mother-infant pair sequences analyzed, a minor genotype or subtype found in the mothers predominated in their infants. The conserved N-linked glycosylation site proximal to the first cysteine of the V3 loop was absent only in one infant's sequence set and in some variants of two other infants' sequences. Furthermore, the HIV-1 sequences of the epidemiologically linked mother-infant pairs were closer than the sequences of epidemiologically unlinked individuals, suggesting that the sequence comparison of mother-infant pairs done in order to identify genetic variants transmitted from mother to infant could be performed even in older infants. There was no evidence for transmission of a major genotype or multiple genotypes from mother to infant. In conclusion, a minor genotype of maternal virus is transmitted to the infants, and this finding could be useful in developing strategies to prevent maternal transmission of HIV-1 by means of perinatal interventions. PMID:7815476

Brightness Variations in the Solar Atmosphere as Seen by SOHO

NASA Astrophysics Data System (ADS)

Brkovic, A.; Rüedi, I.; Solanki, S. K.; Huber, M. C. E.; Stenflo, J. O.; Stucki, K.; Harrison, R.; Fludra, A.

We present preliminary results of a statistical analysis of the brightness variations of solar features at different levels in the solar atmosphere. We observed quiet Sun regions at disc centre using the Coronal Diagnostic Spectrometer (CDS) onboard the Solar and Heliospheric Observatory (SOHO). We find significant variability at all time scales in all parts of the quiet Sun, from darkest intranetwork to brightest network. Such variations are observed simultaneously in the chromospheric He I 584.33 Angstroms (2 \\cdot 10^4 K) line, the transition region O V 629.74 Angstroms (2.5 \\cdot 10^5 K) and coronal Mg IX 368.06 Angstroms (10^6 K) line. The relative variability is independent of brightness and most of the variability appears to take place on time scales longer than 5 minutes for all 3 spectral lines. No significant differences are observed between the different data sets.

Exploration of factors affecting the onset and maturation course of follicular lymphoma through simulations of the germinal center.

PubMed

Fenwick, Michael K; Escobedo, Fernando A

2009-08-01

Genetic mutations frequently observed in human follicular lymphoma (FL) B-cells result in aberrant expression of the anti-apoptotic protein bcl-2 and surface immunoglobulins (Igs) which display one or more novel variable (V) region N-glycosylation motifs. In the present study, we develop a simulation model of the germinal center (GC) to explore how these mutations might influence the emergence and clonal expansion of key mutants which provoke FL development. The simulations employ a stochastic method for calculating the cellular dynamics, which incorporates actual IgV region sequences and a simplified hypermutation scheme. We first bring our simulations into agreement with experimental data for well-characterized normal and bcl-2(+) anti-hapten GC responses in mice to provide a model for understanding how bcl-2 expression leads to permissive selection and memory cell differentiation of weakly competitive B-cells. However, as bcl-2 expression in the GC alone is thought to be insufficient for FL development, we next monitor simulated IgV region mutations to determine the emergence times of key mutants displaying aberrant N-glycosylation motifs recurrently observed in human FL IgV regions. Simulations of 26 germline V(H) gene segments indicate that particular IgV regions have a dynamical selective advantage by virtue of the speed with which one or more of their key sites can generate N-glycosylation motifs upon hypermutation. Separate calculations attribute the high occurrence frequency of such IgV regions in FL to an ability to produce key mutants at a fast enough rate to overcome stochastic processes in the GC that hinder clonal expansion. Altogether, these simulations characterize three pathways for FL maturation through positively selected N-glycosylations, namely, via one of two key sites within germline V(H) region gene segments, or via a site in the third heavy chain complementarity-determining region (CDR-H3) that is generated from VDJ recombination.

High energy variability of 3C 273 during the AGILE multiwavelength campaign of December 2007-January 2008

NASA Astrophysics Data System (ADS)

Pacciani, L.; Donnarumma, I.; Vittorini, V.; D'Ammando, F.; Fiocchi, M. T.; Impiombato, D.; Stratta, G.; Verrecchia, F.; Bulgarelli, A.; Chen, A. W.; Giuliani, A.; Longo, F.; Pucella, G.; Vercellone, S.; Tavani, M.; Argan, A.; Barbiellini, G.; Boffelli, F.; Caraveo, P. A.; Cattaneo, P. W.; Cocco, V.; Costa, E.; Del Monte, E.; Di Cocco, G.; Evangelista, Y.; Feroci, M.; Froysland, T.; Fuschino, F.; Galli, M.; Gianotti, F.; Labanti, C.; Lapshov, I.; Lazzarotto, F.; Lipari, P.; Marisaldi, M.; Mereghetti, S.; Morselli, A.; Pellizzoni, A.; Perotti, F.; Picozza, P.; Prest, M.; Rapisarda, M.; Soffitta, P.; Trifoglio, M.; Tosti, G.; Trois, A.; Vallazza, E.; Zanello, D.; Antonelli, L. A.; Colafrancesco, S.; Cutini, S.; Gasparrini, D.; Giommi, P.; Pittori, C.; Salotti, L.

2009-01-01

Context: We report the results of a 3-week multi-wavelength campaign targeting the flat spectrum radio quasar 3C 273 carried out with the AGILE gamma-ray mission, covering the 30 MeV-50 GeV and 18-60 keV, the REM observatory (covering the near-IR and optical), Swift (near-UV/Optical, 0.2-10 keV and 15-50 keV), INTEGRAL (3-200 keV) and Rossi XTE (2-12 keV). This is the first observational campaign including gamma-ray data, after the last EGRET observations, more than 8 years ago. Aims: This campaign has been organized by the AGILE team with the aim of observing, studying and modelling the broad band energy spectrum of the source, and its variability on a week timescale, testing the emission models describing the spectral energy distribution of this source. Methods: Our study was carried out using simultaneous light curves of the source flux from all the involved instruments, in the different energy ranges, to search for correlated variability. Then a time-resolved spectral energy distribution was used for a detailed physical modelling of the emission mechanisms. Results: The source was detected in gamma-rays only in the second week of our campaign, with a flux comparable to the level detected by EGRET in June 1991. We found an indication of a possible anti-correlation between the emission at gamma-rays and at soft and hard X-rays, supported by the complete set of instruments. Instead, optical data do not show short term variability, as expected for this source. Only in two preceding EGRET observations (in 1993 and 1997) 3C 273 showed intra-observation variability in gamma-rays. In the 1997 observation, flux variation in gamma-rays was associated with a synchrotron flare. The energy-density spectrum with almost simultaneous data partially covers the regions of synchrotron emission, the big blue bump, and the inverse-Compton. We adopted a leptonic model to explain the hard X/gamma-ray emissions, although from our analysis hadronic models cannot be ruled out. In the adopted model, the soft X-ray emission is consistent with combined synchrotron-self Compton and external Compton mechanisms, while hard X and gamma-ray emissions are compatible with external Compton from thermal photons of the disk. Under this model, the time evolution of the spectral energy distribution is well interpreted and modelled in terms of an acceleration episode of the electron population, leading to a shift in the inverse Compton peak towards higher energies.

First-order Probabilistic Analysis of the Effects of Heterogeneity on Pore-water Pressure in a Hillslope

NASA Astrophysics Data System (ADS)

Cai, J.; Yan, E.; Yeh, T. C. J.

2015-12-01

Pore-water pressure in a hillslope is a critical control of its stability. The main objective of this paper is to introduce a first-order moment analysis to investigate the pressure head variability within a hypothetical hillslope, induced by steady rainfall infiltration. This approach accounts for the uncertainties and spatial variation of the hydraulic conductivity, and is based on a first-order Taylor approximation of pressure perturbations calculated by a variably saturated, finite element flow model. Using this approach, the effects of variance (σ2lnKs) and spatial structure anisotropy (λh/λv) of natural logarithm of saturated hydraulic conductivity, and normalized vertical infiltration flux (q/ks) on the hillslope pore-water pressure are evaluated. We found that the responses of pressure head variability (σ2p) are quite different between unsaturated region and saturated region divided by the phreatic surface. Above the phreatic surface, a higher variability in pressure head is obtained from a higher σ2lnKs, a higher λh/λv and a smaller q/ks; while below the phreatic surface, a higher σ2lnKs, a lower λh/λv or a larger q/ks would lead to a higher variability in pressure head, and greater range of fluctuation of the phreatic surface within the hillslope. σ2lnKs has greatest impact on σ2p within the slope and λh/λv has smallest impact. All three variables have greater influence on maximum σ2p within the saturated region below the phreatic surface than that within the unsaturated region above the phreatic surface. The results obtained from this study are useful to understand the influence of hydraulic conductivity variations on slope seepage and stability under different slope conditions and material spatial distributions.

Overview of o3 and CO Interannual Variabilities and Trends Based on the Mozaic Data

NASA Astrophysics Data System (ADS)

Thouret, V.; Cammas, J.; Elguindi, N.; Zbinden, R.; Athier, G.; Nedelec, P.; Cousin, J.; Karcher, F.

2010-12-01

The MOZAIC program (http://mozaic.aero.obs-mip.fr) measures O3 and thermodynamical parameters since August 1994 along with CO since December 2001, on board 5 commercial aircraft operated by European airlines. Thus, most of the sampling data have been recorded at northern mid-latitudes, between 9 and 12 km altitude, in the upper troposphere - lower stratosphere (UTLS). To better assess the O3 distribution and its seasonal and regional behavior, measurements have been referenced to the tropopause altitude. The tropopause is defined as being a transition zone 30 hPa thick centered on the surface PV=2 pvu. Two other layers are defined on either side of the tropopause to encompass all the cruise levels of the MOZAIC flights, as fully described in Thouret et al., (2006). Then, we have access to the upper tropospheric and lower stratospheric O3 and CO distributions independently of any ozone threshold and regardless of the seasonal variations of the tropopause. We will present a climatology of O3 and CO in the UTLS for different regions of the northern hemisphere, from Western US to Japan, via North Atlantic and Europe. We will focus on the seasonal and regional differences to better highlight the O3 and CO behavior in this critical region. We also aim to further assess their interannual variability and “trends”. The first analysis presented in Thouret et al., (2006) showed an increase of O3 of about 1%/year between 1994 and 2003 in both the UT and the LS over a large North Atlantic area. This time period was actually characterized by the so-called (positive) anomaly 1998-1999. Later on, Koumoutsaris et al., (2008) have shown the role of the strong El-Nino event in 1997 in this positive ozone anomaly observed at hemispheric scale. In this present study, thanks to a longer time series now available (up to 2009), we go a step further. We will show that recent data actually reveal a levelling off of O3 since 2000 over the US and Europe while it is still increasing over Asia (less than 1%/year). On the other hand, CO distributions actually show a strong interannual variability partly linked to the intensity of boreal fires (Elguindi et al., 2010). We will present a detailed seasonal and regional analysis to better assess the leading processes. Elguindi et al., Current status of the ability of the GEMS/MACC models to reproduce the tropospheric CO vertical distribution as measured by MOZAIC… GMDD, 2010 Koumoutsaris S., Bey I., Generoso S., Thouret V., Influence of El Nino-Southern Oscillation on the interannual variability of tropospheric ozone in the northern midlatitudes, J. Geophys. Res., 113, D19301, 2008. Thouret V., J.-P. Cammas, B. Sauvage, G. Athier, R. Zbinden, P. Nédélec, P. Simon, and F. Karcher, Tropopause referenced ozone climatology and inter-annual variability (1994-2003) from the MOZAIC programme, Atmos. Chem. Phys., 2006.

A novel SOI LDMOS with substrate field plate and variable-k dielectric buried layer

NASA Astrophysics Data System (ADS)

Li, Qi; Wen, Yi; Zhang, Fabi; Li, Haiou; Xiao, Gongli; Chen, Yonghe; Fu, Tao

2018-09-01

A novel silicon-on-insulator (SOI) lateral double-diffused metal-oxide-semiconductor (LDMOS) structure has been proposed. The new structure features a substrate field plate (SFP) and a variable-k dielectric buried layer (VKBL). The SFP and VKBL improve the breakdown voltage by introducing new electric field peaks in the surface electric field distribution. Moreover, the SFP reduces the specific ON-resistance through an enhanced auxiliary depletion effect on the drift region. The simulation results indicate that compared to the conventional SOI LDMOS structure, the breakdown voltage is improved from 118 V to 221 V, the specific ON-resistance is decreased from 7.15 mΩ·cm2 to 3.81 mΩ·cm2, the peak value of surface temperature is declined by 38 K.

Integrity of immunoglobulin variable regions is supported by GANP during AID-induced somatic hypermutation in germinal center B cells

PubMed Central

Eid, Mohammed Mansour Abbas; Shimoda, Mayuko; Singh, Shailendra Kumar; Almofty, Sarah Ameen; Pham, Phuong; Goodman, Myron F.; Maeda, Kazuhiko; Sakaguchi, Nobuo

2017-01-01

Abstract Immunoglobulin affinity maturation depends on somatic hypermutation (SHM) in immunoglobulin variable (IgV) regions initiated by activation-induced cytidine deaminase (AID). AID induces transition mutations by C→U deamination on both strands, causing C:G→T:A. Error-prone repairs of U by base excision and mismatch repairs (MMRs) create transversion mutations at C/G and mutations at A/T sites. In Neuberger’s model, it remained to be clarified how transition/transversion repair is regulated. We investigate the role of AID-interacting GANP (germinal center-associated nuclear protein) in the IgV SHM profile. GANP enhances transition mutation of the non-transcribed strand G and reduces mutation at A, restricted to GYW of the AID hotspot motif. It reduces DNA polymerase η hotspot mutations associated with MMRs followed by uracil-DNA glycosylase. Mutation comparison between IgV complementary and framework regions (FWRs) by Bayesian statistical estimation demonstrates that GANP supports the preservation of IgV FWR genomic sequences. GANP works to maintain antibody structure by reducing drastic changes in the IgV FWR in affinity maturation. PMID:28541550

Computing the Polarimetric and Photometric Variability of Be Stars

NASA Astrophysics Data System (ADS)

Marr, K. C.; Jones, C. E.; Halonen, R. J.

2018-01-01

We investigate variations in the linear polarization as well as in the V-band and B-band color–magnitudes for classical Be star disks. We present two models: disks with enhanced disk density and disks that are tilted or warped from the stellar equatorial plane. In both cases, we predict variation in observable properties of the system as the disk rotates. We use a non-LTE radiative transfer code BEDISK (Sigut & Jones) in combination with a Monte Carlo routine that includes multiple scattering (Halonen et al.) to model classical Be star systems. We find that a disk with an enhanced density region that is one order of magnitude denser than the disk’s base density shows as much as ∼ 0.2 % variability in the polarization while the polarization position angle varies by ∼ 8^\\circ . The ΔV magnitude for the same system shows variations of up to ∼ 0.4 mag while the Δ(B–V) color varies by at most ∼ 0.01 mag. We find that disks tilted from the equatorial plane at small angles of ∼ 30^\\circ more strongly reflect the values of polarization and color–magnitudes reported in the literature than disks tilted at larger angles. For this model, the linear polarization varies by ∼ 0.3 % , the polarization position angle varies by ∼ 60^\\circ , the ΔV magnitude varies up to 0.35 mag, and the Δ(B–V) color varies by up to 0.1 mag. We find that the enhanced disk density models show ranges of polarization and color–magnitudes that are commensurate with what is reported in the literature for all sizes of the density-enhanced regions. From this, we cannot determine any preference for small or large density-enhanced regions.

The Broadband Spectral Variability of Holmberg IX X-1

NASA Astrophysics Data System (ADS)

Walton, D. J.; Fürst, F.; Harrison, F. A.; Middleton, M. J.; Fabian, A. C.; Bachetti, M.; Barret, D.; Miller, J. M.; Ptak, A.; Rana, V.; Stern, D.; Tao, L.

2017-04-01

We present results from four new broadband X-ray observations of the extreme ultraluminous X-ray source Holmberg IX X-1 ({L}{{X}}> {10}40 erg s-1), performed by Suzaku and NuSTAR in coordination. Combined with the archival data, we now have broadband observations of this remarkable source from six separate epochs. Two of these new observations probe lower fluxes than seen previously, allowing us to extend our knowledge of the broadband spectral variability exhibited. The spectra are well fit by two thermal blackbody components that dominate the emission below 10 keV, as well as a steep ({{Γ }}˜ 3.5) power-law tail that dominates above ˜15 keV. Remarkably, while the 0.3-10.0 keV flux varies by a factor of ˜3 between all these epochs, the 15-40 keV flux varies by only ˜20%. Although the spectral variability is strongest in the ˜1-10 keV band, both of the thermal components are required to vary when all epochs are considered. We also revisit the search for iron absorption features by leveraging the high-energy NuSTAR data to improve our sensitivity to extreme velocity outflows in light of the ultra-fast outflow recently detected in NGC 1313 X-1. Iron absorption from a similar outflow along our line of sight can be ruled out in this case. We discuss these results in the context of super-Eddington accretion models that invoke a funnel-like geometry for the inner flow, and propose a scenario in which we have an almost face-on view of a funnel that expands to larger radii with increasing flux, resulting in an increasing degree of geometrical collimation for the emission from intermediate-temperature regions.

High-resolution spectrum of the Galactic center

NASA Technical Reports Server (NTRS)

Mahoney, W. A.; Ling, J. C.; Wheaton, W. A.

1993-01-01

Recent observations of the Galactic center region indicate the presence of a narrow gamma-ray line feature at 170 keV, and theoretical speculations suggest it may result from Compton backscattering of the 511 keV annihilation radiation. The high-resolution gamma-ray spectrometer on HEAO 3 observed the Galactic center in the fall of 1979 and in the spring of 1980. In view of the recent developments, the HEAO data were re-examined to search for this new feature and to look for possible correlations with the 511 keV line emisison. No evidence for such Compton backscattered radiation was found and the derived upper limits for emission in a line feature near 170 keV were well below previously reported fluxes, indicating possible time variability.

Developmental pathway for potent V1V2-directed HIV-neutralizing antibodies

PubMed Central

Doria-Rose, Nicole A.; Schramm, Chaim A.; Gorman, Jason; Moore, Penny L.; Bhiman, Jinal N.; DeKosky, Brandon J.; Ernandes, Michael J.; Georgiev, Ivelin S.; Kim, Helen J.; Pancera, Marie; Staupe, Ryan P.; Altae-Tran, Han R.; Bailer, Robert T.; Crooks, Ema T.; Cupo, Albert; Druz, Aliaksandr; Garrett, Nigel J.; Hoi, Kam H.; Kong, Rui; Louder, Mark K.; Longo, Nancy S.; McKee, Krisha; Nonyane, Molati; O’Dell, Sijy; Roark, Ryan S.; Rudicell, Rebecca S.; Schmidt, Stephen D.; Sheward, Daniel J.; Soto, Cinque; Wibmer, Constantinos Kurt; Yang, Yongping; Zhang, Zhenhai; Mullikin, James C.; Binley, James M.; Sanders, Rogier W.; Wilson, Ian A.; Moore, John P.; Ward, Andrew B.; Georgiou, George; Williamson, Carolyn; Abdool Karim, Salim S.; Morris, Lynn; Kwong, Peter D.; Shapiro, Lawrence; Mascola, John R.

2015-01-01

Summary Antibodies capable of neutralizing HIV-1 often target variable regions 1 and 2 (V1V2) of the HIV-1 envelope, but the mechanism of their elicitation has been unclear. Here we define the developmental pathway by which such antibodies are generated and acquire the requisite molecular characteristics for neutralization. Twelve somatically related neutralizing antibodies (CAP256-VRC26.01-12) were isolated from CAPRISA-donor CAP256; each antibody contained the protruding tyrosine-sulfated, anionic antigen-binding loop (CDR H3) characteristic of this category of antibodies. Their unmutated ancestor emerged between weeks 30–38 post-infection with a 35-residue CDR H3, and neutralized the virus that superinfected this individual 15 weeks after initial infection. Improved neutralization breadth occurred by week 59 with modest affinity maturation, and was preceded by extensive diversification of the virus population. HIV-1 V1V2-directed neutralizing antibodies can thus develop relatively rapidly through initial selection of B cells with a long CDR H3, and limited subsequent somatic hypermutation, an important vaccine insight. PMID:24590074

Flux and spectral variation characteristics of 3C 454.3 at the GeV band

NASA Astrophysics Data System (ADS)

Zhang, Hai-Ming; Zhang, Jin; Lu, Rui-Jing; Yi, Ting-Feng; Huang, Xiao-Li; Liang, En-Wei

2018-04-01

We analyze the long-term lightcurve of 3C 454.3 observed with Fermi/LAT and investigate its relation to flux in the radio, optical and X-ray bands. By fitting the 1-day binned GeV lightcurve with multiple Gaussian functions (MGF), we propose that the typical variability timescale in the GeV band is 1–10 d. The GeV flux variation is accompanied by the spectral variation characterized as flux-tracking, i.e., “harder when brighter.” The GeV flux is correlated with the optical and X-ray fluxes, and a weak correlation between γ-ray flux and radio flux is also observed. The γ-ray flux is not correlated with the optical linear polarization degree for the global lightcurves, but they show a correlation for the lightcurves before MJD 56000. The power density spectrum of the global lightcurve shows an obvious turnover at ∼ 7.7 d, which may indicate a typical variability timescale of 3C 454.3 in the γ-ray band. This is also consistent with the derived timescales by fitting the global lightcurve with MGF. The spectral evolution and an increase in the optical linear polarization degree along with the increase in γ-ray flux may indicate that the radiation particles are accelerated and the magnetic field is ordered by the shock processes during the outbursts. In addition, the nature of 3C 454.3 may be consistent with a self-organized criticality system, similar to Sagittarius A*, and thus the outbursts could be from plasmoid ejections driven by magnetic reconnection. This may further support the idea that the jet radiation regions are magnetized.

X-Ray Flux and Spectral Variability of Six TeV Blazars with NuSTAR

NASA Astrophysics Data System (ADS)

Pandey, Ashwani; Gupta, Alok C.; Wiita, Paul J.

2018-05-01

We report the first results of timing and spectral studies of Nuclear Spectroscopic Telescope Array observations of six TeV-emitting high-frequency peaked blazars: 1ES 0347-121, 1ES 0414+009, RGB J0710+591, 1ES 1101-232, 1ES 1218+304, and H 2356-309. Two out of these six TeV blazars, 1ES 1101‑232 and 1ES 1218+304, showed strong evidence of intraday variations in the 3–79 keV energy range during those observations. We also found a hint of an intraday variability timescale of 23.5 ks in the light curve of 1ES 1218+304 using an autocorrelation function analysis. We obtained a magnetic field B ∼ 0.03 G, electron Lorentz factor γ ∼ 2.16 × 106, and emission region size R ∼ 1.19 × 1016 cm for 1ES 1218+304 using that variability timescale. The other blazars’ light curves do not show any variability timescales shorter than their observation lengths; however, we note that the data were both noisier and sparser for them. We also investigated the spectral shape of these TeV blazars and found that the spectrum of 1ES 0414+009 is well described by a single power law with a photon index Γ ∼ 2.77. The spectra of the other five HBLs are somewhat better represented by log-parabola models with local photon indices (at 10 keV) α ∼ 2.23 ‑ 2.67 and curvature parameters β ∼ 0.27 ‑ 0.43.

Clonal expansion and somatic hypermutation of V(H) genes of B cells from cerebrospinal fluid in multiple sclerosis.

PubMed Central

Qin, Y; Duquette, P; Zhang, Y; Talbot, P; Poole, R; Antel, J

1998-01-01

The cerebrospinal fluid (CSF) of multiple sclerosis (MS) patients is characterized by increased concentrations of immunoglobulin (Ig), which on electrophoretic analysis shows restricted heterogeneity (oligoclonal bands). CSF Ig is composed of both serum and intrathecally produced components. To examine the properties of intrathecal antibody-producing B cells, we analyzed Ig heavy-chain variable (V(H)) region genes of B cells recovered from the CSF of 12 MS patients and 15 patients with other neurological diseases (OND). Using a PCR technique, we could detect rearrangements of Ig V(H) genes in all samples. Sequence analysis of complementarity-determining region 3 (CDR3) of rearranged VDJ genes revealed expansion of a dominant clone or clones in 10 of the 12 MS patients. B cell clonal expansion was identified in 3 of 15 OND. The nucleotide sequences of V(H) genes from clonally expanded CSF B cells in MS patients demonstrated the preferential usage of the V(H) IV family. There were numerous somatic mutations, mainly in the CDRs, with a high replacement-to-silent ratio; the mutations were distributed in a way suggesting that these B cells had been positively selected through their antigen receptor. Our results demonstrate that in MS CSF, there is a high frequency of clonally expanded B cells that have properties of postgerminal center memory or antibody-forming lymphocytes. PMID:9727074

BONA FIDE, STRONG-VARIABLE GALACTIC LUMINOUS BLUE VARIABLE STARS ARE FAST ROTATORS: DETECTION OF A HIGH ROTATIONAL VELOCITY IN HR CARINAE

DOE Office of Scientific and Technical Information (OSTI.GOV)

Groh, J. H.; Damineli, A.; Moises, A. P.

2009-11-01

We report optical observations of the luminous blue variable (LBV) HR Carinae which show that the star has reached a visual minimum phase in 2009. More importantly, we detected absorptions due to Si IV lambdalambda4088-4116. To match their observed line profiles from 2009 May, a high rotational velocity of v{sub rot} approx = 150 +- 20 km s{sup -1} is needed (assuming an inclination angle of 30 deg.), implying that HR Car rotates at approx =0.88 +- 0.2 of its critical velocity for breakup (v{sub crit}). Our results suggest that fast rotation is typical in all strong-variable, bona fide galacticmore » LBVs, which present S-Dor-type variability. Strong-variable LBVs are located in a well-defined region of the HR diagram during visual minimum (the 'LBV minimum instability strip'). We suggest this region corresponds to where v{sub crit} is reached. To the left of this strip, a forbidden zone with v{sub rot}/v{sub crit}>1 is present, explaining why no LBVs are detected in this zone. Since dormant/ex LBVs like P Cygni and HD 168625 have low v{sub rot}, we propose that LBVs can be separated into two groups: fast-rotating, strong-variable stars showing S-Dor cycles (such as AG Car and HR Car) and slow-rotating stars with much less variability (such as P Cygni and HD 168625). We speculate that supernova (SN) progenitors which had S-Dor cycles before exploding (such as in SN 2001ig, SN 2003bg, and SN 2005gj) could have been fast rotators. We suggest that the potential difficulty of fast-rotating Galactic LBVs to lose angular momentum is additional evidence that such stars could explode during the LBV phase.« less

Crystal structure of the anti-(carcinoembryonic antigen) single-chain Fv antibody MFE-23 and a model for antigen binding based on intermolecular contacts.

PubMed

Boehm, M K; Corper, A L; Wan, T; Sohi, M K; Sutton, B J; Thornton, J D; Keep, P A; Chester, K A; Begent, R H; Perkins, S J

2000-03-01

MFE-23 is the first single-chain Fv antibody molecule to be used in patients and is used to target colorectal cancer through its high affinity for carcinoembryonic antigen (CEA), a cell-surface member of the immunoglobulin superfamily. MFE-23 contains an N-terminal variable heavy-chain domain joined by a (Gly(4)Ser)(3) linker to a variable light-chain (V(L)) domain (kappa chain) with an 11-residue C-terminal Myc-tag. Its crystal structure was determined at 2.4 A resolution by molecular replacement with an R(cryst) of 19.0%. Five of the six antigen-binding loops, L1, L2, L3, H1 and H2, conformed to known canonical structures. The sixth loop, H3, displayed a unique structure, with a beta-hairpin loop and a bifurcated apex characterized by a buried Thr residue. In the crystal lattice, two MFE-23 molecules were associated back-to-back in a manner not seen before. The antigen-binding site displayed a large acidic region located mainly within the H2 loop and a large hydrophobic region within the H3 loop. Even though this structure is unliganded within the crystal, there is an unusually large region of contact between the H1, H2 and H3 loops and the beta-sheet of the V(L) domain of an adjacent molecule (strands DEBA) as a result of intermolecular packing. These interactions exhibited remarkably high surface and electrostatic complementarity. Of seven MFE-23 residues predicted to make contact with antigen, five participated in these lattice contacts, and this model for antigen binding is consistent with previously reported site-specific mutagenesis of MFE-23 and its effect on CEA binding.

Genetic differences between blood- and brain-derived viral sequences from human immunodeficiency virus type 1-infected patients: evidence of conserved elements in the V3 region of the envelope protein of brain-derived sequences.

PubMed Central

Korber, B T; Kunstman, K J; Patterson, B K; Furtado, M; McEvilly, M M; Levy, R; Wolinsky, S M

1994-01-01

Human immunodeficiency virus type 1 (HIV-1) sequences were generated from blood and from brain tissue obtained by stereotactic biopsy from six patients undergoing a diagnostic neurosurgical procedure. Proviral DNA was directly amplified by nested PCR, and 8 to 36 clones from each sample were sequenced. Phylogenetic analysis of intrapatient envelope V3-V5 region HIV-1 DNA sequence sets revealed that brain viral sequences were clustered relative to the blood viral sequences, suggestive of tissue-specific compartmentalization of the virus in four of the six cases. In the other two cases, the blood and brain virus sequences were intermingled in the phylogenetic analyses, suggesting trafficking of virus between the two tissues. Slide-based PCR-driven in situ hybridization of two of the patients' brain biopsy samples confirmed our interpretation of the intrapatient phylogenetic analyses. Interpatient V3 region brain-derived sequence distances were significantly less than blood-derived sequence distances. Relative to the tip of the loop, the set of brain-derived viral sequences had a tendency towards negative or neutral charge compared with the set of blood-derived viral sequences. Entropy calculations were used as a measure of the variability at each position in alignments of blood and brain viral sequences. A relatively conserved set of positions were found, with a significantly lower entropy in the brain-than in the blood-derived viral sequences. These sites constitute a brain "signature pattern," or a noncontiguous set of amino acids in the V3 region conserved in viral sequences derived from brain tissue. This brain-derived signature pattern was also well preserved among isolates previously characterized in vitro as macrophage tropic. Macrophage-monocyte tropism may be the biological constraint that results in the conservation of the viral brain signature pattern. Images PMID:7933130

Murine glomerulotropic monoclonal antibodies are highly oligoclonal and exhibit distinctive molecular features.

PubMed

Lefkowith, J B; Di Valerio, R; Norris, J; Glick, G D; Alexander, A L; Jackson, L; Gilkeson, G S

1996-08-01

We recently produced a panel of seven glomerular-binding mAbs from a nephritic MRL-lpr mouse that bind to histones/nucleosomes (group I) or DNA (group II) adherent to glomerular basement membrane. To elucidate the molecular basis of their binding and ontogeny, we sequenced their variable (V) regions, analyzed the apparent somatic mutations, and predicted their three-dimensional structures. There were two clonally related sets (3 of 4 in group I, 3 of 3 in group II) both of the VHJ1558 family, and one mAb of the VH 7183 family. V region somatic mutations within clonally related sets had little effect on glomerular binding and did not appear to be selected for based on glomerular binding. The VH regions were most homologous with those from autoantibodies to histones, DNA, or IgG (i.e., rheumatoid factors), the Vkappa regions, with those from autoantibodies to small nuclear ribonucleoproteins (snRNP). The VH regions also exhibited an unusual VD junction (in the group I clonally related set) and an overall high content of charged amino acids (arginine, aspartic acid) in complementarity-determining regions (CDRs), particularly in CDR3. Molecular modeling studies suggested that the Fv regions of these mAbs converge to form a flat, open surface with a net positive charge. The CDR arginines in group I mAbs; appear to be located in Ag contact regions of the binding cleft. In sum, these data suggest that glomerulotropic mAbs are a highly restricted set of Abs with distinctive molecular features that may mediate their binding to glomeruli.

A SYSTEMATIC SEARCH FOR COROTATING INTERACTION REGIONS IN APPARENTLY SINGLE GALACTIC WOLF-RAYET STARS. II. A GLOBAL VIEW OF THE WIND VARIABILITY

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chene, A.-N.; St-Louis, N., E-mail: achene@astro-udec.cl, E-mail: stlouis@astro.umontreal.ca

This study is the second part of a survey searching for large-scale spectroscopic variability in apparently single Wolf-Rayet (WR) stars. In a previous paper (Paper I), we described and characterized the spectroscopic variability level of 25 WR stars observable from the northern hemisphere and found 3 new candidates presenting large-scale wind variability, potentially originating from large-scale structures named corotating interaction regions (CIRs). In this second paper, we discuss an additional 39 stars observable from the southern hemisphere. For each star in our sample, we obtained 4-5 high-resolution spectra with a signal-to-noise ratio of {approx}100 and determined its variability level usingmore » the approach described in Paper I. In total, 10 new stars are found to show large-scale spectral variability of which 7 present CIR-type changes (WR 8, WR 44, WR55, WR 58, WR 61, WR 63, WR 100). Of the remaining stars, 20 were found to show small-amplitude changes and 9 were found to show no spectral variability as far as can be concluded from the data on hand. Also, we discuss the spectroscopic variability level of all single galactic WR stars that are brighter than v {approx} 12.5, and some WR stars with 12.5 < v {<=} 13.5, i.e., all the stars presented in our two papers and four more stars for which spectra have already been published in the literature. We find that 23/68 stars (33.8%) present large-scale variability, but only 12/54 stars ({approx}22.1%) are potentially of CIR type. Also, we find that 31/68 stars (45.6%) only show small-scale variability, most likely due to clumping in the wind. Finally, no spectral variability is detected based on the data on hand for 14/68 (20.6%) stars. Interestingly, the variability with the highest amplitude also has the widest mean velocity dispersion.« less

A role for Msh6 but not Msh3 in somatic hypermutation and class switch recombination.

PubMed

Martomo, Stella A; Yang, William W; Gearhart, Patricia J

2004-07-05

Somatic hypermutation is initiated by activation-induced cytidine deaminase (AID), and occurs in several kilobases of DNA around rearranged immunoglobulin variable (V) genes and switch (S) sites before constant genes. AID deaminates cytosine to uracil, which can produce mutations of C:G nucleotide pairs, and the mismatch repair protein Msh2 participates in generating substitutions of downstream A:T pairs. Msh2 is always found as a heterodimer with either Msh3 or Msh6, so it is important to know which one is involved. Therefore, we sequenced V and S regions from Msh3- and Msh6-deficient mice and compared mutations to those from wild-type mice. Msh6-deficient mice had fewer substitutions of A and T bases in both regions and reduced heavy chain class switching, whereas Msh3-deficient mice had normal antibody responses. This establishes a role for the Msh2-Msh6 heterodimer in hypermutation and switch recombination. When the positions of mutation were mapped, several focused peaks were found in Msh6(-/-) clones, whereas mutations were dispersed in Msh3(-/-) and wild-type clones. The peaks occurred at either G or C in WGCW motifs (W = A or T), indicating that C was mutated on both DNA strands. This suggests that AID has limited entry points into V and S regions in vivo, and subsequent mutation requires Msh2-Msh6 and DNA polymerase.

In silico segmentations of lentivirus envelope sequences

PubMed Central

Boissin-Quillon, Aurélia; Piau, Didier; Leroux, Caroline

2007-01-01

Background The gene encoding the envelope of lentiviruses exhibits a considerable plasticity, particularly the region which encodes the surface (SU) glycoprotein. Interestingly, mutations do not appear uniformly along the sequence of SU, but they are clustered in restricted areas, called variable (V) regions, which are interspersed with relatively more stable regions, called constant (C) regions. We look for specific signatures of C/V regions, using hidden Markov models constructed with SU sequences of the equine, human, small ruminant and simian lentiviruses. Results Our models yield clear and accurate delimitations of the C/V regions, when the test set and the training set were made up of sequences of the same lentivirus, but also when they were made up of sequences of different lentiviruses. Interestingly, the models predicted the different regions of lentiviruses such as the bovine and feline lentiviruses, not used in the training set. Models based on composite training sets produce accurate segmentations of sequences of all these lentiviruses. Conclusion Our results suggest that each C/V region has a specific statistical oligonucleotide composition, and that the C (respectively V) regions of one of these lentiviruses are statistically more similar to the C (respectively V) regions of the other lentiviruses, than to the V (respectively C) regions of the same lentivirus. PMID:17376229

VizieR Online Data Catalog: M30 V1-V3 variable light curves (Rosino, 1949)

NASA Astrophysics Data System (ADS)

Rosino, L.

2013-05-01

Time-series photographic photometry for the variable stars V1-V3 in M30. We add the light curve of V1 from Rosini, 1961, Contr. Asiago-Padova, 117, "Osservazioni di due variabili peculiari e d'una variabile tipo RR Lyrae in ammassi stellari" (4 data files).

Gamma-Ray Emission from the Broad-Line Radio Galaxy 3C 111

NASA Technical Reports Server (NTRS)

Hartman, Robert C.; Kadler, M.; Tueller, Jack

2008-01-01

The broad-line radio galaxy 3C 111 has been suggested as the counterpart of the y-ray source 3EG J0416+3650. While 3C 111 meets most of the criteria for a high-probability identification, like a bright flat-spectrum radio core and a blazar-like broadband SED, in the Third EGRET Catalog, the large positional offset of about 1.5' put 3C 111 outside the 99% probability region for 3EG J0416+3650, making this association questionable. We present a re-analysis of all available archival data for 3C 111 from the EGRET archives, resulting in detection of variable hard-spectrum high-energy gamma-ray emission above 1000 MeV from a position close to the nominal position of 3C 111, in three separate viewing periods (VPs), at a 3sigma level in each. A second variable hard-spectrum source is present nearby. At >100 MeV, one variable soft-spectrum source seems to account for most of the EGRET-detected emission of 3EG J0416+3650. A follow-up Swift UVOT/XRT observation reveals one moderately bright X-ray source in the error box of 3EG J0416+3650, but because of the large EGRET position uncertainty, it is not certain that the X-ray and gamma-ray sources are associated. Another Swift observation near the second (unidentified) hard gamma-ray source detected no X-ray source nearby.

An Asia-Pacific, double blind, placebo controlled, randomised study to evaluate the efficacy, safety, and tolerability of tegaserod in patients with irritable bowel syndrome

PubMed Central

Kellow, J; Lee, O Y; Chang, F Y; Thongsawat, S; Mazlam, M Z; Yuen, H; Gwee, K A; Bak, Y T; Jones, J; Wagner, A

2003-01-01

Background: Tegaserod has been shown to be an effective therapy for the multiple symptoms of irritable bowel syndrome (IBS) in Western populations. However, little information is available regarding the use of tegaserod in the Asia-Pacific population. Aims: To evaluate the efficacy, safety, and tolerability of tegaserod versus placebo in patients with IBS from the Asia-Pacific region. Patients: A total of 520 patients from the Asia-Pacific region with IBS, excluding those with diarrhoea predominant IBS. Methods: Patients were randomised to receive either tegaserod 6 mg twice daily (n=259) or placebo (n=261) for a 12 week treatment period. The primary efficacy variable (over weeks 1–4) was the response to the question: “Over the past week do you consider that you have had satisfactory relief from your IBS symptoms?” Secondary efficacy variables assessed overall satisfactory relief over 12 weeks and individual symptoms of IBS. Results: The mean proportion of patients with overall satisfactory relief was greater in the tegaserod group than in the placebo group over weeks 1–4 (56% v 35%, respectively; p<0.0001) and weeks 1–12 (62% v 44%, respectively; p<0.0001). A clinically relevant effect was observed as early as week 1 and was maintained throughout the treatment period. Reductions in the number of days with at least moderate abdominal pain/discomfort, bloating, no bowel movements, and hard/lumpy stools were greater in the tegaserod group compared with the placebo group. Headache was the most commonly reported adverse event (12.0% tegaserod v 11.1% placebo). Diarrhoea led to discontinuation in 2.3% of tegaserod patients. Serious adverse events were infrequent (1.5% tegaserod v 3.4% placebo). Conclusions: Tegaserod 6 mg twice daily is an effective, safe, and well tolerated treatment for patients in the Asia-Pacific region suffering from IBS and whose main bowel symptom is not diarrhoea. PMID:12692051

The complementarity-determining region sequences in IgY antivenom hypervariable regions.

PubMed

da Rocha, David Gitirana; Fernandez, Jorge Hernandez; de Almeida, Claudia Maria Costa; da Silva, Claudia Letícia; Magnoli, Fabio Carlos; da Silva, Osmair Élder; da Silva, Wilmar Dias

2017-08-01

The data presented in this article are related to the research article entitled "Development of IgY antibodies against anti-snake toxins endowed with highly lethal neutralizing activity" (da Rocha et al., 2017) [1]. Complementarity-determining region (CDR) sequences are variable antibody (Ab) sequences that respond with specificity, duration and strength to identify and bind to antigen (Ag) epitopes. B lymphocytes isolated from hens immunized with Bitis arietans (Ba) and anti- Crotalus durissus terrificus (Cdt) venoms and expressing high specificity, affinity and toxicity neutralizing antibody titers were used as DNA sources. The VLF1, CDR1, CDR2, VLR1 and CDR3 sequences were validated by BLASTp, and values corresponding to IgY V L and V H anti-Ba or anti-Cdt venoms were identified, registered [ Gallus gallus IgY Fv Light chain (GU815099)/ Gallus gallus IgY Fv Heavy chain (GU815098)] and used for molecular modeling of IgY scFv anti-Ba. The resulting CDR1, CDR2 and CDR3 sequences were combined to construct the three - dimensional structure of the Ab paratope.

Atomic model for the membrane-embedded VO motor of a eukaryotic V-ATPase.

PubMed

Mazhab-Jafari, Mohammad T; Rohou, Alexis; Schmidt, Carla; Bueler, Stephanie A; Benlekbir, Samir; Robinson, Carol V; Rubinstein, John L

2016-11-03

Vacuolar-type ATPases (V-ATPases) are ATP-powered proton pumps involved in processes such as endocytosis, lysosomal degradation, secondary transport, TOR signalling, and osteoclast and kidney function. ATP hydrolysis in the soluble catalytic V 1 region drives proton translocation through the membrane-embedded V O region via rotation of a rotor subcomplex. Variability in the structure of the intact enzyme has prevented construction of an atomic model for the membrane-embedded motor of any rotary ATPase. We induced dissociation and auto-inhibition of the V 1 and V O regions of the V-ATPase by starving the yeast Saccharomyces cerevisiae, allowing us to obtain a ~3.9-Å resolution electron cryomicroscopy map of the V O complex and build atomic models for the majority of its subunits. The analysis reveals the structures of subunits ac 8 c'c″de and a protein that we identify and propose to be a new subunit (subunit f). A large cavity between subunit a and the c-ring creates a cytoplasmic half-channel for protons. The c-ring has an asymmetric distribution of proton-carrying Glu residues, with the Glu residue of subunit c″ interacting with Arg735 of subunit a. The structure suggests sequential protonation and deprotonation of the c-ring, with ATP-hydrolysis-driven rotation causing protonation of a Glu residue at the cytoplasmic half-channel and subsequent deprotonation of a Glu residue at a luminal half-channel.

Generic and sequence-variant specific molecular assays for the detection of the highly variable Grapevine leafroll-associated virus 3.

PubMed

Chooi, Kar Mun; Cohen, Daniel; Pearson, Michael N

2013-04-01

Grapevine leafroll-associated virus 3 (GLRaV-3) is an economically important virus, which is found in all grapevine growing regions worldwide. Its accurate detection in nursery and field samples is of high importance for certification schemes and disease management programmes. To reduce false negatives that can be caused by sequence variability, a new universal primer pair was designed against a divergent sequence data set, targeting the open reading frame 4 (heat shock protein 70 homologue gene), and optimised for conventional one-step RT-PCR and one-step SYBR Green real-time RT-PCR assays. In addition, primer pairs for the simultaneous detection of specific GLRaV-3 variants from groups 1, 2, 6 (specifically NZ-1) and the outlier NZ2 variant, and the generic detection of variants from groups 1 to 5 were designed and optimised as a conventional one-step multiplex RT-PCR assay using the plant nad5 gene as an internal control (i.e. one-step hexaplex RT-PCR). Results showed that the generic and variant specific assays detected in vitro RNA transcripts from a range of 1×10(1)-1×10(8) copies of amplicon per μl diluted in healthy total RNA from Vitis vinifera cv. Cabernet Sauvignon. Furthermore, the assays were employed effectively to screen 157 germplasm and 159 commercial field samples. Thus results demonstrate that the GLRaV-3 generic and variant-specific assays are prospective tools that will be beneficial for certification schemes and disease management programmes, as well as biological and epidemiological studies of the divergent GLRaV-3 populations. Copyright © 2013 Elsevier B.V. All rights reserved.

Gamma-Ray Spectra and Variability of Cygnus Z-1 Observed by BATSE

NASA Technical Reports Server (NTRS)

Ling, J. C.; Wheaton, William A.; Wallyn, P.; Mahoney, W. .; Paciesas, W. S.; Harmon, B. A.; Fishman, G. J.; Zhang, S. N.; Hua, X. M.

1998-01-01

We present new BATSE earth occultation observations of the 25 keV-1.8 MeV spectrum and variability of Cygnus X-1 made between August 1993 and May 1994. We observed that the normal soft gamma ray spectrum (gamma2) of Cygnus X-1 has two components: a Comptonized part seen below 300 keV, and a high-energy tail in the 0.3 - 2 MeV range. We interpret it in terms of a two-layer region, consisting of a high-energy core (with an equivalent electron temperature of approximately 210-250 keV) near the event horizon, embedded in an about 50 keV corona. In this scenario, the observed 25-300 keV photons were produced by Compton scattering of soft photons (about 0.5 keV) by the hot electrons in the outer corona. These same hard x rays were further up-scattered by a population of energetic electrons in the inner core, producing the spectral tail above 300 keV. Cygnus X-1 went through an extended sequence of transitions between August 1993 and May 1994, when the 45-140 keV flux first decreased steadily from approximately gamma2 to roughly one-quarter of its intensity over a period of about 140 days. The flux remained at this low level for about 40 days before returning, swiftly (approximately 20 days) to approximately the initial gamma2 level. During the transition, the spectrum evolved to a shape consistent with either a power law with photon index of about 2.6 or a single temperature Compton model with electron temperature kT = 110 +/- 11 keV, and optical depth t = 0.40 +/- 0.06, and then returned essentially to the original gamma2 spectrum at the end of the active period. The overall cooling of the system during the low flux period may be due to an increase in the soft photon population which effectively quenched the hot electrons in these regions through Compton scattering.

Spatially varying accuracy and reproducibility of prostate segmentation in magnetic resonance images using manual and semiautomated methods.

PubMed

Shahedi, Maysam; Cool, Derek W; Romagnoli, Cesare; Bauman, Glenn S; Bastian-Jordan, Matthew; Gibson, Eli; Rodrigues, George; Ahmad, Belal; Lock, Michael; Fenster, Aaron; Ward, Aaron D

2014-11-01

Three-dimensional (3D) prostate image segmentation is useful for cancer diagnosis and therapy guidance, but can be time-consuming to perform manually and involves varying levels of difficulty and interoperator variability within the prostatic base, midgland (MG), and apex. In this study, the authors measured accuracy and interobserver variability in the segmentation of the prostate on T2-weighted endorectal magnetic resonance (MR) imaging within the whole gland (WG), and separately within the apex, midgland, and base regions. The authors collected MR images from 42 prostate cancer patients. Prostate border delineation was performed manually by one observer on all images and by two other observers on a subset of ten images. The authors used complementary boundary-, region-, and volume-based metrics [mean absolute distance (MAD), Dice similarity coefficient (DSC), recall rate, precision rate, and volume difference (ΔV)] to elucidate the different types of segmentation errors that they observed. Evaluation for expert manual and semiautomatic segmentation approaches was carried out. Compared to manual segmentation, the authors' semiautomatic approach reduces the necessary user interaction by only requiring an indication of the anteroposterior orientation of the prostate and the selection of prostate center points on the apex, base, and midgland slices. Based on these inputs, the algorithm identifies candidate prostate boundary points using learned boundary appearance characteristics and performs regularization based on learned prostate shape information. The semiautomated algorithm required an average of 30 s of user interaction time (measured for nine operators) for each 3D prostate segmentation. The authors compared the segmentations from this method to manual segmentations in a single-operator (mean whole gland MAD = 2.0 mm, DSC = 82%, recall = 77%, precision = 88%, and ΔV = - 4.6 cm(3)) and multioperator study (mean whole gland MAD = 2.2 mm, DSC = 77%, recall = 72%, precision = 86%, and ΔV = - 4.0 cm(3)). These results compared favorably with observed differences between manual segmentations and a simultaneous truth and performance level estimation reference for this data set (whole gland differences as high as MAD = 3.1 mm, DSC = 78%, recall = 66%, precision = 77%, and ΔV = 15.5 cm(3)). The authors found that overall, midgland segmentation was more accurate and repeatable than the segmentation of the apex and base, with the base posing the greatest challenge. The main conclusions of this study were that (1) the semiautomated approach reduced interobserver segmentation variability; (2) the segmentation accuracy of the semiautomated approach, as well as the accuracies of recently published methods from other groups, were within the range of observed expert variability in manual prostate segmentation; and (3) further efforts in the development of computer-assisted segmentation would be most productive if focused on improvement of segmentation accuracy and reduction of variability within the prostatic apex and base.

Integrity of immunoglobulin variable regions is supported by GANP during AID-induced somatic hypermutation in germinal center B cells.

PubMed

Eid, Mohammed Mansour Abbas; Shimoda, Mayuko; Singh, Shailendra Kumar; Almofty, Sarah Ameen; Pham, Phuong; Goodman, Myron F; Maeda, Kazuhiko; Sakaguchi, Nobuo

2017-05-01

Immunoglobulin affinity maturation depends on somatic hypermutation (SHM) in immunoglobulin variable (IgV) regions initiated by activation-induced cytidine deaminase (AID). AID induces transition mutations by C→U deamination on both strands, causing C:G→T:A. Error-prone repairs of U by base excision and mismatch repairs (MMRs) create transversion mutations at C/G and mutations at A/T sites. In Neuberger's model, it remained to be clarified how transition/transversion repair is regulated. We investigate the role of AID-interacting GANP (germinal center-associated nuclear protein) in the IgV SHM profile. GANP enhances transition mutation of the non-transcribed strand G and reduces mutation at A, restricted to GYW of the AID hotspot motif. It reduces DNA polymerase η hotspot mutations associated with MMRs followed by uracil-DNA glycosylase. Mutation comparison between IgV complementary and framework regions (FWRs) by Bayesian statistical estimation demonstrates that GANP supports the preservation of IgV FWR genomic sequences. GANP works to maintain antibody structure by reducing drastic changes in the IgV FWR in affinity maturation. © The Author 2017. Published by Oxford University Press on behalf of The Japanese Society for Immunology.

Discovery of VHE emission towards the Carina arm region with the H.E.S.S. telescope array: HESS J1018-589

NASA Astrophysics Data System (ADS)

H. E. S. S. Collaboration; Abramowski, A.; Acero, F.; Aharonian, F.; Akhperjanian, A. G.; Anton, G.; Balzer, A.; Barnacka, A.; Becherini, Y.; Becker, J.; Bernlöh, K.; Birsin, E.; Biteau, J.; Bochow, A.; Boisson, C.; Bolmont, J.; Bordas, P.; Brucker, J.; Brun, F.; Brun, P.; Bulik, T.; Büsching, I.; Carrigan, S.; Casanova, S.; Cerruti, M.; Chadwick, P. M.; Charbonnier, A.; Chaves, R. C. G.; Cheesebrough, A.; Cologna, G.; Conrad, J.; Dalton, M.; Daniel, M. K.; Davids, I. D.; Degrange, B.; Deil, C.; Dickinson, H. J.; Djannati-Ataï, A.; Domainko, W.; Drury, L. O'C.; Dubus, G.; Dutson, K.; Dyks, J.; Dyrda, M.; Egberts, K.; Eger, P.; Espigat, P.; Fallon, L.; Fegan, S.; Feinstein, F.; Fernandes, M. V.; Fiasson, A.; Fontaine, G.; Förster, A.; Füßling, M.; Gallant, Y. A.; Gast, H.; Gérard, L.; Gerbig, D.; Giebels, B.; Glicenstein, J. F.; Glück, B.; Göring, D.; Häffner, S.; Hague, J. D.; Hahn, J.; Hampf, D.; Harris, J.; Hauser, M.; Heinz, S.; Heinzelmann, G.; Henri, G.; Hermann, G.; Hillert, A.; Hinton, J. A.; Hofmann, W.; Hofverberg, P.; Holler, M.; Horns, D.; Jacholkowska, A.; de Jager, O. C.; Jahn, C.; Jamrozy, M.; Jung, I.; Kastendieck, M. A.; Katarzyński, K.; Katz, U.; Kaufmann, S.; Keogh, D.; Khélifi, B.; Klochkov, D.; Klużniak, D.; Kneiske, T.; Komin, Nu.; Kosack, K.; Kossakowski, R.; Krayzel, F.; Laffon, H.; Lamanna, G.; Lenain, J.-P.; Lennarz, D.; Lohse, T.; Lopatin, A.; Lu, C.-C.; Marandon, V.; Marcowith, A.; Masbou, J.; Maxted, N.; Mayer, M.; McComb, T. J. L.; Medina, M. C.; Méhault, J.; Moderski, R.; Mohamed, M.; Moulin, E.; Naumann, C. L.; Naumann-Godo, M.; de Naurois, M.; Nedbal, D.; Nekrassov, D.; Nguyen, N.; Nicholas, B.; Niemiec, J.; Nolan, S. J.; Ohm, S.; de Oña Wilhelmi, E.; Opitz, B.; Ostrowski, M.; Oya, I.; Panter, M.; Paz Arribas, M.; Pekeur, N. W.; Pelletier, G.; Perez, J.; Petrucci, P.-O.; Peyaud, B.; Pita, S.; Pühlhofer, G.; Punch, M.; Quirrenbach, A.; Raue, M.; Rayner, S. M.; Reimer, A.; Reimer, O.; Renaud, M.; de los Reyes, R.; Rieger, F.; Ripken, J.; Rob, L.; Rosier-Lees, S.; Rowell, G.; Rudak, B.; Rulten, C. B.; Sahakian, V.; Sanchez, D. A.; Santangelo, A.; Schlickeiser, R.; Schulz, A.; Schwanke, U.; Schwarzburg, S.; Schwemmer, S.; Sheidaei, F.; Skilton, J. L.; Sol, H.; Spengler, G.; Stawarz, Ł.; Steenkamp, R.; Stegmann, C.; Stinzing, F.; Stycz, K.; Sushch, I.; Szostek, A.; Tavernet, J.-P.; Terrier, R.; Tluczykont, M.; Valerius, K.; van Eldik, C.; Vasileiadis, G.; Venter, C.; Viana, A.; Vincent, P.; Völk, H. J.; Volpe, F.; Vorobiov, S.; Vorster, M.; Wagner, S. J.; Ward, M.; White, R.; Wierzcholska, A.; Zacharias, M.; Zajczyk, A.; Zdziarski, A. A.; Zech, A.; Zechlin, H.-S.

2012-05-01

The Carina arm region, containing the supernova remnant SNR G284.3-1.8, the high-energy (HE; E > 100 MeV) binary 1FGL J1018.6-5856 and the energetic pulsar PSR J1016-5857 and its nebula, has been observed with the H.E.S.S. telescope array. The observational coverage of the region in very-high-energy (VHE; E > 0.1 TeV) γ-rays benefits from deep exposure (40 h) of the neighboring open cluster Westerlund 2. The observations have revealed a new extended region of VHE γ-ray emission. The new VHE source HESS J1018-589 shows a bright, point-like emission region positionally coincident with SNR G284.3-1.8 and 1FGL J1018.6-5856 and a diffuse extension towards the direction of PSR J1016-5857. A soft (Γ = 2.7 ± 0.5stat)photon index, with a differential flux at 1 TeV of N0 = (4.2 ± 1.1) × 10-13 TeV-1 cm-2 s-1 is found for the point-like source, whereas the total emission region including the diffuse emission region is well fit by a power-law function with spectral index Γ = 2.9 ± 0.4stat and differential flux at 1 TeV of N0 = (6.8 ± 1.6) × 10-13 TeV-1 cm-2 s-1. This H.E.S.S. detection motivated follow-up X-ray observations with the XMM-Newton satellite to investigate the origin of the VHE emission. The analysis of the XMM-Newton data resulted in the discovery of a bright, non-thermal point-like source (XMMU J101855.4-58564) with a photon index of Γ = 1.65 ± 0.08 in the center of SNR G284.3-1.8, and a thermal, extended emission region coincident with its bright northern filament. The characteristics of this thermal emission are used to estimate the plasma density in the region as n ≈ 0.5 cm-3 (2.9 kpc/d)2. The position of XMMU J101855.4-58564 is compatible with the position reported by the Fermi-LAT collaboration for the binary system 1FGL J1018.6-5856 and the variable Swift XRT source identified with it. The new X-ray data are used alongside archival multi-wavelength data to investigate the relationship between the VHE γ-ray emission from HESS J1018-589 and the various potential counterparts in the Carina arm region.

Bacterially produced human B7-1 protein encompassing its complete extracellular domain maintains its costimulatory activity in vitro.

PubMed

Shen, W; Wang, Y; Geng, Y; Si, L

2000-08-01

To investigate which of the two immunoglobulin (Ig)-like domains, immunoglobulin variable region homologous domain IgV (hB7-1 IgV), or immunoglobulin constant region homologous domain IgC (hB7-1 IgC) on human B7-1 molecule contain the receptor binding sites, and to evaluate if the B7-1 molecule expressed in bacteria has biological activity. PCR was used to amplify three fragments of hB7-1 IgV, hB7-1 IgC and complete extracellular region of human B7-1 containing both the IgV and IgC domains (hB7-1 IgV + IgC). Three recombinants, pQE9-hB7-1 IgV, pQE9-hB7-1 IgC and pQE9-Hb7-1 (IgV + IgC) were generated by cloning the PCR products into a prokaryote expression plasmid (pQE-9) and were introduced into the host stain M15. The relevant target hexahistidine-tagged proteins were identified by SDS-PAGE and Western blotting. With the presence of the first signal imitated by anti-CD3 antibody, T cell activation was observed by exposing purified T lymphocytes to each soluble form of the three bacterially-produced human B7-1 proteins and [3H]-TdR incorporation. Three recombinant proteins of human B7-1, hB7-1 IgV, hB7-1 IgC and hB7-1 (IgV + IgC) were produced and detected in both soluble and inclusive body forms from engineered bacterial cells. With the presence of anti-CD3 antibody, T lymphocytes proliferated when co-stimulated by bacterially produced hB7-1 (IgV + IgC), but not by either hB7-1 IgV or hB7-1 IgC. Functional glycoprotein human B7-1 could be produced in bacterial cells. Both extracellular immunoglobulin-like domains are necessary for B7-1 to react with its counter receptors.

Comparison of Species Richness Estimates Obtained Using Nearly Complete Fragments and Simulated Pyrosequencing-Generated Fragments in 16S rRNA Gene-Based Environmental Surveys▿ †

PubMed Central

Youssef, Noha; Sheik, Cody S.; Krumholz, Lee R.; Najar, Fares Z.; Roe, Bruce A.; Elshahed, Mostafa S.

2009-01-01

Pyrosequencing-based 16S rRNA gene surveys are increasingly utilized to study highly diverse bacterial communities, with special emphasis on utilizing the large number of sequences obtained (tens to hundreds of thousands) for species richness estimation. However, it is not yet clear how the number of operational taxonomic units (OTUs) and, hence, species richness estimates determined using shorter fragments at different taxonomic cutoffs correlates with the number of OTUs assigned using longer, nearly complete 16S rRNA gene fragments. We constructed a 16S rRNA clone library from an undisturbed tallgrass prairie soil (1,132 clones) and used it to compare species richness estimates obtained using eight pyrosequencing candidate fragments (99 to 361 bp in length) and the nearly full-length fragment. Fragments encompassing the V1 and V2 (V1+V2) region and the V6 region (generated using primer pairs 8F-338R and 967F-1046R) overestimated species richness; fragments encompassing the V3, V7, and V7+V8 hypervariable regions (generated using primer pairs 338F-530R, 1046F-1220R, and 1046F-1392R) underestimated species richness; and fragments encompassing the V4, V5+V6, and V6+V7 regions (generated using primer pairs 530F-805R, 805F-1046R, and 967F-1220R) provided estimates comparable to those obtained with the nearly full-length fragment. These patterns were observed regardless of the alignment method utilized or the parameter used to gauge comparative levels of species richness (number of OTUs observed, slope of scatter plots of pairwise distance values for short and nearly complete fragments, and nonparametric and parametric species richness estimates). Similar results were obtained when analyzing three other datasets derived from soil, adult Zebrafish gut, and basaltic formations in the East Pacific Rise. Regression analysis indicated that these observed discrepancies in species richness estimates within various regions could readily be explained by the proportions of hypervariable, variable, and conserved base pairs within an examined fragment. PMID:19561178

The Atmospheric Chemistry Experiment (ACE): Status and Latest Results

NASA Astrophysics Data System (ADS)

Bernath, P. F.; Boone, C. D.; McElroy, C. T.

2017-12-01

ACE (also known as SCISAT) is making a comprehensive set of simultaneous measurements of numerous trace gases, thin clouds, aerosols and temperature by solar occultation from a satellite in low earth orbit. A high inclination (74°) orbit gives ACE coverage of tropical, mid-latitudes and polar regions. The primary instrument is a high-resolution (0.02 cm-1) infrared Fourier Transform Spectrometer (FTS) operating in the 750-4400 cm-1 region, which provides the vertical distribution of trace gases, and the meteorological variables of temperature and pressure. A second instrument, a dual spectrophotometer called MAESTRO, extends the wavelength coverage to the 400-1000 nm spectral region. Aerosols and clouds are being monitored through the extinction of solar radiation using two filtered imagers and by MAESTRO as well as by their infrared spectra. After 14 years in orbit, the ACE is still operating well. A short overview of the ACE mission will be presented (see http://www.ace.uwaterloo.ca for more information). The current version (v. 3.5/3.6) of ACE-FTS processing includes more than 30 molecules and twenty isotopologues; v.3.5/3.6 is now available in near-real time. This talk will focus on recent ACE results and the new version 4.0 of ACE-FTS processing.

Assessment of TRMM Products and Their Influence on Hydrologic Models within the Middle East and North Africa (MENA) Region Using the Soil and Water Assessment Tool (SWAT)

NASA Astrophysics Data System (ADS)

Milewski, A.; El Kadiri, R.; Durham, M. C.

2013-12-01

Satellite remote sensing datasets have been increasingly employed as an ancillary source of essential hydrologic measurements used for the modeling of hydrologic fluxes. Precipitation is one of the most important meteorological forcing parameter in hydrological investigations and land surface modeling, yet it is largely unknown or misused in water budgets and hydrologic models. The Tropical Rainfall Measurement Mission (TRMM) satellite products are widely being used by the scientific community due to the general spatial and temporal paucity of precipitation data in many parts of world and particularly in the Middle East and North Africa (MENA) region. This research utilized a two-fold approach towards understanding the accuracy of satellite-based rainfall and its application in hydrologic models First, we evaluated the uncertainty, accuracy, and precision of various rainfall satellite products (i.e. TRMM 3B42 V6, TRMM 3B42 V7, TRMM 3B42 V7a and TRMM 3B42 RT) in comparison to in situ gauge data from more than 150 rain gauges in Morocco and across the MENA region. Our analyses extend over many parts of the MENA region in order to assess the effect that different climatic regimes and topographic characteristics have on each TRMM product. Secondly, we analyzed and compared the hydrologic fluxes produced from different modeling inputs for several watersheds within the MENA region. SWAT (Soil and Water Assessment Tool) hydrologic models have been developed for the Oum Er Rbia (Morocco), Asyuti (Egypt), and the Sakarya (Turkey) watersheds. SWAT models produced for each watershed include, one model for each of the four satellite TRMM product (STBM-V6, STBM-V7, STBM-V7a, and STBM-RT) and one model for rain gauge based model (RGBM). Findings indicate the best correlation between field-based and satellite-based rainfall measurements is the TRMM V7a (Pearson coefficient: 0.875) product, followed by TRMM V7 (Pearson coefficient: 0.84), then TRMM V6 (Pearson coefficient: 0.805), and finally TRMM RT (Pearson coefficient: 0.715). However, analyses demonstrate that V7a still has an overestimation bias in arid environments (trend line slope: 1.133), and an underestimation bias in both semi-arid environments (trend line slope: 0.5982) and sub humid environments (trend line slope: 0.6800). Results suggest that all versions are consistently better correlated with field gauges in the sub humid environments (V6 Pc: 0.755, V7 Pc: 0.790, V7a Pc: 0.816 and RT Pc: 0728) than the semi-arid environments (V6 Pc: 0.494, V7 Pc: 0.549, V7a Pc: 0.548 and RT Pc: 0.305) and the arid environments (V6 Pc: 0.546, V7 Pc: 0.681, V7a Pc: 0.697 and RT Pc: 0.562). Initial model values for the Oum Er Rbia watershed (area: 48,000 km2, annual precipitation 550 mm/yr.) indicate the satellite TRMM-based models (STBM) underestimated hydrologic variables (precipitation: 19%; runoff: 25%; and recharge 35%) compared to the rain gauge-based model (RGBM). This study demonstrates the accuracy of TRMM precipitation products and shows the opportunities and challenges of their use in data scarce regions of the world.

Positive and negative regulation of V(D)J recombination by the E2A proteins.

PubMed

Bain, G; Romanow, W J; Albers, K; Havran, W L; Murre, C

1999-01-18

A key feature of B and T lymphocyte development is the generation of antigen receptors through the rearrangement and assembly of the germline variable (V), diversity (D), and joining (J) gene segments. However, the mechanisms responsible for regulating developmentally ordered gene rearrangements are largely unknown. Here we show that the E2A gene products are essential for the proper coordinated temporal regulation of V(D)J rearrangements within the T cell receptor (TCR) gamma and delta loci. Specifically, we show that E2A is required during adult thymocyte development to inhibit rearrangements to the gamma and delta V regions that normally recombine almost exclusively during fetal thymocyte development. The continued rearrangement of the fetal Vgamma3 gene segment in E2A-deficient adult thymocytes correlates with increased levels of Vgamma3 germline transcripts and increased levels of double-stranded DNA breaks at the recombination signal sequence bordering Vgamma3. Additionally, rearrangements to a number of Vgamma and Vdelta gene segments used predominantly during adult development are significantly reduced in E2A-deficient thymocytes. Interestingly, at distinct stages of T lineage development, both the increased and decreased rearrangement of particular Vdelta gene segments is highly sensitive to the dosage of the E2A gene products, suggesting that the concentration of the E2A proteins is rate limiting for the recombination reaction involving these Vdelta regions.

Reconstructing the leading mode of multi-decadal North Atlantic variability over the last two millenia using functional paleoclimate networks

NASA Astrophysics Data System (ADS)

Franke, Jasper G.; Werner, Johannes; Donner, Reik V.

2017-04-01

The increasing availability of high-resolution North Atlantic paleoclimate proxies allows to not only study local climate variations in time, but also temporal changes in spatial variability patterns across the entire region possibly controlled by large-scale coherent variability modes such as the North Atlantic Oscillation (NAO) and Atlantic Multidecadal Oscillation. In this study, we use functional paleoclimate network analysis [1,2] to investigate changes in the statistical similarity patterns among an ensemble of high-resolution terrestrial paleoclimate records from Northern Europe included in the Arctic 2k data base. Specifically, we construct complex networks capturing the mutual statistical similarity of inter-annual temperature variability recorded in tree ring records, ice cores and lake sediments for multidecadal time windows covering the last two millenia. The observed patterns of co-variability are ultimately connected to the North Atlantic atmospheric circulation and most prominently to multidecadal variations of the NAO. Based on the inferred networks, we study the dynamical similarity between regional clusters of archives defined according to present-day inter-annual temperature variations across the study region. This analysis identifies those time-dependent inter-regional linkages that are most informative about the leading-order North Atlantic climate variability according to a recent NAO reconstruction for the last millenium [3]. Based on these linkages, we extend the existing reconstruction to obtain qualitative information on multidecadal to centennial scale North Atlantic climate variability over the last two millenia. In general, we find a tendency towards a dominating positive NAO phase interrupted by pronounced and extended intervals of negative NAO. Relatively rapid transitions between both types of behaviour are present during distinct periods including the Little Ice Age, the Medieval Climate Anomaly and for the Dark Ages Little Ice Age. [1] K. Rehfeld, N. Marwan, S.F.M. Breitenbach, J. Kurths: Late Holocene Asian summer monsoon dynamics from small but complex networks of paleoclimate data. Climate Dynamics 41, 3-19, 2013 [2] J.L. Oster, N.P. Kelley: Tracking regional and global teleconnections recorded by western North American speleothem records. Quaternary Science Reviews 149, 18-33, 2016 [3] P. Ortega, F. Lehner, D. Swingedouw, V. Masson-Delmotte, C.C. Raible, M. Casado, P. Yiou: A model-tested North Atlantic Oscillation reconstruction for the past millenium. Nature 523, 71-74, 2015

A new 4-variable formula to differentiate normal variant ST segment elevation in V2-V4 (early repolarization) from subtle left anterior descending coronary occlusion - Adding QRS amplitude of V2 improves the model.

PubMed

Driver, Brian E; Khalil, Ayesha; Henry, Timothy; Kazmi, Faraz; Adil, Amina; Smith, Stephen W

Precordial normal variant ST elevation (NV-STE), previously often called "early repolarization," may be difficult to differentiate from subtle ischemic STE due to left anterior descending (LAD) occlusion. We previously derived and validated a logistic regression formula that was far superior to STE alone for differentiating the two entities on the ECG. The tool uses R-wave amplitude in lead V4 (RAV4), ST elevation at 60 ms after the J-point in lead V3 (STE60V3) and the computerized Bazett-corrected QT interval (QTc-B). The 3-variable formula is: 1.196 x STE60V3 + 0.059 × QTc-B - 0.326 × RAV4 with a value ≥23.4 likely to be acute myocardial infarction (AMI). Adding QRS voltage in V2 (QRSV2) would improve the accuracy of the formula. 355 consecutive cases of proven LAD occlusion were reviewed, and those that were obvious ST elevation myocardial infarction were excluded. Exclusion was based on one straight or convex ST segment in V2-V6, 1 millimeter of summed inferior ST depression, any anterior ST depression, Q-waves, "terminal QRS distortion," or any ST elevation >5 mm. The NV-STE group comprised emergency department patients with chest pain who ruled out for AMI by serial troponins, had a cardiologist ECG read of "NV-STE," and had at least 1 mm of STE in V2 and V3. R-wave amplitude in lead V4 (RAV4), ST elevation at 60 ms after the J-point in lead V3 (STE60V3) and the computerized Bazett-corrected QT interval (QTc-B) had previously been measured in all ECGs; physicians blinded to outcome then measured QRSV2 in all ECGs. A 4-variable formula was derived to more accurately classify LAD occlusion vs. NV-STE and optimize area under the curve (AUC) and compared with the previous 3-variable formula. There were 143 subtle LAD occlusions and 171 NV-STE. A low QRSV2 added diagnostic utility. The derived 4-variable formula is: 0.052*QTc-B - 0.151*QRSV2 - 0.268*RV4 + 1.062*STE60V3. The 3-variable formula had an AUC of 0.9538 vs. 0.9686 for the 4-variable formula (p = 0.0092). At the same specificity as the 3-variable formula [90.6%, at which cutpoint (≥23.4), 123 of 143 MI were correctly classified for 86% sensitivity], the sensitivity of the new formula at cutpoint ≥17.75 is 90.2%, with 129/143 correctly classified MI, identifying an additional 6 cases. The cutpoint with the highest accuracy (92.0%) was at a cutoff value ≥18.2, with 88.8% sensitivity, 94.7% specificity, and a positive and negative likelihood ratio of 16.9 (95% CI: 8.9-32) and 0.12 (95% CI: 0.07-0.19). At this cutpoint, it correctly classified an additional 11 cases (289 of 315, vs. 278 of 315): 127/143 for MI (an additional 4 cases) and 162/171 for NV-STE (an additional 7 cases). On the ECG, a 4-variable formula was derived which adds QRSV2; it differentiates subtle LAD occlusion from NV-STE better than the 3-variable formula. At a value ≥18.2, the formula (0.052*QTc-B - 0.151*QRSV2 - 0.268*RV4 + 1.062*STE60V3) was very accurate, sensitive, and specific, with excellent positive and negative likelihood ratios. This formula needs to be validated. Copyright © 2017 Elsevier Inc. All rights reserved.

Upper-Ocean Variability in the Arctic’s Amundsen and Nansen Basins

DTIC Science & Technology

2017-05-01

collect vertical profiles of ocean temperature, salinity and horizontal velocity at few- hour interval as well as sample for specified time periods...deployed for the MIZ program - specifically, vertical temperature, salinity and velocity profiles were collected every 3 hours in the upper 250m of the...the system), this ITP-V returned 5+ months of upper ocean temperature, salinity , velocity and turbulence data from the Makarov Basin, a region of

Search for new phenomena in events with three or more charged leptons in pp collisions at $$ \\sqrt{s}=8 $$ TeV with the ATLAS detector

DOE PAGES

Aad, G.; Abbott, B.; Abdallah, J.; ...

2015-08-01

A generic search for anomalous production of events with at least three charged leptons is presented. The data sample consists of pp collisions at √s=8 TeV collected in 2012 by the ATLAS experiment at the CERN Large Hadron Collider, and corresponds to an integrated luminosity of 20.3 fb -1 . Events are required to have at least three selected lepton candidates, at least two of which must be electrons or muons, while the third may be a hadronically decaying tau. Selected events are categorized based on their lepton flavour content and signal regions are constructed using several kinematic variables ofmore » interest. No significant deviations from Standard Model predictions are observed. Model-independent upper limits on contributions from beyond the Standard Model phenomena are provided for each signal region, along with prescription to re-interpret the limits for any model. Constraints are also placed on models predicting doubly charged Higgs bosons and excited leptons. For doubly charged Higgs bosons decaying to eτ or μτ, lower limits on the mass are set at 400 GeV at 95% confidence level. For excited leptons, constraints are provided as functions of both the mass of the excited state and the compositeness scale Λ, with the strongest mass constraints arising in regions where the mass equals Λ. In such scenarios, lower mass limits are set at 3.0 TeV for excited electrons and muons, 2.5 TeV for excited taus, and 1.6 TeV for every excited-neutrino flavour.« less

Abundance Variations and Flows in Plage Regions Observed with CDS/SOHO

NASA Astrophysics Data System (ADS)

Rank, G.; Bagalá, L. G.; Czaykowska, A.; Haerendel, G.

1999-10-01

We present results from CDS/SOHO observations of the spotless active region NOAA-8208, obtained on 28th April 1998 near disk center. MDI images show a bipolar magnetic configuration. The regions of enhanced He I emission correspond to the areas with strong magnetic flux and also with bright plage areas seen in Ca II and H-alpha images. A high correlation is found between intensity maps of the transition region lines He I (logTmax = 4.3), O III (logTmax = 5.0), and O V (logTmax = 5.4). The line-of-sight velocities of He I reveal a strong downflow in the plage areas. Further, the line-of-sight velocities of He I, O III, and O V are well correlated, showing that the downflow pattern exists up to temperatures of about 0.25 MK. At higher temperatures (Mg VIII at logTmax = 5.8) this flow is not detected, suggesting that material streams into the plage region from sideways in the high transition region. Maps of the electron density in the transition region have been constructed from several line ratios yielding densities of about 9.0 cm-3 in the plage regions, about dex 0.5 cm-3 higher compared to the surrounding. To study the spatial variation of the first ionization potential (FIP) effect, the abundance ratio has been mapped for the ion ratio MgVI/NeVI. The ratio is highly variable on spatial scales down to a few arcsec from photospheric values to enhancements of a factor of 10. The strongest FIP enhancements are not correlated with transition region line emission, but are found outside of the plage regions. Some areas of strong FIP enhancement appear stretched and elongated, suggesting that the material is confined in loop-like structures.

Suzaku Observations of the Broad-Line Radio Galaxy 3C390.3

NASA Technical Reports Server (NTRS)

Sambruna, rita

2007-01-01

We present the results of a 100ks Suzaku observation of the BLRG 3C390.3. The observations were performed to attempt to disentangle the contributions to the X-ray emission of this galaxy from an AGN and a jet component, via variability and/or the spectrum. The source was detected at high energies up to 80 keV, with a complex 0.3--80keV spectrum. Preliminary analysis of the data shows significant flux variability, with the largest amplitudes at higher energies. Deconvolution of the spectrum shows that, besides a standard Seyfert-like spectrum dominating the 0.3--8keV emission, an additional, hard power law component is required, dominating the emission above 10 keV. We attribute this component to a variable jet.

On the cause of variability of the cosmic ray spectrum in the knee region

NASA Astrophysics Data System (ADS)

Loznikov, V. M.; Erokhin, N. S.; Zol'nikova, N. N.; Mikhailovskaya, L. A.

2017-09-01

Cosmic ray (CR) energy spectra for H, He, Si, and Fe nuclei with energy-to-charge number ratios ℰ/ Z in the range from 10 to 5 × 107 GeV are studied using observational data obtained at different times in different energy ranges: AMS-02, CREAM, Tibet ASγ, Tibet (hybrid), GRAPES-3, KASCADE, and KASCADE-Grande. Comparison of the H and He CR fluxes according to the KASCADE and KASCADE-Grande data (for different models of deconvolving CR spectra) with the Tibet ASγ and Tibet (hybrid) data obtained at another time in the range of ℰ/ Z ˜ 3 × 106 GeV demonstrates space weather-caused variability of the CR flux. This feature of CR energy spectra in the Tibet ASγ data is most clearly observed in the spectra of heavier nuclei (Si and Fe) according to the KASCADE-Grande and GRAPES-3 data. The variability in the energy spectra of all CRs in the vicinity of the "knee" is shown in the data of Yakutsk EAS, CASA-BLANCA, and Tibet-III experiments. The variability of the CR flux on a time scale on the order of several years exists only if the source corresponding to the peak in the energy spectrum is situated at a distance of no more than 1 pc from the Sun. Rapid surfatron acceleration of CRs may result from colliding interstellar clouds nearest to the Sun (LIC and G). This acceleration mechanism allows one to explain the variability of the CR spectrum in the range 103 GeV < ℰ/ Z < 108 GeV. Conditions for the trapping of strongly relativistic Fe nuclei by an electromagnetic wave, the dynamics of the components of the particle velocity and momentum, and the dependence of the particle acceleration rate on the initial parameters of the problem are analyzed using numerical calculations. The structure of the phase plane of the accelerated Fe nuclei is examined. Optimal conditions for the implementation of ultrarelativistic surfatron acceleration of Fe nuclei by an electromagnetic wave are formulated.

SU-F-BRD-09: A Random Walk Model Algorithm for Proton Dose Calculation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Yao, W; Farr, J

2015-06-15

Purpose: To develop a random walk model algorithm for calculating proton dose with balanced computation burden and accuracy. Methods: Random walk (RW) model is sometimes referred to as a density Monte Carlo (MC) simulation. In MC proton dose calculation, the use of Gaussian angular distribution of protons due to multiple Coulomb scatter (MCS) is convenient, but in RW the use of Gaussian angular distribution requires an extremely large computation and memory. Thus, our RW model adopts spatial distribution from the angular one to accelerate the computation and to decrease the memory usage. From the physics and comparison with the MCmore » simulations, we have determined and analytically expressed those critical variables affecting the dose accuracy in our RW model. Results: Besides those variables such as MCS, stopping power, energy spectrum after energy absorption etc., which have been extensively discussed in literature, the following variables were found to be critical in our RW model: (1) inverse squared law that can significantly reduce the computation burden and memory, (2) non-Gaussian spatial distribution after MCS, and (3) the mean direction of scatters at each voxel. In comparison to MC results, taken as reference, for a water phantom irradiated by mono-energetic proton beams from 75 MeV to 221.28 MeV, the gamma test pass rate was 100% for the 2%/2mm/10% criterion. For a highly heterogeneous phantom consisting of water embedded by a 10 cm cortical bone and a 10 cm lung in the Bragg peak region of the proton beam, the gamma test pass rate was greater than 98% for the 3%/3mm/10% criterion. Conclusion: We have determined key variables in our RW model for proton dose calculation. Compared with commercial pencil beam algorithms, our RW model much improves the dose accuracy in heterogeneous regions, and is about 10 times faster than MC simulations.« less

The X-ray variability history of Markarian 3

NASA Astrophysics Data System (ADS)

Guainazzi, M.; La Parola, V.; Miniutti, G.; Segreto, A.; Longinotti, A. L.

2012-11-01

Context. The unified scenario for active galactic nuclei (AGN) postulates that our orientation with respect to a parsec-scale azimuthally-symmetric gas and dust system causes the difference in their phenomenology in the optical/UV and X-ray bands. Only recently have high-resolution radio (VLBI) and IR interferometric observations provided direct constraints on the size and structure of this obscuring system (known historically as the "torus"). On the other hand, variability in optically-thick X-ray absorption and reprocessing in heavily obscured AGN often probe smaller scales, down to the broad line region and beyond. Aims: We aim at constraining the geometry of the reprocessing matter in the nearby prototypical Seyfert 2 Galaxy Markarian 3 by studying the time evolution of the spectral components associated to the primary AGN emission and to its Compton-scattering. Methods: We analyzed archival spectroscopic observations of Markarian 3 taken over the last ≃ 12 years with the XMM-Newton, Suzaku and Swift observatories, as well as data taken during a monitoring campaign activated by us in 2012. Results: The timescale of the Compton-reflection component variability (originally discovered by ASCA in the mid-'90s) is ≲ 64 days. This upper limit improves by more than a factor of 15 on previous estimates of the Compton-reflection variability timescale for this source. When the light curve of the Compton-reflection continuum in the 4-5 keV band is correlated with the 15-150 keV Swift/BAT curve, a delay ≳1200 days is found. The cross-correlation results depend on the model used to fit the spectra, although the detection of the Compton-reflection component variability is independent of the range of models employed to fit the data. Reanalysis of an archival Chandra image of Markarian 3 indicates that the Compton-reflection and the Fe Kα emitting regions are extended to the north up to ≃300 pc. The combination of these findings suggests that the optically-thick reprocessor in Markarian 3 is clumpy. Conclusions: There is mounting experimental evidence that the structure of the optically-thick gas and dust in the nuclear environment of nearby heavily obscured AGN is extended and complex. We discuss possible modifications to the standard unification scenarios encompassing this complexity. Markarian 3, which exhibits X-ray absorption and reprocessing on widely different spatial scales, is an ideal laboratory to test these models.

Observing RR Lyrae Variables in the M3 Globular Cluster with the BYU West Mountain Observatory (Abstract)

NASA Astrophysics Data System (ADS)

Joner, M. D.

2016-06-01

(Abstract only) We have utilized the 0.9-meter telescope of the Brigham Young University West Mountain Observatory to secure data on the northern hemisphere globular cluster NGC 5272 (M3). We made 216 observations in the V filter spaced between March and August 2012. We present light curves of the M3 RR Lyrae stars using different techniques. We compare light curves produced using DAOPHOT and ISIS software packages for stars in both the halo and core regions of this globular cluster. The light curve fitting is done using FITLC.

The periodicity of Plasmodium vivax and Plasmodium falciparum in Venezuela.

PubMed

Grillet, María-Eugenia; El Souki, Mayida; Laguna, Francisco; León, José Rafael

2014-01-01

We investigated the periodicity of Plasmodium vivax and P. falciparum incidence in time-series of malaria data (1990-2010) from three endemic regions in Venezuela. In particular, we determined whether disease epidemics were related to local climate variability and regional climate anomalies such as the El Niño Southern Oscillation (ENSO). Malaria periodicity was found to exhibit unique features in each studied region. Significant multi-annual cycles of 2- to about 6-year periods were identified. The inter-annual variability of malaria cases was coherent with that of SSTs (ENSO), mainly at temporal scales within the 3-6 year periods. Additionally, malaria cases were intensified approximately 1 year after an El Niño event, a pattern that highlights the role of climate inter-annual variability in the epidemic patterns. Rainfall mediated the effect of ENSO on malaria locally. Particularly, rains from the last phase of the season had a critical role in the temporal dynamics of Plasmodium. The malaria-climate relationship was complex and transient, varying in strength with the region and species. By identifying temporal cycles of malaria we have made a first step in predicting high-risk years in Venezuela. Our findings emphasize the importance of analyzing high-resolution spatial-temporal data to better understand malaria transmission dynamics. Copyright © 2013 Elsevier B.V. All rights reserved.

The impact of travel distance, travel time and waiting time on health-related quality of life of diabetes patients: An investigation in six European countries.

PubMed

Konerding, Uwe; Bowen, Tom; Elkhuizen, Sylvia G; Faubel, Raquel; Forte, Paul; Karampli, Eleftheria; Mahdavi, Mahdi; Malmström, Tomi; Pavi, Elpida; Torkki, Paulus

2017-04-01

The effects of travel distance and travel time to the primary diabetes care provider and waiting time in the practice on health-related quality of life (HRQoL) of patients with type 2 diabetes are investigated. Survey data of 1313 persons with type 2 diabetes from six regions in England (274), Finland (163), Germany (254), Greece (165), the Netherlands (354), and Spain (103) were analyzed. Various multiple linear regression analyses with four different EQ-5D-3L indices (English, German, Dutch and Spanish index) as target variables, with travel distance, travel time, and waiting time in the practice as focal predictors and with control for study region, patient's gender, patient's age, patient's education, time since diagnosis, thoroughness of provider-patient communication were computed. Interactions of regions with the remaining five control variables and the three focal predictors were also tested. There are no interactions of regions with control variables or focal predictors. The indices decrease with increasing travel time to the provider and increasing waiting time in the provider's practice. HRQoL of patients with type 2 diabetes might be improved by decreasing travel time to the provider and waiting time in the provider's practice. Copyright © 2017 Elsevier B.V. All rights reserved.

T-cell receptor V sub. alpha. and C sub. alpha. alleles associated with multiple sclerosis and myasthenia gravis

DOE Office of Scientific and Technical Information (OSTI.GOV)

Oksenberg, J.R.; Cavalli-Sforza, L.L.; Steinman, L.

1989-02-01

Polymorphic markers in genes encoding the {alpha} chain of the human T-cell receptor (TcR) have been detected by Southern blot analysis in Pss I digests. Polymorphic bands were observed at 6.3 and 2.0 kilobases (kb) with frequencies of 0.30 and 0.44, respectively, in the general population. Using the polymerase chain reaction (PCR) method, the authors amplified selected sequences derived from the full-length TcR {alpha} cDNA probe. These PcR products were used as specific probes to demonstrate that the 6.3-kb polymorphic fragment hybridizes to the variable (V)-region probe and the 2.0-kb fragment hybridizes to the constant (C)-region probe. Segregation of themore » polymorphic bands was analyzed in family studies. To look for associations between these markers and autoimmune diseases, the authors have studied the restriction fragment length polymorphism distribution of the Pss I markers in patients with multiple sclerosis, myasthenia gravis, and Graves disease. Significant differences in the frequency of the polymorphic V{sub {alpha}} and C{sub {alpha}} markers were identified between patients and healthy individuals.« less

Flux and Polarization Variability of OJ 287 during the Early 2016 Outburst

NASA Astrophysics Data System (ADS)

Rakshit, Suvendu; Stalin, C. S.; Muneer, S.; Neha, S.; Paliya, Vaidehi S.

2017-02-01

The gamma-ray blazar OJ 287 was in a high activity state during 2015 December-2016 February. Coinciding with this high brightness state, we observed this source for photometry on 40 nights in R-band and for polarimetry on nine epochs in UBV RI bands. During the period of our observations, the source brightness varied from 13.20 ± 0.04 mag to 14.98 ± 0.04 mag and the degree of polarization (P) fluctuated between 6.0% ± 0.3% and 28.3% ± 0.8% in R-band. Focusing on intranight optical variability (INOV), we find a duty cycle of about 71% using χ2-statistics, similar to that known for blazars. From INOV data, the shortest variability timescale is estimated to be 142 ± 38 minutes, yielding a lower limit of the observed Doppler factor δ0 = 1.17, the magnetic field strength B ≤ 3.8 G, and the size of the emitting region Rs < 2.28 × 1014 cm. On internight timescales, a significant anticorrelation between R-band flux and P is found. The observed P at U-band is generally larger than that observed at longer-wavelength bands, suggesting a wavelength-dependent polarization. Using V-band photometric and polarimetric data from Steward Observatory obtained during our monitoring period, we find a varied correlation between P and V-band brightness. While an anticorrelation is sometimes seen between P and V-band magnitude, no correlation is seen at other times, thereby suggesting the presence of more than one short-lived shock component in the jet of OJ 287.

Primer sets for cloning the human repertoire of T cell Receptor Variable regions.

PubMed

Boria, Ilenia; Cotella, Diego; Dianzani, Irma; Santoro, Claudio; Sblattero, Daniele

2008-08-29

Amplification and cloning of naïve T cell Receptor (TR) repertoires or antigen-specific TR is crucial to shape immune response and to develop immuno-based therapies. TR variable (V) regions are encoded by several genes that recombine during T cell development. The cloning of expressed genes as large diverse libraries from natural sources relies upon the availability of primers able to amplify as many V genes as possible. Here, we present a list of primers computationally designed on all functional TR V and J genes listed in the IMGT, the ImMunoGeneTics information system. The list consists of unambiguous or degenerate primers suitable to theoretically amplify and clone the entire TR repertoire. We show that it is possible to selectively amplify and clone expressed TR V genes in one single RT-PCR step and from as little as 1000 cells. This new primer set will facilitate the creation of more diverse TR libraries than has been possible using currently available primer sets.

Response functions of Fuji imaging plates to monoenergetic protons in the energy range 0.6-3.2 MeV

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bonnet, T.; Denis-Petit, D.; Gobet, F.

2013-01-15

We have measured the responses of Fuji MS, SR, and TR imaging plates (IPs) to protons with energies ranging from 0.6 to 3.2 MeV. Monoenergetic protons were produced with the 3.5 MV AIFIRA (Applications Interdisciplinaires de Faisceaux d'Ions en Region Aquitaine) accelerator at the Centre d'Etudes Nucleaires de Bordeaux Gradignan (CENBG). The IPs were irradiated with protons backscattered off a tantalum target. We present the photo-stimulated luminescence response of the IPs together with the fading measurements for these IPs. A method is applied to allow correction of fading effects for variable proton irradiation duration. Using the IP fading corrections, amore » model of the IP response function to protons was developed. The model enables extrapolation of the IP response to protons up to proton energies of 10 MeV. Our work is finally compared to previous works conducted on Fuji TR IP response to protons.« less

The environment of the wind-wind collision region of η Carinae

NASA Astrophysics Data System (ADS)

Panagiotou, C.; Walter, R.

2018-02-01

Context. η Carinae is a colliding wind binary hosting two of the most massive stars and featuring the strongest wind collision mechanical luminosity. The wind collision region of this system is detected in X-rays and γ-rays and offers a unique laboratory for the study of particle acceleration and wind magneto-hydrodynamics. Aim. Our main goal is to use X-ray observations of η Carinae around periastron to constrain the wind collision zone geometry and understand the reasons for its variability. Methods: We analysed 10 Nuclear Spectroscopic Telescope Array (NuSTAR) observations, which were obtained around the 2014 periastron. The NuSTAR array monitored the source from 3 to 30 keV, which allowed us to grasp the continuum and absorption parameters with very good accuracy. We were able to identify several physical components and probe their variability. Results: The X-ray flux varied in a similar way as observed during previous periastrons and largely as expected if generated in the wind collision region. The flux detected within 10 days of periastron is lower than expected, suggesting a partial disruption of the central region of the wind collision zone. The Fe Kα line is likely broadened by the electrons heated along the complex shock fronts. The variability of its equivalent width indicates that the fluorescence region has a complex geometry and that the source obscuration varies quickly with the line of sight.

Magnetic Field Diagnostics and Spatio-Temporal Variability of the Solar Transition Region

NASA Astrophysics Data System (ADS)

Peter, H.

2013-12-01

Magnetic field diagnostics of the transition region from the chromosphere to the corona faces us with the problem that one has to apply extreme-ultraviolet (EUV) spectro-polarimetry. While for the coronal diagnostics techniques already exist in the form of infrared coronagraphy above the limb and radio observations on the disk, one has to investigate EUV observations for the transition region. However, so far the success of such observations has been limited, but various current projects aim to obtain spectro-polarimetric data in the extreme UV in the near future. Therefore it is timely to study the polarimetric signals we can expect from these observations through realistic forward modeling. We employ a 3D magneto-hydrodynamic (MHD) forward model of the solar corona and synthesize the Stokes I and Stokes V profiles of C iv (1548 Å). A signal well above 0.001 in Stokes V can be expected even if one integrates for several minutes to reach the required signal-to-noise ratio, and despite the rapidly changing intensity in the model (just as in observations). This variability of the intensity is often used as an argument against transition region magnetic diagnostics, which requires exposure times of minutes. However, the magnetic field is evolving much slower than the intensity, and therefore the degree of (circular) polarization remains rather constant when one integrates in time. Our study shows that it is possible to measure the transition region magnetic field if a polarimetric accuracy on the order of 0.001 can be reached, which we can expect from planned instrumentation.

Automatic Cloud Classification from Multi-Spectral Satellite Data Over Oceanic Regions

DTIC Science & Technology

1992-01-14

parameters the first two colors used are, blue for low values and dark green for high parameter values. If a third class is identified, the intermediate...intermediate yellow and high dark green classes. The color sequence blue-yellow-light green- dark green, then characterizes the low to high parameter value...to light green then to dark green correspond to superpixels of increasing (from low to high) variability in their altitude, (see Table V.3). When the

Chronic lymphocytic leukemia antibodies with a common stereotypic rearrangement recognize nonmuscle myosin heavy chain IIA

PubMed Central

Catera, Rosa; Hatzi, Katerina; Yan, Xiao-Jie; Zhang, Lu; Wang, Xiao Bo; Fales, Henry M.; Allen, Steven L.; Kolitz, Jonathan E.; Rai, Kanti R.; Chiorazzi, Nicholas

2008-01-01

Leukemic B lymphocytes of a large group of unrelated chronic lymphocytic leukemia (CLL) patients express an unmutated heavy chain immunoglobulin variable (V) region encoded by IGHV1-69, IGHD3-16, and IGHJ3 with nearly identical heavy and light chain complementarity-determining region 3 sequences. The likelihood that these patients developed CLL clones with identical antibody V regions randomly is highly improbable and suggests selection by a common antigen. Monoclonal antibodies (mAbs) from this stereotypic subset strongly bind cytoplasmic structures in HEp-2 cells. Therefore, HEp-2 cell extracts were immunoprecipitated with recombinant stereotypic subset-specific CLL mAbs, revealing a major protein band at approximately 225 kDa that was identified by mass spectrometry as nonmuscle myosin heavy chain IIA (MYHIIA). Reactivity of the stereotypic mAbs with MYHIIA was confirmed by Western blot and immunofluorescence colocalization with anti-MYHIIA antibody. Treatments that alter MYHIIA amounts and cytoplasmic localization resulted in a corresponding change in binding to these mAbs. The appearance of MYHIIA on the surface of cells undergoing stress or apoptosis suggests that CLL mAb may generally bind molecules exposed as a consequence of these events. Binding of CLL mAb to MYHIIA could promote the development, survival, and expansion of these leukemic cells. PMID:18812466

The broad-band X-ray spectral variability of Mrk 841

NASA Technical Reports Server (NTRS)

George, I. M.; Nandra, K.; Fabian, A. C.; Turner, T. J.; Done, C.; Day, C. S. R.

1993-01-01

A detailed spectral analysis of five X-ray observations of Mrk 841 with the EXOSAT, Ginga, and ROSAT satellites is reported. Variability is apparent in both the soft (0.1-1.0 keV) and medium (1-20 keV) energy bands. Above, 1 keV, the spectra are adequately modeled by a power law with a strong emission line of equivalent width 450 eV. The large equivalent width of the emission line indicates a strongly enhanced reflection component of the source compared with other Seyferts observed with Ginga. The implications of the results of the analysis for physical models of the emission regions in this and other X-ray bright Seyferts are briefly examined.

Constraining the location of rapid gamma-ray flares in the flat spectrum radio quasar 3C 273 [Constraining the location of rapid gamma-ray flares in the FSRQ 3C 273

DOE Office of Scientific and Technical Information (OSTI.GOV)

Rani, B.; Lott, B.; Krichbaum, T. P.

2013-09-02

Here, we present a γ-ray photon flux and spectral variability study of the flat-spectrum radio quasar 3C 273 over a rapid flaring activity period between September 2009 to April 2010. Five major flares were observed in the source during this period. The most rapid flare observed in the source has a flux doubling time of 1.1 hr. The rapid γ-ray flares allow us to constrain the location and size of the γ-ray emission region in the source. The γγ-opacity constrains the Doppler factor δ γ ≥ 10 for the highest energy (15 GeV) photon observed by the Fermi-Large Area Telescopemore » (LAT). Causality arguments constrain the size of the emission region to 1.6 × 10 15 cm. The γ-ray spectra measured over this period show clear deviations from a simple power law with a break in the 1–2 GeV energy range. We discuss possible explanations for the origin of the γ-ray spectral breaks. Our study suggests that the γ-ray emission region in 3C 273 is located within the broad line region (< 1.6 pc). As a result, the spectral behavior and temporal characteristics of the individual flares indicate the presence of multiple shock scenarios at the base of the jet.« less

Evolution and Control of 2219 Aluminum Microstructural Features Through Electron Beam Freeform Fabrication

NASA Technical Reports Server (NTRS)

Taminger, Karen M.; Hafley, Robert A.; Domack, Marcia S.

2006-01-01

The layer-additive nature of the electron beam freeform fabrication (EBF3) process results in a tortuous thermal path producing complex microstructures including: small homogeneous equiaxed grains; dendritic growth contained within larger grains; and/or pervasive dendritic formation in the interpass regions of the deposits. Several process control variables contribute to the formation of these different microstructures, including translation speed, wire feed rate, beam current and accelerating voltage. In electron beam processing, higher accelerating voltages embed the energy deeper below the surface of the substrate. Two EBF3 systems have been established at NASA Langley, one with a low-voltage (10-30kV) and the other a high-voltage (30-60 kV) electron beam gun. Aluminum alloy 2219 was processed over a range of different variables to explore the design space and correlate the resultant microstructures with the processing parameters. This report is specifically exploring the impact of accelerating voltage. Of particular interest is correlating energy to the resultant material characteristics to determine the potential of achieving microstructural control through precise management of the heat flux and cooling rates during deposition.

Sequence and Secondary Structure of the Mitochondrial Small-Subunit rRNA V4, V6, and V9 Domains Reveal Highly Species-Specific Variations within the Genus Agrocybe

PubMed Central

Gonzalez, Patrice; Labarère, Jacques

1998-01-01

A comparative study of variable domains V4, V6, and V9 of the mitochondrial small-subunit (SSU) rRNA was carried out with the genus Agrocybe by PCR amplification of 42 wild isolates belonging to 10 species, Agrocybe aegerita, Agrocybe dura, Agrocybe chaxingu, Agrocybe erebia, Agrocybe firma, Agrocybe praecox, Agrocybe paludosa, Agrocybe pediades, Agrocybe alnetorum, and Agrocybe vervacti. Sequencing of the PCR products showed that the three domains in the isolates belonging to the same species were the same length and had the same sequence, while variations were found among the 10 species. Alignment of the sequences showed that nucleotide motifs encountered in the smallest sequence of each variable domain were also found in the largest sequence, indicating that the sequences evolved by insertion-deletion events. Determination of the secondary structure of each domain revealed that the insertion-deletion events commonly occurred in regions not directly involved in the secondary structure (i.e., the loops). Moreover, conserved sequences ranging from 4 to 25 nucleotides long were found at the beginning and end of each domain and could constitute genus-specific sequences. Comparisons of the V4, V6, and V9 secondary structures resulted in identification of the following four groups: (i) group I, which was characterized by the presence of additional P23-1 and P23-3 helices in the V4 domain and the lack of the P49-1 helix in V9 and included A. aegerita, A. chaxingu, and A. erebia; (ii) group II, which had the P23-3 helix in V4 and the P49-1 helix in V9 and included A. pediades; (iii) group III, which did not have additional helices in V4, had the P49-1 helix in V9 and included A. paludosa, A. firma, A. alnetorum, and A. praecox; and (iv) group IV, which lacked both the V4 additional helices and the P49-1 helix in V9 and included A. vervacti and A. dura. This grouping of species was supported by the structure of a consensus tree based on the variable domain sequences. The conservation of the sequences of the V4, V6, and V9 domains of the mitochondrial SSU rRNA within species and the high degree of interspecific variation found in the Agrocybe species studied open the way for these sequences to be used as specific molecular markers of the Basidiomycota. PMID:9797259

Sequence and secondary structure of the mitochondrial small-subunit rRNA V4, V6, and V9 domains reveal highly species-specific variations within the genus Agrocybe.

PubMed

Gonzalez, P; Labarère, J

1998-11-01

A comparative study of variable domains V4, V6, and V9 of the mitochondrial small-subunit (SSU) rRNA was carried out with the genus Agrocybe by PCR amplification of 42 wild isolates belonging to 10 species, Agrocybe aegerita, Agrocybe dura, Agrocybe chaxingu, Agrocybe erebia, Agrocybe firma, Agrocybe praecox, Agrocybe paludosa, Agrocybe pediades, Agrocybe alnetorum, and Agrocybe vervacti. Sequencing of the PCR products showed that the three domains in the isolates belonging to the same species were the same length and had the same sequence, while variations were found among the 10 species. Alignment of the sequences showed that nucleotide motifs encountered in the smallest sequence of each variable domain were also found in the largest sequence, indicating that the sequences evolved by insertion-deletion events. Determination of the secondary structure of each domain revealed that the insertion-deletion events commonly occurred in regions not directly involved in the secondary structure (i.e., the loops). Moreover, conserved sequences ranging from 4 to 25 nucleotides long were found at the beginning and end of each domain and could constitute genus-specific sequences. Comparisons of the V4, V6, and V9 secondary structures resulted in identification of the following four groups: (i) group I, which was characterized by the presence of additional P23-1 and P23-3 helices in the V4 domain and the lack of the P49-1 helix in V9 and included A. aegerita, A. chaxingu, and A. erebia; (ii) group II, which had the P23-3 helix in V4 and the P49-1 helix in V9 and included A. pediades; (iii) group III, which did not have additional helices in V4, had the P49-1 helix in V9 and included A. paludosa, A. firma, A. alnetorum, and A. praecox; and (iv) group IV, which lacked both the V4 additional helices and the P49-1 helix in V9 and included A. vervacti and A. dura. This grouping of species was supported by the structure of a consensus tree based on the variable domain sequences. The conservation of the sequences of the V4, V6, and V9 domains of the mitochondrial SSU rRNA within species and the high degree of interspecific variation found in the Agrocybe species studied open the way for these sequences to be used as specific molecular markers of the Basidiomycota.

Fermi-LAT observations of the 2014 May-July outburst from 3C 454.3

DOE PAGES

Britto, Richard J.; Bottacini, Eugenio; Lott, Benoît; ...

2016-10-19

We observed a prominent outburst of the flat spectrum radio quasar 3C 454.3 in 2014 June with the Fermi Large Area Telescope. This outburst was characterized by a three-stage light-curve pattern—plateau, flare, and post-flare—that occurred from 2014 May to July, in a similar pattern as observed during the exceptional outburst in 2010 November. The highest flux of the outburst reported in this paper occurred during 2014 June 7–29, showing a multiple-peak structure in the light-curves. The average flux in these 22 days was found to bemore » $$F[E\\gt 100\\,\\mathrm{MeV}]=(7.2\\pm 0.2)\\times {10}^{-6}$$ ph cm -2 s -1, with a spectral index, for a simple power law, of $${\\rm{\\Gamma }}=2.04\\pm 0.01$$. That made this outburst the first γ-ray high state of 3C 454.3 ever to be detected by Fermi with such a hard spectrum over several days. The highest flux was recorded on 2014 June 15, in a 3 hr bin, at MJD 56823.5625, at a level of $$F[E\\gt 100\\,\\mathrm{MeV}]=(17.6\\pm 1.9)\\times {10}^{-6}$$ ph cm -2 s -1. Furthermore, the rise time of one of the short subflares was found to be $${T}_{r}=1200\\pm 700$$ s at MJD = 56827, when the flux increased from 4 to 12 × 10 -6 ph cm -2 s -1. Finally, we collected several photons above 20 GeV during this outburst, including one at 45 GeV on MJD 56827, constraining the γ-ray emission region to be located close to the outer boundary of the broad-line region, leading to fast flux variability.« less

HIV-1 V3 loop crown epitope-focused mimotope selection by patient serum from random phage display libraries: implications for the epitope structural features.

PubMed

Gazarian, Karlen G; Palacios-Rodríguez, Yadira; Gazarian, Tatiana G; Huerta, Leonor

2013-06-01

The crown region of the V3 loop in HIV-1 that contains the conserved amino acid sequence GPGR/G is known as the principal neutralizing determinant due to the extraordinary ability of antibodies to this region to neutralize the virus. To complement the existing peptide models of this epitope, we describe a family of 18 phage-displayed peptides, which include linear 12mer and constrained 7mer peptides that was selected by screening random libraries with serum from HIV-1 subtype B-infected patients. The 7mer constrained peptides presented two conserved amino acid sequences: PR-L in N-terminus and GPG in the C-terminus. On the basis of these peptides we propose a mimotope model of the V3 crown epitope in which the PR-L and GPG sequences represent the two known epitope binding sites. The GPG, has the same function as the V3 crown GPGR sequence but without the involvement of the "R" despite its being considered as the signature of the epitope in B-subtype viruses. The PR-L contains a proline not existing in the epitope that is postulated to induce kinks in the backbones of all peptides and create a spatial element mimicking the N-terminal conformationally variable binding site. Rabbit serum to these mimotopes recognized the V3 peptides and moderately decreased the fusion between HIV-1 Env- and CD4-expressing Jurkat cells. This study proposes the efficient generation by means of patient sera of V3 epitope mimics validated by interaction with the antibodies to contemporary viruses induced in patients. The serum antibody-selectable mimotopes are sources of novel information on the fine structure-function properties of HIV-1 principal neutralizing domain and candidate anti-HIV-1 immunogens. Copyright © 2012 Elsevier Ltd. All rights reserved.

X-ray variability and the inner region in active galactic nuclei

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mohan, P.; Mangalam, A., E-mail: prashanth@iiap.res.in, E-mail: mangalam@iiap.res.in

2014-08-20

We present theoretical models of X-ray variability attributable to orbital signatures from an accretion disk including emission region size, quasi-periodic oscillations (QPOs), and its quality factor Q, and the emergence of a break frequency in the power spectral density shape. We find a fractional variability amplitude of F{sub var}∝M{sub ∙}{sup −0.4}. We conduct a time series analysis on X-ray light curves (0.3-10 keV) of a sample of active galactic nuclei (AGNs). A statistically significant bend frequency is inferred in 9 of 58 light curves (16%) from 3 AGNs for which the break timescale is consistent with the reported BH spinmore » but not with the reported BH mass. Upper limits of 2.85 × 10{sup 7} M {sub ☉} in NGC 4051, 8.02 × 10{sup 7} M {sub ☉} in MRK 766, and 4.68 × 10{sup 7} M {sub ☉} in MCG-6-30-15 are inferred for maximally spinning BHs. For REJ 1034+396 where a QPO at 3733 s was reported, we obtain an emission region size of (6-6.5) M and a BH spin of a ≲ 0.08. The relativistic inner region of a thin disk, dominated by radiation pressure and electron scattering, is likely to host the orbital features as the simulated Q ranges from 6.3 × 10{sup –2} to 4.25 × 10{sup 6}, containing the observed Q. The derived value of Q ∼ 32 for REJ 1034+396 therefore suggests that the AGN hosts a thin disk.« less

On the intrinsic spectrum of PKS 2155-304 from the H.E.S.S. 2003 data.

NASA Astrophysics Data System (ADS)

Costamante, L.; Aharonian, F.; Benbow, W.; Horns, D.; Reimer, A.; Reimer, O.; Rowell, G.; H.E.S.S. Collaboration

2004-08-01

In 2003, PKS 2155-304 (z=0.116) has been significantly detected by H.E.S.S. ( 44sigma) at TeV energies, with an average spectrum of Γ =3.3. Due to absorption by the Extragalactic Background Light (EBL), the intrinsic spectrum is heavily modified both in shape and intensity. To correct for this effect, and see where could be the Inverse Compton (IC) peak of the SED, we used 3 EBL models (representatives of 3 different flux levels for the stellar peak component). The resulting TeV spectrum has a peak around 1 TeV for stellar peak fluxes above the Primack (2001) calculation, while the spectrum is steeper than 2 (thus locating the IC peak <200 GeV) for fluxes below. With bulk Lorentz factors δ =20-30 (typically used for this object), in the first case the IC peak is in the Klein-Nishina transition region, while in the other case it is in the Thomson regime, and in agreement with the commonly fitted source parameters (e.g. Tavecchio et al. 1998). The constraint on δ given by transparency to 1-2 TeV photons is δ >19 (for historical SED fluxes and 2 hrs variability timescale).

Identification of genome regions determining semen quality in Holstein-Friesian bulls using information theory.

PubMed

Borowska, Alicja; Szwaczkowski, Tomasz; Kamiński, Stanisław; Hering, Dorota M; Kordan, Władysław; Lecewicz, Marek

2018-05-01

Use of information theory can be an alternative statistical approach to detect genome regions and candidate genes that are associated with livestock traits. The aim of this study was to verify the validity of the SNPs effects on some semen quality variables of bulls using entropy analysis. Records from 288 Holstein-Friesian bulls from one AI station were included. The following semen quality variables were analyzed: CASA kinematic variables of sperm (total motility, average path velocity, straight line velocity, curvilinear velocity, amplitude of lateral head displacement, beat cross frequency, straightness, linearity), sperm membrane integrity (plazmolema, mitochondrial function), sperm ATP content. Molecular data included 48,192 SNPs. After filtering (call rate = 0.95 and MAF = 0.05), 34,794 SNPs were included in the entropy analysis. The entropy and conditional entropy were estimated for each SNP. Conditional entropy quantifies the remaining uncertainty about values of the variable with the knowledge of SNP. The most informative SNPs for each variable were determined. The computations were performed using the R statistical package. A majority of the loci had relatively small contributions. The most informative SNPs for all variables were mainly located on chromosomes: 3, 4, 5 and 16. The results from the study indicate that important genome regions and candidate genes that determine semen quality variables in bulls are located on a number of chromosomes. Some detected clusters of SNPs were located in RNA (U6 and 5S_rRNA) for all the variables for which analysis occurred. Associations between PARK2 as well GALNT13 genes and some semen characteristics were also detected. Copyright © 2018 Elsevier B.V. All rights reserved.

Variability in secondary structure of 18S ribosomal RNA as topological marker for identification of Paramecium species.

PubMed

Shakoori, Farah R; Tasneem, Fareeda; Al-Ghanim, K; Mahboob, S; Al-Misned, F; Jahan, Nusrat; Shakoori, Abdul Rauf

2014-12-01

Besides cytological and molecular applications, Paramecium is being used in water quality assessment and for determination of saprobic levels. An unambiguous identification of these unicellular eukaryotes is not only essential, but its ecological diversity must also be explored in the local environment. 18SrRNA genes of all the strains of Paramecium species isolated from waste water were amplified, cloned and sequenced. Phylogenetic comparison of the nucleotide sequences of these strains with 23 closely related Paramecium species from GenBank Database enabled identification of Paramecium multimicronucleatum and Paramecium jenningsi. Some isolates did not show significant close association with other Paramecium species, and because of their unique position in the phylogenetic tree, they were considered new to the field. In the present report, these isolates are being designated as Paramecium caudatum pakistanicus. In this article, secondary structure of 18SrRNA has also been analyzed as an additional and perhaps more reliable topological marker for species discrimination and for determining possible phylogenetic relationship between the ciliate species. On the basis of comparison of secondary structure of 18SrRNA of various isolated Paramacium strains, and among Paramecium caudatum pakistanicus, Tetrahymena thermophila, Drosophila melanogaster, and Homo sapiens, it can be deduced that variable regions are more helpful in differentiating the species at interspecific level rather than at intraspecific level. It was concluded that V3 was the least variable region in all the organisms, V2 and V7 were the longest expansion segments of D. melanogaster and there was continuous mutational bias towards G.C base pairing in H. sapiens. © 2014 Wiley Periodicals, Inc.

Efficient heterologous expression and secretion in Aspergillus oryzae of a llama variable heavy-chain antibody fragment V(HH) against EGFR.

PubMed

Okazaki, Fumiyoshi; Aoki, Jun-ichi; Tabuchi, Soichiro; Tanaka, Tsutomu; Ogino, Chiaki; Kondo, Akihiko

2012-10-01

We have constructed a filamentous fungus Aspergillus oryzae that secretes a llama variable heavy-chain antibody fragment (V(HH)) that binds specifically to epidermal growth factor receptor (EGFR) in a culture medium. A major improvement in yield was achieved by fusing the V(HH) with a Taka-amylase A signal sequence (sTAA) and a segment of 28 amino acids from the N-terminal region of Rhizopus oryzae lipase (N28). The yields of secreted, immunologically active anti-EGFR V(HH) reached 73.8 mg/1 in a Sakaguchi flask. The V(HH) fragments were released from the sTAA or N28 proteins by an indigenous A. oryzae protease during cultivation. The purified recombinant V(HH) fragment was specifically recognized and could bind to the EGFR with a high affinity.

ROSAT HRI and ASCA Observations of the Spiral Galaxy NGC 6946 and its Northeast Complex of Luminous Supernova Remnants

NASA Technical Reports Server (NTRS)

Schlegel, E.; Swank, Jean (Technical Monitor)

2001-01-01

Analysis of 80 ks ASCA (Advanced Satellite for Cosmology and Astrophysics) and 60 ks ROSAT HRI (High Resolution Image) observations of the face-on spiral galaxy NGC 6946 are presented. The ASCA image is the first observation of this galaxy above approximately 2 keV. Diffuse emission may be present in the inner approximately 4' extending to energies above approximately 2-3 keV. In the HRI data, 14 pointlike sources are detected, the brightest two being a source very close to the nucleus and a source to the northeast that corresponds to a luminous complex of interacting supernova remnants (SNRs). We detect a point source that lies approximately 30" west of the SNR complex but with a luminosity -1115 of the SNR complex. None of the point sources show evidence of strong variability; weak variability would escape our detection. The ASCA spectrum of the SNR complex shows evidence for an emission line at approximately 0.9 keV that could be either Ne IX at approximately 0.915 keV or a blend of ion stages of Fe L-shell emission if the continuum is fitted with a power law. However, a two-component, Raymond-Smith thermal spectrum with no lines gives an equally valid continuum fit and may be more physically plausible given the observed spectrum below 3 keV. Adopting this latter model, we derive a density for the SNR complex of 10-35 cm(exp -3), consistent with estimates inferred from optical emission-line ratios. The complex's extraordinary X-ray luminosity may be related more to the high density of the surrounding medium than to a small but intense interaction region where two of the complex's SNRs are apparently colliding.

Methane from the Tropospheric Emission Spectrometer (TES)

NASA Technical Reports Server (NTRS)

Payne, Vivienne; Worden, John; Kulawik, Susan; Frankenberg, Christian; Bowman, Kevin; Wecht, Kevin

2012-01-01

TES V5 CH4 captures latitudinal gradients, regional variability and interannual variation in the free troposphere. V5 joint retrievals offer improved sensitivity to lower troposphere. Time series extends from 2004 to present. V5 reprocessing in progress. Upper tropospheric bias. Mitigated by N2O correction. Appears largely spatially uniform, so can be corrected. How to relate free-tropospheric values to surface emissions.

Multi-band optical variability studies of Blazars

NASA Astrophysics Data System (ADS)

Agarwal, Aditi

2018-04-01

To search for optical variability on a wide range of timescales, we have carried out photometric monitoring of a dozen blazars. CCD magnitudes in B, V, R and I pass-bands were determined for > 10,000f new optical observations from 300 nights made during 2011 – 2016, with an average length of 4 h each, using seven optical telescopes: four in Bulgaria, one in Greece, and two in India. We measured multiband optical flux and colour variations on diverse timescales. Blazar variability studies helped us in understanding their nature and extreme conditions within the emission region. To explain possible physical causes of the observed spectral variability, we also investigated spectral energy distributions using B, V, R, I, J and K pass-band data.

A Multiwavelength View of the TeV Blazar Markarian 421: Correlated Variability, Flaring, and Spectral Evolution

NASA Astrophysics Data System (ADS)

Błażejowski, M.; Blaylock, G.; Bond, I. H.; Bradbury, S. M.; Buckley, J. H.; Carter-Lewis, D. A.; Celik, O.; Cogan, P.; Cui, W.; Daniel, M.; Duke, C.; Falcone, A.; Fegan, D. J.; Fegan, S. J.; Finley, J. P.; Fortson, L.; Gammell, S.; Gibbs, K.; Gillanders, G. G.; Grube, J.; Gutierrez, K.; Hall, J.; Hanna, D.; Holder, J.; Horan, D.; Humensky, B.; Kenny, G.; Kertzman, M.; Kieda, D.; Kildea, J.; Knapp, J.; Kosack, K.; Krawczynski, H.; Krennrich, F.; Lang, M.; LeBohec, S.; Linton, E.; Lloyd-Evans, J.; Maier, G.; Mendoza, D.; Milovanovic, A.; Moriarty, P.; Nagai, T. N.; Ong, R. A.; Power-Mooney, B.; Quinn, J.; Quinn, M.; Ragan, K.; Reynolds, P. T.; Rebillot, P.; Rose, H. J.; Schroedter, M.; Sembroski, G. H.; Swordy, S. P.; Syson, A.; Valcarel, L.; Vassiliev, V. V.; Wakely, S. P.; Walker, G.; Weekes, T. C.; White, R.; Zweerink, J.; VERITAS Collaboration; Mochejska, B.; Smith, B.; Aller, M.; Aller, H.; Teräsranta, H.; Boltwood, P.; Sadun, A.; Stanek, K.; Adams, E.; Foster, J.; Hartman, J.; Lai, K.; Böttcher, M.; Reimer, A.; Jung, I.

2005-09-01

We report results from an intensive multiwavelength monitoring campaign on the TeV blazar Mrk 421 over the period of 2003-2004. The source was observed simultaneously at TeV energies with the Whipple 10 m telescope and at X-ray energies with the Rossi X-Ray Timing Explorer (RXTE) during each clear night within the Whipple observing windows. Supporting observations were also frequently carried out at optical and radio wavelengths to provide simultaneous or contemporaneous coverages. The large amount of simultaneous data has allowed us to examine the variability of Mrk 421 in detail, including cross-band correlation and broadband spectral variability, over a wide range of flux. The variabilities are generally correlated between the X-ray and gamma-ray bands, although the correlation appears to be fairly loose. The light curves show the presence of flares with varying amplitudes on a wide range of timescales at both X-ray and TeV energies. Of particular interest is the presence of TeV flares that have no coincident counterparts at longer wavelengths, because the phenomenon seems difficult to understand in the context of the proposed emission models for TeV blazars. We have also found that the TeV flux reached its peak days before the X-ray flux did during a giant flare (or outburst) in 2004 (with the peak flux reaching ~135 mcrab in X-rays, as seen by the RXTE ASM, and ~3 crab in gamma rays). Such a difference in the development of the flare presents a further challenge to both the leptonic and hadronic emission models. Mrk 421 varied much less at optical and radio wavelengths. Surprisingly, the normalized variability amplitude in the optical seems to be comparable to that in the radio, perhaps suggesting the presence of different populations of emitting electrons in the jet. The spectral energy distribution of Mrk 421 is seen to vary with flux, with the two characteristic peaks moving toward higher energies at higher fluxes. We have failed to fit the measured spectral energy distributions (SEDs) with a one-zone synchrotron self-Compton model; introducing additional zones greatly improves the fits. We have derived constraints on the physical properties of the X-ray/gamma-ray flaring regions from the observed variability (and SED) of the source. The implications of the results are discussed.

Non coding extremities of the seven influenza virus type C vRNA segments: effect on transcription and replication by the type C and type A polymerase complexes

PubMed Central

Crescenzo-Chaigne, Bernadette; Barbezange, Cyril; van der Werf, Sylvie

2008-01-01

Background The transcription/replication of the influenza viruses implicate the terminal nucleotide sequences of viral RNA, which comprise sequences at the extremities conserved among the genomic segments as well as variable 3' and 5' non-coding (NC) regions. The plasmid-based system for the in vivo reconstitution of functional ribonucleoproteins, upon expression of viral-like RNAs together with the nucleoprotein and polymerase proteins has been widely used to analyze transcription/replication of influenza viruses. It was thus shown that the type A polymerase could transcribe and replicate type A, B, or C vRNA templates whereas neither type B nor type C polymerases were able to transcribe and replicate type A templates efficiently. Here we studied the importance of the NC regions from the seven segments of type C influenza virus for efficient transcription/replication by the type A and C polymerases. Results The NC sequences of the seven genomic segments of the type C influenza virus C/Johannesburg/1/66 strain were found to be more variable in length than those of the type A and B viruses. The levels of transcription/replication of viral-like vRNAs harboring the NC sequences of the respective type C virus segments flanking the CAT reporter gene were comparable in the presence of either type C or type A polymerase complexes except for the NS and PB2-like vRNAs. For the NS-like vRNA, the transcription/replication level was higher after introduction of a U residue at position 6 in the 5' NC region as for all other segments. For the PB2-like vRNA the CAT expression level was particularly reduced with the type C polymerase. Analysis of mutants of the 5' NC sequence in the PB2-like vRNA, the shortest 5' NC sequence among the seven segments, showed that additional sequences within the PB2 ORF were essential for the efficiency of transcription but not replication by the type C polymerase complex. Conclusion In the context of a PB2-like reporter vRNA template, the sequence upstream the polyU stretch plays a role in the transcription/replication process by the type C polymerase complex. PMID:18973655

Adenoviral vectors elicit humoral immunity against variable loop 2 of clade C HIV-1 gp120 via "Antigen Capsid-Incorporation" strategy.

PubMed

Gu, Linlin; Krendelchtchikova, Valentina; Krendelchtchikov, Alexandre; Farrow, Anitra L; Derdeyn, Cynthia A; Matthews, Qiana L

2016-01-01

Adenoviral (Ad) vectors in combination with the "Antigen Capsid-Incorporation" strategy have been applied in developing HIV-1 vaccines, due to the vectors׳ abilities in incorporating and inducing immunity of capsid-incorporated antigens. Variable loop 2 (V2)-specific antibodies were suggested in the RV144 trial to correlate with reduced HIV-1 acquisition, which highlights the importance of developing novel HIV-1 vaccines by targeting the V2 loop. Therefore, the V2 loop of HIV-1 has been incorporated into the Ad capsid protein. We generated adenovirus serotype 5 (Ad5) vectors displaying variable loop 2 (V2) of HIV-1 gp120, with the "Antigen Capsid-Incorporation" strategy. To assess the incorporation capabilities on hexon hypervariable region1 (HVR1) and protein IX (pIX), 20aa or full length (43aa) of V2 and V1V2 (67aa) were incorporated, respectively. Immunizations with the recombinant vectors significantly generated antibodies against both linear and discontinuous V2 epitopes. The immunizations generated durable humoral immunity against V2. This study will lead to more stringent development of various serotypes of adenovirus-vectored V2 vaccine candidates, based on breakthroughs regarding the immunogenicity of V2. Copyright © 2015. Published by Elsevier Inc.

The generation and selection of single-domain, v region libraries from nurse sharks.

PubMed

Flajnik, Martin F; Dooley, Helen

2009-01-01

The cartilaginous fish (sharks, skates, and rays) are the oldest phylogenetic group in which a human-type adaptive immune system and immunoglobulins (Igs) have been found. In addition to their conventional (heavy-light chain heterodimeric) isotypes, IgM and IgW, sharks produce the novel isotype, IgNAR, a heavy chain homodimer that does not associate with light chains. Instead, its variable (V) regions act as independent, soluble units in order to bind antigen. In this chapter, we detail our immunization protocol in order to raise a humoral IgNAR response in the nurse shark (Ginglymostoma cirratum) and the subsequent cloning of the single-domain V regions from this isotype in order to select antigen-specific binders by phage display.

Taxonomic resolutions based on 18S rRNA genes: a case study of subclass copepoda.

PubMed

Wu, Shu; Xiong, Jie; Yu, Yuhe

2015-01-01

Biodiversity studies are commonly conducted using 18S rRNA genes. In this study, we compared the inter-species divergence of variable regions (V1-9) within the copepod 18S rRNA gene, and tested their taxonomic resolutions at different taxonomic levels. Our results indicate that the 18S rRNA gene is a good molecular marker for the study of copepod biodiversity, and our conclusions are as follows: 1) 18S rRNA genes are highly conserved intra-species (intra-species similarities are close to 100%); and could aid in species-level analyses, but with some limitations; 2) nearly-whole-length sequences and some partial regions (around V2, V4, and V9) of the 18S rRNA gene can be used to discriminate between samples at both the family and order levels (with a success rate of about 80%); 3) compared with other regions, V9 has a higher resolution at the genus level (with an identification success rate of about 80%); and 4) V7 is most divergent in length, and would be a good candidate marker for the phylogenetic study of Acartia species. This study also evaluated the correlation between similarity thresholds and the accuracy of using nuclear 18S rRNA genes for the classification of organisms in the subclass Copepoda. We suggest that sample identification accuracy should be considered when a molecular sequence divergence threshold is used for taxonomic identification, and that the lowest similarity threshold should be determined based on a pre-designated level of acceptable accuracy.

Taxonomic Resolutions Based on 18S rRNA Genes: A Case Study of Subclass Copepoda

PubMed Central

Wu, Shu; Xiong, Jie; Yu, Yuhe

2015-01-01

Biodiversity studies are commonly conducted using 18S rRNA genes. In this study, we compared the inter-species divergence of variable regions (V1–9) within the copepod 18S rRNA gene, and tested their taxonomic resolutions at different taxonomic levels. Our results indicate that the 18S rRNA gene is a good molecular marker for the study of copepod biodiversity, and our conclusions are as follows: 1) 18S rRNA genes are highly conserved intra-species (intra-species similarities are close to 100%); and could aid in species-level analyses, but with some limitations; 2) nearly-whole-length sequences and some partial regions (around V2, V4, and V9) of the 18S rRNA gene can be used to discriminate between samples at both the family and order levels (with a success rate of about 80%); 3) compared with other regions, V9 has a higher resolution at the genus level (with an identification success rate of about 80%); and 4) V7 is most divergent in length, and would be a good candidate marker for the phylogenetic study of Acartia species. This study also evaluated the correlation between similarity thresholds and the accuracy of using nuclear 18S rRNA genes for the classification of organisms in the subclass Copepoda. We suggest that sample identification accuracy should be considered when a molecular sequence divergence threshold is used for taxonomic identification, and that the lowest similarity threshold should be determined based on a pre-designated level of acceptable accuracy. PMID:26107258

Understanding of variability properties in very low mass stars and brown dwarfs

NASA Astrophysics Data System (ADS)

Mondal, Soumen; Ghosh, Samrat; Khata, Dhrimadri; Joshi, Santosh; Das, Ramkrishna

2018-04-01

We report on photometric variability studies of a L3.5 brown dwarf 2MASS J00361617+1821104 (2M0036+18) in the field and of four young brown dwarfs in the star-forming region IC 348. From muti-epoch observations, we found significant periodic variability in 2M0036+18 with a period of 2.66 ± 0.55 hours on one occasion while it seemed to be non-variable on three other occasions. An evolving dust cloud might cause such a scenario. Among four young brown dwarfs of IC 348 in the spectral range M7.25 - M8, one brown dwarf 2MASS J03443921+3208138 shows significant variability. The K-band spectra (2.0-2.4 μm) of nine very low mass stars (M1 - M9 V) are used to characterize the water band index (H20-K2). We found that it is strongly correlated with the surface temperature of M dwarfs.

Evaluation of different rainfall products over India for the summer monsoon

NASA Astrophysics Data System (ADS)

Prakash, Satya; Mitra, Ashis; Turner, Andrew; Collins, Mathew; AchutoRao, Krishna

2015-04-01

Summer rainfall over India forms an integral part of the Asian monsoon, which plays a key role in the global water cycle and climate system through coupled atmospheric and oceanic processes. Accurate prediction of Indian summer monsoon rainfall and its variability at various spatiotemporal scales are crucial for agriculture, water resources and hydroelectric-power sectors. Reliable rainfall observations are very important for verification of numerical model outputs and model development. However, high spatiotemporal variability of rainfall makes it difficult to measure adequately with ground-based instruments over a large region of various surface types from deserts to oceans. A number of multi-satellite rainfall products are available to users at different spatial and temporal scales. Each rainfall product has some advantages as well as limitations, hence it is essential to find a suitable region-specific data set among these rainfall products for a particular user application, such as water resources, agricultural modelling etc. In this study, we examine seasonal-mean and daily rainfall datasets for monsoon model validation. First, six multi-satellite and gauge-only rainfall products were evaluated over India at seasonal scale for 27 (JJAS 1979-2005) summer monsoon seasons against gridded 0.5-degree IMD gauge-based rainfall. Various skill metrics are computed to assess the potential of these data sets in representation of large-scale monsoon rainfall at all-India and sub-regional scales. Among the gauge-only data sets, APHRODITE and GPCC appear to outperform the others whereas GPCP is better than CMAP in the merged multi-satellite category. However, there are significant differences among these data sets indicating uncertainty in the observed rainfall over this region, with important implications for the evaluation of model simulations. At the daily scale, TRMM TMPA-3B42 is one of the best available products and is widely used for various hydro-meteorological applications. The existing version 6 (V6) products of TRMM underwent major changes and version 7 (V7) products were released in late 2012, and we compare these to the IMD daily gridded data over the 1998-2010 period. We show a clear improvement in V7 over V6 in the South Asian monsoon region using various skill metrics. Over typical monsoon rainfall zones, biases are improved by 5-10% in V7 over higher-rainfall regions. These results will help users to select appropriate rainfall product for their application. With the recent launch of the GPM Core Observatory, the release of a more advanced high-resolution multi-satellite rainfall product is expected soon.

Skill transfer, affordances and dexterity in different climbing environments.

PubMed

Seifert, L; Wattebled, L; L'hermette, M; Bideault, G; Herault, R; Davids, K

2013-12-01

This study explored how skills in one region of a perceptual-motor landscape of performance, created in part by previous experience in rock climbing, can shape those that emerge in another region (ice climbing). Ten novices in rock climbing and five intermediate rock climbers were observed climbing an icefall. Locations of right and left ice tools and crampons were videotaped from a frontal camera. Inter-individual variability of upper and lower limb couplings and types of action regarding icefall properties were assessed by cluster hierarchical analysis, distinguishing three clusters. Pelvis vertical displacement, duration and number of pelvis pauses were also analyzed. Experienced rock climbers were grouped in the same cluster and showed the highest range and variability of limb angular locations and coordination patterns, the highest vertical displacement and the shortest pelvis plateaux durations. Non-fluent climbers (clusters 2 and 3) showed low range and variability of limb angular locations and coordination patterns. In particular, climbers of cluster 3 exhibited the lowest vertical displacement, the longest plateaux durations and the greatest ratio between tool swinging and definitive anchorage. Our results exemplified the positive influence of skills in rock climbing on ice climbing performance, facilitated by the detection of affordances from environmental properties. Copyright © 2013 Elsevier B.V. All rights reserved.

On the use of nudging techniques for regional climate modeling: application for tropical convection

NASA Astrophysics Data System (ADS)

Pohl, Benjamin; Crétat, Julien

2014-09-01

Using a large set of WRF ensemble simulations at 70-km horizontal resolution over a domain encompassing the Warm Pool region and its surroundings [45°N-45°S, 10°E-240°E], this study aims at quantifying how nudging techniques can modify the simulation of deep atmospheric convection. Both seasonal mean climate, transient variability at intraseasonal timescales, and the respective weight of internal (stochastic) and forced (reproducible) variability are considered. Sensitivity to a large variety of nudging settings (nudged variables and layers and nudging strength) and to the model physics (using 3 convective parameterizations) is addressed. Integrations are carried out during a 7-month season characterized by neutral background conditions and strong intraseasonal variability. Results show that (1) the model responds differently to the nudging from one parameterization to another. Biases are decreased by ~50 % for Betts-Miller-Janjic convection against 17 % only for Grell-Dévényi, the scheme producing yet the largest biases; (2) relaxing air temperature is the most efficient way to reduce biases, while nudging the wind increases most co-variability with daily observations; (3) the model's internal variability is drastically reduced and mostly depends on the nudging strength and nudged variables; (4) interrupting the relaxation before the end of the simulations leads to an abrupt convergence towards the model's natural solution, with no clear effects on the simulated climate after a few days. The usefulness and limitations of the approach are finally discussed through the example of the Madden-Julian Oscillation, that the model fails at simulating and that can be artificially and still imperfectly reproduced in relaxation experiments.

LS3MIP (v1.0) Contribution to CMIP6: The Land Surface, Snow and Soil Moisture Model Intercomparison Project Aims, Setup and Expected Outcome.

NASA Technical Reports Server (NTRS)

Van Den Hurk, Bart; Kim, Hyungjun; Krinner, Gerhard; Seneviratne, Sonia I.; Derksen, Chris; Oki, Taikan; Douville, Herve; Colin, Jeanne; Ducharne, Agnes; Cheruy, Frederique;

LS3MIP (v1.0) contribution to CMIP6: the Land Surface, Snow and Soilmoisture Model Intercomparison Project – aims, setup and expected outcome

DOE PAGES

van den Hurk, Bart; Kim, Hyungjun; Krinner, Gerhard; ...

2016-08-24

The Land Surface, Snow and Soil Moisture Model Intercomparison Project (LS3MIP) is designed to provide a comprehensive assessment of land surface, snow and soil moisture feedbacks on climate variability and climate change, and to diagnose systematic biases in the land modules of current Earth system models (ESMs). Furthermore, the solid and liquid water stored at the land surface has a large influence on the regional climate, its variability and predictability, including effects on the energy, water and carbon cycles. Notably, snow and soil moisture affect surface radiation and flux partitioning properties, moisture storage and land surface memory. They both stronglymore » affect atmospheric conditions, in particular surface air temperature and precipitation, but also large-scale circulation patterns. But, models show divergent responses and representations of these feedbacks as well as systematic biases in the underlying processes. LS3MIP will provide the means to quantify the associated uncertainties and better constrain climate change projections, which is of particular interest for highly vulnerable regions (densely populated areas, agricultural regions, the Arctic, semi-arid and other sensitive terrestrial ecosystems). The experiments are subdivided in two components, the first addressing systematic land biases in offline mode (“LMIP”, building upon the 3rd phase of Global Soil Wetness Project; GSWP3) and the second addressing land feedbacks attributed to soil moisture and snow in an integrated framework (“LFMIP”, building upon the GLACE-CMIP blueprint).« less

LS3MIP (v1.0) contribution to CMIP6: the Land Surface, Snow and Soilmoisture Model Intercomparison Project – aims, setup and expected outcome

DOE Office of Scientific and Technical Information (OSTI.GOV)

van den Hurk, Bart; Kim, Hyungjun; Krinner, Gerhard

The Land Surface, Snow and Soil Moisture Model Intercomparison Project (LS3MIP) is designed to provide a comprehensive assessment of land surface, snow and soil moisture feedbacks on climate variability and climate change, and to diagnose systematic biases in the land modules of current Earth system models (ESMs). Furthermore, the solid and liquid water stored at the land surface has a large influence on the regional climate, its variability and predictability, including effects on the energy, water and carbon cycles. Notably, snow and soil moisture affect surface radiation and flux partitioning properties, moisture storage and land surface memory. They both stronglymore » affect atmospheric conditions, in particular surface air temperature and precipitation, but also large-scale circulation patterns. But, models show divergent responses and representations of these feedbacks as well as systematic biases in the underlying processes. LS3MIP will provide the means to quantify the associated uncertainties and better constrain climate change projections, which is of particular interest for highly vulnerable regions (densely populated areas, agricultural regions, the Arctic, semi-arid and other sensitive terrestrial ecosystems). The experiments are subdivided in two components, the first addressing systematic land biases in offline mode (“LMIP”, building upon the 3rd phase of Global Soil Wetness Project; GSWP3) and the second addressing land feedbacks attributed to soil moisture and snow in an integrated framework (“LFMIP”, building upon the GLACE-CMIP blueprint).« less

Localized excitons in fluoroperovskite LiBaF3 crystals

NASA Astrophysics Data System (ADS)

Springis, Maris; Trukhin, Anatoly N.; Tale, Ivar

2003-08-01

Two radiating processes in LiBaF3 crystals, fast valence-core transitions (5.4 - 6.5 eV) and slow, so called self-trapped exciton luminescence (about 4.3 eV), are important for practical application. Here we present a study of 4.3 eV luminescence under X-ray excitation and photoexcitation as well as under photostimulation after X-irradiation of undoped and Ag-doped LiBaF3 crystals at various temperatures. It is shown that 4.3 eV luminescence appears under X-ray excitation at least from 85 K to 400 K in both undoped and doped crystals. In all samples studied the excitation spectra of 4.3 eV luminescence contain both the main exciton like band at the edge of fundamental absorption at about 10 eV and weaker band in 7.8 - 8.6 eV region. Luminescence spectrum in the 3.8 - 4.8 eV region under 7.8 - 8.6 eV excitation differs slightly from that under 10 eV excitation. Several luminescence bands in 3.8 - 4.8 eV region arises in the temperature range 85 - 230 K under photostimulation in absorption band of F-type center at 2.9 eV created previously under X-irradiation. We propose the luminescence of LiBaF3 crystals in the 3.8 - 4.8 eV region may be caused by localized excitons formed not only under excitation near the fundamental absorption but also in result of electron recombination with localized holes thermally destroyed above 230 K.

Primer sets for cloning the human repertoire of T cell Receptor Variable regions

PubMed Central

Boria, Ilenia; Cotella, Diego; Dianzani, Irma; Santoro, Claudio; Sblattero, Daniele

2008-01-01

Background Amplification and cloning of naïve T cell Receptor (TR) repertoires or antigen-specific TR is crucial to shape immune response and to develop immuno-based therapies. TR variable (V) regions are encoded by several genes that recombine during T cell development. The cloning of expressed genes as large diverse libraries from natural sources relies upon the availability of primers able to amplify as many V genes as possible. Results Here, we present a list of primers computationally designed on all functional TR V and J genes listed in the IMGT®, the ImMunoGeneTics information system®. The list consists of unambiguous or degenerate primers suitable to theoretically amplify and clone the entire TR repertoire. We show that it is possible to selectively amplify and clone expressed TR V genes in one single RT-PCR step and from as little as 1000 cells. Conclusion This new primer set will facilitate the creation of more diverse TR libraries than has been possible using currently available primer sets. PMID:18759974

Origin of threshold voltage fluctuation caused by ion implantation to source and drain extensions of silicon-on-insulator triple-gate fin-type field-effect transistors using three-dimensional process and device simulations

NASA Astrophysics Data System (ADS)

Tsutsumi, Toshiyuki

2018-06-01

The threshold voltage (V th) fluctuation induced by ion implantation (I/I) in the source and drain extensions (SDEs) of a silicon-on-insulator (SOI) triple-gate (Tri-Gate) fin-type field-effect transistor (FinFET) was analyzed by both three-dimensional (3D) process and device simulations collaboratively. The origin of the V th fluctuation induced by the SDE I/I is basically a variation of a bottleneck barrier height (BBH) due to implanted arsenic (As+) ions. In particular, a very low and broad V th distribution in the saturation region is due to percolative conduction in addition to the BBH variation. Moreover, it is surprisingly found that the V th fluctuation is mostly characterized by the BBH of only a top surface center line of a Si fin of the device. Our collaborative approach by 3D process and device simulations is dispensable for the accurate investigation of variability-tolerant devices. The obtained results are beneficial for the research and development of such future devices.

Amino acid similarities and divergences in the small surface proteins of genotype C hepatitis B viruses between nucleos(t)ide analogue-naïve and lamivudine-treated patients with chronic hepatitis B.

PubMed

Ding, Hai; Liu, Baoming; Zhao, Chengyu; Yang, Jingxian; Yan, Chunhui; Yan, Ling; Zhuang, Hui; Li, Tong

2014-02-01

Entire C-genotype small hepatitis B surface (SHBs) sequences were isolated from 139 nucleos(t)ide analogues (NA)-naïve and 74 lamivudine (LMV)-treated chronic hepatitis B (CHB) patients. The conservation and variability of total 226 amino acids (AAs) within the sequences were determined individually, revealing significant higher mutant isolate rate and mutation frequency in LMV-treated cohort than those in the NA-naïve one (P=0.009 and 0.0001, respectively). Three absolutely conserved fragments (s16-s19, s176-s181 and s185-s188) and seven moderately conserved regions (a few AA sites acquiring increased variability after LMV-treatment) were identified. The significant mutation rate increase after LMV-treatment occurred primarily in major hydrophilic region (except 'a' determinant) and transmembrane domain 3/4, but not in other upstream functional regions of SHBs. With little influence on immune escape-associated mutation frequencies within 'a' determinant, LMV-monotherapy significantly induced classical LMVr-associated mirror changes sE164D/rtV173L, sI195M/rtM204V and sW196L/S/rtM204I, as well as non-classical ones sG44E/rtS53N, sT47K/A/rtH55R/Q and sW182stop/rtV191I outside 'a' determinant. Interestingly, another newly-identified truncation mutation sC69stop/rtS78T decreased from 7.91% (11/139) in NA-naïve cohort to 2.70% (2/74) in LMV-treated one. Altogether, the altered AA conservation and diversity in SHBs sequences after LMV-treatment in genotype-C HBV infection might shed new insights into how LMV-therapy affects the SHBs variant evolution and its antigenicity. Copyright © 2013 Elsevier B.V. All rights reserved.

Discovery of localized TeV gamma-ray sources and diffuse TeV gamma-ray emission from the galactic plane with Milagro using a new background rejection technique

NASA Astrophysics Data System (ADS)

Abdo, Aws Ahmad

2007-08-01

Very high energy gamma-rays can be used to probe some of the most powerful astrophysical objects in the universe, such as active galactic nuclei, supernova remnants and pulsar-powered nebulae. The diffuse gamma radiation arising from the interaction of cosmic-ray particles with matter and radiation in the Galaxy is one of the few probes available to study the origin of cosmic- rays. Milagro is a water Cherenkov detector that continuously views the entire overhead sky. The large field-of-view combined with the long observation time makes Milagro the most sensitive instrument available for the study of large, low surface brightness sources such as the diffuse gamma radiation arising from interactions of cosmic radiation with interstellar matter. In this thesis I present a new background rejection technique for the Milagro detector through the development of a new gamma hadron separation variable. The Abdo variable, A 4 , coupled with the weighting analysis technique significantly improves the sensitivity of the Milagro detector. This new analysis technique resulted in the first discoveries in Milagro. Four localized sources of TeV gamma-ray emission have been discovered, three of which are in the Cygnus region of the Galaxy and one closer to the Galactic center. In addition to these localized sources, a diffuse emission of TeV gamma-rays has been discovered from the Cygnus region of the Galaxy as well. However, the TeV gamma-ray flux as measured at ~12 TeV from the Cygnus region exceeds that predicted from a conventional model of cosmic-ray production and propagation. This observation indicates the existence of either hard-spectrum cosmic-ray sources and/or other sources of TeV gamma rays in the region. Other TeV gamma-ray source candidates with post-trial statistical significances of > 4s have also been observed in the Galactic plane.

Analysis of new isolates reveals new genome organization and a hypervariable region in infectious myonecrosis virus (IMNV).

PubMed

Dantas, Márcia Danielle A; Chavante, Suely F; Teixeira, Dárlio Inácio A; Lima, João Paulo M S; Lanza, Daniel C F

2015-05-04

Infectious myonecrosis virus (IMNV) has been the cause of many losses in shrimp farming since 2002, when the first myonecrosis outbreak was reported at Brazilian's northeast coast. Two additional genomes of Brazilian IMNV isolates collected in 2009 and 2013 were sequenced and analyzed in the present study. The sequencing revealed extra 643 bp and 22 bp, at 5' and 3' ends of IMNV genome respectively, confirming that its actual size is at least 8226 bp long. Considering these additional sequences in genome extremities, ORF1 can starts at nt 470, encoding a 1708 aa polyprotein. Computational predictions reveal two stem loops and two pseudoknots in the 5' end and a putative stem loop and a slippery motif located at 3' end, indicating that these regions can be involved in the start and termination of translation. Through a careful phylogenetic analysis, a higher genetic variability among Brazilian isolates could be observed, comparing with Indonesian IMNV isolates. It was also observed that the most variable region of IMNV genome is located in the first half of ORF1, coinciding with a region which probably encodes the capsid protrusions. The results presented here are a starting point to elucidate the viral's translational regulation and the mechanisms involved in virulence. Copyright © 2015 Elsevier B.V. All rights reserved.

Structural and affinity studies of IgM polyreactive natural autoantibodies.

PubMed

Diaw, L; Magnac, C; Pritsch, O; Buckle, M; Alzari, P M; Dighiero, G

1997-01-15

Natural polyreactive autoantibodies (NAA) are an important component of the normal B cell repertoire. One intriguing characteristic of these Abs is their binding to various dissimilar Ags. It has been generally assumed that these Abs bind the Ags with low affinity, and are encoded by germline genes. We have used surface plasmon resonance to determine binding of avidities, and conducted a structural analysis of five murine monoclonal natural autoantibodies displaying a typical polyreactive binding pattern against cytoskeleton Ags and DNA. We show that 1) all the five Abs bind the different Ags with kinetic constants similar to those observed for immune Abs; 2) they express a restricted set of V(H) and V(L) genes, since the same V(H) gene is expressed by three out of the five, and one particular Vkappa gene was expressed twice. In addition, a single D gene segment was used by three of the five Abs; and 3) they express, in most cases, genes in a close germline configuration. Our amino acid sequence and modeling studies show that the distribution of exposed side chains in the NAA paratopes is close to the general pattern observed in the complementarity-determining regions (CDRs) of variable domains from immune Abs. Although CDR3 regions of the heavy chain have been postulated to play a major role in determining polyreactivity on the basis of recombinatorial experiments, our results failed to show any distinctive particularity of this region in terms of length or charge when compared with classical immune Abs.

Antigenic and 3D structural characterization of soluble X4 and hybrid X4-R5 HIV-1 Env trimers

PubMed Central

2014-01-01

Background HIV-1 is decorated with trimeric glycoprotein spikes that enable infection by engaging CD4 and a chemokine coreceptor, either CCR5 or CXCR4. The variable loop 3 (V3) of the HIV-1 envelope protein (Env) is the main determinant for coreceptor usage. The predominant CCR5 using (R5) HIV-1 Env has been intensively studied in function and structure, whereas the trimeric architecture of the less frequent, but more cytopathic CXCR4 using (X4) HIV-1 Env is largely unknown, as are the consequences of sequence changes in and near V3 on antigenicity and trimeric Env structure. Results Soluble trimeric gp140 Env constructs were used as immunogenic mimics of the native spikes to analyze their antigenic properties in the context of their overall 3D structure. We generated soluble, uncleaved, gp140 trimers from a prototypic T-cell line-adapted (TCLA) X4 HIV-1 strain (NL4-3) and a hybrid (NL4-3/ADA), in which the V3 spanning region was substituted with that from the primary R5 isolate ADA. Compared to an ADA (R5) gp140, the NL4-3 (X4) construct revealed an overall higher antibody accessibility, which was most pronounced for the CD4 binding site (CD4bs), but also observed for mAbs against CD4 induced (CD4i) epitopes and gp41 mAbs. V3 mAbs showed significant binding differences to the three constructs, which were refined by SPR analysis. Of interest, the NL4-3/ADA construct with the hybrid NL4-3/ADA CD4bs showed impaired CD4 and CD4bs mAb reactivity despite the presence of the essential elements of the CD4bs epitope. We obtained 3D reconstructions of the NL4-3 and the NL4-3/ADA gp140 trimers via electron microscopy and single particle analysis, which indicates that both constructs inherit a propeller-like architecture. The first 3D reconstruction of an Env construct from an X4 TCLA HIV-1 strain reveals an open conformation, in contrast to recently published more closed structures from R5 Env. Exchanging the X4 V3 spanning region for that of R5 ADA did not alter the open Env architecture as deduced from its very similar 3D reconstruction. Conclusions 3D EM analysis showed an apparent open trimer configuration of X4 NL4-3 gp140 that is not modified by exchanging the V3 spanning region for R5 ADA. PMID:24884925

An Extremely Luminous and Variable Ultraluminous X-Ray Source in the Outskirts of Circinus Observed with NuSTAR

NASA Astrophysics Data System (ADS)

Walton, D. J.; Fuerst, F.; Harrison, F.; Stern, D.; Bachetti, M.; Barret, D.; Bauer, F.; Boggs, S. E.; Christensen, F. E.; Craig, W. W.; Fabian, A. C.; Grefenstette, B. W.; Hailey, C. J.; Madsen, K. K.; Miller, J. M.; Ptak, A.; Rana, V.; Webb, N. A.; Zhang, W. W.

2013-12-01

Following a serendipitous detection with the Nuclear Spectroscopic Telescope Array (NuSTAR), we present a multi-epoch spectral and temporal analysis of an extreme ultraluminous X-ray source (ULX) located in the outskirts of the Circinus galaxy, hereafter Circinus ULX5, including coordinated XMM-Newton+NuSTAR follow-up observations. The NuSTAR data presented here represent one of the first instances of a ULX reliably detected at hard (E > 10 keV) X-rays. Circinus ULX5 is variable on long time scales by at least a factor of ~5 in flux, and was caught in a historically bright state during our 2013 observations (0.3-30.0 keV luminosity of 1.6 × 1040 erg s-1). During this epoch, the source displayed a curved 3-10 keV spectrum, broadly similar to other bright ULXs. Although pure thermal models result in a high energy excess in the NuSTAR data, this excess is too weak to be modeled with the disk reflection interpretation previously proposed to explain the 3-10 keV curvature in other ULXs. In addition to flux variability, clear spectral variability is also observed. While in many cases the interpretation of spectral components in ULXs is uncertain, the spectral and temporal properties of all the high quality data sets currently available strongly support a simple disk-corona model reminiscent of that invoked for Galactic binaries, with the accretion disk becoming more prominent as the luminosity increases. However, although the disk temperature and luminosity are well correlated across all time scales currently probed, the observed luminosity follows LvpropT 1.70 ± 0.17, flatter than expected for simple blackbody radiation. The spectral variability displayed here is highly reminiscent of that observed from known Galactic black hole binaries (BHBs) at high luminosities. This comparison implies a black hole mass of ~90 M ⊙ for Circinus ULX5. However, given the diverse behavior observed from Galactic BHB accretion disks, this mass estimate is still uncertain. Finally, the limits placed on any undetected iron absorption features with the 2013 data set imply that we are not viewing the central regions of Circinus ULX5 through any extreme super-Eddington outflow.

An Extremely Luminous and Variable Ultraluminous X-ray Source in the Outskirts of Circinus Observed with Nustar

NASA Technical Reports Server (NTRS)

Walton, D. J.; Fuerst, F.; Harrison, F.; Stern, D.; Bachetti, M.; Barret, D.; Bauer, F.; Boggs, S. E.; Christensen, F. E.; Craig, W. W.;

Amino acid and structural variability of Yersinia pestis LcrV protein

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anisimov, A P; Dentovskaya, S V; Panfertsev, E A

2009-11-09

The LcrV protein is a multifunctional virulence factor and protective antigen of the plague bacterium which is generally conserved between the epidemic strains of Yersinia pestis. They investigated the diversity in the LcrV sequences among non-epidemic Y. pestis strains which have a limited virulence in selected animal models and for humans. Sequencing of lcrV genes from ten Y. pestis strains belonging to different phylogenetic groups (subspecies) showed that the LcrV proteins possess four major variable hotspots at positions 18, 72, 273, and 324-326. These major variations, together with other minor substitutions in amino acid sequences, allowed them to classify themore » LcrV alleles into five sequence types (A-E). They observed that the strains of different Y. pestis subspecies can have the same typ of LcrV, and different types of LcrV can exist within the same natural plague focus. The LcrV polymorphisms were structurally analyzed by comparing the modeled structures of LcrV from all available strains. All changes except one occurred either in flexible regions or on the surface of the protein, but local chemical properties (i.e. those of a hydrophobic, hydrophilic, amphipathic, or charged nature) were conserved across all of the strains. Polymorphisms in flexible and surface regions are likely subject to less selective pressure, and have a limited impact on the structure. In contrast, the substitution of tryptophan at position 113 with either glutamic acid or glycine likely has a serious influence on the regional structure of the protein, and these mutations might have an effect on the function of LcrV. The polymorphisms at positions 18, 72 and 273 were accountable for differences in oligomerization of LcrV. The importance of the latter property in emergence of epidemic strains of Y. pestis during evolution of this pathogen will need to be further investigated.« less

Regional variations in ambulatory care and incidence of cardiovascular events

PubMed Central

Tu, Jack V.; Chu, Anna; Maclagan, Laura; Austin, Peter C.; Johnston, Sharon; Ko, Dennis T.; Cheung, Ingrid; Atzema, Clare L.; Booth, Gillian L.; Bhatia, R. Sacha; Lee, Douglas S.; Jackevicius, Cynthia A.; Kapral, Moira K.; Tu, Karen; Wijeysundera, Harindra C.; Alter, David A.; Udell, Jacob A.; Manuel, Douglas G.; Mondal, Prosanta; Hogg, William

2017-01-01

BACKGROUND: Variations in the prevalence of traditional cardiac risk factors only partially account for geographic variations in the incidence of cardiovascular disease. We examined the extent to which preventive ambulatory health care services contribute to geographic variations in cardiovascular event rates. METHODS: We conducted a cohort study involving 5.5 million patients aged 40 to 79 years in Ontario, Canada, with no hospital stays for cardiovascular disease as of January 2008, through linkage of multiple population-based health databases. The primary outcome was the occurrence of a major cardiovascular event (myocardial infarction, stroke or cardiovascular-related death) over the following 5 years. We compared patient demographics, cardiac risk factors and ambulatory health care services across the province’s 14 health service regions, known as Local Health Integration Networks (LHINs), and evaluated the contribution of these variables to regional variations in cardiovascular event rates. RESULTS: Cardiovascular event rates across LHINs varied from 3.2 to 5.7 events per 1000 person-years. Compared with residents of high-rate LHINs, those of low-rate health regions received physician services more often (e.g., 4.2 v. 3.5 mean annual family physician visits, p value for LHIN-level trend = 0.01) and were screened for risk factors more often. Low-rate LHINs were also more likely to achieve treatment targets for hypercholes-terolemia (51.8% v. 49.6% of patients, p = 0.03) and controlled hypertension (67.4% v. 53.3%, p = 0.04). Differences in patient and health system factors accounted for 74.5% of the variation in events between LHINs, of which 15.5% was attributable to health system factors alone. INTERPRETATION: Preventive ambulatory health care services were provided more frequently in health regions with lower cardiovascular event rates. Health system interventions to improve equitable access to preventive care might improve cardiovascular outcomes. PMID:28385894

THE NuSTAR Hard X-Ray Survey of the Norma Arm Region

NASA Technical Reports Server (NTRS)

Fornasini, Francesca M.; Tomsick, John A.; Hong, Jaesub; Gotthelf, Eric V.; Bauer, Franz; Rahoui, Farid; Stern, Daniel K.; Bodaghee, Arash; Chiu, Jeng-Lun; Clavel, Maïca;

The NuSTAR Hard X-Ray Survey of the Norma Arm Region

DOE PAGES

Fornasini, Francesca M.; Tomsick, John A.; Hong, JaeSub; ...

2017-04-06

We present a catalog of hard X-ray sources in a square-degree region surveyed by NuSTAR in the direction of the Norma spiral arm. This survey has a total exposure time of 1.7 Ms, and typical and maximum exposure depths of 50 ks and 1 Ms, respectively. In the area of deepest coverage, sensitivity limits of 5 x 10 -14 and 4 x 10-14 erg s -1 cm -2 in the 3–10 and 10–20 keV bands, respectively, are reached. Twenty-eight sources are firmly detected and ten are detected with low significance; eight of the 38 sources are expected to be activemore » galactic nuclei. The three brightest sources were previously identified as a low-mass X-ray binary, high-mass X-ray binary, and pulsar wind nebula. Based on their X-ray properties and multi-wavelength counterparts, we identify the likely nature of the other sources as two colliding wind binaries, three pulsar wind nebulae, a black hole binary, and a plurality of cataclysmic variables (CVs). The CV candidates in the Norma region have plasma temperatures of ≈10–20 keV, consistent with the Galactic Ridge X-ray emission spectrum but lower than temperatures of CVs near the Galactic Center. This temperature difference may indicate that the Norma region has a lower fraction of intermediate polars relative to other types of CVs compared to the Galactic Center. The NuSTAR logN-logS distribution in the 10–20 keV band is consistent with the distribution measured by Chandra at 2–10 keV if the average source spectrum is assumed to be a thermal model with kT ≈ 15 keV, as observed for the CV candidates.« less

Non-variable TeV emission from the extended jet of a blazar in the stochastic acceleration scenario: the case of the hard TeV emission of 1ES 1101-232

NASA Astrophysics Data System (ADS)

Yan, Dahai; Zeng, Houdun; Zhang, Li

2012-08-01

The detections of X-ray emission from the kiloparsec-scale jets of blazars and radio galaxies could imply the existence of high-energy electrons in these extended jets, and these electrons could produce high-energy emission through the inverse Compton (IC) process. In this paper, we study the non-variable hard TeV emission from a blazar. The multiband emission consists of two components: (i) the traditional synchrotron self-Compton (SSC) emission from the inner jet; (ii) the emission produced via SSC and IC scattering of cosmic microwave background (CMB) photons (IC/CMB) and extragalactic background light (EBL) photons by relativistic electrons in the extended jet under the stochastic acceleration scenario. Such a model is applied to 1ES 1101-232. The results indicate the following. (i) The non-variable hard TeV emission of 1ES 1101-232, which is dominated by IC/CMB emission from the extended jet, can be reproduced well by using three characteristic values of the Doppler factor (δD = 5, 10 and 15) for the TeV-emitting region in the extended jet. (ii) In the cases of δD = 15 and 10, the physical parameters can achieve equipartition (or quasi-equipartition) between the relativistic electrons and the magnetic field. In contrast, the physical parameters largely deviate from equipartition for the case of δD = 5. Therefore, we conclude that the TeV emission region of 1ES 1101-232 in the extended jet should be moderately or highly beamed.

[Dialysis dose, nutrition and growth among pediatric patients on peritoneal dialysis].

PubMed

Cano, Francisco; Azócar, Marta; Marín, Verónica; Rodríguez, Eugenio; Delucchi, Angela; Ratner, Rinat; Cavada, Gabriel

2005-12-01

Stunting is common among pediatric patients on peritoneal dialysis. To establish the best profile for urea kinetic variables associated to growth in children on chronic peritoneal dialysis (PD). Twenty patients, aged 1 month to 14 years, 13 males, were followed for 6-12 months, with monthly measurements of weight/age and height/age Z score; plasma creatinine, BUN, protein and albumin and urine and dialysate urea nitrogen, creatinine, protein and albumin. Minimum total Kt/V was 2.1. Dialysis dose (Kt/V), Protein Equivalent of Urea Nitrogen Appearance (PNA), Protein Catabolic Rate (PCR) and Nitrogen Balance (NB) were calculated. To identify the variable(s) associated to growth, the Tree Classification Model (CART) Enterprise Miner 8.1 was applied. Mean total/residual Kt/V: 3.4+/-1.3/1.69+/-1.27; Daily Protein Intake (DPI) was 3.25+/-1.27 g/kg/day. nPNA, PCR and NB were 1.37+/-0.44, 0.84+/-0.33 and 1.86+/-1.25 g/kg/day, respectively. Mean height/age Z score was -2.3+/-1.19. Eleven patients showed a positive height/age delta Z (mean 0.55+/-0.38) and nine showed a negative growth (mean -0.50+/-0.42). The main variable explaining the positive growth was a Nitrogen Balance between 0.54 and 2.37 g/kg/day, mean 1.55+/-0.21 (p <0.001). The second associated variable to growth was a residual Kt/V between 0.43 and 4.6 (2.02+/-0.49) (p <0.05). Kt/V and nPNA showed a significant correlation, but no correlation could be found between Kt/V and NB. Nitrogen Balance was the main variable associated to growth in pediatric PD, with values between 0.53 to 2.38 g/kg/day. The second variable was a residual Kt/V between 0.43 and 4.6. Therapy should be reassessed with NB values less than 0.54 or above 2.37 g/kg/day.

First analysis of the ν3 +ν5 combination band of SF6 observed at Doppler-limited resolution and effective model for the ν3 +ν5 -ν5 hot band

NASA Astrophysics Data System (ADS)

Faye, M.; Manceron, L.; Roy, P.; Boudon, V.; Loëte, M.

2018-06-01

Sulfur hexafluoride is a greenhouse gas with a long lifetime in the atmosphere and an important tracer for air mass circulation atmospheric models. The IR spectrum of this heavy species, however, features many hot bands at room temperature (at which only 30% of the molecules lie in the ground vibrational state), especially those originating from the lowest, v6 and v5 = 1 vibrational states. Using a cryogenic long path cell with variable optical path length and temperatures regulated between 168 and 163 K, coupled to Synchrotron Radiation and a high resolution interferometer, Doppler-limited spectra of the very weak ν3 +ν5 band near 1450 cm-1 have been recorded. Low temperature was used to limit the presence of hot bands and simplify the rotational structure. The spectrum has been analyzed thanks to the XTDS software package. Combining with the results obtained previously on the weak difference bands in the far infrared region involving the v5 = 1 states, we are thus able to use the tensorial model to propose a spectroscopic parameter set for modelling the strong ν3 +ν5 -ν5 hot band. The model constitutes a coherent set of molecular parameters and enable spectral simulation for atmospheric sounding. Test simulations at different temperatures and in nitrogen broadened conditions are presented and compared with new experimental cross section data for the absorption region relevant for atmospheric quantification.

Bet v 1-specific T-cell receptor/forkhead box protein 3 transgenic T cells suppress Bet v 1-specific T-cell effector function in an activation-dependent manner.

PubMed

Schmetterer, Klaus G; Haiderer, Daniela; Leb-Reichl, Victoria M; Neunkirchner, Alina; Jahn-Schmid, Beatrice; Küng, Hans J; Schuch, Karina; Steinberger, Peter; Bohle, Barbara; Pickl, Winfried F

2011-01-01

Regulatory T (Treg) cells establish and maintain tolerance to self-antigens and many foreign antigens, such as allergens, by suppressing effector T-cell proliferation and function. We have previously shown that human T-cell receptor (TCR) αβ-chains specific for allergen-derived epitopes confer allergen specificity on peripheral blood T cells of individuals with and without allergy. To study the feasibility of generating allergen-specific human Treg cells by retroviral transduction of a transcription unit encoding forkhead box protein 3 (FOXP3) and allergen-specific TCR αβ-chains. cDNAs encoding the α and β-chains of a Bet v 1(142-153)-specific TCR (TCR alpha variable region 6/TCR beta variable region 20) and human FOXP3 were linked via picornaviral 2A sequences and expressed as single translational unit from an internal ribosomal entry site-green fluorescence protein-containing retroviral vector. Retrovirally transduced peripheral blood T cells were tested for expression of transgenes, Treg phenotype, and regulatory capacity toward allergen-specific effector T cells. Transduced T cells displayed a Treg phenotype with clear-cut upregulation of CD25, CD39, and cytotoxic T-lymphocyte antigen 4. The transduced cells were hyporesponsive in cytokine production and secretion and, like naturally occurring Treg cells, did not proliferate after antigen-specific or antigen-mimetic stimulation. However, proliferation was inducible upon exposure to exogenous IL-2. In coculture experiments, TRAV6(+)TRBV20(+)FOXP3(+) transgenic T cells, unlike FOXP3(+) single transgenic T cells or naturally occurring Treg cells, highly significantly suppressed T cell cytokine production and proliferation of corresponding allergen-specific effector T cells in an allergen-specific, dose-dependent manner. We demonstrate a transgenic approach to engineer human allergen-specific Treg cells that exert their regulatory function in an activation-dependent manner. Customized Treg cells might become useful for tolerance induction therapies in individuals with allergic and other immune-mediated diseases. Copyright © 2010 American Academy of Allergy, Asthma & Immunology. Published by Mosby, Inc. All rights reserved.

Exploring high-affinity binding properties of octamer peptides by principal component analysis of tetramer peptides.

PubMed

Kume, Akiko; Kawai, Shun; Kato, Ryuji; Iwata, Shinmei; Shimizu, Kazunori; Honda, Hiroyuki

2017-02-01

To investigate the binding properties of a peptide sequence, we conducted principal component analysis (PCA) of the physicochemical features of a tetramer peptide library comprised of 512 peptides, and the variables were reduced to two principal components. We selected IL-2 and IgG as model proteins and the binding affinity to these proteins was assayed using the 512 peptides mentioned above. PCA of binding affinity data showed that 16 and 18 variables were suitable for localizing IL-2 and IgG high-affinity binding peptides, respectively, into a restricted region of the PCA plot. We then investigated whether the binding affinity of octamer peptide libraries could be predicted using the identified region in the tetramer PCA. The results show that octamer high-affinity binding peptides were also concentrated in the tetramer high-affinity binding region of both IL-2 and IgG. The average fluorescence intensity of high-affinity binding peptides was 3.3- and 2.1-fold higher than that of low-affinity binding peptides for IL-2 and IgG, respectively. We conclude that PCA may be used to identify octamer peptides with high- or low-affinity binding properties from data from a tetramer peptide library. Copyright © 2016 The Society for Biotechnology, Japan. Published by Elsevier B.V. All rights reserved.

Evaluation of different primers for PCR-DGGE analysis of cheese-associated enterococci.

PubMed

Lorbeg, Petra Mohar; Majhenic, Andreja Canzek; Rogelj, Irena

2009-08-01

Enterococci represent an important part of bacterial microbiota in different types of artisanal cheeses, made from either raw or pasteurized milk. Polymerase chain reaction denaturing gradient gel electrophoresis (PCR-DGGE) of ribosomal DNA is currently one of the most frequently used fingerprinting method to study diversity and dynamics of microbial communities and also a tool for microbial identification. Among several primer pairs for DGGE analysis published so far, six primer pairs amplifying different variable regions of 16S rDNA were selected and applied in our DGGE analysis of 12 species belonging to genus Enterococcus and eight other bacterial species often found in cheeses (seven lactobacilli and one Lactoccocus lactis). When DGGE procedures were optimized, the same set of primers was used for DGGE analysis of five cheese samples. Our study demonstrates that the use of different primer pairs generate significant differences in DGGE analysis of enterococcal population, consequently, appropriate primers regarding the purpose of analysis can be selected. For differentiation and identification of pure enterococcal isolates, primer pair P1V1/P2V1 showed the most promising results since all 12 enterococcal isolates gave distinctive DGGE fingerprints, but with multiple bands patterns; therefore, these primers do not seem to be appropriate for identification of enterococcal species in mixed cultures. Use of primer pairs HDA1/HDA2 and V3f/V3r amplifying V3 region showed better potential for detection and identification of enterococci in mixed communities, but since some bacterial species showed the same fingerprint, for clear identification combination of DGGE and some other method (e.g. species specific PCR) or combined DGGE analysis using two primer pairs generating distinctive results should be used.

Spectroscopic and photometric study of the eclipsing interacting binary V495 Centauri

NASA Astrophysics Data System (ADS)

Rosales Guzmán, J. A.; Mennickent, R. E.; Djurašević, G.; Araya, I.; Curé, M.

2018-05-01

Double Periodic Variables (DPV) are among the new enigmas of semidetached eclipsing binaries. These are intermediate-mass binaries characterized by a long photometric period lasting on average 33 times the orbital period. We present a spectroscopic and photometric study of the DPV V495 Cen based on new high-resolution spectra and the ASAS V-band light curve. We have determined an improved orbital period of 33.492 ± 0.002 d and a long period of 1283 d. We find a cool evolved star of M2=0.91± 0.2 M_{⊙}, T2 = 6000 ± 250 K and R2=19.3 ± 0.5 R_{⊙} and a hot companion of M1= 5.76± 0.3 M_{⊙}, T1 = 16960 ± 400 K and R=4.5± 0.2 R_{⊙}. The mid-type B dwarf is surrounded by a concave and geometrically thick disc, of radial extension Rd= 40.2± 1.3 R_{⊙} contributing ˜11 per cent to the total luminosity of the system at the V band. The system is seen under inclination 84.8° ± 0.6° and it is at a distance d = 2092 ± 104.6 pc. The light-curve analysis suggests that the mass transfer stream impacts the external edge of the disc forming a hot region 11 per cent hotter than the surrounding disc material. The persistent V < R asymmetry of the Hα emission suggests the presence of a wind and the detection of a secondary absorption component in He I lines indicates a possible wind origin in the hotspot region.

Sequence diversity among badnavirus isolates infecting black pepper and related species in India.

PubMed

Bhat, A I; Sasi, Shina; Revathy, K A; Deeshma, K P; Saji, K V

2014-01-01

The badnavirus, piper yellow mottle virus (PYMoV) is known to infect black pepper (Piper nigrum), betelvine (P. betle) and Indian long pepper (P. longum) in India and other parts of the world. Occurrence of PYMoV or other badnaviruses in other species of Piper and its variability is not reported so far. We have analysed sequence variability in the conserved putative reverse transcriptase (RT)/ribonuclease H (RNase H) coding region of the virus using specific badnavirus primers from 13 virus isolates of black pepper collected from different cultivars and regions and one isolate each from 23 other species of Piper. Of these, four species failed to produce expected amplicon while amplicon from four other species showed more similarities to plant sequences than to badnaviruses. Of the remaining, isolates from black pepper, P. argyrophyllum, P. attenuatum, P. barberi, P. betle, P. colubrinum, P. galeatum, P. longum, P. ornatum, P. sarmentosum and P. trichostachyon showed an identity of >85 % at the nucleotide and >90 % at the amino acid level with PYMoV indicating that they are isolates of PYMoV. On the other hand high sequence variability of 21-43 % at nucleotide and 17-46 % at amino acid level compared to PYMoV was found among isolates infecting P. bababudani, P. chaba, P. peepuloides, P. mullesua and P. thomsonii suggesting the presence of new badnaviruses. Phylogenetic analyses showed close clustering of all PYMoV isolates that were well separated from other known badnaviruses. This is the first report of occurrence of PYMoV in eight Piper spp and likely occurrence of four new species in five Piper spp.

New Global Calculation of Nuclear Masses and Fission Barriers for Astrophysical Applications

NASA Astrophysics Data System (ADS)

Möller, P.; Sierk, A. J.; Bengtsson, R.; Ichikawa, T.; Iwamoto, A.

2008-05-01

The FRDM(1992) mass model [1] has an accuracy of 0.669 MeV in the region where its parameters were determined. For the 529 masses that have been measured since, its accuracy is 0.46 MeV, which is encouraging for applications far from stability in astrophysics. We are developing an improved mass model, the FRDM(2008). The improvements in the calculations with respect to the FRDM(1992) are in two main areas. (1) The macroscopic model parameters are better optimized. By simulation (adjusting to a limited set of now known nuclei) we can show that this actually makes the results more reliable in new regions of nuclei. (2) The ground-state deformation parameters are more accurately calculated. We minimize the energy in a four-dimensional deformation space (ɛ2, V3, V4, V6,) using a grid interval of 0.01 in all 4 deformation variables. The (non-finalized) FRDM (2008-a) has an accuracy of 0.596 MeV with respect to the 2003 Audi mass evaluation before triaxial shape degrees of freedom are included (in progress). When triaxiality effects are incorporated preliminary results indicate that the model accuracy will improve further, to about 0.586 MeV. We also discuss very large-scale fission-barrier calculations in the related FRLDM (2002) model, which has been shown to reproduce very satisfactorily known fission properties, for example barrier heights from 70Se to the heaviest elements, multiple fission modes in the Ra region, asymmetry of mass division in fission and the triple-humped structure found in light actinides. In the superheavy region we find barriers consistent with the observed half-lives. We have completed production calculations and obtain barrier heights for 5254 nuclei heavier than A = 170 for all nuclei between the proton and neutron drip lines. The energy is calculated for 5009325 different shapes for each nucleus and the optimum barrier between ground state and separated fragments is determined by use of an ``immersion'' technique.

Dosimetric impact of contouring and image registration variability on dynamic 125I prostate brachytherapy.

PubMed

Westendorp, Hendrik; Surmann, Kathrin; van de Pol, Sandrine M G; Hoekstra, Carel J; Kattevilder, Robert A J; Nuver, Tonnis T; Moerland, Marinus A; Slump, Cornelis H; Minken, André W

The quality of permanent prostate brachytherapy can be increased by addition of imaging modalities in the intraoperative procedure. This addition involves image registration, which inherently has inter- and intraobserver variabilities. We sought to quantify the inter- and intraobserver variabilities in geometry and dosimetry for contouring and image registration and analyze the results for our dynamic 125 I brachytherapy procedure. Five observers contoured 11 transrectal ultrasound (TRUS) data sets three times and 11 CT data sets one time. The observers registered 11 TRUS and MRI data sets to cone beam CT (CBCT) using fiducial gold markers. Geometrical and dosimetrical inter- and intraobserver variabilities were assessed. For the contouring study, structures were subdivided into three parts along the craniocaudal axis. We analyzed 165 observations. Interobserver geometrical variability for prostate was 1.1 mm, resulting in a dosimetric variability of 1.6% for V 100 and 9.3% for D 90 . The geometric intraobserver variability was 0.6 mm with a V 100 of 0.7% and D 90 of 1.1%. TRUS-CBCT registration showed an interobserver variability in V 100 of 2.0% and D 90 of 3.1%. Intraobserver variabilities were 0.9% and 1.6%, respectively. For MRI-CBCT registration, V 100 and D 90 were 1.3% and 2.1%. Intraobserver variabilities were 0.7% and 1.1% for the same. Prostate dosimetry is affected by interobserver contouring and registration variability. The observed variability is smaller than underdosages that are adapted during our dynamic brachytherapy procedure. Copyright © 2017 American Brachytherapy Society. Published by Elsevier Inc. All rights reserved.

THE O- AND B-TYPE STELLAR POPULATION IN W3: BEYOND THE HIGH-DENSITY LAYER

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kiminki, Megan M.; Kim, Jinyoung Serena; Bagley, Micaela B.

2015-11-01

We present the first results from our survey of the star-forming complex W3, combining VRI photometry with multiobject spectroscopy to identify and characterize the high-mass stellar population across the region. With 79 new spectral classifications, we bring the total number of spectroscopically confirmed O- and B-type stars in W3 to 105. We find that the high-mass slope of the mass function in W3 is consistent with a Salpeter IMF, and that the extinction toward the region is best characterized by an R{sub V} of approximately 3.6. B-type stars are found to be more widely dispersed across the W3 giant molecularmore » cloud (GMC) than previously realized: they are not confined to the high-density layer (HDL) created by the expansion of the neighboring W4 H ii region into the GMC. This broader B-type population suggests that star formation in W3 began spontaneously up to 8–10 Myr ago, although at a lower level than the more recent star formation episodes in the HDL. In addition, we describe a method of optimizing sky subtraction for fiber spectra in regions of strong and spatially variable nebular emission.« less

An accurate and efficient experimental approach for characterization of the complex oral microbiota.

PubMed

Zheng, Wei; Tsompana, Maria; Ruscitto, Angela; Sharma, Ashu; Genco, Robert; Sun, Yijun; Buck, Michael J

2015-10-05

Currently, taxonomic interrogation of microbiota is based on amplification of 16S rRNA gene sequences in clinical and scientific settings. Accurate evaluation of the microbiota depends heavily on the primers used, and genus/species resolution bias can arise with amplification of non-representative genomic regions. The latest Illumina MiSeq sequencing chemistry has extended the read length to 300 bp, enabling deep profiling of large number of samples in a single paired-end reaction at a fraction of the cost. An increasingly large number of researchers have adopted this technology for various microbiome studies targeting the 16S rRNA V3-V4 hypervariable region. To expand the applicability of this powerful platform for further descriptive and functional microbiome studies, we standardized and tested an efficient, reliable, and straightforward workflow for the amplification, library construction, and sequencing of the 16S V1-V3 hypervariable region using the new 2 × 300 MiSeq platform. Our analysis involved 11 subgingival plaque samples from diabetic and non-diabetic human subjects suffering from periodontitis. The efficiency and reliability of our experimental protocol was compared to 16S V3-V4 sequencing data from the same samples. Comparisons were based on measures of observed taxonomic richness and species evenness, along with Procrustes analyses using beta(β)-diversity distance metrics. As an experimental control, we also analyzed a total of eight technical replicates for the V1-V3 and V3-V4 regions from a synthetic community with known bacterial species operon counts. We show that our experimental protocol accurately measures true bacterial community composition. Procrustes analyses based on unweighted UniFrac β-diversity metrics depicted significant correlation between oral bacterial composition for the V1-V3 and V3-V4 regions. However, measures of phylotype richness were higher for the V1-V3 region, suggesting that V1-V3 offers a deeper assessment of population diversity and community ecology for the complex oral microbiota. This study provides researchers with valuable experimental evidence for the selection of appropriate 16S amplicons for future human oral microbiome studies. We expect that the tested 16S V1-V3 framework will be widely applicable to other types of microbiota, allowing robust, time-efficient, and inexpensive examination of thousands of samples for population, phylogenetic, and functional crossectional and longitutidal studies.

Crystal structure of a shark single-domain antibody V region in complex with lysozyme.

PubMed

Stanfield, Robyn L; Dooley, Helen; Flajnik, Martin F; Wilson, Ian A

2004-09-17

Cartilaginous fish are the phylogenetically oldest living organisms known to possess components of the vertebrate adaptive immune system. Key to their immune response are heavy-chain, homodimeric immunoglobulins called new antigen receptors (IgNARs), in which the variable (V) domains recognize antigens with only a single immunoglobulin domain, akin to camelid heavy-chain V domains. The 1.45 angstrom resolution crystal structure of the type I IgNAR V domain in complex with hen egg-white lysozyme (HEL) reveals a minimal antigen-binding domain that contains only two of the three conventional complementarity-determining regions but still binds HEL with nanomolar affinity by means of a binding interface comparable in size to conventional antibodies.

Biological characterization of HIV type 1 envelope V3 regions from mothers and infants associated with perinatal transmission.

PubMed

Matala, E; Hahn, T; Yedavalli, V R; Ahmad, N

2001-12-10

Our previous study has shown that the human immunodeficiency virus type 1 (HIV-1) envelope V3 region minor genotypes of infected mothers were transmitted to their infants and predominated initially as a homogeneous virus population in the infants (Ahmad N, Baroudy BM, Baker RC, et al.: J Virol 1995;69:1001-1012). Here we have characterized the biological properties, including cellular tropism, replication efficiency, cytopathic effects, and coreceptor utilization, of these V3 region isolates from mothers and infants. Nineteen V3 region sequences from three mother-infant pairs, including the minor variants of mothers and the major variants of infants as characterized in our previous study, were reciprocally inserted into an HIV-1 infectious molecular clone, pNL4-3, and chimeric viruses were generated by DNA transfections into HeLa cells. Equal amounts of chimeric viruses were then used to infect T lymphocyte cell lines (A3.01 and MT-2), primary blood lymphocytes (PBLs), primary monocyte-derived macrophages (MDMs), and coreceptor cell lines. We found that the V3 region chimeras failed to replicate in T lymphocyte cell lines but replicated in MDMs and PBLs, albeit at reduced levels compared with R5 laboratory HIV-1 strains. In addition, the V3 region chimeras were able to infect the HOS-CD4(+)CCR5(+) cell line, suggesting CCR5 coreceptor utilization. Moreover, the V3 region chimeras were unable to induce syncytia in MT-2 cells, indicative of non-syncytium-inducing (NSI) phenotypes. In conclusion, the HIV-1 minor genotypes of infected mothers with macrophage-tropic and NSI or R5 phenotypes are transmitted to their infants and are initially maintained with the same properties.

X-ray flux variability of active galactic nuclei observed using NuSTAR

NASA Astrophysics Data System (ADS)

Rani, Priyanka; Stalin, C. S.; Rakshit, Suvendu

2017-04-01

We present results of a systematic study of flux variability on hourly time-scales in a large sample of active galactic nuclei (AGN) in the 3-79 keV band using data from Nuclear Spectroscopic Telescope Array. Our sample consists of four BL Lac objects (BL Lacs), three flat spectrum radio quasars (FSRQs) 24 Seyfert 1, 42 Seyfert 2 and eight narrow line Seyfert 1 (NLSy1) galaxies. We find that in the 3-79 keV band, about 65 per cent of the sources in our sample show significant variations on hourly time-scales. Using the Mann-Whitney U-test and the Kolmogorov-Smirnov test, we find no difference in the variability behaviour between Seyfert 1 and 2 galaxies. The blazar sources (FSRQs and BL Lacs) in our sample are more variable than Seyfert galaxies that include Seyfert 1 and Seyfert 2 in the soft (3-10 keV), hard (10-79 keV) and total (3-79 keV) bands. NLSy1 galaxies show the highest duty cycle of variability (87 per cent), followed by BL Lacs (82 per cent), Seyfert galaxies (56 per cent) and FSRQs (23 per cent). We obtained flux doubling/halving time in the hard X-ray band less than 10 min in 11 sources. The flux variations between the hard and soft bands in all the sources in our sample are consistent with zero lag.

The epidemiology of Norovirus in the Middle East and North Africa (MENA) region: a systematic review.

PubMed

Kreidieh, Khalil; Charide, Rana; Dbaibo, Ghassan; Melhem, Nada M

2017-11-10

Norovirus (NoV) is considered the second leading cause of viral acute gastroenteritis (AGE). To our knowledge, there are no systematic reviews assessing the role of NoV in AGE in the Middle East and North Africa (MENA) region. Consequently, we conducted an extensive systematic literature review on articles studying NoV in the 24 countries of the MENA region during the past 15 years (2000-2015). The methods and reporting were set according to the 2015 PRISMA-P and based on the elements from the international prospective register of systematic reviews (PROSPERO). We retrieved 38 studies meeting our predefined inclusion criteria and were used to extract full data. Studies reporting on NoV were conducted in 15 out of the 24 countries of the region. The reported NoV infection rates in MENA countries ranged between 0.82% and 36.84%. The majority of studies were clinical observational studies assessing NoV rates mainly among children. Participants were recruited from in- and outpatient clinics. NoV infection was reported all year round with with peaks observed mainly during cold months. GII.4 was the predominant genotype detected in stool of participants as reported by 16 out of 25 studies (64%). Overall, there is an increasing recognition of NoV as an important causative agent of AGE across all age groups in the MENA region. Further studies are needed to assess the national and the regional burden of NoV among different age groups, its molecular diversity and seasonal variability.

Balanced Orifice Plate

NASA Technical Reports Server (NTRS)

Kelley, Anthony R. (Inventor); Buskirk, Paul D. (Inventor)

2006-01-01

An orifice plate for use in a conduit through which fluid flows is defined by a central circular region having a radius R, and a ring-shaped region surrounding the central circular region. The ring-shaped region has holes formed therethrough with those holes centered at each radius R thereof satisfying a relationship A(sub R)=al(X(sub R)V(sub R)(sup b)) where A(sub R) is a sum of areas of those holes having centers at radius R, X(sub R) is a flow coefficient at radius R, V(sub R) is a velocity of the fluid that is to flow through the conduit at radius R, b is a constant selected to make at least one process variable (associated with the fluid that is to flow through the conduit) approximately equal at each radius R, and a is a constant that is equal to (X(sub R)A(sub R)V(sub R)(sup b)) at each radius R.

NuSTAR Hard X-Ray Survey of the Galactic Center Region. II. X-Ray Point Sources

NASA Technical Reports Server (NTRS)

Hong, Jaesub; Mori, Kaya; Hailey, Charles J.; Nynka, Melania; Zhang, Shou; Gotthelf, Eric; Fornasini, Francesca M.; Krivonos, Roman; Bauer, Franz; Perez, Kerstin;

Usefulness of myocardial parametric imaging to evaluate myocardial viability in experimental and in clinical studies.

PubMed

Korosoglou, G; Hansen, A; Bekeredjian, R; Filusch, A; Hardt, S; Wolf, D; Schellberg, D; Katus, H A; Kuecherer, H

2006-03-01

To evaluate whether myocardial parametric imaging (MPI) is superior to visual assessment for the evaluation of myocardial viability. Myocardial contrast echocardiography (MCE) was assessed in 11 pigs before, during, and after left anterior descending coronary artery occlusion and in 32 patients with ischaemic heart disease by using intravenous SonoVue administration. In experimental studies perfusion defect area assessment by MPI was compared with visually guided perfusion defect planimetry. Histological assessment of necrotic tissue was the standard reference. In clinical studies viability was assessed on a segmental level by (1) visual analysis of myocardial opacification; (2) quantitative estimation of myocardial blood flow in regions of interest; and (3) MPI. Functional recovery between three and six months after revascularisation was the standard reference. In experimental studies, compared with visually guided perfusion defect planimetry, planimetric assessment of infarct size by MPI correlated more significantly with histology (r2 = 0.92 versus r2 = 0.56) and had a lower intraobserver variability (4% v 15%, p < 0.05). In clinical studies, MPI had higher specificity (66% v 43%, p < 0.05) than visual MCE and good accuracy (81%) for viability detection. It was less time consuming (3.4 (1.6) v 9.2 (2.4) minutes per image, p < 0.05) than quantitative blood flow estimation by regions of interest and increased the agreement between observers interpreting myocardial perfusion (kappa = 0.87 v kappa = 0.75, p < 0.05). MPI is useful for the evaluation of myocardial viability both in animals and in patients. It is less time consuming than quantification analysis by regions of interest and less observer dependent than visual analysis. Thus, strategies incorporating this technique may be valuable for the evaluation of myocardial viability in clinical routine.

MSWEP V2 global 3-hourly 0.1° precipitation: methodology and quantitative appraisal

NASA Astrophysics Data System (ADS)

Beck, H.; Yang, L.; Pan, M.; Wood, E. F.; William, L.

2017-12-01

Here, we present Multi-Source Weighted-Ensemble Precipitation (MSWEP) V2, the first fully global gridded precipitation (P) dataset with a 0.1° spatial resolution. The dataset covers the period 1979-2016, has a 3-hourly temporal resolution, and was derived by optimally merging a wide range of data sources based on gauges (WorldClim, GHCN-D, GSOD, and others), satellites (CMORPH, GridSat, GSMaP, and TMPA 3B42RT), and reanalyses (ERA-Interim, JRA-55, and NCEP-CFSR). MSWEP V2 implements some major improvements over V1, such as (i) the correction of distributional P biases using cumulative distribution function matching, (ii) increasing the spatial resolution from 0.25° to 0.1°, (iii) the inclusion of ocean areas, (iv) the addition of NCEP-CFSR P estimates, (v) the addition of thermal infrared-based P estimates for the pre-TRMM era, (vi) the addition of 0.1° daily interpolated gauge data, (vii) the use of a daily gauge correction scheme that accounts for regional differences in the 24-hour accumulation period of gauges, and (viii) extension of the data record to 2016. The gauge-based assessment of the reanalysis and satellite P datasets, necessary for establishing the merging weights, revealed that the reanalysis datasets strongly overestimate the P frequency for the entire globe, and that the satellite (resp. reanalysis) datasets consistently performed better at low (high) latitudes. Compared to other state-of-the-art P datasets, MSWEP V2 exhibits more plausible global patterns in mean annual P, percentiles, and annual number of dry days, and better resolves the small-scale variability over topographically complex terrain. Other P datasets appear to consistently underestimate P amounts over mountainous regions. Long-term mean P estimates for the global, land, and ocean domains based on MSWEP V2 are 959, 796, and 1026 mm/yr, respectively, in close agreement with the best previous published estimates.

Nucleotide sequence and structural organization of the human vasopressin pituitary receptor (V3) gene.

PubMed

René, P; Lenne, F; Ventura, M A; Bertagna, X; de Keyzer, Y

2000-01-04

In the pituitary, vasopressin triggers ACTH release through a specific receptor subtype, termed V3 or V1b. We cloned the V3 cDNA and showed that its expression was almost exclusive to pituitary corticotrophs and some corticotroph tumors. To study the determinants of this tissue specificity, we have now cloned the gene for the human (h) V3 receptor and characterized its structure. It is composed of two exons, spanning 10kb, with the coding region interrupted between transmembrane domains 6 and 7. We established that the transcription initiation site is located 498 nucleotides upstream of the initiator codon and showed that two polyadenylation sites may be used, while the most frequent is the most downstream. Sequence analysis of the promoter region showed no TATA box but identified consensus binding motifs for Sp1, CREB, and half sites of the estrogen receptor binding site. However comparison with another corticotroph-specific gene, proopiomelanocortin, did not identify common regulatory elements in the two promoters except for a short GC-rich region. Unexpectedly, hV3 gene analysis revealed that a formerly cloned 'artifactual' hV3 cDNA indeed corresponded to a spliced antisense transcript, overlapping the 5' part of the coding sequence in exon 1 and the promoter region. This transcript, hV3rev, was detected in normal pituitary and in many corticotroph tumors expressing hV3 sense mRNA and may therefore play a role in hV3 gene expression.

Regional variation in the biogeochemical and physical characteristics of natural peatland pools.

PubMed

Turner, T Edward; Billett, Michael F; Baird, Andy J; Chapman, Pippa J; Dinsmore, Kerry J; Holden, Joseph

2016-03-01

Natural open-water pools are a common feature of northern peatlands and are known to be an important source of atmospheric methane (CH4). Pool environmental variables, particularly water chemistry, vegetation community and physical characteristics, have the potential to exert strong controls on carbon cycling in pools. A total of 66 peatland pools were studied across three regions of the UK (northern Scotland, south-west Scotland, and Northern Ireland). We found that within-region variability of pool water chemistry was low; however, for many pool variables measured there were significant differences between regions. PCA analysis showed that pools in SW Scotland were strongly associated with greater vegetative cover and shallower water depth which is likely to increase dissolved organic carbon (DOC) mineralisation rates, whereas pools in N Scotland were more open and deeper. Pool water DOC, particulate organic carbon and dissolved CH4 concentrations were significantly different between regions. Pools in Northern Ireland had the highest concentrations of DOC (mean=14.5 mg L(-1)) and CH4 (mean=20.6 μg C L(-1)). Chloride and sulphate concentrations were significantly higher in the pools in N Scotland (mean values 26.3 and 2.40 mg L(-1), respectively) than elsewhere, due to a stronger marine influence. The ratio of UV absorbance at 465 nm to absorbance at 665 nm for pools in Northern Ireland indicated that DOC was sourced from poorly humified peat, potentially increasing the bioavailability and mineralisation of organic carbon in pools compared to the pools elsewhere. This study, which specifically aims to address a lack of basic biogeochemical knowledge about pool water chemistry, clearly shows that peatland pools are highly regionally variable. This is likely to be a reflection of significant regional-scale differences in peatland C cycling. Copyright © 2015 Elsevier B.V. All rights reserved.

Cryptic nature of a conserved, CD4-inducible V3 loop neutralization epitope in the native envelope glycoprotein oligomer of CCR5-restricted, but not CXCR4-using, primary human immunodeficiency virus type 1 strains.

PubMed

Lusso, Paolo; Earl, Patricia L; Sironi, Francesca; Santoro, Fabio; Ripamonti, Chiara; Scarlatti, Gabriella; Longhi, Renato; Berger, Edward A; Burastero, Samuele E

2005-06-01

The external subunit of the human immunodeficiency virus type 1 (HIV-1) envelope glycoprotein (Env), gp120, contains conserved regions that mediate sequential interactions with two cellular receptor molecules, CD4 and a chemokine receptor, most commonly CCR5 or CXCR4. However, antibody accessibility to such regions is hindered by diverse protective mechanisms, including shielding by variable loops, conformational flexibility and extensive glycosylation. For the conserved neutralization epitopes hitherto described, antibody accessibility is reportedly unrelated to the viral coreceptor usage phenotype. Here, we characterize a novel, conserved gp120 neutralization epitope, recognized by a murine monoclonal antibody (MAb), D19, which is differentially accessible in the native HIV-1 Env according to its coreceptor specificity. The D19 epitope is contained within the third variable (V3) domain of gp120 and is distinct from those recognized by other V3-specific MAbs. To study the reactivity of MAb D19 with the native oligomeric Env, we generated a panel of PM1 cells persistently infected with diverse primary HIV-1 strains. The D19 epitope was conserved in the majority (23/29; 79.3%) of the subtype-B strains tested, as well as in selected strains from other genetic subtypes. Strikingly, in CCR5-restricted (R5) isolates, the D19 epitope was invariably cryptic, although it could be exposed by addition of soluble CD4 (sCD4); epitope masking was dependent on the native oligomeric structure of Env, since it was not observed with the corresponding monomeric gp120 molecules. By contrast, in CXCR4-using strains (X4 and R5X4), the epitope was constitutively accessible. In accordance with these results, R5 isolates were resistant to neutralization by MAb D19, becoming sensitive only upon addition of sCD4, whereas CXCR4-using isolates were neutralized regardless of the presence of sCD4. Other V3 epitopes examined did not display a similar divergence in accessibility based on coreceptor usage phenotype. These results provide the first evidence of a correlation between HIV-1 biological phenotype and neutralization sensitivity, raising the possibility that the in vivo evolution of HIV-1 coreceptor usage may be influenced by the selective pressure of specific host antibodies.

Comparative profiling of microbial community of three economically important fishes reared in sea cages under tropical offshore environment.

PubMed

Rasheeda, M K; Rangamaran, Vijaya Raghavan; Srinivasan, Senthilkumar; Ramaiah, Sendhil Kumar; Gunasekaran, Rajaprabhu; Jaypal, Santhanakumar; Gopal, Dharani; Ramalingam, Kirubagaran

2017-08-01

The present study was undertaken to evaluate the microbial composition of farmed cobia pompano and milkfish, reared in sea-cages by culture-independent methods. This study would serve as a basis for assessing the general health of fish, identifying the dominant bacterial species present in the gut for future probiotic work and in early detection of potential pathogens. High-throughput sequencing of V3-V4 hyper variable regions of 16S rDNA on Illumina MiSeq platform facilitated unravelling of composite bacterial population. Analysis of 1.3 million quality-filtered sequences revealed high microbial diversity. Characteristic marine fish gut microbes: Vibrio and Photobacterium spp. showed prevalence in cobia and pompano whereas Pelomonas and Fusobacterium spp. dominated the gut of milkfish. Pompano hindgut with 10,537 operational taxonomy units (OTUs) exhibited the highest alpha-diversity index followed by cobia (10,435) and milkfish (2799). Additionally unique and shared OTUs in each gut type were identified. Gammaproteobacteria dominated in cobia and pompano while Betaproteobacteria showed prevalence in milkfish. We obtained 96 shared OTUs among the three species though the numbers of reads were highly variable. These differences in microbiota of farmed fish reared in same environment were presumably due to differences in the gut morphology, physiological behavior and host specificity. Copyright © 2017 Elsevier B.V. All rights reserved.

Leishmaniasis in the major endemic region of Plurinational State of Bolivia: Species identification, phylogeography and drug susceptibility implications.

PubMed

Bilbao-Ramos, Pablo; Dea-Ayuela, M Auxiliadora; Cardenas-Alegría, Oscar; Salamanca, Efraín; Santalla-Vargas, José Antonio; Benito, Cesar; Flores, Ninoska; Bolás-Fernández, Francisco

2017-12-01

The Plurinational State of Bolivia is one of the Latin American countries with the highest prevalence of leishmaniasis, highlighting the lowlands of the Department of La Paz where about 50% of the total cases were reported. The control of the disease can be seriously compromised by the intrinsic variability of the circulating species that may limit the efficacy of treatment while favoring the emergence of resistance. Fifty-five isolates of Leishmania from cutaneous and mucocutaneous lesions from patients living in different provinces of the Department of La Paz were tested. Molecular characterization of isolates was carried out by 3 classical markers: the rRNA internal transcribed spacer 1 (ITS-1), the heat shock protein 70 (HSP70) and the mitochondrial cytochrome b (Cyt-b). These markers were amplified by PCR and their products digested by the restriction endonuclease enzymes AseI and HaeIII followed by subsequent sequencing of Cyt-b gene and ITS-1 region for subsequent phylogenetic analysis. The combined use of these 3 markers allowed us to assign 36 isolates (65.5%) to the complex Leishmania (Viannia) braziliensis, 4 isolates (7, 27%) to L. (Viannia) lainsoni. and the remaining 15 isolates (23.7%) to a local variant of L. (Leishmania) mexicana. Concerning in vitro drug susceptibility the amastigotes from all isolates where highly sensitive to Fungizone ® (mean IC 50 between 0.23 and 0.5μg/mL) whereas against Glucantime ® the sensitivity was moderate (mean IC 50 ranging from 50.84μg/mL for L. (V.) braziliensis to 18.23μg/mL for L. (L.) mexicana. L. (V.) lainsoni was not sensitive to Glucantime ® . The susceptibility to miltefosine was highly variable among species isolates, being L. (L.) mexicana the most sensitive, followed by L. (V.) braziliensis and L. (V.) lainsoni (mean IC 50 of 8.24μg/mL, 17.85μg/mL and 23.28μg/mL, respectively). Copyright © 2017. Published by Elsevier B.V.

Climate change but not unemployment explains the changing suicidality in Thessaloniki Greece (2000-2012).

PubMed

Fountoulakis, Konstantinos N; Savopoulos, Christos; Zannis, Prodromos; Apostolopoulou, Martha; Fountoukidis, Ilias; Kakaletsis, Nikolaos; Kanellos, Ilias; Dimellis, Dimos; Hyphantis, Thomas; Tsikerdekis, Athanasios; Pompili, Maurizio; Hatzitolios, Apostolos I

2016-03-15

Recently there was a debate concerning the etiology behind attempts and completed suicides. The aim of the current study was to search for possible correlations between the rates of attempted and completed suicide and climate variables and regional unemployment per year in the county of Thessaloniki, Macedonia, northern Greece, for the years 2000-12. The regional rates of suicide and attempted suicide as well as regional unemployment were available from previous publications of the authors. The climate variables were calculated from the daily E-OBS gridded dataset which is based on observational data Only the male suicide rates correlate significantly with high mean annual temperature but not with unemployment. The multiple linear regression analysis results suggest that temperature is the only variable that determines male suicides and explains 51% of their variance. Unemployment fails to contribute significantly to the model. There seems to be a seasonal distribution for attempts with mean rates being higher for the period from May to October and the rates clearly correlate with temperature. The highest mean rates were observed during May and August and the lowest during December and February. Multiple linear regression analysis suggests that temperature also determines the female attempts rate although the explained variable is significant but very low (3-5%) Climate variables and specifically high temperature correlate both with suicide and attempted suicide rates but with a different way between males and females. The climate effect was stronger than the effect of unemployment. Copyright © 2016 Elsevier B.V. All rights reserved.

Sea level anomaly in the North Atlantic and seas around Europe: Long-term variability and response to North Atlantic teleconnection patterns.

PubMed

Iglesias, Isabel; Lorenzo, M Nieves; Lázaro, Clara; Fernandes, M Joana; Bastos, Luísa

2017-12-31

Sea level anomaly (SLA), provided globally by satellite altimetry, is considered a valuable proxy for detecting long-term changes of the global ocean, as well as short-term and annual variations. In this manuscript, monthly sea level anomaly grids for the period 1993-2013 are used to characterise the North Atlantic Ocean variability at inter-annual timescales and its response to the North Atlantic main patterns of atmospheric circulation variability (North Atlantic Oscillation, Eastern Atlantic, Eastern Atlantic/Western Russia, Scandinavian and Polar/Eurasia) and main driven factors as sea level pressure, sea surface temperature and wind fields. SLA variability and long-term trends are analysed for the North Atlantic Ocean and several sub-regions (North, Baltic and Mediterranean and Black seas, Bay of Biscay extended to the west coast of the Iberian Peninsula, and the northern North Atlantic Ocean), depicting the SLA fluctuations at basin and sub-basin scales, aiming at representing the regions of maximum sea level variability. A significant correlation between SLA and the different phases of the teleconnection patterns due to the generated winds, sea level pressure and sea surface temperature anomalies, with a strong variability on temporal and spatial scales, has been identified. Long-term analysis reveals the existence of non-stationary inter-annual SLA fluctuations in terms of the temporal scale. Spectral density analysis has shown the existence of long-period signals in the SLA inter-annual component, with periods of ~10, 5, 4 and 2years, depending on the analysed sub-region. Also, a non-uniform increase in sea level since 1993 is identified for all sub-regions, with trend values between 2.05mm/year, for the Bay of Biscay region, and 3.98mm/year for the Baltic Sea (no GIA correction considered). The obtained results demonstrated a strong link between the atmospheric patterns and SLA, as well as strong long-period fluctuations of this variable in spatial and temporal scales. Copyright © 2017 Elsevier B.V. All rights reserved.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wu, Kailang; Li, Weikai; Peng, Guiqing

NL63 coronavirus (NL63-CoV), a prevalent human respiratory virus, is the only group I coronavirus known to use angiotensin-converting enzyme 2 (ACE2) as its receptor. Incidentally, ACE2 is also used by group II SARS coronavirus (SARS-CoV). We investigated how different groups of coronaviruses recognize the same receptor, whereas homologous group I coronaviruses recognize different receptors. We determined the crystal structure of NL63-CoV spike protein receptor-binding domain (RBD) complexed with human ACE2. NL63-CoV RBD has a novel {beta}-sandwich core structure consisting of 2 layers of {beta}-sheets, presenting 3 discontinuous receptor-binding motifs (RBMs) to bind ACE2. NL63-CoV and SARS-CoV have no structural homologymore » in RBD cores or RBMs; yet the 2 viruses recognize common ACE2 regions, largely because of a 'virus-binding hotspot' on ACE2. Among group I coronaviruses, RBD cores are conserved but RBMs are variable, explaining how these viruses recognize different receptors. These results provide a structural basis for understanding viral evolution and virus-receptor interactions.« less

Temporal and spatial evaluation of satellite rainfall estimates over different regions in Latin-America.

NASA Astrophysics Data System (ADS)

Villanueva, O. M. B.; Zambrano-Bigiarini, M.; Ribbe, L.; Nauditt, A.; Rebolledo Coy, M. A.; Xuan Thinh, N.; Bartz-Beielstein, T.

2017-12-01

In developing countries an accurate representation of the spatio-temporal variability of catchment rainfall inputs is currently severely limited. This issue can be overcame with the use of satellite rainfall estimates (SREs), which provide rainfall data in such environments for a wide range of hydrological applications, such as extreme events analysis and water accounting. Three different basins in Latin-America (Imperial Basin in Chile, Paraiba do Sul in Brazil and Magdalena in Colombia) were evaluated with a point-to-pixel analysis to determine the best SRE for further hydrological modelling. For this purpose, daily values of six state-of-the-art SRE products (TMPA 3B42v7, TMPA 3B42RT, CHIRPSv2, CMORPH, PERSIANN-CDR and MSWEPv1.2) were evaluated at annual and seasonal scales. The modified Kling-Gupta Efficiency (KGE') was used to evaluate the linear correlation, variability and bias relationship between satellite data and observations. Also, two categorical indices (POD and fBias) were used to assess product performance for different rainfall intensities. The results showed that for the southern Imperial River Basin PERSIANN-CDR presented the best performance at the annual scale, while TRMM 3B42v7 and PERSIANN-CDR had the best performance in a seasonal basis. In the Brazilian Paraiba do Sul, MSWEP performed the best in annual and seasonal basis. For the Magdalena Basin, CHIRPS and TRMM 3B42RT presented the highest performance in the seasonal analysis, while CHIRPS showed the best annual performance. When the bias term of the modified KGE' was removed from KGE', it was observed that the best evaluated SRE was not necessarily the one that have the highest linear correlation and variability relation with the observed data. In the categorical indices, all SREs showed a good detection in no-rain events, but low skill classifying days with precipitation. Nevertheless, all SREs performed relatively well identifying moderate rain events in all regions. We finally conclude that there is not a best performing SRE over all, a specific assessment is required to determine which SRE is the most suitable for each region. However, SREs show promising potential to be used for hydrological studies, and they must be taken in to account in order to derive better rainfall estimates.

Cadmium zinc telluride as a mid-infrared variable retarder

NASA Astrophysics Data System (ADS)

FitzGerald, William; Taherion, Saeid; Kumar, F. Joseph; Giles, David; Hore, Dennis

2018-04-01

The electro-optic behavior of cadmium zinc telluride is examined in the mid-infrared region between 3 and 11 μm, for applied DC field strengths of up to 106 V/m. The measurements performed here include full characterization of the polarization state of the transmitted light by means of the Stokes vector. We demonstrate the suitability of this material for DC variable retarder applications such as those achieved by quarter- or half-wave retardation. A comparison of two different metallic coatings for electrodes, gold and indium, reveals important differences in performance that are attributed to the homogeneity of the field through the bulk of the crystal. We illustrate that, in the case of both metals, the same electro-optic coefficients are measured, but regions of higher and lower retardation result in significant depolarization in the case of gold. Such depolarization may adversely affect the contrast ratio in a light valve, or increase the voltage necessary for the operation of an arbitrary polarization state generator.

Study of charged—current ep interactions at Q 2>200 GeV2 with the ZEUS detector at HERA

NASA Astrophysics Data System (ADS)

Derrick, M.; Krakauer, D.; Magill, S.; Mikunas, D.; Musgrave, B.; Okrasinski, J. R.; Repond, J.; Stanek, R.; Talaga, R. L.; Zhang, H.; Mattingly, M. C. K.; Antonioli, P.; Bari, G.; Basile, M.; Bellagamba, L.; Boscherini, D.; Bruni, A.; Bruni, G.; Bruni, P.; Romeo, G. Cara; Castellini, G.; Cifarelli, L.; Cindolo, F.; Contin, A.; Corradi, M.; Gialas, I.; Giusti, P.; Iacobucci, G.; Laurenti, G.; Levi, G.; Margotti, A.; Massam, T.; Nania, R.; Palmonari, F.; Pesci, A.; Polini, A.; Sartorelli, G.; Garcia, Y. Zamora; Zichichi, A.; Amelung, C.; Bornheim, A.; Crittenden, J.; Deffner, R.; Doeker, T.; Eckert, M.; Feld, L.; Frey, A.; Geerts, M.; Grothe, M.; Hartmann, H.; Heinloth, K.; Heinz, L.; Hilger, E.; Jakob, H.-P.; Katz, U. F.; Mengel, S.; Paul, E.; Pfeiffer, M.; Rembser, Ch.; Schramm, D.; Stamm, J.; Wedemeyer, R.; Campbell-Robson, S.; Cassidy, A.; Cottingham, W. N.; Dyce, N.; Foster, B.; George, S.; Hayes, M. E.; Heath, G. P.; Heath, H. F.; Piccioni, D.; Roff, D. G.; Tapper, R. J.; Yoshida, R.; Arneodo, M.; Ayad, R.; Capua, M.; Garfagnini, A.; Iannotti, L.; Schioppa, M.; Susinno, G.; Caldwell, A.; Cartiglia, N.; Jing, Z.; Liu, W.; Parsons, J. A.; Ritz, S.; Sciulli, F.; Straub, P. B.; Wai, L.; Yang, S.; Zhu, Q.; Borzemski, P.; Chwastowski, J.; Eskreys, A.; Jakubowski, Z.; Przybycień, M. B.; Zachara, M.; Zawiejski, L.; Adamczyk, L.; Bednarek, B.; Jeleń, K.; Kisielewska, D.; Kowalski, T.; Przybycień, M.; Rulikowska-Zarębska, E.; Suszycki, L.; Zając, J.; Duliński, Z.; Kotański, A.; Abbiendi, G.; Bauerdick, L. A. T.; Behrens, U.; Beier, H.; Bienlein, J. K.; Cases, G.; Deppe, O.; Desler, K.; Drews, G.; Flasiński, M.; Gilkinson, D. J.; Glasman, C.; Göttlicher, P.; Große-Knetter, J.; Haas, T.; Hain, W.; Hasell, D.; Heßling, H.; Iga, Y.; Johnson, K. F.; Joos, P.; Kasemann, M.; Klanner, R.; Koch, W.; Kötz, U.; Kowalski, H.; Labs, J.; Ladage, A.; Löhr, B.; Löwe, M.; Lüke, D.; Mainusch, J.; Mańczak, O.; Milewski, J.; Monteiro, T.; Ng, J. S. T.; Notz, D.; Ohrenberg, K.; Piotrzkowski, K.; Roco, M.; Rohde, M.; Roldán, J.; Schneekloth, U.; Schulz, W.; Selonke, F.; Surrow, B.; Tassi, E.; Voß, T.; Westphal, D.; Wolf, G.; Wollmer, U.; Youngman, C.; Zeuner, W.; Grabosch, H. J.; Kharchilava, A.; Mari, S. M.; Meyer, A.; Schlenstedt, S.; Wulff, N.; Barbagli, G.; Gallo, E.; Pelfer, P.; Maccarrone, G.; de Pasquale, S.; Votano, L.; Bamberger, A.; Eisenhardt, S.; Trefzger, T.; Wölfle, S.; Bromley, J. T.; Brook, N. H.; Bussey, P. J.; Doyle, A. T.; Saxon, D. H.; Sinclair, L. E.; Utley, M. L.; Wilson, A. S.; Dannemann, A.; Holm, U.; Horstmann, D.; Sinkus, R.; Wick, K.; Burow, B. D.; Hagge, L.; Lohrmann, E.; Poelz, G.; Schott, W.; Zetsche, F.; Bacon, T. C.; Brümmer, N.; Butterworth, I.; Harris, V. L.; Howell, G.; Hung, B. H. Y.; Lamberti, L.; Long, K. R.; Miller, D. B.; Pavel, N.; Prinias, A.; Sedgbeer, J. K.; Sideris, D.; Whitfield, A. F.; Mallik, U.; Wang, M. Z.; Wang, S. M.; Wu, J. T.; Cloth, P.; Filges, D.; An, S. H.; Cho, G. H.; Ko, B. J.; Lee, S. B.; Nam, S. W.; Park, H. S.; Park, S. K.; Kartik, S.; Kim, H.-J.; McNeil, R. R.; Metcalf, W.; Nadendla, V. K.; Barreiro, F.; Fernandez, J. P.; Graciani, R.; Hernández, J. M.; Hervás, L.; Labarga, L.; Martinez, M.; Del Peso, J.; Puga, J.; Terron, J.; de Trocóniz, J. F.; Corriveau, F.; Hanna, D. S.; Hartmann, J.; Hung, L. W.; Lim, J. N.; Matthews, C. G.; Patel, P. M.; Riveline, M.; Stairs, D. G.; St-Laurent, M.; Ullmann, R.; Zacek, G.; Tsurugai, T.; Bashkirov, V.; Dolgoshein, B. A.; Stifutkin, A.; Bashindzhagyan, G. L.; Ermolov, P. F.; Gladilin, L. K.; Golubkov, Yu. A.; Kobrin, V. D.; Korzhavina, I. A.; Kuzmin, V. A.; Lukina, O. Yu.; Proskuryakov, A. S.; Savin, A. A.; Shcheglova, L. M.; Solomin, A. N.; Zotov, N. P.; Botje, M.; Chlebana, F.; Engelen, J.; de Kamps, M.; Kooijman, P.; Kruse, A.; van Sighem, A.; Tiecke, H.; Verkerke, W.; Vossebeld, J.; Vreeswijk, M.; Wiggers, L.; de Wolf, E.; van Woudenberg, R.; Acosta, D.; Bylsma, B.; Durkin, L. S.; Gilmore, J.; Li, C.; Ling, T. Y.; Nylander, P.; Park, I. H.; Romanowski, T. A.; Bailey, D. S.; Cashmore, R. J.; Cooper-Sarkar, A. M.; Devenish, R. C. E.; Harnew, N.; Lancaster, M.; Lindemann, L.; McFall, J. D.; Nath, C.; Noyes, V. A.; Quadt, A.; Tickner, J. R.; Uijterwaal, H.; Walczak, R.; Waters, D. S.; Wilson, F. F.; Yip, T.; Bertolin, A.; Brugnera, R.; Carlin, R.; Dal Corso, F.; de Giorgi, M.; Dosselli, U.; Limentani, S.; Morandin, M.; Posocco, M.; Stanco, L.; Stroili, R.; Voci, C.; Zuin, F.; Bulmahn, J.; Feild, R. G.; Oh, B. Y.; Whitmore, J. J.; D'Agostini, G.; Marini, G.; Nigro, A.; Hart, J. C.; McCubbin, N. A.; Shah, T. P.; Barberis, E.; Dubbs, T.; Heusch, C.; van Hook, M.; Lockman, W.; Rahn, J. T.; Sadrozinski, H. F.-W.; Seiden, A.; Williams, D. C.; Biltzinger, J.; Seifert, R. J.; Schwarzer, O.; Walenta, A. H.; Abramowicz, H.; Briskin, G.; Dagan, S.; Levy, A.; Fleck, J. I.; Inuzuka, M.; Ishii, T.; Kuze, M.; Mine, S.; Nakao, M.; Suzuki, I.; Tokushuku, K.; Umemori, K.; Yamada, S.; Yamazaki, Y.; Chiba, M.; Hamatsu, R.; Hirose, T.; Homma, K.; Kitamura, S.; Matsushita, T.; Yamauchi, K.; Cirio, R.; Costa, M.; Ferrero, M. I.; Maselli, S.; Peroni, C.; Sacchi, R.; Solano, A.; Staiano, A.; Dardo, M.; Bailey, D. C.; Benard, F.; Brkic, M.; Fagerstroem, C.-P.; Hartner, G. F.; Joo, K. K.; Levman, G. M.; Martin, J. F.; Orr, R. S.; Polenz, S.; Sampson, C. R.; Simmons, D.; Teuscher, R. J.; Butterworth, J. M.; Catterall, C. D.; Jones, T. W.; Kaziewicz, P. B.; Lane, J. B.; Saunders, R. L.; Shulman, J.; Sutton, M. R.; Lu, B.; Mo, L. W.; Bogusz, W.; Ciborowski, J.; Gajewski, J.; Grzelak, G.; Kasprzak, M.; Krzyżanowski, M.; Muchorowski, K.; Nowak, R. J.; Pawlak, J. M.; Tymieniecka, T.; Wróblewski, A. K.; Zakrzewski, J. A.; Żarnecki, A. F.; Adamus, M.; Coldewey, C.; Eisenberg, Y.; Hochman, D.; Karshon, U.; Revel, D.; Zer-Zion, D.; Badgett, W. F.; Breitweg, J.; Chapin, D.; Cross, R.; Dasu, S.; Foudas, C.; Loveless, R. J.; Mattingly, S.; Reeder, D. D.; Silverstein, S.; Smith, W. H.; Vaiciulis, A.; Wodarczyk, M.; Bhadra, S.; Cardy, M. L.; Frisken, W. R.; Khakzad, M.; Murray, W. N.; Schmidke, W. B.

1996-12-01

Deep inelastic charged-current reactions have been studied in e + p and e - p collisions at a center of mass energy of about 300GeV in the kinematic region Q 2>200GeV2 and x>0.006 using the ZEUS detector at HERA. The integrated cross sections for Q 2>200GeV2 are found to be σ _{e^ + p to bar ν X} = 30.3_{ - 4.2 - 2.6}^{ + 5.5 + 1.6} pb and σ _{e^ - p to ν X} = 54.7_{ - 9.8 - 3.4}^{ + 15.9 + 2.8} pb . Differential cross sections have been measured as functions of the variables x, y and Q 2. From the measured differential cross sections dσ/dQ 2, the W boson mass is determined to be M_W = 79_{ - 7 - 4}^{ + 8 + 4} GeV . Measured jet rates and transverse energy profiles agree with model predictions. A search for charged-current interactions with a large rapidity gap yielded one candidate event, corresponding to a cross section of σ _{e^ + p to bar ν X} (Q^2 > 200 GeV^2 ; η _{max }< 2.5) = 0.8_{ - 0.7}^{ + 1.8} ± 0.1 pb

Solar harvesting by a heterostructured cell with built-in variable width quantum wells

NASA Astrophysics Data System (ADS)

Brooks, W.; Wang, H.; Mil'shtein, S.

2018-02-01

We propose cascaded heterostructured p-i-n solar cells, where inside of the i-region is a set of Quantum Wells (QWs) with variable thicknesses to enhance absorption of different photonic energies and provide quick relaxation for high energy carriers. Our p-i-n heterostructure carries top p-type and bottom n-type 11.3 Å thick AlAs layers, which are doped by acceptors and donor densities up to 1019/cm3. The intrinsic region is divided into 10 segments where each segment carries ten QWs of the same width and the width of the QWs in each subsequent segment gradually increases. The top segment consists of 10 QWs with widths of 56.5Å, followed by a segment with 10 wider QWs with widths of 84.75Å, followed by increasing QW widths until the last segment has 10 QWs with widths of 565Å, bringing the total number of QWs to 100. The QW wall height is controlled by alternating AlAs and GaAs layers, where the AlAs layers are all 11.3Å thick, throughout the entire intrinsic region. Configuration of variable width QWs prescribes sets of energy levels which are suitable for absorption of a wide range of photon energies and will dissipate high electron-hole energies rapidly, reducing the heat load on the solar cell. We expect that the heating of the solar cell will be reduced by 8-11%, enhancing efficiency. The efficiency of the designed solar cell is 43.71%, the Fill Factor is 0.86, the density of short circuit current (ISC) will not exceed 338 A/m2 and the open circuit voltage (VOC) is 1.51V.

Detection of significant cm to sub-mm band radio and  γ-ray correlated variability in Fermi bright blazars

DOE PAGES

Fuhrmann, L.; Larsson, S.; Chiang, J.; ...

2014-05-12

The exact location of the γ-ray emitting region in blazars is still controversial. In order to attack this problem we present first results of a cross-correlation analysis between radio (11 cm to 0.8 mm wavelength, F-GAMMA programme) and γ-ray (0.1–300 GeV) ~3.5 yr light curves of 54 Fermi-bright blazars. We perform a source stacking analysis and estimate significances and chance correlations using mixed source correlations. These results reveal: (i) the first highly significant multiband radio and γ-ray correlations (radio lagging γ rays) when averaging over the whole sample, (ii) average time delays (source frame: 76 ± 23 to 7 ±more » 9 d), systematically decreasing from cm to mm/sub-mm bands with a frequency dependence τr, γ(ν) ∝ ν -1, in good agreement with jet opacity dominated by synchrotron self-absorption, (iii) a bulk γ-ray production region typically located within/upstream of the 3 mm core region (τ3mm, γ = 12 ± 8 d), (iv) mean distances between the region of γ-ray peak emission and the radio ‘τ = 1 photosphere’ decreasing from 9.8 ± 3.0 pc (11 cm) to 0.9 ± 1.1 pc (2 mm) and 1.4 ± 0.8 pc (0.8 mm), (v) 3 mm/γ-ray correlations in nine individual sources at a significance level where one is expected by chance (probability: 4 × 10 -6), (vi) opacity and ‘time lag core shift’ estimates for quasar 3C 454.3 providing a lower limit for the distance of the bulk γ-ray production region from the supermassive black hole (SMBH) of ~0.8–1.6 pc, i.e. at the outer edge of the broad-line region (BLR) or beyond. A 3 mm τ = 1 surface at ~2–3 pc from the jet base (i.e. well outside the ‘canonical BLR’) finally suggests that BLR material extends to several parsec distances from the SMBH.« less

Prevalence of human pegivirus-1 and sequence variability of its E2 glycoprotein estimated from screening donors of fetal stem cell-containing material.

PubMed

Vitrenko, Yakov; Kostenko, Iryna; Kulebyakina, Kateryna; Sorochynska, Khrystyna

2017-08-31

Human pegivirus-1 (HPgV-1) is a member of the Flaviviridae family whose genomic organization and mode of cellular entry is similar to that of hepatitis C virus (HCV). The E2 glycoprotein of HPgV-1 is the principle mediator in the virus-cell interaction and as such harbors most of HPgV-1's antigenic determinants. HPgV-1 persists in blood cell precursors which are increasingly used for cell therapy. We studied HPgV-1 prevalence in a large cohort of females donating fetal tissues for clinical use. PCR was used for screening and estimation of viral load in viremic plasma and fetal samples. Sequence analysis was performed for portions of the 5'-untranslated and E2 regions of HPgV-1 purified from donor plasmas. Sequencing was followed by phylogenetic analysis. HPgV-1 was revealed in 13.7% of plasmas, 5.0% of fetal tissues, 5.4% of chorions, exceeding the prevalence of HCV in these types of samples. Transmission of HPgV-1 occurred in 25.8% of traceable mother-chorion-fetal tissues triads. For HPgV-1-positive donors, a high viral load in plasma appears to be a prerequisite for transmission. However, about one third of fetal samples acquired infection from non-viremic individuals. Sequencing of 5'-untranslated region placed most HPgV-1 samples to genotype 2a. At the same time, a portion of E2 sequence provided a much weaker support for this grouping apparently due to a higher variability. Polymorphisms were detected in important structural and antigenic motifs of E2. HPgV-1 is efficiently transmitted to fetus at early embryonic stages. A high variability in E2 may pose a risk of generation of pathogenic subtypes. Although HPgV-1 is considered benign and no longer tested mandatorily in blood banks, the virus may have adversary effects at target niches if delivered with infected graft upon cell transplantation. This argues for the necessity of HPgV-1 testing of cell samples aimed for clinical use.

Decadal evaluation of regional climate, air quality, and their interactions using WRF/Chem Version 3.6.1

NASA Astrophysics Data System (ADS)

Yahya, K.; Wang, K.; Campbell, P.; Glotfelty, T.; He, J.; Zhang, Y.

2015-08-01

The Weather Research and Forecasting model with Chemistry (WRF/Chem) v3.6.1 with the Carbon Bond 2005 (CB05) gas-phase mechanism is evaluated for its first decadal application during 2001-2010 using the Representative Concentration Pathway (RCP 8.5) emissions to assess its capability and appropriateness for long-term climatological simulations. The initial and boundary conditions are downscaled from the modified Community Earth System Model/Community Atmosphere Model (CESM/CAM5) v1.2.2. The meteorological initial and boundary conditions are bias-corrected using the National Center for Environmental Protection's Final (FNL) Operational Global Analysis data. Climatological evaluations are carried out for meteorological, chemical, and aerosol-cloud-radiation variables against data from surface networks and satellite retrievals. The model performs very well for the 2 m temperature (T2) for the 10 year period with only a small cold bias of -0.3 °C. Biases in other meteorological variables including relative humidity at 2 m, wind speed at 10 m, and precipitation tend to be site- and season-specific; however, with the exception of T2, consistent annual biases exist for most of the years from 2001 to 2010. Ozone mixing ratios are slightly overpredicted at both urban and rural locations but underpredicted at rural locations. PM2.5 concentrations are slightly overpredicted at rural sites, but slightly underpredicted at urban/suburban sites. In general, the model performs relatively well for chemical and meteorological variables, and not as well for aerosol-cloud-radiation variables. Cloud-aerosol variables including aerosol optical depth, cloud water path, cloud optical thickness, and cloud droplet number concentration are generally underpredicted on average across the continental US. Overpredictions of several cloud variables over eastern US result in underpredictions of radiation variables and overpredictions of shortwave and longwave cloud forcing which are important climate variables. While the current performance is deemed to be acceptable, improvements to the bias-correction method for CESM downscaling and the model parameterizations of cloud dynamics and thermodynamics, as well as aerosol-cloud interactions can potentially improve model performance for long-term climate simulations.

Phenotypic Variability of Osteogenesis Imperfecta Type V Caused by an IFITM5 Mutation

PubMed Central

Shapiro, Jay R; Lietman, Caressa; Grover, Monica; Lu, James T; Nagamani, Sandesh CS; Dawson, Brian C; Baldridge, Dustin M; Bainbridge, Matthew N; Cohn, Dan H; Blazo, Maria; Roberts, Timothy T; Brennen, Feng-Shu; Wu, Yimei; Gibbs, Richard A; Melvin, Pamela; Campeau, Philippe M; Lee, Brendan H

2013-01-01

In a large cohort of osteogenesis imperfecta type V (OI type V) patients (17 individuals from 12 families), we identified the same mutation in the 5′ untranslated region (5′UTR) of the interferon-induced transmembrane protein 5 (IFITM5) gene by whole exome and Sanger sequencing (IFITM5 c.–14C > T) and provide a detailed description of their phenotype. This mutation leads to the creation of a novel start codon adding five residues to IFITM5 and was recently reported in several other OI type V families. The variability of the phenotype was quite large even within families. Whereas some patients presented with the typical calcification of the forearm interosseous membrane, radial head dislocation and hyperplastic callus (HPC) formation following fractures, others had only some of the typical OI type V findings. Thirteen had calcification of interosseous membranes, 14 had radial head dislocations, 10 had HPC, 9 had long bone bowing, 11 could ambulate without assistance, and 1 had mild unilateral mixed hearing loss. The bone mineral density varied greatly, even within families. Our study thus highlights the phenotypic variability of OI type V caused by the IFITM5 mutation. PMID:23408678

Next-Generation DNA Sequencing of VH/VL Repertoires: A Primer and Guide to Applications in Single-Domain Antibody Discovery.

PubMed

Henry, Kevin A

2018-01-01

Immunogenetic analyses of expressed antibody repertoires are becoming increasingly common experimental investigations and are critical to furthering our understanding of autoimmunity, infectious disease, and cancer. Next-generation DNA sequencing (NGS) technologies have now made it possible to interrogate antibody repertoires to unprecedented depths, typically by sequencing of cDNAs encoding immunoglobulin variable domains. In this chapter, we describe simple, fast, and reliable methods for producing and sequencing multiplex PCR amplicons derived from the variable regions (V H , V H H or V L ) of rearranged immunoglobulin heavy and light chain genes using the Illumina MiSeq platform. We include complete protocols and primer sets for amplicon sequencing of V H /V H H/V L repertoires directly from human, mouse, and llama lymphocytes as well as from phage-displayed V H /V H H/V L libraries; these can be easily be adapted to other types of amplicons with little modification. The resulting amplicons are diverse and representative, even using as few as 10 3 input B cells, and their generation is relatively inexpensive, requiring no special equipment and only a limited set of primers. In the absence of heavy-light chain pairing, single-domain antibodies are uniquely amenable to NGS analyses. We present a number of applications of NGS technology useful in discovery of single-domain antibodies from phage display libraries, including: (i) assessment of library functionality; (ii) confirmation of desired library randomization; (iii) estimation of library diversity; and (iv) monitoring the progress of panning experiments. While the case studies presented here are of phage-displayed single-domain antibody libraries, the principles extend to other types of in vitro display libraries.

Magic discovery of very high energy emission from the FSRQ PKS 1222+21

DOE PAGES

Aleksić, J.; Antonelli, L. A.; Antoranz, P.; ...

2011-02-25

Very high energy (VHE) γ-ray emission from the flat spectrum radio quasar (FSRQ) PKS 1222+21 (4C 21.35, z = 0.432) was detected with the MAGIC Cherenkov telescopes during a short observation (~0.5 hr) performed on 2010 June 17. The MAGIC detection coincides with high-energy MeV/GeV γ-ray activity measured by the Large Area Telescope (LAT) on board the Fermi satellite. The VHE spectrum measured by MAGIC extends from about 70 GeV up to at least 400 GeV and can be well described by a power-law dN/dE ∝ E –Γ with a photon index Γ = 3.75 ± 0.27 stat ± 0.2more » syst. The averaged integral flux above 100 GeV is (4.6 ± 0.5) × 10–10 cm–2 s–1 (~1 Crab Nebula flux). The VHE flux measured by MAGIC varies significantly within the 30 minute exposure implying a flux doubling time of about 10 minutes. The VHE and MeV/GeV spectra, corrected for the absorption by the extragalactic background light (EBL), can be described by a single power law with photon index 2.72 ± 0.34 between 3 GeV and 400 GeV, and is consistent with emission belonging to a single component in the jet. The absence of a spectral cutoff constrains the γ-ray emission region to lie outside the broad-line region, which would otherwise absorb the VHE γ-rays. Together with the detected fast variability, this challenges present emission models from jets in FSRQs. Furthermore, the combined Fermi/LAT and MAGIC spectral data yield constraints on the density of the EBL in the UV-optical to near-infrared range that are compatible with recent models.« less

UTLS water vapour from SCIAMACHY limb measurementsV3.01 (2002-2012).

PubMed

Weigel, K; Rozanov, A; Azam, F; Bramstedt, K; Damadeo, R; Eichmann, K-U; Gebhardt, C; Hurst, D; Kraemer, M; Lossow, S; Read, W; Spelten, N; Stiller, G P; Walker, K A; Weber, M; Bovensmann, H; Burrows, J P

2016-01-01

The SCanning Imaging Absorption spectroMeter for Atmospheric CHartographY (SCIAMACHY) aboard the Envisat satellite provided measurements from August 2002 until April 2012. SCIAMACHY measured the scattered or direct sunlight using different observation geometries. The limb viewing geometry allows the retrieval of water vapour at about 10-25 km height from the near-infrared spectral range (1353-1410 nm). These data cover the upper troposphere and lower stratosphere (UTLS), a region in the atmosphere which is of special interest for a variety of dynamical and chemical processes as well as for the radiative forcing. Here, the latest data version of water vapour (V3.01) from SCIAMACHY limb measurements is presented and validated by comparisons with data sets from other satellite and in situ measurements. Considering retrieval tests and the results of these comparisons, the V3.01 data are reliable from about 11 to 23 km and the best results are found in the middle of the profiles between about 14 and 20 km. Above 20 km in the extra tropics V3.01 is drier than all other data sets. Additionally, for altitudes above about 19 km, the vertical resolution of the retrieved profile is not sufficient to resolve signals with a short vertical structure like the tape recorder. Below 14 km, SCIAMACHY water vapour V3.01 is wetter than most collocated data sets, but the high variability of water vapour in the troposphere complicates the comparison. For 14-20 km height, the expected errors from the retrieval and simulations and the mean differences to collocated data sets are usually smaller than 10 % when the resolution of the SCIAMACHY data is taken into account. In general, the temporal changes agree well with collocated data sets except for the Northern Hemisphere extratropical stratosphere, where larger differences are observed. This indicates a possible drift in V3.01 most probably caused by the incomplete treatment of volcanic aerosols in the retrieval. In all other regions a good temporal stability is shown. In the tropical stratosphere an increase in water vapour is found between 2002 and 2012, which is in agreement with other satellite data sets for overlapping time periods.

Distinct Mechanisms Regulate Exposure of Neutralizing Epitopes in the V2 and V3 Loops of HIV-1 Envelope

PubMed Central

Upadhyay, Chitra; Mayr, Luzia M.; Zhang, Jing; Kumar, Rajnish; Gorny, Miroslaw K.; Nádas, Arthur; Zolla-Pazner, Susan

2014-01-01

ABSTRACT Broadly neutralizing antibodies targeting the HIV-1 envelope (Env) are key components for protection against HIV-1. However, many cross-reactive epitopes are often occluded. This study investigates the mechanisms contributing to the masking of V2i (variable loop V2 integrin) epitopes compared to the accessibility of V3 epitopes. V2i are conformation-dependent epitopes encompassing the integrin α4β7-binding motif on the V1V2 loop of HIV-1 Env gp120. The V2i monoclonal antibodies (MAbs) display extensive cross-reactivity with gp120 monomers from many subtypes but neutralize only few viruses, indicating V2i's cryptic nature. First, we asked whether CD4-induced Env conformational changes affect V2i epitopes similarly to V3. CD4 treatment of BaL and JRFL pseudoviruses increased their neutralization sensitivity to V3 MAbs but not to the V2i MAbs. Second, the contribution of N-glycans in masking V2i versus V3 epitopes was evaluated by testing the neutralization of pseudoviruses produced in the presence of a glycosidase inhibitor, kifunensine. Viruses grown in kifunensine were more sensitive to neutralization by V3 but not V2i MAbs. Finally, we evaluated the time-dependent dynamics of the V2i and V3 epitopes. Extending the time of virus-MAb interaction to 18 h before adding target cells increased virus neutralization by some V2i MAbs and all V3 MAbs tested. Consistent with this, V2i MAb binding to Env on the surface of transfected cells also increased in a time-dependent manner. Hence, V2i and V3 epitopes are highly dynamic, but distinct factors modulate the antibody accessibility of these epitopes. The study reveals the importance of the structural dynamics of V2i and V3 epitopes in determining HIV-1 neutralization by antibodies targeting these sites. IMPORTANCE Conserved neutralizing epitopes are present in the V1V2 and V3 regions of HIV-1 Env, but these epitopes are often occluded from Abs. This study reveals that distinct mechanisms contribute to the masking of V3 epitopes and V2i epitopes in the V1V2 domain. Importantly, V3 MAbs and some V2i MAbs display greater neutralization against relatively resistant HIV-1 isolates when the MAbs interact with the virus for a prolonged period of time. Given their highly immunogenic nature, V3 and V2i epitopes are valuable targets that would augment the efficacy of HIV vaccines. PMID:25165106

Optical, IUE, and ROSAT observations of the eclipsing nova-like variable V347 Puppis (LB 1800)

NASA Technical Reports Server (NTRS)

Mauche, Christopher W.; Raymond, John C.; Buckley, David A. H.; Mouchet, Martine; Bonnell, Jerry; Sullivan, Denis J.; Bonnet-Bidaud, Jean-Marc; Bunk, Wolfram H.

1994-01-01

Using time-resolved optical spectroscopy and UBVRI and high-speed photometry obtained at Mount Stromlo Observatory, Mount John University Observatory, and the South African Astronomical Observatory; International Ultraviolet Explorer (IUE) ultraviolet spectroscopy; and Roentgen Satellite (ROSAT) survey X-ray fluxes, we present a study of the accretion disk, hot spot, and emission line regions in the bright eclipsing nova-like variable V347 Pup (LB 1800). In the optical and UV, V347 Pup is a strong emission line source with a continuum spectrum which is remarkably red for a high-M cataclysmic variable. Consistent with its high inclination, we interpret the continuum spectrum as the superposition of the spectrum of the cool (T(sub eff) approximately 7000 K) outer edge and the hot (T(sub eff) approximately 100,000 K) inner regions of a self-eclipsed accretion disk. For the assumed parameters, the model matches the level and shape of the observed spectrum for an inclination of approximately 88 and a distance of approximately 300 pc. The prominent hump in the optical and UV light curves just before eclipse manifests the presence of the hot spot where the accretion stream strikes the edge of the disk. The wavelength dependence of the amplitude of the hump is best modeled by a spot having an effective temperature of approximately 25,000 K and an area of approximately 3 x 10(exp 18) sq cm if the spot radiates like a blackbody, or an effective temperatue of approximately 14,000 K and an area of approximately 3 x 10(exp 19) sq cm if it radiates with a stellar spectrum. In either case, the hot spot produces only one-tenth of the predicted luminosity for the assumed mass-transfer rate of 10(exp -8) solar mass/yr. Either the hot spot is 'buried' in the edge of the accretion disk, or a significant fraction of its luminosity is radiated away in lines. The difference in azimuth between the peak of the hump and the dynamically expected location of the hot spot suggests that the spot's emitting surface is rotated forward by approximately 36 deg relative to the edge of the disk.

Optical, IUE, and ROSAT observations of the eclipsing nova-like variable V347 Puppis (LB 1800)

NASA Astrophysics Data System (ADS)

Mauche, Christopher W.; Raymond, John C.; Buckley, David A. H.; Mouchet, Martine; Bonnell, Jerry; Sullivan, Denis J.; Bonnet-Bidaud, Jean-Marc; Bunk, Wolfram H.

1994-03-01

Using time-resolved optical spectroscopy and UBVRI and high-speed photometry obtained at Mount Stromlo Observatory, Mount John University Observatory, and the South African Astronomical Observatory; International Ultraviolet Explorer (IUE) ultraviolet spectroscopy; and Roentgen Satellite (ROSAT) survey X-ray fluxes, we present a study of the accretion disk, hot spot, and emission line regions in the bright eclipsing nova-like variable V347 Pup (LB 1800). In the optical and UV, V347 Pup is a strong emission line source with a continuum spectrum which is remarkably red for a high-M cataclysmic variable. Consistent with its high inclination, we interpret the continuum spectrum as the superposition of the spectrum of the cool (Teff approximately 7000 K) outer edge and the hot (Teff approximately 100,000 K) inner regions of a self-eclipsed accretion disk. For the assumed parameters, the model matches the level and shape of the observed spectrum for an inclination of approximately 88 and a distance of approximately 300 pc. The prominent hump in the optical and UV light curves just before eclipse manifests the presence of the hot spot where the accretion stream strikes the edge of the disk. The wavelength dependence of the amplitude of the hump is best modeled by a spot having an effective temperature of approximately 25,000 K and an area of approximately 3 x 1018 sq cm if the spot radiates like a blackbody, or an effective temperatue of approximately 14,000 K and an area of approximately 3 x 1019 sq cm if it radiates with a stellar spectrum. In either case, the hot spot produces only one-tenth of the predicted luminosity for the assumed mass-transfer rate of 10-8 solar mass/yr. Either the hot spot is 'buried' in the edge of the accretion disk, or a significant fraction of its luminosity is radiated away in lines. The difference in azimuth between the peak of the hump and the dynamically expected location of the hot spot suggests that the spot's emitting surface is rotated forward by approximately 36 deg relative to the edge of the disk.

Magnetic resonance imaging of cerebrovascular reactivity in healthy adolescents.

PubMed

Urback, Adam L; Metcalfe, Arron W S; Korczak, Daphne J; MacIntosh, Bradley J; Goldstein, Benjamin I

2018-08-01

Cerebrovascular reactivity (CVR), an important measure of cerebrovascular health in adults, has not been examined in healthy adolescents. Beyond the direct importance of understanding CVR in healthy youth, studies on this topic can yield insights regarding brain disease. We set out to evaluate 3 different CVR modelling approaches. Thirty-nine healthy adolescents (ages 13-19 years, 20 females) completed six blocks of 15-second breath-holds separated by 30-second blocks of free-breathing. CVR was measured using blood-oxygenation-level dependent functional magnetic resonance imaging at 3-Tesla; voxel-wise analyses were complemented by regional analyses in five major subdivisions of the brain. Hemodynamic response functions were modelled using: (1) an individualized delay term (double-gamma variate convolved with a boxcar function), (2) with a standard 9-second delay term, and (3) a sine-cosine regressor. Individual-delay yielded superior model fit or larger cluster volumes. Regional analysis found differences in CVR and time-to-peak CVR. Males had higher brain-wide CVR in comparison to females (p = 0.025, η 2 part  = 0.345). BMI and blood pressure were not significantly associated with CVR (all p > 0.4). This was the first study to compare these methods in youth. Regional differences were similar to adult studies. These findings lend support to future breath-hold CVR studies in youth, and highlight the merit of applying individualized-delay estimates. Regional variability and sex-related differences in CVR suggest that these variables should be considered in future studies, particularly those that examine disease states with predilection for specific brain regions or those diseases characterized by sex differences. Copyright © 2018 Elsevier B.V. All rights reserved.

High-frequency expression of a conserved kappa light-chain variable-region gene in chronic lymphocytic leukemia

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kipps, T.J.; Fong, S.; Tomhave, E.

Malignant B lymphocytes from several patients with chronic lymphocytic leukemia (CLL) were examined for reactivity with murine monoclonal antibody 17.109. This antibody, prepared against the rheumatoid factor (RF) paraprotein Sie, recognizes a cross reactive idiotype on 48% of human IgM RF paraproteins, but does not react with IgM paraproteins without RF activity or substantially with normal pooled immunoglobulin. The 17.109-reactive idiotype is a marker for a kappa III variable-region gene, designated V/sub kappa/RF, that is conserved in outbred human populations. In a limited study of 31 CLL patients, the leukemic cells from 5 of 20 patients with kappa light chain-expressingmore » CLL were recognized by the 17.109 monoclonal antibody. Despite having malignant cells specifically reactive with this antibody, patients with 17.109-positive CLL did not have elevated serum levels of circulating antibody bearing 17.109-reactive determinants. Total RNAs isolated from the CLL B lymphocytes, or from hybridomas produced by fusing the CLL cells with the WI-L2-729-HF/sub 2/ cell line, were fractionated electrophoretically and examined by blot hybridization. Under stringent hybridization conditions capable of discerning a single base-pair mismatch, RNA from the 17.109-idiotype-positive CLL cells hybridized to synthetic oligonucleotide probes corresponding to framework and complementary-determining regions in the V/sub kappa/RF gene. The high frequency of the 17.109-associated idiotype and the V/sub kappa/RF gene in CLL suggests that the disease may arise from B lymphocytes that express a restricted set of inherited immunoglobulin variable-region genes with little or no somatic mutation.« less

Simultaneous Ultraviolet Line and Continuum Variability Studies in Seyfert 1 Galaxies and Quasars

NASA Astrophysics Data System (ADS)

Honnappa, Vijayakumar; Prabhakar, Vedavvathi

Simultaneous Ultraviolet Line and Continuum Variability Studies in Seyfert 1 Galaxies and Quasars Vijayakumar H. Doddamani*and P. Vedavathi Department of Physics, Bangalore University, Bangalore-560056, *Corresponding author:drvkdmani@gmail.com, Abstract The line and continuum flux variability is a hallmark phenomenon of Seyfert 1 galaxies and quasars. Large amplitude luminosity variability is observed in AGNs from x-rays through radio waves over a wide-ranging timescales from minutes to years. The combinations of high luminosity and short variability time scales suggests, that the power of AGN is produced by a phenomena more efficient in terms of energy release per unit mass than ordinary stellar processes. The basic structure of AGNs thus developed based on the variability studies consists of a central super massive black hole surrounded by an accretion disk or more generally optically thick plasma radiating brightly at UV and soft X-ray wavelengths. The variability studies have been important tools of understanding the physics of the central regions of AGNs, which in general cannot be resolved with the existing or planned ground and space telescopes. Therefore, we have undertaken a study of the simultaneous ultraviolet line and continuum flux variability studies in MRK501, ESOB113-IG45 (also called as Fairall 9), MRK1506, MRK1095 V*GQCOM, PG1211+143, MRK205, PG1226+023 (also known as 3C273), PG1351+640, MRK 1383, MRK876 and QSO2251-178 as these objects have been repeatedly observed by IUE satellite over several years.. It is observed that Fairall 9, MRK 1095 and 3C273 exhibit the large amplitude variability (» 30 times) over the observed timescale, which spans several years. The remaining nine objects exhibit small amplitude (» 5 times) variability over the long time scale of observations. The highest amplitude variability is observed in Lya with a least in the MgII line. The amplitude of variability decreases in the order of Lya, CIV and Mg II, lines. These results suggest that the BLR is spatially stratified into different regions from the central compact nuclear engine. Keywords: Active galaxies, Seyfert galaxies, Quasars, Line and continuum, Variability, Supermassive black hole

Evolutionary and polymorphism analyses reveal the central role of BTN3A2 in the concerted evolution of the BTN3 gene family.

PubMed

Afrache, Hassnae; Pontarotti, Pierre; Abi-Rached, Laurent; Olive, Daniel

2017-06-01

The butyrophilin 3 (BTN3) receptors are implicated in the T lymphocytes regulation and present a wide plasticity in mammals. In order to understand how these genes have been diversified, we studied their evolution and show that the three human BTN3 are the result of two successive duplications in Primates and that the three genes are present in Hominoids and the Old World Monkey groups. A thorough phylogenetic analysis reveals a concerted evolution of BTN3 characterized by a strong and recurrent homogenization of the region encoding the signal peptide and the immunoglobulin variable (IgV) domain in Hominoids, where the sequences of BTN3A1 or BTN3A3 are replaced by BTN3A2 sequence. In human, the analysis of the diversity of these genes in 1683 individuals representing 26 worldwide populations shows that the three genes are polymorphic, with more than 46 alleles for each gene, and marked by extreme homogenization of the IgV sequences. The same analysis performed for the BTN2 genes shows also a concerted evolution; however, it is not as strong and recurrent as for BTN3. This study shows that BTN3 receptors are marked by extreme concerted evolution at the IgV domain and that BTN3A2 plays a central role in this evolution.

Tertiary structure of human {Lambda}6 light chains.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pokkuluri, P. R.; Solomon, A.; Weiss, D. T.

1999-01-01

AL amyloidosis is a disease process characterized by the pathologic deposition of monoclonal light chains in tissue. To date, only limited information has been obtained on the molecular features that render such light chains amyloidogenic. Although protein products of the major human V kappa and V lambda gene families have been identified in AL deposits, one particular subgroup--lambda 6--has been found to be preferentially associated with this disease. Notably, the variable region of lambda 6 proteins (V lambda 6) has distinctive primary structural features including the presence in the third framework region (FR3) of two additional amino acid residues thatmore » distinguish members of this subgroup from other types of light chains. However, the structural consequences of these alterations have not been elucidated. To determine if lambda 6 proteins possess unique tertiary structural features, as compared to light chains of other V lambda subgroups, we have obtained x-ray diffraction data on crystals prepared from two recombinant V lambda 6 molecules. These components, isolated from a bacterial expression system, were generated from lambda 6-related cDNAs cloned from bone marrow-derived plasma cells from a patient (Wil) who had documented AL amyloidosis and another (Jto) with multiple myeloma and tubular cast nephropathy, but no evident fibrillar deposits. The x-ray crystallographic analyses revealed that the two-residue insertion located between positions 68 and 69 (not between 66 and 67 as previously surmised) extended an existing loop region that effectively increased the surface area adjacent to the first complementarity determining region (CDR1). Further, an unusual interaction between the Arg 25 and Phe 2 residues commonly found in lambda 6 molecules was noted. However, the structures of V lambda 6 Wil and Jto also differed from each other, as evidenced by the presence in the latter of certain ionic and hydrophobic interactions that we posit increased protein stability and thus prevented amyloid formation.« less

Cropland land surface phenology and seasonality in East Africa: Ethiopia, Tanzania, and South Sudan

NASA Astrophysics Data System (ADS)

Alemu, W. G.; Henebry, G. M.

2015-12-01

Most people in East Africa depend on rainfed agriculture. Rainfall in the region has been decreasing recently and is highly variable in space and time leading to high food insecurity. A comprehensive understanding of the regional cropland dynamics is therefore needed. Land surface phenology and land surface seasonality have important roles in monitoring cropland dynamics in a region with sparse coverage of in situ climatic and biophysical observations. However, commonly used optical satellite data are often degraded by cloud cover, aerosols, and dust and they are restricted to daytime observations. Here we used near-daily passive microwave (PM) data at 25 km spatial resolution from a series of microwave radiometers—AMSR-E, FengYun3B/MWRI, AMSR2—to study cropland dynamics for 2003-2013 in three important grain production areas of East Africa: Ethiopia, Tanzania, and South Sudan. PM data can be collected through clouds and at night. Based on Google Earth imagery, we identified several cropland areas corresponding to PM grid cells. Rainfall from TRMM and atmospheric water vapor (V) from PM data displayed temporal patterns that were unimodal in Ethiopia and South Sudan, but bimodal in Tanzania. We fitted convex quadratic models to link growing season increments of V and vegetation optical depth (VOD) to accumulated V (AV). The models yielded high coefficients of determination (r2 ≥0.8) and phenometrics calculated from the parameter coefficients. Peak rainfall lagged peak V, but preceded peak VOD. Growing degree-days (GDD), calculated from the PM air temperature data, displayed a weaker bimodal seasonality in which the lowest values occurred during the peak rainy season, due to the cooling effect of latent heat flux and coupled with higher reflection of insolation by the cloud deck. V as a function of GDD displays quasi-periodic behavior. Drier sites in the region displayed larger (smaller) intra-annual dynamic range of V (GDD) compared to the moister sites.

Multigene-based analyses on evolutionary phylogeny of two controversial ciliate orders: Pleuronematida and Loxocephalida (Protista, Ciliophora, Oligohymenophorea).

PubMed

Gao, Feng; Katz, Laura A; Song, Weibo

2013-07-01

Relationships among members of the ciliate subclass Scuticociliatia (Ciliophora, Oligohymenophorea) are largely unresolved. Phylogenetic studies of its orders Pleuronematida and Loxocephalida were initially based on small subunit ribosomal RNA gene (SSU-rDNA) analyses of a limited number of taxa. Here we characterized 37 sequences (SSU-rDNA, ITS-5.8S and LSU-rDNA) from 21 taxonomically controversial members of these orders. Phylogenetic trees constructed to assess the inter- and intra-generic relationships of pleuronematids and loxocephalids reveal the following: (1) the order Loxocephalida and its two families Loxocephalidae and Cinetochilidae are not monophyletic when more taxa are added; (2) the core pleuronematids are divided into two fully supported clades, however, the order Pleuronematida is not monophyletic because Cyclidium glaucoma is closer to Thigmotrichida; (3) the family Pleuronematidae and the genus Schizocalyptra are monophyletic, though rDNA sequences of Pleuronema species are highly variable; (4) Pseudoplatynematum and Sathrophilus are closely related to the subclass Astomatia, while Cinetochilum forms a monophyletic group with the subclass Apostomatia; and (5) Hippocomos falls in the order Pleuronematida and is closely related to Eurystomatellidae and Cyclidium plouneouri. Further, in an effort to provide a better resolution of evolutionary relationships, the secondary structures of ITS2 transcripts and the variable region 4 (V4) of the small subunit ribosomal RNA (SSU-rRNA) are predicted, revealing that ITS2 structures are conserved at the order level while V4 region structures are more variable than ITS2 structures. Copyright © 2013 Elsevier Inc. All rights reserved.

Motion sickness increases functional connectivity between visual motion and nausea-associated brain regions.

PubMed

Toschi, Nicola; Kim, Jieun; Sclocco, Roberta; Duggento, Andrea; Barbieri, Riccardo; Kuo, Braden; Napadow, Vitaly

2017-01-01

The brain networks supporting nausea not yet understood. We previously found that while visual stimulation activated primary (V1) and extrastriate visual cortices (MT+/V5, coding for visual motion), increasing nausea was associated with increasing sustained activation in several brain areas, with significant co-activation for anterior insula (aIns) and mid-cingulate (MCC) cortices. Here, we hypothesized that motion sickness also alters functional connectivity between visual motion and previously identified nausea-processing brain regions. Subjects prone to motion sickness and controls completed a motion sickness provocation task during fMRI/ECG acquisition. We studied changes in connectivity between visual processing areas activated by the stimulus (MT+/V5, V1), right aIns and MCC when comparing rest (BASELINE) to peak nausea state (NAUSEA). Compared to BASELINE, NAUSEA reduced connectivity between right and left V1 and increased connectivity between right MT+/V5 and aIns and between left MT+/V5 and MCC. Additionally, the change in MT+/V5 to insula connectivity was significantly associated with a change in sympathovagal balance, assessed by heart rate variability analysis. No state-related connectivity changes were noted for the control group. Increased connectivity between a visual motion processing region and nausea/salience brain regions may reflect increased transfer of visual/vestibular mismatch information to brain regions supporting nausea perception and autonomic processing. We conclude that vection-induced nausea increases connectivity between nausea-processing regions and those activated by the nauseogenic stimulus. This enhanced low-frequency coupling may support continual, slowly evolving nausea perception and shifts toward sympathetic dominance. Disengaging this coupling may be a target for biobehavioral interventions aimed at reducing motion sickness severity. Copyright © 2016 Elsevier B.V. All rights reserved.

Zoonotic Leprosy in the Southeastern United States

PubMed Central

Sharma, Rahul; Singh, Pushpendra; Loughry, W.J.; Lockhart, J. Mitchell; Inman, W. Barry; Duthie, Malcolm S.; Pena, Maria T.; Marcos, Luis A.; Scollard, David M.; Cole, Stewart T.

2015-01-01

Nine-banded armadillos (Dasypus novemcinctus) are naturally infected with Mycobacterium leprae and have been implicated in zoonotic transmission of leprosy. Early studies found this disease mainly in Texas and Louisiana, but armadillos in the southeastern United States appeared to be free of infection. We screened 645 armadillos from 8 locations in the southeastern United States not known to harbor enzootic leprosy for M. leprae DNA and antibodies. We found M. leprae–infected armadillos at each location, and 106 (16.4%) animals had serologic/PCR evidence of infection. Using single-nucleotide polymorphism variable number tandem repeat genotyping/genome sequencing, we detected M. leprae genotype 3I-2-v1 among 35 armadillos. Seven armadillos harbored a newly identified genotype (3I-2-v15). In comparison, 52 human patients from the same region were infected with 31 M. leprae types. However, 42.3% (22/52) of patients were infected with 1 of the 2 M. leprae genotype strains associated with armadillos. The geographic range and complexity of zoonotic leprosy is expanding. PMID:26583204

Dip in the gene pool: metagenomic survey of natural coccolithovirus communities.

PubMed

Pagarete, António; Kusonmano, Kanthida; Petersen, Kjell; Kimmance, Susan A; Martínez Martínez, Joaquín; Wilson, William H; Hehemann, Jan-Hendrik; Allen, Michael J; Sandaa, Ruth-Anne

2014-10-01

Despite the global oceanic distribution and recognised biogeochemical impact of coccolithoviruses (EhV), their diversity remains poorly understood. Here we employed a metagenomic approach to study the occurrence and progression of natural EhV community genomic variability. Analysis of EhV metagenomes from the early and late stages of an induced bloom led to three main discoveries. First, we observed resilient and specific genomic signatures in the EhV community associated with the Norwegian coast, which reinforce the existence of limitations to the capacity of dispersal and genomic exchange among EhV populations. Second, we identified a hyper-variable region (approximately 21kbp long) in the coccolithovirus genome. Third, we observed a clear trend for EhV relative amino-acid diversity to reduce from early to late stages of the bloom. This study validated two new methodological combinations, and proved very useful in the discovery of new genomic features associated with coccolithovirus natural communities. Copyright © 2014 Elsevier Inc. All rights reserved.

On the intrinsic spectrum of PKS 2155-304 from H.E.S.S. 2003 data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Costamante, L.; Benbow, W.; Horns, D.

2005-02-21

In 2003, PKS 2155-304 has been significantly detected by H.E.S.S. at Very High Energies (VHE), with an average spectrum of {gamma} = 3.3. Due to absorption by the Extragalactic Background Light (EBL), the intrinsic spectrum is heavily modified both in shape and intensity. To correct for this effect, and locate the Inverse Compton (IC) peak of the Spectral Energy Distribution (SED), we used three EBL models (representatives of three different flux levels for the stellar peak component). The resulting TeV spectrum has a peak around 1 TeV for stellar peak fluxes above the Primack (2001) calculation, while the spectrum ismore » steeper than {gamma} = 2 (thus locating the IC peak < 200 GeV) for fluxes below. With bulk Lorentz factors {delta} = 20 - 30 (typically used for this object), in the first case the IC peak is in the Klein-Nishina transition region, while in the other case it is in the Thompson regime, and in agreement with the commonly fitted source parameters (e.g. [17]). The constraint on {delta} given by transparency to 2 TeV photons is {delta} > 19 (for historical SED fluxes and 2 hours variability timescale)« less

On the intrinsic spectrum of PKS 2155-304 from H.E.S.S. 2003 data

NASA Astrophysics Data System (ADS)

Costamante, L.; Benbow, W.; Horns, D.; Reimer, A.; H.E.S.S. Collaboration

2005-02-01

In 2003, PKS 2155-304 has been significantly detected by H.E.S.S. at Very High Energies (VHE), with an average spectrum of Γ = 3.3. Due to absorption by the Extragalactic Background Light (EBL), the intrinsic spectrum is heavily modified both in shape and intensity. To correct for this effect, and locate the Inverse Compton (IC) peak of the Spectral Energy Distribution (SED), we used three EBL models (representatives of three different flux levels for the stellar peak component). The resulting TeV spectrum has a peak around 1 TeV for stellar peak fluxes above the Primack (2001) calculation, while the spectrum is steeper than Γ = 2 (thus locating the IC peak < 200 GeV) for fluxes below. With bulk Lorentz factors δ = 20 - 30 (typically used for this object), in the first case the IC peak is in the Klein-Nishina transition region, while in the other case it is in the Thompson regime, and in agreement with the commonly fitted source parameters (e.g. [17]). The constraint on δ given by transparency to 2 TeV photons is δ > 19 (for historical SED fluxes and 2 hours variability timescale).

Intensive HST, RXTE, and ASCA Monitoring of NGC 3516: Evidence against Thermal Reprocessing

NASA Technical Reports Server (NTRS)

Edelson, Rick; Koratkar, Anuradha; Nandra, Kirpal; Goad, Michael; Peterson, Bradley M.; Collier, Stefan; Krolik, Julian; Malkan, Matthew; Maoz, Dan; OBrien, Paul

2000-01-01

During 1998 April 1316, the bright, strongly variable Seyfert 1 galaxy NGC 3516 was monitored almost continuously with HST for 10.3 hr at ultraviolet wavelengths and 2.8 days at optical wavelengths, and simultaneous RXTE and ASCA monitoring covered the same period. The X-ray fluxes were strongly variable with the soft (0.5-2 keV) X-rays showing stronger variations (approx. 65% peak to peak) than the hard (2-10 keV) X-rays (approx. 50% peak to peak). The optical continuum showed much smaller but still highly significant variations: a slow approx. 2.5% rise followed by a faster approx. 3.5% decline. The short ultraviolet observation did not show significant variability. The soft and hard X-ray light curves were strongly correlated, with no evidence for a significant interband lag. Likewise, the optical continuum bands (3590 and 5510 A) were also strongly correlated, with no measurable lag, to 3(sigma) limits of approx. less than 0.15 day. However, the optical and X-ray light curves showed very different behavior, and no significant correlation or simple relationship could be found. These results appear difficult to reconcile with previous reports of correlations between X-ray and optical variations and of measurable lags within the optical band for some other Seyfert 1 galaxies. These results also present serious problems for "reprocessing" models in which the X-ray source heats a stratified accretion disk, which then reemits in the optical/ultraviolet : the synchronous variations within the optical would suggest that the emitting region is approx. less than 0.3 It-day across, while the lack of correlation between X-ray and optical variations would indicate, in the context of this model, that any reprocessing region must be approx. greater than 1 It-day in size. It may be possible to resolve this conflict by invoking anisotropic emission or special geometry, but the most natural explanation appears to be that the bulk of the optical luminosity is generated by some mechanism other than reprocessing.

Analysis of the 0.511 MeV radiation at the OSO-7 satellite. Ph.D. Thesis

NASA Technical Reports Server (NTRS)

Dunphy, P. P.

1974-01-01

Observations of the 0.511 MeV positron annihilation, gamma ray on the OSO-7 satellite are presented. Variables which affect the counting rate are discussed. An upper limit flux of .0076 photons/sq cm/sec is obtained for the quiet sun and a positive solar flux of .063(+ or - .0002) photons/sq cm/sec is obtained for the 3B flare of 4 August 1972. The width of this annihilation line gives an upper limit temperature for the annihilation region of approximately 6 million K. An analysis of the line width and position also shows that the contribution to the line from positronium annihilation is less than 100% at the 99% confidence level. An upper limit is also found for an isotropic cosmic flux.

Gamma-Ray Spectra & Variability of Cygnus X-1 Observed by BATSE

NASA Technical Reports Server (NTRS)

Ling, J. C.; Wheaton, A.; Wallyn, P.; Mahoney, W. A.; Paciesas, W. W.; Harmon, B. A.; Fishman, G. J.; Zhang, S. N.; Hua, X. M.

1996-01-01

We present new BATSE Earth occultation observations of the 25 keV-1.8 MeV spectrum and variability of Cygnus X-1 made between August 1993 and May 1994. We observed that the normal soft gamma-ray spectrum (gamma2) of Cygnus X-1 has two components: a Comptonized part seen below 30keV, and a high-energy tail in the 0.3-2 MeV range.

Immunoglobulin kappa light chain gene promoter and enhancer are not responsible for B-cell restricted gene rearrangement.

PubMed Central

Goodhardt, M; Babinet, C; Lutfalla, G; Kallenbach, S; Cavelier, P; Rougeon, F

1989-01-01

We have produced transgenic mice which synthesize chimeric mouse-rabbit immunoglobulin (Ig) kappa light chains following in vivo recombination of an injected unrearranged kappa gene. The exogenous gene construct contained a mouse germ-line kappa variable (V kappa) gene segment, the mouse germ-line joining (J kappa) locus including the enhancer, and the rabbit b9 constant (C kappa) region. A high level of V-J recombination of the kappa transgene was observed in spleen of the transgenic mice. Surprisingly, a particularly high degree of variability in the exact site of recombination and the presence of non germ-line encoded nucleotides (N-regions) were found at the V-J junction of the rearranged kappa transgene. Furthermore, unlike endogenous kappa genes, rearrangement of the exogenous gene occurred in T-cells of the transgenic mice. These results show that additional sequences, other than the heptamer-nonamer signal sequences and the promoter and enhancer elements, are required to obtain stage- and lineage- specific regulation of Ig kappa light chain gene rearrangement in vivo. Images PMID:2508061

PCA and vTEC climatology at midnight over mid-latitude regions

NASA Astrophysics Data System (ADS)

Natali, M. P.; Meza, A.

2017-12-01

The effect of the thermospheric vertical neutral wind on vertical total electron content (vTEC) variations including longitudinal anomaly, remaining winter anomaly, mid-latitude summer night anomaly, and semiannual anomaly is studied at mid-latitude regions around zero magnetic declination at midnight during high solar activity. By using the principal component analysis (PCA) numerical technique, this work studies the spatial and temporal variations of the ionosphere at midnight over mid-latitude regions during 2000-2002. PCA is applied to a time series of global vTEC maps produced by the International Global Navigation Satellite System (GNSS) Service. Four regions were studied in particular, each located at mid-latitude and approximately centered at zero magnetic declination, with two in the northern hemisphere and two in southern hemisphere, and all are located near and far from geomagnetic poles in each case. This technique provides an effective method to analyze the main ionospheric variabilities at mid-latitudes. PCA is also applied to the vTEC computed using the International Reference Ionosphere (IRI) 2012 model, to analyze the capability of this model to represent ionospheric variabilities at mid-latitude. Also, the Horizontal Wind Model 2007 (HWM07) is used to improve our climatology interpretation, by analyzing the relationship between vTEC and thermospheric wind, both quantitatively and qualitatively. At midnight, the behavior of mean vTEC values strongly responds to vertical wind variation, experiencing a decrease of about 10-15% with the action of the positive vertical component of the field-aligned neutral wind lasting for 2 h in all regions except for Oceania. Notable results include: a significant increase toward higher latitudes during summer in the South America and Asia regions, associated with the mid-latitude summer night anomaly, and an increase toward higher latitudes in winter in the North America and Oceania regions, highlighting the remnant effect of the winter anomaly. Finally, the longitudinal variations of east-west differences, named longitudinal anomaly, show maximum values in March for North America, in December for South America and Oceania, and are not shown for Asia. Our results show that at mid-latitudes regions, the IRI model represents midnight ionospheric mean values with a similar spatial distribution, but the values are always lower than those obtained by GNSS. The differences between IRI and GNSS results include: the longitudinal anomaly is characterized by a stronger semiannual variation in both North America and South America, with a maximum in the equinoxes, while for the Asian region, the behavior is almost constant throughout the years, and finally, there is an absence of the winter anomaly remnant.

IgV peptide mapping of native Ro60 autoantibody proteomes in primary Sjögren's syndrome reveals molecular markers of Ro/La diversification.

PubMed

Wang, Jing J; Al Kindi, Mahmood A; Colella, Alex D; Dykes, Lukah; Jackson, Michael W; Chataway, Tim K; Reed, Joanne H; Gordon, Tom P

2016-12-01

We have used high-resolution mass spectrometry to sequence precipitating anti-Ro60 proteomes from sera of patients with primary Sjögren's syndrome and compare immunoglobulin variable-region (IgV) peptide signatures in Ro/La autoantibody subsets. Anti-Ro60 were purified by elution from native Ro60-coated ELISA plates and subjected to combined de novo amino acid sequencing and database matching. Monospecific anti-Ro60 Igs comprised dominant public and minor private sets of IgG1 kappa and lambda restricted heavy and light chains. Specific IgV amino acid substitutions stratified anti-Ro60 from anti-Ro60/La responses, providing a molecular fingerprint of Ro60/La determinant spreading and suggesting that different forms of Ro60 antigen drive these responses. Sequencing of linked anti-Ro52 proteomes from individual patients and comparison with their anti-Ro60 partners revealed sharing of a dominant IGHV3-23/IGKV3-20 paired clonotype but with divergent IgV mutational signatures. In summary, anti-Ro60 IgV peptide mapping provides insights into Ro/La autoantibody diversification and reveals serum-based molecular markers of humoral Ro60 autoimmunity. Copyright © 2016 Elsevier Inc. All rights reserved.

Determination of Coreceptor Usage of Human Immunodeficiency Virus Type 1 from Patient Plasma Samples by Using a Recombinant Phenotypic Assay

PubMed Central

Trouplin, Virginie; Salvatori, Francesca; Cappello, Fanny; Obry, Veronique; Brelot, Anne; Heveker, Nikolaus; Alizon, Marc; Scarlatti, Gabriella; Clavel, François; Mammano, Fabrizio

2001-01-01

We developed a recombinant virus technique to determine the coreceptor usage of human immunodeficiency virus type 1 (HIV-1) from plasma samples, the source expected to represent the most actively replicating virus population in infected subjects. This method is not subject to selective bias associated with virus isolation in culture, a step required for conventional tropism determination procedures. The addition of a simple subcloning step allowed semiquantitative evaluation of virus populations with a different coreceptor (CCR5 or CXCR4) usage specificity present in each plasma sample. This procedure detected mixtures of CCR5- and CXCR4-exclusive virus populations as well as dualtropic viral variants, in variable proportions. Sequence analysis of dualtropic clones indicated that changes in the V3 loop are necessary for the use of CXCR4 as a coreceptor, but the overall context of the V1-V3 region is important to preserve the capacity to use CCR5. This convenient technique can greatly assist the study of virus evolution and compartmentalization in infected individuals. PMID:11119595

Analysis of autoimmune bone marrow by antibody-phage display: somatic mutations and third complementarity-determining region arginines in anti-DNA gamma and kappa V genes.

PubMed

Seal, S N; Hoet, R M; Raats, J M; Radic, M Z

2000-09-01

To examine anti-double-stranded DNA (anti-dsDNA) IgG autoantibodies from the bone marrow of individuals with systemic lupus erythematosus (SLE). A library of single-chain variable fragments (scFv) was constructed from SLE bone marrow complementary DNA of gamma, kappa, and lambda isotype by cloning into the pHENIX phagemid vector. The library was screened with dsDNA in solution, and 2 anti-DNA phage, DNA1 and DNA4, were isolated and their Ig V genes sequenced. Soluble scFv corresponding to DNA1 and DNA4, and their heavy (H)- and light (L)-chain recombinants, were prepared, purified, and analyzed for binding to DNA by enzyme-linked immunosorbent assay. DNA1 and DNA4 used different Ig H-chain (3-30 and 5-51, respectively) and L-chain (DPK15 and DPK22, respectively) V genes. The ratios of replacement mutations to silent mutations in DNA1 and DNA4 suggest that their V genes were selected for improved antigen binding in vivo. The recombinant between DNA4VH and DNA1VL showed the highest relative affinity for both single-stranded DNA and dsDNA. These 2 Ig subunits contained third complementarity-determining region arginines and had acquired the majority of replacement mutations. Anti-dsDNA IgG autoantibodies from the bone marrow of SLE patients exploit diverse V genes and cationic V-D-J and V-J junctions for DNA binding, and accumulate replacement mutations that enhance binding.

Search for supersymmetry in final states with missing transverse energy and 0, 1, 2, or ≥3 b-quark jets in 7 TeV pp collisions using the variable α T

DOE Office of Scientific and Technical Information (OSTI.GOV)

Chatrchyan, S.; Khachatryan, V.; Sirunyan, A. M.

A search for supersymmetry in final states with jets and missing transverse energy is performed in pp collisions at a centre-of-mass energy of sqrt(s) = 7 TeV. The data sample corresponds to an integrated luminosity of 4.98 inverse femtobarns collected by the CMS experiment at the LHC. In this search, a dimensionless kinematic variable, alphaT, is used as the main discriminator between events with genuine and misreconstructed missing transverse energy. The search is performed in a signal region that is binned in the scalar sum of the transverse energy of jets and the number of jets identified as originating frommore » a bottom quark. No excess of events over the standard model expectation is found. Exclusion limits are set in the parameter space of the constrained minimal supersymmetric extension of the standard model, and also in simplified models, with a special emphasis on compressed spectra and third-generation scenarios.« less

Genotype differentiation of Agamid Adenovirus 1 in bearded dragons (Pogona vitticeps) in the USA by hexon gene sequence.

PubMed

Parkin, Derek B; Archer, Linda L; Childress, April L; Wellehan, James F X

2009-07-01

Bearded dragons (Pogona vitticeps) are popular pets in the United States. Agamid Adenovirus 1 (AgAdV1) is an important infectious agent of bearded dragons. The only AgAdV1 sequences available to date are from a highly conserved region of the DNA polymerase gene. Degenerate primers were designed to amplify a variable region of the AgAdV1 hexon gene for sequencing. Genetic differences were identified within the hexon gene of 17 bearded dragons from 4 collections. Much less diversity was present in the polymerase gene. Bayesian analysis of the hexon nucleotide alignment identified two larger groups and two isolates that did not tightly cluster with these two groups. Multiple genotypes were identified within collections, and individual genotypes were seen in different collections. Three bearded dragons appeared to be infected by multiple strains. These findings show that this hexon region is useful for AgAdV1 genotyping, which can be used epidemiologically as well as in future investigations of AgAdV1 evolution and clinical implications of strain differences.

Conservation of CD44 exon v3 functional elements in mammals

PubMed Central

Vela, Elena; Hilari, Josep M; Delclaux, María; Fernández-Bellon, Hugo; Isamat, Marcos

2008-01-01

Background The human CD44 gene contains 10 variable exons (v1 to v10) that can be alternatively spliced to generate hundreds of different CD44 protein isoforms. Human CD44 variable exon v3 inclusion in the final mRNA depends on a multisite bipartite splicing enhancer located within the exon itself, which we have recently described, and provides the protein domain responsible for growth factor binding to CD44. Findings We have analyzed the sequence of CD44v3 in 95 mammalian species to report high conservation levels for both its splicing regulatory elements (the 3' splice site and the exonic splicing enhancer), and the functional glycosaminglycan binding site coded by v3. We also report the functional expression of CD44v3 isoforms in peripheral blood cells of different mammalian taxa with both consensus and variant v3 sequences. Conclusion CD44v3 mammalian sequences maintain all functional splicing regulatory elements as well as the GAG binding site with the same relative positions and sequence identity previously described during alternative splicing of human CD44. The sequence within the GAG attachment site, which in turn contains the Y motif of the exonic splicing enhancer, is more conserved relative to the rest of exon. Amplification of CD44v3 sequence from mammalian species but not from birds, fish or reptiles, may lead to classify CD44v3 as an exclusive mammalian gene trait. PMID:18710510

Structural analysis of a highly glycosylated and unliganded gp120-based antigen using mass spectrometry†

PubMed Central

Wang, Liwen; Qin, Yali; Ilchenko, Serguei; Bohon, Jen; Shi, Wuxian; Cho, Michael W.; Takamoto, Keiji; Chance, Mark R.

2010-01-01

Structural characterization of the HIV envelope protein gp120 is very important to provide an understanding of the protein's immunogenicity and it's binding to cell receptors. So far, crystallographic structure determination of gp120 with an intact V3 loop (in the absence of CD4 co-receptor or antibody) has not been achieved. The third variable region (V3) of the gp120 is immunodominant and contains glycosylation signatures that are essential for co-receptor binding and viral entry to T-cells. In this study, we characterized the structure of the outer domain of gp120 with an intact V3 loop (gp120-OD8) purified from Drosophila S2 cells utilizing mass spectrometry-based approaches. We mapped the glycosylation sites and calculated glycosylation occupancy of gp120-OD8; eleven sites from fifteen glycosylation motifs were determined as having high mannose or hybrid glycosylation structures. The specific glycan moieties of nine glycosylation sites from eight unique glycopeptides were determined by a combination of ECD and CID MS approaches. Hydroxyl radical-mediated protein footprinting coupled with mass spectrometry analysis was employed to provide detailed information on protein structure of gp120-OD8 by directly identifying accessible and hydroxyl radical-reactive side chain residues. Comparison of gp120-OD8 experimental footprinting data with a homology model derived from the ligated CD4/ gp120-OD8 crystal structure revealed a flexible V3 loop structure where the V3 tip may provide contacts with the rest of the protein while residues in the V3 base remain solvent accessible. In addition, the data illustrate interactions between specific sugar moieties and amino acid side chains potentially important to the gp120-OD8 structure. PMID:20825246

Structural considerations for functional anti-EGFR × anti-CD3 bispecific diabodies in light of domain order and binding affinity.

PubMed

Asano, Ryutaro; Nagai, Keisuke; Makabe, Koki; Takahashi, Kento; Kumagai, Takashi; Kawaguchi, Hiroko; Ogata, Hiromi; Arai, Kyoko; Umetsu, Mitsuo; Kumagai, Izumi

2018-03-02

We previously reported a functional humanized bispecific diabody (bsDb) that targeted EGFR and CD3 (hEx3-Db) and enhancement of its cytotoxicity by rearranging the domain order in the V domain. Here, we further dissected the effect of domain order in bsDbs on their cross-linking ability and binding kinetics to elucidate general rules regarding the design of functional bsDbs. Using Ex3-Db as a model system, we first classified the four possible domain orders as anti-parallel (where both chimeric single-chain components are variable heavy domain (VH)-variable light domain (VL) or VL-VH order) and parallel types (both chimeric single-chain components are mixed with VH-VL and VL-VH order). Although anti-parallel Ex3-Dbs could cross-link the soluble target antigens, their cross-linking ability between soluble targets had no correlation with their growth inhibitory effects. In contrast, the binding affinity of one of the two constructs with a parallel-arrangement V domain was particularly low, and structural modeling supported this phenomenon. Similar results were observed with E2x3-Dbs, in which the V region of the anti-EGFR antibody clone in hEx3 was replaced with that of another anti-EGFR clone. Only anti-parallel types showed affinity-dependent cancer inhibitory effects in each molecule, and E2x3-LH (both components in VL-VH order) showed the most intense anti-tumor activity in vitro and in vivo . Our results showed that, in addition to rearranging the domain order of bsDbs, increasing their binding affinity may be an ideal strategy for enhancing the cytotoxicity of anti-parallel constructs and that E2x3-LH is particularly attractive as a candidate next-generation anti-cancer drug.

Search for supersymmetry in pp collisions at $$\\sqrt{s} = 13$$ TeV in the single-lepton final state using the sum of masses of large-radius jets

DOE PAGES

Khachatryan, V.; Sirunyan, A. M.; Tumasyan, A.; ...

2016-08-22

Results are reported from a search for supersymmetric particles in proton-proton collisions in the final state with a single, high transverse momentum lepton; multiple jets, including at least one b-tagged jet; and large missing transverse momentum. The data sample corresponds to an integrated luminosity of 2.3 fb –1 at √s = 13 TeV, recorded by the CMS experiment at the LHC. The search focuses on processes leading to high jet multiplicities, such as gluino pair production with g ~ → tt¯X ~ 0 1. The quantity M J, defined as the sum of the masses of the large-radius jets inmore » the event, is used in conjunction with other kinematic variables to provide discrimination between signal and background and as a key part of the background estimation method. The observed event yields in the signal regions in data are consistent with those expected for standard model backgrounds, estimated from control regions in data. Exclusion limits are obtained for a simplified model corresponding to gluino pair production with three-body decays into top quarks and neutralinos. Gluinos with a mass below 1600 GeV are excluded at a 95% confidence level for scenarios with low X ~ 0 1 mass, and neutralinos with a mass below 800 GeV are excluded for a gluino mass of about 1300 GeV. Lastly, for models with two-body gluino decays producing on-shell top squarks, the excluded region is only weakly sensitive to the top squark mass.« less

Detecting Biosphere anomalies hotspots

NASA Astrophysics Data System (ADS)

Guanche-Garcia, Yanira; Mahecha, Miguel; Flach, Milan; Denzler, Joachim

2017-04-01

The current amount of satellite remote sensing measurements available allow for applying data-driven methods to investigate environmental processes. The detection of anomalies or abnormal events is crucial to monitor the Earth system and to analyze their impacts on ecosystems and society. By means of a combination of statistical methods, this study proposes an intuitive and efficient methodology to detect those areas that present hotspots of anomalies, i.e. higher levels of abnormal or extreme events or more severe phases during our historical records. Biosphere variables from a preliminary version of the Earth System Data Cube developed within the CAB-LAB project (http://earthsystemdatacube.net/) have been used in this study. This database comprises several atmosphere and biosphere variables expanding 11 years (2001-2011) with 8-day of temporal resolution and 0.25° of global spatial resolution. In this study, we have used 10 variables that measure the biosphere. The methodology applied to detect abnormal events follows the intuitive idea that anomalies are assumed to be time steps that are not well represented by a previously estimated statistical model [1].We combine the use of Autoregressive Moving Average (ARMA) models with a distance metric like Mahalanobis distance to detect abnormal events in multiple biosphere variables. In a first step we pre-treat the variables by removing the seasonality and normalizing them locally (μ=0,σ=1). Additionally we have regionalized the area of study into subregions of similar climate conditions, by using the Köppen climate classification. For each climate region and variable we have selected the best ARMA parameters by means of a Bayesian Criteria. Then we have obtained the residuals by comparing the fitted models with the original data. To detect the extreme residuals from the 10 variables, we have computed the Mahalanobis distance to the data's mean (Hotelling's T^2), which considers the covariance matrix of the joint distribution. The proposed methodology has been applied to different areas around the globe. The results show that the method is able to detect historic events and also provides a useful tool to define sensitive regions. This method and results have been developed within the framework of the project BACI (http://baci-h2020.eu/), which aims to integrate Earth Observation data to monitor the earth system and assessing the impacts of terrestrial changes. [1] V. Chandola, A., Banerjee and v., Kumar. Anomaly detection: a survey. ACM computing surveys (CSUR), vol. 41, n. 3, 2009. [2] P. Mahalanobis. On the generalised distance in statistics. Proceedings National Institute of Science, vol. 2, pp 49-55, 1936.

Charge Density Dependent Hole Mobility and Density of States Throughout the Entire Finite Potential Window of Conductivity in Ionic Liquid Gated Poly(3-hexylthiophene)

NASA Astrophysics Data System (ADS)

Paulsen, Bryan D.; Frisbie, C. Daniel

2012-02-01

Ionic liquids, used in place of traditional gate dielectric materials, allow for the accumulation of very high 2D and 3D charge densities (>10^14 #/cm^2 and >10^21 #/cm^3 respectively) at low voltage (<5 V). Here we study the electrochemical gating of the benchmark semiconducting polymer poly(3-hexylthiophene) (P3HT) with the ionic liquid 1-ethyl-3-methylimidazolium tris(pentafluoroethyl)trifluorophosphate ([EMI][FAP]). The electrochemical stability of [EMI][FAP] allowed the reproducible accumulation of 2 x 10^21 hole/cm^3, or one hole (and stabilizing anion dopant) per every two thiophene rings. A finite potential/charge density window of high electrical conductivity was observed with hole mobility reaching a maximum of 0.86 cm^2/V s at 0.12 holes per thiophene ring. Displacement current measurements, collected versus a calibrated reference electrode, allowed the mapping of the highly structured and extremely broad density of states of the P3HT/[EMI][FAP] doped composite. Variable temperature and charge density hole transport measurements revealed hole transport to be thermally activated and non-monotonic, displaying a activation energy minimum of ˜20 meV in the region of maximum conductivity and hole mobility. To show the generality of this result, the study was extended to an additional four ionic liquids and three semiconducting polymers.

Chromospherically active stars. IV - HD 178450 = V478 Lyr: An early-type BY Draconis type binary

NASA Technical Reports Server (NTRS)

Fekel, Francis C.

1988-01-01

It is shown that the variable star HD 178450 = V478 Lyr is a chromospherically active G8 V single-lined spectroscopic binary with a period of 2.130514 days. This star is characterized by strong UV emission features and a filled-in H-alpha absorption line which is variable in strength. Classified as an early-type BY Draconis system, it is similar to the BY Dra star HD 175742 = V775 Her. The unseen secondary of HD 178450 has a mass of about 0.3 solar masses and is believed to be an M2-M3 dwarf.

Variability in the high energy gamma ray emission from Cyg X-3 over a two-year period (1983 - 1984) at E 4 x 10(11) eV

NASA Technical Reports Server (NTRS)

Cawley, M. F.; Fegan, D. J.; Gibbs, K.; Gorham, P. W.; Lamb, R. C.; Liebing, D. F.; Porter, N. A.; Stenger, V. J.; Weekes, T. C.; Williams, R. J.

1985-01-01

Cygnus X-3 is observed to emit gamma rays with energies in excess of 4 x 10 to the 11th power eV during two out of 9 observational categories over an 18 month time span. The emissions are observed at the 0.6 phase of the characteristic 4.8 hr light curve for this binary system. We estimate a peak flux at phase 0.6 of 5 x 10 to the minus 10th power photons cm-2s-1 at a software threshold of 8 x 10 to the 11th power eV for Oct/Nov 1983. A flux for the June 84 effect cannot be reliably calculated at present due to lack of Monte Carlo simulations for the energy range and spectral region. For the other 7 observational categories the observations are consistent with zero source emission. The light curve would appear to be variable on a time scale of a couple of weeks at these categories. Selection of compact images in accordance with Monte Carlo simulations combined with empirical optimization techniques have led to an enriched gamma ray light curve for the Oct/Nov 1983 data. Selection on the basis of shower orientation, however, has not led to any notable enhancement of the gamma ray content. Individual Cherenko images can be reliably sorted on an event by event basis into either proton-induced or photon-induced showers.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ackermann, M.; Buehler, R.; Anantua, R.

On 2015 June 16, Fermi -LAT observed a giant outburst from the flat spectrum radio quasar 3C 279 with a peak >100 MeV flux of ∼3.6 × 10{sup −5} photons cm{sup −2} s{sup −1}, averaged over orbital period intervals. It is historically the highest γ -ray flux observed from the source, including past EGRET observations, with the γ -ray isotropic luminosity reaching ∼10{sup 49} erg s{sup −1}. During the outburst, the Fermi spacecraft, which has an orbital period of 95.4 minutes, was operated in a special pointing mode to optimize the exposure for 3C 279. For the first time, significantmore » flux variability at sub-orbital timescales was found in blazar observations by Fermi -LAT. The source flux variability was resolved down to 2-minute binned timescales, with flux doubling times of less than 5 minutes. The observed minute-scale variability suggests a very compact emission region at hundreds of Schwarzschild radii from the central engine in conical jet models. A minimum bulk jet Lorentz factor (Γ) of 35 is necessary to avoid both internal γ -ray absorption and super-Eddington jet power. In the standard external radiation Comptonization scenario, Γ should be at least 50 to avoid overproducing the synchrotron self-Compton component. However, this predicts extremely low magnetization (∼5 × 10{sup −4}). Equipartition requires Γ as high as 120, unless the emitting region is a small fraction of the dissipation region. Alternatively, we consider γ rays originating as synchrotron radiation of γ {sub e} ∼ 1.6 × 10{sup 6} electrons, in a magnetic field B ∼ 1.3 kG, accelerated by strong electric fields E ∼ B in the process of magnetoluminescence. At such short distance scales, one cannot immediately exclude the production of γ -rays in hadronic processes.« less

A Comprehensive Search for Gamma-Ray Lines in the First Year of Data from the INTEGRAL Spectrometer

NASA Technical Reports Server (NTRS)

Teegarden, B. J.; Watanabe, K.

2006-01-01

Gamma-ray lines are produced in nature by a variety of different physical processes. They can be valuable astrophysical diagnostics providing information the may be unobtainable by other means. We have carried out an extensive search for gamma-ray lines in the first year of public data from the Spectrometer (SPI) on the INTEGRAL mission. INTEGRAL has spent a large fraction of its observing time in the Galactic Plane with particular concentration in the Galactic Center (GC) region (approximately 3 Msec in the first year). Hence the most sensitive search regions are in the Galactic Plane and Center. The phase space of the search spans the energy range 20-8000 keV, and line widths from 0-1000 keV (FWHM) and includes both diffuse and point-like emission. We have searched for variable emission on time scales down to approximately 1000 sec. Diffuse emission has been searched for on a range of different spatial scales from approximately 20 degrees (the approximate field-of-view of the spectrometer) up to the entire Galactic Plane. Our search procedures were verified by the recovery of the known gamma-ray lines at 511 keV and 1809 keV at the appropriate intensities and significances. We find no evidence for any previously unknown gamma-ray lines. The upper limits range from a few x10(exp -5) per square centimeter per second to a few x10(exp -3) per square centimeter per second depending on line width, energy and exposure. Comparison is made between our results and various prior predictions of astrophysical lines

VKORC1 V66M mutation in African Brazilian patients resistant to oral anticoagulant therapy.

PubMed

Orsi, Fernanda A; Annichino Bizzacchi, Joyce M; de Paula, Erich V; Ozelo, Margareth C; Langley, Michael R; Weck, Karen E

2010-09-01

Warfarin-based anticoagulant therapy is associated with large variability in dose response. Genetic variability in the VKORC1 and CYP2C9 genes is associated with increased warfarin sensitivity. In addition, rare coding region mutations in VKORC1 have been associated with resistance to warfarin. VKORC1 and CYP2C9 variability associated with altered warfarin response is less well characterized in African and mixed-raced populations such as Brazilians. To determine genetic variability associated with altered warfarin response among Brazilian patients, sixty-two adult patients with extreme resistance or sensitivity to warfarin were genotyped for variants in CYP2C9 and VKORC1. Of the 51 patients on low doses of warfarin, the VKORC1--1639 (3673) G>A polymorphism associated with warfarin sensitivity was present in 48 (94.1%), including 97% of Caucasians, 82% of African-descent patients, and all 7 (100%) patients of Indian descent. Additionally, 52.9% of warfarin sensitive patients had at least one CYP2C9*2 or CYP2C9*3 decreased metabolism allele, 63.6% of Caucasians and 54% of African-descent patients. Of the 11 patients on high doses of warfarin, sequencing of VKORC1 revealed a nonsynonymous V66M mutation in two warfarin resistant patients, both of African-descent. Brazilian patients requiring low doses of warfarin have a high frequency of VKORC1 and CYP2C9 variants associated with warfarin sensitivity. The presence of the rare VKORC1 V66M in two warfarin high dose outlier patients implies that this variant may be more frequent among African Brazilians and has implications for future warfarin studies in other populations of African descent. Copyright (c) 2010 Elsevier Ltd. All rights reserved.

Application of a case-control study design to investigate genotypic signatures of HIV-1 transmission.

PubMed

Mota, Talia M; Murray, John M; Center, Rob J; Purcell, Damian F J; McCaw, James M

2012-06-25

The characterization of HIV-1 transmission strains may inform the design of an effective vaccine. Shorter variable loops with fewer predicted glycosites have been suggested as signatures enriched in envelope sequences derived during acute HIV-1 infection. Specifically, a transmission-linked lack of glycosites within the V1 and V2 loops of gp120 provides greater access to an α4β7 binding motif, which promotes the establishment of infection. Also, a histidine at position 12 in the leader sequence of Env has been described as a transmission signature that is selected against during chronic infection. The purpose of this study is to measure the association of the presence of an α4β7 binding motif, the number of N-linked glycosites, the length of the variable loops, and the prevalence of histidine at position 12 with HIV-1 transmission. A case-control study design was used to measure the prevalence of these variables between subtype B and C transmission sequences and frequency-matched randomly-selected sequences derived from chronically infected controls. Subtype B transmission strains had shorter V3 regions than chronic strains (p = 0.031); subtype C transmission strains had shorter V1 loops than chronic strains (p = 0.047); subtype B transmission strains had more V3 loop glycosites (p = 0.024) than chronic strains. Further investigation showed that these statistically significant results were unlikely to be biologically meaningful. Also, there was no difference observed in the prevalence of a histidine at position 12 among transmission strains and controls of either subtype. Although a genetic bottleneck is observed after HIV-1 transmission, our results indicate that summary characteristics of Env hypothesised to be important in transmission are not divergent between transmission and chronic strains of either subtype. The success of a transmission strain to initiate infection may be a random event from the divergent pool of donor viral sequences. The characteristics explored through this study are important, but may not function as genotypic signatures of transmission as previously described.

Measurement of the Proton Spin Structure Function g1(x,Q2) for Q2 from 0.15 to 1.6 GeV2 with CLAS

NASA Astrophysics Data System (ADS)

Fatemi, R.; Skabelin, A. V.; Burkert, V. D.; Crabb, D.; Vita, R. De; Kuhn, S. E.; Minehart, R.; Adams, G.; Anciant, E.; Anghinolfi, M.; Asavapibhop, B.; Audit, G.; Auger, T.; Avakian, H.; Bagdasaryan, H.; Ball, J. P.; Barrow, S.; Battaglieri, M.; Beard, K.; Bektasoglu, M.; Bellis, M.; Bertozzi, W.; Bianchi, N.; Biselli, A. S.; Boiarinov, S.; Bonner, B. E.; Bosted, P. E.; Bouchigny, S.; Bradford, R.; Branford, D.; Brooks, W. K.; Butuceanu, C.; Calarco, J. R.; Carman, D. S.; Carnahan, B.; Cetina, C.; Ciciani, L.; Clark, R.; Cole, P. L.; Coleman, A.; Connelly, J.; Cords, D.; Corvisiero, P.; Crannell, H.; Cummings, J. P.; de Sanctis, E.; Degtyarenko, P. V.; Denizli, H.; Dennis, L.; Dharmawardane, K. V.; Dhuga, K. S.; Djalali, C.; Dodge, G. E.; Doughty, D.; Dragovitsch, P.; Dugger, M.; Dytman, S.; Eckhause, M.; Egiyan, H.; Egiyan, K. S.; Elouadrhiri, L.; Empl, A.; Eugenio, P.; Farhi, L.; Feuerbach, R. J.; Freyberger, A.; Ficenec, J.; Forest, T. A.; Frolov, V.; Funsten, H.; Gaff, S. J.; Garçon, M.; Gavalian, G.; Gilad, S.; Gilfoyle, G. P.; Giovanetti, K. L.; Girard, P.; Gordon, C. I.; Griffioen, K. A.; Guidal, M.; Guillo, M.; Guo, L.; Gyurjyan, V.; Hadjidakis, C.; Hancock, D.; Hardie, J.; Heddle, D.; Heimberg, P.; Hersman, F. W.; Hicks, K.; Hicks, R. S.; Holtrop, M.; Hu, J.; Hyde-Wright, C. E.; Ilieva, Y.; Ito, M. M.; Jenkins, D.; Joo, K.; Keith, C.; Kelley, J. H.; Kellie, J. D.; Khandaker, M.; Kim, K. Y.; Kim, K.; Kim, W.; Klein, A.; Klein, F. J.; Klimenko, A. V.; Klusman, M.; Kossov, M.; Koubarovski, V.; Kramer, L. H.; Kuang, Y.; Kuhn, J.; Lachniet, J.; Laget, J. M.; Lawrence, D.; Li, Ji; Livingston, K.; Longhi, A.; Lukashin, K.; Major, W.; Manak, J. J.; Marchand, C.; McAleer, S.; McNabb, J. W.; Mecking, B. A.; Mehrabyan, S.; Mestayer, M. D.; Meyer, C. A.; Mikhailov, K.; Mirazita, M.; Miskimen, R.; Morand, L.; Morrow, S. A.; Muccifora, V.; Mueller, J.; Mutchler, G. S.; Napolitano, J.; Nasseripour, R.; Nelson, S. O.; Niccolai, S.; Niculescu, G.; Niculescu, I.; Niczyporuk, B. B.; Niyazov, R. A.; Nozar, M.; O'Brien, J. T.; O'Rielly, G. V.; Osipenko, M.; Park, K.; Pasyuk, E.; Peterson, G.; Pivnyuk, N.; Pocanic, D.; Pogorelko, O.; Polli, E.; Pozdniakov, S.; Preedom, B. M.; Price, J. W.; Prok, Y.; Protopopescu, D.; Qin, L. M.; Raue, B. A.; Riccardi, G.; Ricco, G.; Ripani, M.; Ritchie, B. G.; Rock, S. E.; Ronchetti, F.; Rossi, P.; Rowntree, D.; Rubin, P. D.; Sabatié, F.; Sabourov, K.; Salgado, C.; Santoro, J. P.; Sapunenko, V.; Sargsyan, M.; Schumacher, R. A.; Seely, M.; Serov, V. S.; Sharabian, Y. G.; Shaw, J.; Simionatto, S.; Smith, E. S.; Smith, T.; Smith, L. C.; Sober, D. I.; Sorrel, L.; Spraker, M.; Stavinsky, A.; Stepanyan, S.; Stoler, P.; Strauch, S.; Taiuti, M.; Taylor, S.; Tedeschi, D. J.; Thoma, U.; Thompson, R.; Todor, L.; Tur, C.; Ungaro, M.; Vineyard, M. F.; Vlassov, A. V.; Wang, K.; Weinstein, L. B.; Weller, H.; Weygand, D. P.; Whisnant, C. S.; Wolin, E.; Wood, M. H.; Yegneswaran, A.; Yun, J.; Zhang, B.; Zhao, J.; Zhou, Z.

2003-11-01

Double-polarization asymmetries for inclusive ep scattering were measured at Jefferson Lab using 2.6 and 4.3GeV longitudinally polarized electrons incident on a longitudinally polarized NH3 target in the CLAS detector. The polarized structure function g1(x,Q2) was extracted throughout the nucleon resonance region and into the deep inelastic regime, for Q2=0.15 1.64 GeV2. The contributions to the first moment Γ1(Q2)=∫g1(x,Q2) dx were determined up to Q2=1.2 GeV2. Using a parametrization for g1 in the unmeasured low x regions, the complete first moment was estimated over this Q2 region. A rapid change in Γ1 is observed for Q2<1 GeV2, with a sign change near Q2=0.3 GeV2, indicating dominant contributions from the resonance region. At Q2=1.2 GeV2 our data are below the perturbative QCD evolved scaling value.

High-speed multicolor photometry of V834 Centaurus

NASA Technical Reports Server (NTRS)

Middleditch, John; Imamura, James N.; Wolff, Michael T.; Steiman-Cameron, Thomas Y.

1991-01-01

Results are presented of high-speed photometric observations of the Am Her object, V834 Centaurus which, during its high state, revealed the 0.3-0.9 Hz quasi-period oscillations (QPOs) with rms amplitudes of 3.3 +/-1.1 percent and 2.5 +/-0.8 percent in the V and R bands, respectively, while the U-band amplitude was consistent with zero on one night but was 2.5 +/-1.2 percent on the following night. The QPOs in the B band were always consistent with zero. The data were obtained on the nights of June 16-21, 1990, when the average V magnitude of V834 Cen was about 15.3, confirming the high-luminosity state. The dominance of the QPOs by V-band emission is in contrast to earlier studies by Larsson which found that the QPOs were dominated by emission in the B and R band, depending upon the luminosity state of V834 Cen. In all cases, the QPOs of V834 have frequencies of 0.3-0.9 Hz. It is inferred that the color of the QPOs could be highly variable between luminosity states and may be variable in the U band within the high-luminosity state.

Loss of a single N-linked glycan allows CD4-independent human immunodeficiency virus type 1 infection by altering the position of the gp120 V1/V2 variable loops.

PubMed

Kolchinsky, P; Kiprilov, E; Bartley, P; Rubinstein, R; Sodroski, J

2001-04-01

The gp120 envelope glycoprotein of primary human immunodeficiency virus type 1 (HIV-1) promotes virus entry by sequentially binding CD4 and the CCR5 chemokine receptor on the target cell. Previously, we adapted a primary HIV-1 isolate, ADA, to replicate in CD4-negative canine cells expressing human CCR5. The gp120 changes responsible for CD4-independent replication were limited to the V2 loop-V1/V2 stem. Here we show that elimination of a single glycosylation site at asparagine 197 in the V1/V2 stem is sufficient for CD4-independent gp120 binding to CCR5 and for HIV-1 entry into CD4-negative cells expressing CCR5. Deletion of the V1/V2 loops also allowed CD4-independent viral entry and gp120 binding to CCR5. The binding of the wild-type ADA gp120 to CCR5 was less dependent upon CD4 at 4 degrees C than at 37 degrees C. In the absence of the V1/V2 loops, neither removal of the N-linked carbohydrate at asparagine 197 nor lowering of the temperature increased the CD4-independent phenotypes. A CCR5-binding conformation of gp120, achieved by CD4 interaction or by modification of temperature, glycosylation, or variable loops, was preferentially recognized by the monoclonal antibody 48d. These results suggest that the CCR5-binding region of gp120 is occluded by the V1/V2 variable loops, the position of which can be modulated by temperature, CD4 binding, or an N-linked glycan in the V1/V2 stem.

The NuSTAR Hard X-Ray Survey of the Norma Arm Region

DOE Office of Scientific and Technical Information (OSTI.GOV)

Fornasini, Francesca M.; Tomsick, John A.; Chiu, Jeng-Lun

2017-04-01

We present a catalog of hard X-ray sources in a square-degree region surveyed by the Nuclear Spectroscopic Telescope Array ( NuSTAR ) in the direction of the Norma spiral arm. This survey has a total exposure time of 1.7 Ms, and the typical and maximum exposure depths are 50 ks and 1 Ms, respectively. In the area of deepest coverage, sensitivity limits of 5 × 10{sup −14} and 4 × 10{sup −14} erg s{sup −1} cm{sup −2} in the 3–10 and 10–20 keV bands, respectively, are reached. Twenty-eight sources are firmly detected, and 10 are detected with low significance; 8 of the 38 sources are expected tomore » be active galactic nuclei. The three brightest sources were previously identified as a low-mass X-ray binary, high-mass X-ray binary, and pulsar wind nebula. Based on their X-ray properties and multiwavelength counterparts, we identify the likely nature of the other sources as two colliding wind binaries, three pulsar wind nebulae, a black hole binary, and a plurality of cataclysmic variables (CVs). The CV candidates in the Norma region have plasma temperatures of ≈10–20 keV, consistent with the Galactic ridge X-ray emission spectrum but lower than the temperatures of CVs near the Galactic center. This temperature difference may indicate that the Norma region has a lower fraction of intermediate polars relative to other types of CVs compared to the Galactic center. The NuSTAR log N –log S distribution in the 10–20 keV band is consistent with the distribution measured by Chandra at 2–10 keV if the average source spectrum is assumed to be a thermal model with kT  ≈ 15 keV, as observed for the CV candidates.« less

Selective amplification of T-cell receptor variable region species is demonstrable but not essential in early lesions of psoriasis vulgaris: analysis by anchored polymerase chain reaction and hypervariable region size spectratyping.

PubMed

Vekony, M A; Holder, J E; Lee, A J; Horrocks, C; Eperon, I C; Camp, R D

1997-07-01

Several groups have investigated the role of T cells in the pathogenesis of psoriasis by determination of T-cell receptor (TCR) B-chain variable (V) region usage, both in chronic plaque (psoriasis vulgaris) and guttate forms, with various results. Because there are no data on TCR expression in early psoriasis vulgaris, when specific cellular immune events may be expected to be most pronounced, we have analyzed early lesions (less than 3 wk old) of ten patients, with highly reproducible results. We have developed a highly controlled anchored polymerase chain reaction (PCR) method in which TCR beta chain species are all amplified with the same primer pair and products are quantified by dot blot hybridization with BV family-specific oligonucleotide probes. Overexpression of certain TCR BV genes was observed in the majority of lesional biopsies, but in samples in which the expanded BV family formed more than 10% of total lesional BV (half of the samples analyzed), BV2 and BV6 predominated. The consistency of overexpression of these BV species between patients was much less than in previous studies of TCRBV usage in established chronic plaque psoriasis lesions. Complementarity-determining region 3 (CDR3) size spectratyping demonstrated evidence for selective clonal T cell accumulation in less than half of the lesional samples showing BV expansion. These results indicate that selective amplification of TCRBV species occurs in early psoriasis vulgaris but is not essential to the pathogenic process and may be more important in the maintenance or expansion of chronic lesions.

Activation-induced cytidine deaminase (AID)-dependent somatic hypermutation requires a splice isoform of the serine/arginine-rich (SR) protein SRSF1

PubMed Central

Kanehiro, Yuichi; Todo, Kagefumi; Negishi, Misaki; Fukuoka, Junji; Gan, Wenjian; Hikasa, Takuya; Kaga, Yoshiaki; Takemoto, Masayuki; Magari, Masaki; Li, Xialu; Manley, James L.; Ohmori, Hitoshi; Kanayama, Naoki

2012-01-01

Somatic hypermutation (SHM) of Ig variable region (IgV) genes requires both IgV transcription and the enzyme activation-induced cytidine deaminase (AID). Identification of a cofactor responsible for the fact that IgV genes are much more sensitive to AID-induced mutagenesis than other genes is a key question in immunology. Here, we describe an essential role for a splice isoform of the prototypical serine/arginine-rich (SR) protein SRSF1, termed SRSF1-3, in AID-induced SHM in a DT40 chicken B-cell line. Unexpectedly, we found that SHM does not occur in a DT40 line lacking SRSF1-3 (DT40-ASF), although it is readily detectable in parental DT40 cells. Strikingly, overexpression of AID in DT40-ASF cells led to a large increase in nonspecific (off-target) mutations. In contrast, introduction of SRSF1-3, but not SRSF1, into these cells specifically restored SHM without increasing off-target mutations. Furthermore, we found that SRSF1-3 binds preferentially to the IgV gene and inhibits processing of the Ig transcript, providing a mechanism by which SRSF1-3 makes the IgV gene available for AID-dependent SHM. SRSF1 not only acts as an essential splicing factor but also regulates diverse aspects of mRNA metabolism and maintains genome stability. Our findings, thus, define an unexpected and important role for SRSF1, particularly for its splice variant, in enabling AID to function specifically on its natural substrate during SHM. PMID:22232677

Activation-induced cytidine deaminase (AID)-dependent somatic hypermutation requires a splice isoform of the serine/arginine-rich (SR) protein SRSF1.

PubMed

Kanehiro, Yuichi; Todo, Kagefumi; Negishi, Misaki; Fukuoka, Junji; Gan, Wenjian; Hikasa, Takuya; Kaga, Yoshiaki; Takemoto, Masayuki; Magari, Masaki; Li, Xialu; Manley, James L; Ohmori, Hitoshi; Kanayama, Naoki

2012-01-24

Somatic hypermutation (SHM) of Ig variable region (IgV) genes requires both IgV transcription and the enzyme activation-induced cytidine deaminase (AID). Identification of a cofactor responsible for the fact that IgV genes are much more sensitive to AID-induced mutagenesis than other genes is a key question in immunology. Here, we describe an essential role for a splice isoform of the prototypical serine/arginine-rich (SR) protein SRSF1, termed SRSF1-3, in AID-induced SHM in a DT40 chicken B-cell line. Unexpectedly, we found that SHM does not occur in a DT40 line lacking SRSF1-3 (DT40-ASF), although it is readily detectable in parental DT40 cells. Strikingly, overexpression of AID in DT40-ASF cells led to a large increase in nonspecific (off-target) mutations. In contrast, introduction of SRSF1-3, but not SRSF1, into these cells specifically restored SHM without increasing off-target mutations. Furthermore, we found that SRSF1-3 binds preferentially to the IgV gene and inhibits processing of the Ig transcript, providing a mechanism by which SRSF1-3 makes the IgV gene available for AID-dependent SHM. SRSF1 not only acts as an essential splicing factor but also regulates diverse aspects of mRNA metabolism and maintains genome stability. Our findings, thus, define an unexpected and important role for SRSF1, particularly for its splice variant, in enabling AID to function specifically on its natural substrate during SHM.

Goddard High Resolution Spectrograph Observations of Variability in the RS Canum Venaticorum System V711 Tauri (HR 1099)

NASA Technical Reports Server (NTRS)

Dempsey, Robert C.; Neff, James E.; Thorpe, Marjorie J.; Linsky, Jeffrey L.; Brown, Alexander; Cutispoto, Giuseppe; Rodono, Marcello

1996-01-01

Goddard High Resolution Spectrograph (GHRS) observations of the RS CVn-type binary V711 Tau (Kl IV+G5 IV) were obtained at several phases over two consecutive stellar orbital cycles in order to study ultraviolet emission-line profile and flux variability. Spectra cover the Mg II h and k lines, C IV doublet, and Si IV region, as well as the density-sensitive lines of C III] (1909 A) and Si III] (1892 A). IUE spectra, Extreme Ultra Violet (EUV) data, and Ultraviolet, Blue, Visual (UBV) photometry were obtained contemporaneously with the GHRS data. Variable extended wings were detected in the Mg II lines. We discuss the Mg II line profile variability using various Gaussian emission profile models. No rotational modulation of the line profiles was observed, but there were several large flares. These flares produced enhanced emission in the extended line wings, radial velocity shifts, and asymmetries in some line profiles. Nearly continuous flaring for more than 24 hr, as indicated in the IUE data, represents the most energetic and long-lived chromospheric and transition region flare ever observed with a total energy much greater than 5 x 10(exp 35) ergs. The C III] to Si III] line ratio is used to estimate the plasma density during the flares.

Clinical and molecular predictors of disease severity and survival in chronic lymphocytic leukemia.

PubMed

Weinberg, J Brice; Volkheimer, Alicia D; Chen, Youwei; Beasley, Bethany E; Jiang, Ning; Lanasa, Mark C; Friedman, Daphne; Vaccaro, Gina; Rehder, Catherine W; Decastro, Carlos M; Rizzieri, David A; Diehl, Louis F; Gockerman, Jon P; Moore, Joseph O; Goodman, Barbara K; Levesque, Marc C

2007-12-01

Several parameters may predict disease severity and overall survival in chronic lymphocytic leukemia (CLL). The purpose of our study of 190 CLL patients was to compare immunoglobulin heavy chain variable region (IgV(H)) mutation status, cytogenetic abnormalities, and leukemia cell CD38 and Zap-70 to older, traditional parameters. We also wanted to construct a simple, inexpensive prognosis score that would significantly predict TTT and survival in patients at the time of diagnosis and help practicing clinicians. In univariate analyses, patients with higher clinical stage, higher leukocyte count at diagnosis, shorter leukocyte doubling time, elevated serum lactate dehydrogenase (LDH), unmutated immunoglobulin heavy chain variable region (IgV(H)) genes, and higher CD38 had a shorter overall survival and time-to-treatment (TTT). CLL cell Zap-70 expression was higher in patients with unmutated IgV(H), and those with higher Zap-70 tended to have shorter survival. IgV(H)4-34 or IgV(H)1-69 was the most common IgV(H) genes used (16 and 12%, respectively). Of those with IgV(H)1-69, 86% had unmutated IgV(H) and had a significantly shorter TTT. A cytogenetic abnormality was noted in 71% of the patients tested. Patients with 11q22 del and 17p13 del or complex abnormalities were significantly more likely to have unmutated IgV(H). We found that a prognostic score constructed using modified Rai stage, cellular CD38, and serum LDH (parameters easily obtained clinically) significantly predicted TTT and survival in patients at the time of diagnosis and performed as well or better than models using the newer markers.

Differential regulation of genomic imprinting by TET proteins in embryonic stem cells.

PubMed

Liu, Lizhi; Mao, Shi-Qing; Ray, Chelsea; Zhang, Yu; Bell, Fong T; Ng, Sheau-Fang; Xu, Guo-Liang; Li, Xiajun

2015-09-01

TET proteins have been found to play an important role in active demethylation at CpG sites in mammals. There are some reports implicating their functions in removal of DNA methylation imprint at the imprinted regions in the germline. However, it is not well established whether TET proteins can also be involved in demethylation of DNA methylation imprint in embryonic stem (ES) cells. Here we report that loss of TET proteins caused a significant increase in DNA methylation at the Igf2-H19 imprinted region in ES cells. We also observed a variable increase in DNA methylation at the Peg1 imprinted region in the ES clones devoid of TET proteins, in particular in the differentiated ES cells. By contrast, we did not observe a significant increase of DNA methylation imprint at the Peg3, Snrpn and Dlk1-Dio3 imprinted regions in ES cells lacking TET proteins. Interestingly, loss of TET proteins did not result in a significant increase of DNA methylation imprint at the Igf2-H19 and Peg1 imprinted regions in the embryoid bodies (EB). Therefore, TET proteins seem to be differentially involved in maintaining DNA methylation imprint at a subset of imprinted regions in ES cells and EBs. Copyright © 2015 The Authors. Published by Elsevier B.V. All rights reserved.

The ASAS-SN catalogue of variable stars I: The Serendipitous Survey

NASA Astrophysics Data System (ADS)

Jayasinghe, T.; Kochanek, C. S.; Stanek, K. Z.; Shappee, B. J.; Holoien, T. W.-S.; Thompson, Toda A.; Prieto, J. L.; Dong, Subo; Pawlak, M.; Shields, J. V.; Pojmanski, G.; Otero, S.; Britt, C. A.; Will, D.

2018-07-01

The All-Sky Automated Survey for Supernovae (ASAS-SN) is the first optical survey to routinely monitor the whole sky with a cadence of ˜2-3 d down to V ≲ 17 mag. ASAS-SN has monitored the whole sky since 2014, collecting ˜100-500 epochs of observations per field. The V-band light curves for candidate variables identified during the search for supernovae are classified using a random forest classifier and visually verified. We present a catalogue of 66 179 bright, new variable stars discovered during our search for supernovae, including 27 479 periodic variables and 38 700 irregular variables. V-band light curves for the ASAS-SN variables are available through the ASAS-SN variable stars data base (https://asas-sn.osu.edu/variables). The data base will begin to include the light curves of known variable stars in the near future along with the results for a systematic, all-sky variability survey.

Cryptic Nature of a Conserved, CD4-Inducible V3 Loop Neutralization Epitope in the Native Envelope Glycoprotein Oligomer of CCR5-Restricted, but Not CXCR4-Using, Primary Human Immunodeficiency Virus Type 1 Strains

PubMed Central

Lusso, Paolo; Earl, Patricia L.; Sironi, Francesca; Santoro, Fabio; Ripamonti, Chiara; Scarlatti, Gabriella; Longhi, Renato; Berger, Edward A.; Burastero, Samuele E.

2005-01-01

The external subunit of the human immunodeficiency virus type 1 (HIV-1) envelope glycoprotein (Env), gp120, contains conserved regions that mediate sequential interactions with two cellular receptor molecules, CD4 and a chemokine receptor, most commonly CCR5 or CXCR4. However, antibody accessibility to such regions is hindered by diverse protective mechanisms, including shielding by variable loops, conformational flexibility and extensive glycosylation. For the conserved neutralization epitopes hitherto described, antibody accessibility is reportedly unrelated to the viral coreceptor usage phenotype. Here, we characterize a novel, conserved gp120 neutralization epitope, recognized by a murine monoclonal antibody (MAb), D19, which is differentially accessible in the native HIV-1 Env according to its coreceptor specificity. The D19 epitope is contained within the third variable (V3) domain of gp120 and is distinct from those recognized by other V3-specific MAbs. To study the reactivity of MAb D19 with the native oligomeric Env, we generated a panel of PM1 cells persistently infected with diverse primary HIV-1 strains. The D19 epitope was conserved in the majority (23/29; 79.3%) of the subtype-B strains tested, as well as in selected strains from other genetic subtypes. Strikingly, in CCR5-restricted (R5) isolates, the D19 epitope was invariably cryptic, although it could be exposed by addition of soluble CD4 (sCD4); epitope masking was dependent on the native oligomeric structure of Env, since it was not observed with the corresponding monomeric gp120 molecules. By contrast, in CXCR4-using strains (X4 and R5X4), the epitope was constitutively accessible. In accordance with these results, R5 isolates were resistant to neutralization by MAb D19, becoming sensitive only upon addition of sCD4, whereas CXCR4-using isolates were neutralized regardless of the presence of sCD4. Other V3 epitopes examined did not display a similar divergence in accessibility based on coreceptor usage phenotype. These results provide the first evidence of a correlation between HIV-1 biological phenotype and neutralization sensitivity, raising the possibility that the in vivo evolution of HIV-1 coreceptor usage may be influenced by the selective pressure of specific host antibodies. PMID:15890935

The extremely metal-poor galaxy DDO 68: the luminous blue variable, Hα shells and the most luminous stars

NASA Astrophysics Data System (ADS)

Pustilnik, S. A.; Makarova, L. N.; Perepelitsyna, Y. A.; Moiseev, A. V.; Makarov, D. I.

2017-03-01

This paper presents new results from the ongoing study of the unusual Lynx-Cancer void galaxy DDO 68, which has star-forming regions of record low metallicity [12+log (O/H) ˜7.14]. The results include the following. (I) A new spectrum and photometry have been obtained with the 6-m SAO RAS telescope (BTA) for the luminous blue variable (LBV = DDO68-V1). Photometric data sets were complemented with others based on the Sloan Digital Sky Survey (SDSS) and the Hubble Space Telescope (HST) archive images. (II) We performed an analysis of the DDO 68 supergiant shell (SGS) and the prominent smaller Hα arcs/shells visible in the HST image coupled with kinematic maps in Hα obtained with the Fabry-Perot interferometer (FPI) at the BTA. (III) We compiled a list of about 50 of the most luminous stars (-9.1 mag < MV < -6.0 mag) identified from the HST images associated with the star-forming regions with known extremely low O/H. This is intended to pave the path for the current science to be investigated with the next generation of giant telescopes. We have confirmed earlier hints of significant variation of the LBV optical light, deriving its amplitude as ΔV ≳ 3.7 mag for the first time. New data suggest that in 2008-2010 the LBV reached MV = -10.5 mag and probably underwent a giant eruption. We argue that the structure of star-forming complexes along the SGS ('Northern Ring') perimeter provides evidence for sequential induced star-formation episodes caused by the shell gas instabilities and gravitational collapse. The variability of some luminous extremely metal-poor stars in DDO 68 can currently be monitored with medium-size telescopes at sites with superb seeing.

Distribution of calcium channel Ca(V)1.3 immunoreactivity in the rat spinal cord and brain stem.

PubMed

Sukiasyan, N; Hultborn, H; Zhang, M

2009-03-03

The function of local networks in the CNS depends upon both the connectivity between neurons and their intrinsic properties. An intrinsic property of spinal motoneurons is the presence of persistent inward currents (PICs), which are mediated by non-inactivating calcium (mainly Ca(V)1.3) and/or sodium channels and serve to amplify neuronal input signals. It is of fundamental importance for the prediction of network function to determine the distribution of neurons possessing the ion channels that produce PICs. Although the distribution pattern of Ca(V)1.3 immunoreactivity (Ca(V)1.3-IR) has been studied in some specific central nervous regions in some species, so far no systematic investigations have been performed in both the rat spinal cord and brain stem. In the present study this issue was investigated by immunohistochemistry. The results indicated that the Ca(V)1.3-IR neurons were widely distributed across different parts of the spinal cord and the brain stem although with variable labeling intensities. In the spinal gray matter large neurons in the ventral horn (presumably motoneurons) tended to display higher levels of immunoreactivity than smaller neurons in the dorsal horn. In the white matter, a subset of glial cells labeled by an oligodendrocyte marker was also Ca(V)1.3-positive. In the brain stem, neurons in the motor nuclei appeared to have higher levels of immunoreactivity than those in the sensory nuclei. Moreover, a number of nuclei containing monoaminergic cells, for example the locus coeruleus, were also strongly immunoreactive. Ca(V)1.3-IR was consistently detected in the neuronal perikarya regardless of the neuronal type. However, in the large neurons in the spinal ventral horn and the cranial motor nuclei the Ca(V)1.3-IR was clearly detectable in first and second order dendrites. These results indicate that in the rat spinal cord and brain stem Ca(V)1.3 is probably a common calcium channel used by many kinds of neurons to facilitate the neuronal information processing via certain intracellular mechanisms, for instance, PICs.

An X-ray survey of the central molecular zone: Variability of the Fe Kα emission line

NASA Astrophysics Data System (ADS)

Terrier, R.; Clavel, M.; Soldi, S.; Goldwurm, A.; Ponti, G.; Morris, M. R.; Chuard, D.

2018-05-01

There is now abundant evidence that the luminosity of the Galactic super-massive black hole (SMBH) has not always been as low as it is nowadays. The observation of varying non-thermal diffuse X-ray emission in molecular complexes in the central 300 pc has been interpreted as delayed reflection of a past illumination by bright outbursts of the SMBH. The observation of different variability timescales of the reflected emission in the Sgr A molecular complex can be well explained if the X-ray emission of at least two distinct and relatively short events (i.e. about 10 yr or less) is currently propagating through the region. The number of such events or the presence of a long-duration illumination are open questions. Variability of the reflected emission all over of the central 300 pc, in particular in the 6.4 keV Fe Kα line, can bring strong constraints. To do so we performed a deep scan of the inner 300 pc with XMM-Newton in 2012. Together with all the archive data taken over the course of the mission, and in particular a similar albeit more shallow scan performed in 2000-2001, this allows for a detailed study of variability of the 6.4 keV line emission in the region, which we present here. We show that the overall 6.4 keV emission does not strongly vary on average, but variations are very pronounced on smaller scales. In particular, most regions showing bright reflection emission in 2000-2001 significantly decrease by 2012. We discuss those regions and present newly illuminated features. The absence of bright steady emission argues against the presence of an echo from an event of multi-centennial duration and most, if not all, of the emission can likely be explained by a limited number of relatively short (i.e. up to 10 yr) events. Images of the Fe Kα emission as FITS files are only available at the CDS via anonymous ftp to cdsarc.u-strasbg.fr (130.79.128.5) or via http://cdsarc.u-strasbg.fr/viz-bin/qcat?J/A+A/612/A102

Effects of Grapevine Leafroll associated Virus 3 (GLRaV-3) and duration of infection on fruit composition and wine chemical profile of Vitis vinifera L. cv. Sauvignon blanc.

PubMed

Montero, R; Mundy, D; Albright, A; Grose, C; Trought, M C T; Cohen, D; Chooi, K M; MacDiarmid, R; Flexas, J; Bota, J

2016-04-15

In order to determine the effects of Grapevine Leafroll associated Virus 3 (GLRaV-3) on fruit composition and chemical profile of juice and wine from Vitis vinifera L. cv. Sauvignon blanc grown in New Zealand, composition variables were measured on fruit from vines either infected with GLRaV-3 (established or recent infections) or uninfected vines. Physiological ripeness (20.4°Brix) was the criterion established to determine the harvest date for each of the three treatments. Date of grape ripeness was strongly affected by virus infection. In juice and wine, GLRaV-3 infection prior to 2008 reduced titratable acidity compared with the uninfected control. Differences observed in amino acids from the three infection status groups did not modify basic wine chemical properties. In conclusion, GLRaV-3 infection slowed grape ripening, but at equivalent ripeness to result in minimal effects on the juice and wine chemistry. Time of infection produced differences in specific plant physiological variables. Copyright © 2015 Elsevier Ltd. All rights reserved.

Variable gamma-ray sky at 1 GeV

NASA Astrophysics Data System (ADS)

Pshirkov, M. S.; Rubtsov, G. I.

2013-01-01

We search for the long-term variability of the gamma-ray sky in the energy range E > 1 GeV with 168 weeks of the gamma-ray telescope Fermi-LAT data. We perform a full sky blind search for regions with variable flux looking for deviations from uniformity. We bin the sky into 12288 pixels using the HEALPix package and use the Kolmogorov-Smirnov test to compare weekly photon counts in each pixel with the constant flux hypothesis. The weekly exposure of Fermi-LAT for each pixel is calculated with the Fermi-LAT tools. We consider flux variations in a pixel significant if the statistical probability of uniformity is less than 4 × 10-6, which corresponds to 0.05 false detections in the whole set. We identified 117 variable sources, 27 of which have not been reported variable before. The sources with previously unidentified variability contain 25 active galactic nuclei (AGN) belonging to the blazar class (11 BL Lacs and 14 FSRQs), one AGN of an uncertain type, and one pulsar PSR J0633+1746 (Geminga).

A variable region within the genome of Streptococcus pneumoniae contributes to strain-strain variation in virulence.

PubMed

Harvey, Richard M; Stroeher, Uwe H; Ogunniyi, Abiodun D; Smith-Vaughan, Heidi C; Leach, Amanda J; Paton, James C

2011-05-05

The bacterial factors responsible for the variation in invasive potential between different clones and serotypes of Streptococcus pneumoniae are largely unknown. Therefore, the isolation of rare serotype 1 carriage strains in Indigenous Australian communities provided a unique opportunity to compare the genomes of non-invasive and invasive isolates of the same serotype in order to identify such factors. The human virulence status of non-invasive, intermediately virulent and highly virulent serotype 1 isolates was reflected in mice and showed that whilst both human non-invasive and highly virulent isolates were able to colonize the murine nasopharynx equally, only the human highly virulent isolates were able to invade and survive in the murine lungs and blood. Genomic sequencing comparisons between these isolates identified 8 regions >1 kb in size that were specific to only the highly virulent isolates, and included a version of the pneumococcal pathogenicity island 1 variable region (PPI-1v), phage-associated adherence factors, transporters and metabolic enzymes. In particular, a phage-associated endolysin, a putative iron/lead permease and an operon within PPI-1v exhibited niche-specific changes in expression that suggest important roles for these genes in the lungs and blood. Moreover, in vivo competition between pneumococci carrying PPI-1v derivatives representing the two identified versions of the region showed that the version of PPI-1v in the highly virulent isolates was more competitive than the version from the less virulent isolates in the nasopharyngeal tissue, blood and lungs. This study is the first to perform genomic comparisons between serotype 1 isolates with distinct virulence profiles that correlate between mice and humans, and has highlighted the important role that hypervariable genomic loci, such as PPI-1v, play in pneumococcal disease. The findings of this study have important implications for understanding the processes that drive progression from colonization to invasive disease and will help direct the development of novel therapeutic strategies.

Rapid variability of blazar 3C 279 during flaring states in 2013-2014 with joint FERMI-LAT, NuSTAR, SWIFT, and ground-based multi-wavelength observations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hayashida, M.; Nalewajko, K.; Madejski, G. M.

2015-07-02

Here we report the results of a multiband observing campaign on the famous blazar 3C 279 conducted during a phase of increased activity from 2013 December to 2014 April, including first observations of it with NuSTAR. The γ-ray emission of the source measured by Fermi-LAT showed multiple distinct flares reaching the highest flux level measured in this object since the beginning of the Fermi mission, with F(E>100 MeV) of 10 -5 photons cm -2 s -1, and with a flux-doubling time scale as short as 2 hr. The γ-ray spectrum during one of the flares was very hard, with an index of Γ γ =1.7±0.1, which is rarely seen in flat-spectrum radio quasars. The lack of concurrent optical variability implies a very high Compton dominance parameter L γ/L syn > 300. Two 1 day NuSTAR observations with accompanying Swift pointings were separated by 2 weeks, probing different levels of source activity. While the 0.5-70 keV X-ray spectrum obtained during the first pointing, and fitted jointly with Swift-XRT is well-described by a simple power law, the second joint observation showed an unusual spectral structure: the spectrum softens by ΔΓ xmore » $$\\simeq$$ 0.4 at ~ keV. Modeling the broadband spectral energy distribution during this flare with the standard synchrotron plus inverse-Compton model requires: (1) the location of the γ-ray emitting region is comparable with the broad-line region radius, (2) a very hard electron energy distribution index p $$\\simeq$$ 1, (3) total jet power significantly exceeding the accretion-disk luminosity L j/L d ≳ 10, and (4) extremely low jet magnetization with L B/L j ≲ 10 -4. In conclusion, we also find that single-zone models that match the observed γ-ray and optical spectra cannot satisfactorily explain the production of X-ray emission.« less

Study on the association between drug‑resistance and gene mutations of the active efflux pump acrAB‑tolC gene and its regulatory genes.

PubMed

Ma, Quan-Ping; Su, Liang; Liu, Jing-Wen; Yao, Ming-Xiao; Yuan, Guang-Ying

2018-06-01

The aim of the present study was to investigate the correlation between the multi‑drug resistance of Shigella flexneri and the drug‑resistant gene cassette carried by integrons; in the meanwhile, to detect the associations between drug‑resistance and gene mutations of the active efflux pump acrAB‑tolC gene and its regulatory genes, including marOR, acrR and soxS. A total of 158 isolates were isolated from the stool samples of 1,026 children with diarrhoea aged 14 years old between May 2012 and October 2015 in Henan. The K‑B method was applied for the determination of drug resistance of Shigella flexneri, and polymerase chain reaction amplification was used for class 1, 2 and 3 integrase genes. Enzyme digestion and sequence analysis were performed for the variable regions of positive strains. Based on the drug sensitivity assessment, multi‑drug resistant strains that were resistant to five or more antibiotics, and sensitive strains were selected for amplification. Their active efflux pump genes, acrA and acrB, and regulatory genes, marOR, acrR and soxS, were selected for sequencing. The results revealed that 91.1% of the 158 strains were multi‑resistant to ampicillin, chloramphenicol, tetracycline and streptomycin, and 69.6% of the strains were multi‑resistant to sulfamethoxazole/trimethoprim. The resistance to ceftazidime, ciprofloxacin and levofloxacin was <32.9%. All strains (100%) were sensitive to cefoxitin, cefoperazone/sulbactam and imipenem. The rate of the class 1 integron positivity was 91.9% (144/158). Among these class 1 integron‑positive strains, 18 strains exhibited the resistance gene cassette dfrV in the variable region of the strain, four strains exhibited dfrA17‑aadA5 in the variable region and 140 strains exhibited blaOXA‑30‑aadA1 in the variable region. Four strains showed no resistance gene in the variable regions. The rate of class 2 integron positivity was 86.1% (136/158), and all positive strains harboured the dfrA1‑sat1‑aadA resistance gene cassette in the variable region. The class 3 integrase gene was not detected in these strains. The gene sequencing showed the deletion of base CATT in the 36, 37, 38, 39 site in the marOR gene, which is a regulatory gene of the active efflux pump, AcrAB‑TolC. Taken together, the multi‑drug resistance of Shigella flexneri was closely associated with gene mutations of class 1 and 2 integrons and the marOR gene.

Experimental evidence of charge transfer in a functionalized hexavanadate: a high resolution X-ray diffraction study.

PubMed

Xu, Xiao; Spasojević-de Biré, Anne; Ghermani, Nour Eddine; Wei, Yongge; Novaković, Sladjana; Bošnjaković-Pavlović, Nada; Wu, Pingfan

2017-07-19

A high resolution X-ray diffraction study has been carried out on [(C 4 H 9 ) 4 N] 2 [V 6 O 13 {(OCH 2 ) 3 CCH 2 OCCH 2 CH 3 } 2 ] (V6-C3) at 100 K. The V6 core possesses a negative charge, leading to a strong polarization of the anion. A nucleophilic region localized near the organic moiety and an electrophilic region in the vicinity of the V6 core provide an overall description of charge-transfer behavior.

Correlation structures from soft and semi-hard components in p-p collisions at √s =200 GeV

DOE PAGES

Porter, R. J.; Trainor, T. A.

2005-02-01

We present preliminary two-particle correlations for unidentified hadrons in p-p collisions at √s =200 GeV. On two-particle transverse rapidity space y t Ⓧ y t two distinct regions of correlated pairs are observed: a peaked structure at low y t (P t ≤ 0.4 GeV/c) and a broad structure at higher y t , where the correlation is distributed as a 2D Gaussian centered at y t1 = y t2 ≃ 2.8 (p t1 , p t2 ≃ 1.2 GeV/c). We select those regions separately, projecting correlations onto momentum- difference variables (ηΔ, φΔ), and observe structures interpretable in the contextmore » of string and parton fragmentations from soft and semi-hard components of p-p collisions.« less

UTLS water vapour from SCIAMACHY limb measurementsV3.01 (2002–2012)

PubMed Central

Weigel, K.; Rozanov, A.; Azam, F.; Bramstedt, K.; Damadeo, R.; Eichmann, K.-U.; Gebhardt, C.; Hurst, D.; Kraemer, M.; Lossow, S.; Read, W.; Spelten, N.; Stiller, G. P.; Walker, K. A.; Weber, M.; Bovensmann, H.; Burrows, J. P.

2017-01-01

The SCanning Imaging Absorption spectroMeter for Atmospheric CHartographY (SCIAMACHY) aboard the Envisat satellite provided measurements from August 2002 until April 2012. SCIAMACHY measured the scattered or direct sunlight using different observation geometries. The limb viewing geometry allows the retrieval of water vapour at about 10–25 km height from the near-infrared spectral range (1353–1410 nm). These data cover the upper troposphere and lower stratosphere (UTLS), a region in the atmosphere which is of special interest for a variety of dynamical and chemical processes as well as for the radiative forcing. Here, the latest data version of water vapour (V3.01) from SCIAMACHY limb measurements is presented and validated by comparisons with data sets from other satellite and in situ measurements. Considering retrieval tests and the results of these comparisons, the V3.01 data are reliable from about 11 to 23 km and the best results are found in the middle of the profiles between about 14 and 20 km. Above 20 km in the extra tropics V3.01 is drier than all other data sets. Additionally, for altitudes above about 19 km, the vertical resolution of the retrieved profile is not sufficient to resolve signals with a short vertical structure like the tape recorder. Below 14 km, SCIAMACHY water vapour V3.01 is wetter than most collocated data sets, but the high variability of water vapour in the troposphere complicates the comparison. For 14–20 km height, the expected errors from the retrieval and simulations and the mean differences to collocated data sets are usually smaller than 10 % when the resolution of the SCIAMACHY data is taken into account. In general, the temporal changes agree well with collocated data sets except for the Northern Hemisphere extratropical stratosphere, where larger differences are observed. This indicates a possible drift in V3.01 most probably caused by the incomplete treatment of volcanic aerosols in the retrieval. In all other regions a good temporal stability is shown. In the tropical stratosphere an increase in water vapour is found between 2002 and 2012, which is in agreement with other satellite data sets for overlapping time periods. PMID:29263764

The skin microbiome in psoriatic arthritis: methodology development and pilot data.

PubMed

Castelino, Madhura; Eyre, Stephen; Moat, John; Fox, Graeme; Martin, Paul; Ijaz, Umer; Quince, Christopher; Ho, Pauline; Upton, Mathew; Barton, Anne

2015-02-26

Skin microbiota are likely to be important in the development of conditions such as psoriatic arthritis. Profiling the bacterial community in the psosriatic plaques will contribute to our understanding of the role of the skin microbiome in these conditions. The aim of this work was to determine the optimum study design for work on the skin microbiome with use of the MiSeq platform. The objectives were to compare data generated from two platforms for two primer pairs in a low density mock bacterial community. DNA was obtained from two low density mock communities of 11 diverse bacterial strains (with and without human DNA supplementation) and from swabs taken from the skin of four healthy volunteers. The DNA was amplified with primer pairs covering hypervariable regions of the 16S rRNA gene: primers 63F and 519R (V1-V3), and 347F and 803R (V3-V4). The resultant libraries were indexed for the MiSeq and Roche454 platforms and sequenced. Both datasets were de-noised, cleaned of chimeras, and analysed by use of QIIME software (version 1.8.0). No significant difference in the diversity indices at the phylum and the genus level between the platforms was seen. Comparison of the diversity indices for the mock community data for the two primer pairs demonstrated that the V3-V4 hypervariable region had significantly better capture of bacterial diversity than did the V1-V3 region. Amplification with the same primer pairs showed strong concordance within each platform (98·9-99·8%), with negligible effect of spiked human DNA contamination. Comparison at the family level classification between samples processed on the MiSeq and Roche454 platforms using the V3-V4 hypervariable region also showed a high level of concordance (87%), although less so for the V1-V3 primers (10%). The pilot data from healthy volunteers were similar. Results obtained from the V3-V4 16S rRNA hypervariable region, sequencing on the MiSeq and Roche454 platforms, were concordant between replicates, and between each other. These findings suggest that the MiSeq platform, and these primers, is a comparable method for determining skin microbiota to the widely used Roche454 methodology. NIHR Manchester Musculoskeletal Biomedical Research Unit. Copyright © 2015 Elsevier Ltd. All rights reserved.

Diversity in the 18S SSU rRNA V4 hyper-variable region of Theileria spp. in Cape buffalo (Syncerus caffer) and cattle from southern Africa.

PubMed

Mans, Ben J; Pienaar, Ronel; Latif, Abdalla A; Potgieter, Fred T

2011-05-01

Sequence variation within the 18S SSU rRNA V4 hyper-variable region can affect the accuracy of real-time hybridization probe-based diagnostics for the detection of Theileria spp. infections. This is relevant for assays that use non-specific primers, such as the real-time hybridization assay for T. parva (Sibeko et al. 2008). To assess the effect of sequence variation on this test, the Theileria 18S gene from 62 buffalo and 49 cattle samples was cloned and ∼1000 clones sequenced. Twenty-six genotypes were detected which included known and novel genotypes for the T. buffeli, T. mutans, T. taurotragi and T. velifera clades. A novel genotype related to T. sp. (sable) was also detected in 1 bovine sample. Theileria genotypic diversity was higher in buffalo compared to cattle. Polymorphism within the T. parva hyper-variable region was confirmed by aberrant real-time melting peaks and supported by sequencing of the S5 ribosomal gene. Analysis of the S5 gene suggests that this gene can be a marker for species differentiation. T. parva, T. sp. (buffalo) and T. sp. (bougasvlei) remain the only genotypes amplified by the primer set of the hybridization assay. Therefore, the 18S sequence diversity observed does not seem to affect the current real-time hybridization assay for T. parva.

Linkage mapping of a mouse gene, iv, that controls left-right asymmetry of the heart and viscera.

PubMed Central

Brueckner, M; D'Eustachio, P; Horwich, A L

1989-01-01

Inherited single gene defects have been identified in both humans and mice that lead to loss of developmental control over the left-right asymmetry of the heart and viscera. In mice the recessively inherited mutation iv leads to such apparent loss of control over situs: 50% of iv/iv mice exhibit situs inversus and 50% exhibit normal situs. The affected gene product has not been identified in these animals. To study the normal function of iv, we have taken an approach directed to the gene itself. As a first step, we have mapped iv genetically, by examining its segregation in backcrosses with respect to markers defined by restriction fragment length polymorphisms. The iv locus lies 3 centimorgans (cM) from the immunoglobulin heavy-chain constant-region gene complex (Igh-C) on chromosome 12. A multilocus map of the region suggests the gene order centromere-Aat (alpha 1-antitrypsin gene complex)-(11 cM)-iv-(3 cM)-Igh-C-(1 cM)-Igh-V (immunoglobulin heavy-chain variable-region gene complex). Images PMID:2740340

Comment on: "Synchronizing biological cycles as key to survival under a scenario of global change: The Common quail (Coturnix coturnix) strategy" by Nadal, J., Ponz, C., Margalida, A.

PubMed

Rodríguez-Teijeiro, José Domingo; García-Galea, Eduardo; Sardà-Palomera, Francesc; Jiménez-Blasco, Irene; Puigcerver, Manel

2018-04-03

Nadal et al. (2018) recently reported on changes in the phenology of the Common quail (Coturnix coturnix) in seven cloudy regions of Spain in relation to climate change. The authors used a long-term ringing database (1961-2014) and calculated the mean date for three biological stages: arrival at the breeding areas, stay and autumn departure. They observed that some of these phenological variables were associated with the climate variables of temperature and rainfall (Figs. 4 and 6 of their article). They also analysed the yearly variation in temperature and rainfall over the last 86years, reporting an increase in temperature and a decrease in rainfall (Figs. 3 and 5 of their article). Based on these results, the authors suggested that the Common quail phenology has varied as a response to climate change in Spain, thus concluding that "quail movements and breeding attempts are eco-synchronized sequentially in cloudy regions. Our results suggest that quails attempt to overcome the negative impacts of climate change and agricultural intensification by searching for alternative high-quality habitats". We disagree with two methodological aspects of the article by Nadal et al. (2018): (1) the estimation of the mean date of arrival, stay and departure in the different regions studied; and (2) the analyses carried out to correlate the phenology of the species with the changes in climate variables. Copyright © 2018 Elsevier B.V. All rights reserved.

Usefulness of myocardial parametric imaging to evaluate myocardial viability in experimental and in clinical studies

PubMed Central

Korosoglou, G; Hansen, A; Bekeredjian, R; Filusch, A; Hardt, S; Wolf, D; Schellberg, D; Katus, H A; Kuecherer, H

2006-01-01

Objective To evaluate whether myocardial parametric imaging (MPI) is superior to visual assessment for the evaluation of myocardial viability. Methods and results Myocardial contrast echocardiography (MCE) was assessed in 11 pigs before, during, and after left anterior descending coronary artery occlusion and in 32 patients with ischaemic heart disease by using intravenous SonoVue administration. In experimental studies perfusion defect area assessment by MPI was compared with visually guided perfusion defect planimetry. Histological assessment of necrotic tissue was the standard reference. In clinical studies viability was assessed on a segmental level by (1) visual analysis of myocardial opacification; (2) quantitative estimation of myocardial blood flow in regions of interest; and (3) MPI. Functional recovery between three and six months after revascularisation was the standard reference. In experimental studies, compared with visually guided perfusion defect planimetry, planimetric assessment of infarct size by MPI correlated more significantly with histology (r2  =  0.92 versus r2  =  0.56) and had a lower intraobserver variability (4% v 15%, p < 0.05). In clinical studies, MPI had higher specificity (66% v 43%, p < 0.05) than visual MCE and good accuracy (81%) for viability detection. It was less time consuming (3.4 (1.6) v 9.2 (2.4) minutes per image, p < 0.05) than quantitative blood flow estimation by regions of interest and increased the agreement between observers interpreting myocardial perfusion (κ  =  0.87 v κ  =  0.75, p < 0.05). Conclusion MPI is useful for the evaluation of myocardial viability both in animals and in patients. It is less time consuming than quantification analysis by regions of interest and less observer dependent than visual analysis. Thus, strategies incorporating this technique may be valuable for the evaluation of myocardial viability in clinical routine. PMID:15939722

Search for Supersymmetry in Hadronic Final States

NASA Astrophysics Data System (ADS)

Mulholland, Troy

We present a search for supersymmetry in purely hadronic final states with large missing transverse momentum using data collected by the CMS detector at the CERN LHC. The data were produced in proton-proton collisions with center-of-mass energy of 13 TeV and correspond to an integrated luminosity of 35.9 fb -1. Data are analyzed with variables defined in terms of jet multiplicity, bottom quark tagged jet multiplicity, the scalar sum of jet transverse momentum, the magnitude of the vector sum of jet transverse momentum, and angular separation between jets and the vector sum of transverse momentum. We perform the search on the data using two analysis techniques: a boosted decision tree trained on simulated data using the above variables as features and a four-dimensional fit with rectangular search regions. In both analyses, standard model background estimations are derived from data-driven techniques and the signal data are separated into exclusive search regions. The observed yields in the search regions agree with background expectations. We derive upper limits on the production cross sections of pairs of gluinos and pairs of top squarks at 95% confidence using simplified models with the lightest supersymmetric particle assumed to be a weakly interacting neutralino. Gluinos as heavy as 1960 GeV and top squarks as heavy as 980 GeV are excluded. The limits significantly extend the exclusions obtained from previous results.

A new multi-line cusp magnetic field plasma device (MPD) with variable magnetic field

NASA Astrophysics Data System (ADS)

Patel, A. D.; Sharma, M.; Ramasubramanian, N.; Ganesh, R.; Chattopadhyay, P. K.

2018-04-01

A new multi-line cusp magnetic field plasma device consisting of electromagnets with core material has been constructed with a capability to experimentally control the relative volume fractions of magnetized to unmagnetized plasma volume as well as accurate control on the gradient length scales of mean density and temperature profiles. Argon plasma has been produced using a hot tungsten cathode over a wide range of pressures 5 × 10-5 -1 × 10-3 mbar, achieving plasma densities ranging from 109 to 1011 cm-3 and the electron temperature in the range 1-8 eV. The radial profiles of plasma parameters measured along the non-cusp region (in between two consecutive magnets) show a finite region with uniform and quiescent plasma, where the magnetic field is very low such that the ions are unmagnetized. Beyond that region, both plasma species are magnetized and the profiles show gradients both in temperature and density. The electrostatic fluctuation measured using a Langmuir probe radially along the non-cusp region shows less than 1% (δIisat/Iisat < 1%). The plasma thus produced will be used to study new and hitherto unexplored physics parameter space relevant to both laboratory multi-scale plasmas and astrophysical plasmas.

Comparison of the genetic variability of Blastocystis subtypes between human carriers from two contrasting climatic regions of México.

PubMed

Villegas-Gómez, Isaac; Martínez-Hernández, Fernando; Urrea-Quezada, Alejandro; González-Díaz, Mariana; Durazo, María; Hernández, Jesús; Orozco-Mosqueda, Guadalupe Erendira; Villalobos, Guiehdani; Maravilla, Pablo; Valenzuela, Olivia

2016-10-01

Blastocystis sp. is an anaerobic intestinal microorganism commonly identified in the feces of several animals, including humans. Blastocystis exhibits high genetic polymorphism and at least 17 subtypes (ST) have been identified; ST1-ST3 are frequently found in the Americas. Furthermore, in vitro assays have shown that temperature and humidity can affect the viability of Blastocystis cysts. In this study, we describe the genetic variability and genetic differentiation among and within Blastocystis STs in adults and children from the cities of Hermosillo and Morelia cities, which represent arid and humid subtropical climatic regions of México, respectively. Phylogenetic and genetic diversity was assessed by analyzing a region of the small subunit ribosomal DNA (SSU rDNA) gene as a marker. Blastocystis ST3 and ST1 were associated with children from Hermosillo and Morelia, respectively. An analysis of the nucleotide diversity (π) and haplotype polymorphism (θ) indexes showed that they were similar within each ST, but different between ST1 and ST3. Interestingly, the group of symptomatic carriers from Hermosillo showed scarce mean nucleotide diversity compared to the asymptomatic carriers (0.0039±0.0030 and 0.0329±0.0286, respectively). Furthermore, the gene flow and genetic differentiation indexes between the children and adults suggested that the Blastocystis haplotypes in the adult carriers were "highly mobile" among humans, while the haplotypes found in the children were more isolated and genetically differentiated between them. Copyright © 2016 Elsevier B.V. All rights reserved.

Comparison of several satellite-derived databases of surface solar radiation against ground measurement in Morocco

NASA Astrophysics Data System (ADS)

Marchand, Mathilde; Ghennioui, Abdellatif; Wey, Etienne; Wald, Lucien

2018-04-01

HelioClim-3v4 (HC3v4), HelioClim-3v5 (HC3v5) and the radiation service version 2 of the Copernicus Atmosphere Monitoring Service (CAMS-Rad) are databases that contain hourly values of solar radiation at ground level. These estimated hourly irradiations are compared to coincident measurements made at five stations in Morocco. The correlation coefficients between measurements and estimates are similar for the three databases and around 0.97-0.98 for global irradiation. For the direct irradiation, the correlation coefficients are around 0.70-0.79 for HC3v4, 0.79-0.84 for HC3v5 and 0.78-0.87 for CAMS-Rad. For global irradiation, the bias relative to the average of the measurements is small and ranges between -6 and -1 % for HC3v4, -4 and 0 % for HC3v5, and -4 and 7 % for CAMS-Rad; HC3v4 and HC3v5 exhibit a tendency to slightly underestimate the global irradiation. The root mean square error (RMSE) ranges between 53 (12 %) and 72 Wh m-2 (13 %) for HC3v4, 55 (12 %) and 71 Wh m-2 (13 %) for HC3v5, and 59 (11 %) and 97 Wh m-2 (21 %) for CAMS-Rad. For the direct irradiation, the relative bias ranges between -16 and 21 % for HC3v4, -7 and 22 % for HC3v5, and -18 and 7 % for CAMS-Rad. The RMSE ranges between 170 (28 %) and 210 Wh m-2 (33 %) for HC3v4, 153 (25 %) and 209 Wh m-2 (40 %) for HC3v5, and 159 (26 %) and 244 Wh m-2 (39 %) for CAMS-Rad. HC3v5 captures the temporal and spatial variability of the irradiation field well. The performance is poorer for HC3v4 and CAMS-Rad which exhibit more variability from site to site. As a whole, the three databases are reliable sources on solar radiation in Morocco.

Effect of light chain V region duplication on IgG oligomerization and in vivo efficacy.

PubMed

Shuford, W; Raff, H V; Finley, J W; Esselstyn, J; Harris, L J

1991-05-03

A human immunoglobulin G1 (IgG1) antibody oligomer was isolated from a transfected myeloma cell line that produced a monoclonal antibody to group B streptococci. Compared to the IgG1 monomer, the oligomer was significantly more effective at protecting neonatal rats from infection in vivo. The oligomer was also shown to cross the placenta and to be stable in neonatal rats. Immunochemical analysis and complementary DNA sequencing showed that the transfected cell line produced two distinct kappa light chains: a normal light chain (Ln) with a molecular mass of 25 kilodaltons and a 37-kilodalton species (L37), the domain composition of which was variable-variable-constant (V-V-C). Cotransfection of vectors encoding the heavy chain and L37 resulted in production of oligomeric IgG.

MAGIC gamma-ray and multi-frequency observations of flat spectrum radio quasar PKS 1510-089 in early 2012

DOE PAGES

Aleksić, J.; Ansoldi, S.; Antonelli, L. A.; ...

2014-09-17

Aims. We report amongst more than fifty blazars detected in very high energy (VHE, E> 100 GeV) γ rays, only three belong to the subclass of flat spectrum radio quasars (FSRQs). The detection of FSRQs in the VHE range is challenging, mainly because of their soft spectra in the GeV-TeV regime. MAGIC observed PKS 1510-089 (z = 0.36) starting 2012 February 3 until April 3 during a high activity state in the high energy (HE, E> 100 MeV) γ-ray band observed by AGILE and Fermi. MAGIC observations result in the detection of a source with significance of 6.0 standard deviationsmore » (σ). We study the multi-frequency behaviour of the source at the epoch of MAGIC observation, collecting quasi-simultaneous data at radio and optical (GASP-WEBT and F-Gamma collaborations, REM, Steward, Perkins, Liverpool, OVRO, and VLBA telescopes), X-ray (Swift satellite), and HE γ-ray frequencies. Methods. We study the VHE γ-ray emission, together with the multi-frequency light curves, 43 GHz radio maps, and spectral energy distribution (SED) of the source. The quasi-simultaneous multi-frequency SED from the millimetre radio band to VHE γ rays is modelled with a one-zone inverse Compton model. We study two different origins of the seed photons for the inverse Compton scattering, namely the infrared torus and a slow sheath surrounding the jet around the Very Long Baseline Array (VLBA) core. Results. We find that the VHE γ-ray emission detected from PKS 1510-089 in 2012 February-April agrees with the previous VHE observations of the source from 2009 March-April. We find no statistically significant variability during the MAGIC observations on daily, weekly, or monthly time scales, while the other two known VHE FSRQs (3C 279 and PKS 1222+216) have shown daily scale to sub-hour variability. The γ-ray SED combining AGILE, Fermi and MAGIC data joins smoothly and shows no hint of a break. The multi-frequency light curves suggest a common origin for the millimetre radio and HE γ-ray emission, and the HE γ-ray flaring starts when the new component is ejected from the 43 GHz VLBA core and the studied SED models fit the data well. However, the fast HE γ-ray variability requires that within the modelled large emitting region, more compact regions must exist. Lastly, we suggest that these observed signatures would be most naturally explained by a turbulent plasma flowing at a relativistic speed down the jet and crossing a standing conical shock.« less

Development of a Geomagnetic Storm Correction to the International Reference Ionosphere E-Region Electron Densities Using TIMED/SABER Observations

NASA Technical Reports Server (NTRS)

Mertens, C. J.; Xu, X.; Fernandez, J. R.; Bilitza, D.; Russell, J. M., III; Mlynczak, M. G.

2009-01-01

Auroral infrared emission observed from the TIMED/SABER broadband 4.3 micron channel is used to develop an empirical geomagnetic storm correction to the International Reference Ionosphere (IRI) E-region electron densities. The observation-based proxy used to develop the storm model is SABER-derived NO+(v) 4.3 micron volume emission rates (VER). A correction factor is defined as the ratio of storm-time NO+(v) 4.3 micron VER to a quiet-time climatological averaged NO+(v) 4.3 micron VER, which is linearly fit to available geomagnetic activity indices. The initial version of the E-region storm model, called STORM-E, is most applicable within the auroral oval region. The STORM-E predictions of E-region electron densities are compared to incoherent scatter radar electron density measurements during the Halloween 2003 storm events. Future STORM-E updates will extend the model outside the auroral oval.

Impacts of Interannual Ocean Circulation Variability on Japanese Eel Larval Migration in the Western North Pacific Ocean.

PubMed

Chang, Yu-Lin; Sheng, Jinyu; Ohashi, Kyoko; Béguer-Pon, Mélanie; Miyazawa, Yasumasa

2015-01-01

The Japanese eel larvae hatch near the West Mariana Ridge seamount chain and travel through the North Equatorial Current (NEC), the Kuroshio, and the Subtropical Countercurrent (STCC) region during their shoreward migration toward East Asia. The interannual variability of circulation over the subtropical and tropical regions of the western North Pacific Ocean is affected by the Philippines-Taiwan Oscillation (PTO). This study examines the effect of the PTO on the Japanese eel larval migration routes using a three-dimensional (3D) particle tracking method, including vertical and horizontal swimming behavior. The 3D circulation and hydrography used for particle tracking are from the ocean circulation reanalysis produced by the Japan Coastal Ocean Predictability Experiment 2 (JCOPE2). Our results demonstrate that bifurcation of the NEC and the strength and spatial variation of the Kuroshio affect the distribution and migration of eel larvae. During the positive phase of PTO, more virtual eels ("v-eels") can enter the Kuroshio to reach the south coast of Japan and more v-eels reach the South China Sea through the Luzon Strait; the stronger and more offshore swing of the Kuroshio in the East China Sea leads to fewer eels entering the East China Sea and the onshore movement of the Kuroshio to the south of Japan brings the eels closer to the Japanese coast. Significant differences in eel migration routes and distributions regulated by ocean circulation in different PTO phases can also affect the otolith increment. The estimated otolith increment suggests that eel age tends to be underestimated after six months of simulation due to the cooler lower layer temperature. Underestimation is more significant in the positive PTO years due to the wide distribution in higher latitudes than in the negative PTO years.

Observations of V420 Aur (HD 34921) needed to support spectroscopy

NASA Astrophysics Data System (ADS)

Waagen, Elizabeth O.

2016-10-01

Marcella Wijngaarden and Kelly Gourdji (graduate students at the University of Amsterdam/Anton Pannekoek Institute for Astronomy) have requested AAVSO observers' assistance in providing optical photometry of V420 Aur in support of their high-resolution spectroscopy with the Mercator telescope + Hermes spectrograph in La Palma 2016 October 7 through 17. They write: "[V420 Aur (HD 34921) is] the optical Be star that is part of a peculiar High Mass X-ray Binary...[that exhibits highly] complex and variable spectra...it is difficult to construct a physical model of this HMXB system, though based on these observations, the system is thought to contain a B[e] star with a dense plasma region, an accretion disk around a neutron star, a shell and circumstellar regions of cold dust. It has been over a decade since the last spectra were taken, and, given the highly variable nature of this star, we expect new observations to yield new information that will contribute to a better understanding of this system." Observations in BVRI (preferred over other bands) are requested beginning immediately and continuing through October 24. In all cases, timeseries in a few bands (i.e. BVRI) are preferred over single/a few observations in the other bands as it is the variability on relatively short timescales that is most important. "The target is bright so exposures should be long enough to reach good signal to noise in order to see the small variability amplitude but without saturating the target/comparison stars. We will study the variability on several timescales, so observations starting from a few per night to high cadence timeseries are useful." Finder charts with sequence may be created using the AAVSO Variable Star Plotter (https://www.aavso.org/vsp). Observations should be submitted to the AAVSO International Database. See full Alert Notice for more details.

Engineering a Single Chain Fv Antibody to αvβ6 Integrin using the Specificity-Determining Loop of a Foot-and-Mouth Disease Virus

PubMed Central

Kogelberg, Heide; Tolner, Berend; Thomas, Gareth J.; Di Cara, Danielle; Minogue, Shane; Ramesh, Bala; Sodha, Serena; Marsh, Dan; Lowdell, Mark W.; Meyer, Tim; Begent, Richard H.J.; Hart, Ian; Marshall, John F; Chester, Kerry

2010-01-01

Summary The αvβ6 integrin is a promising target for cancer therapy. Its expression is up-regulated de novo on many types of carcinoma where it may activate transforming growth factor-β1 and transforming growth factor-β3, interact with the specific extracellular matrix proteins and promote migration and invasion of tumour cells. The viral protein 1 (VP1) coat protein of the O1 British field strain serotype of foot-and-mouth disease virus is a high-affinity ligand for αvβ6, and we recently reported that a peptide derived from VP1 exhibited αvβ6-specific binding in vitro and in vivo. We hypothesized that this peptide could confer binding specificity of an antibody to αvβ6. A 17-mer peptide of VP1 was inserted into the complementary-determining region H3 loop of MFE-23, a murine single-chain Fv (scFv) antibody reactive with carcinoembryonic antigen (CEA). The resultant scFv (B6-1) bound to αvβ6 but retained residual reactivity with CEA. This was eliminated by point mutation (Y100bP) in the variable heavy-chain domain to create an scFv (B6-2) that was as structurally stable as MFE-23 and reacted specifically with αvβ6 but not α5β1, αvβ3, αvβ5, αvβ8 or CEA. B6-2 was internalized into αvβ6-expressing cells and inhibited αvβ6-dependent migration of carcinoma cells. B6-2 was subsequently humanized. The humanized form (B6-3) was obtained as a non-covalent dimer from secretion in Pichia pastoris (115 mg/l) and was a potent inhibitor of αvβ6-mediated cell adhesion. Thus, we have used a rational stepwise approach to create a humanized scFv with therapeutic potential to block αvβ6-mediated cancer cell invasion or to deliver and internalize toxins specifically to αvβ6-expressing tumours. PMID:18656482

Rapid isolation of IgNAR variable single-domain antibody fragments from a shark synthetic library.

PubMed

Shao, Cui-Ying; Secombes, Chris J; Porter, Andrew J

2007-01-01

The immunoglobulin isotype IgNAR (Novel Antigen Receptor) was discovered in the serum of the nurse shark (Ginglymostoma cirratum) and wobbegong shark (Orectolobus maculates) as a homodimer of two protein chains, each composed of a single variable domain (V) domain and five constant domains. The IgNAR variable domain contains an intact antigen-binding site and functions as an independent domain able to react to antigen with both high specificity and affinity. Here we describe the successful construction of a synthetic phage-displayed library based upon a single anti-lysozyme clone HEL-5A7 scaffold, which was previously selected from an immune IgNAR variable domain library. The complementarity-determining region 3 (CDR3) loop of this clone was varied in both length and composition and the derived library was used to pan against two model proteins, lysozyme and leptin. A single anti-lysozyme clone (Ly-X20) and anti-leptin clone (Lep-12E1) were selected for further study. Both clones were shown to be functionally expressed in Escherichia coli, extremely thermostable and bind to corresponding antigens specifically. The results here demonstrate that a synthetic IgNAR variable domain library based on a single framework scaffold can be used as a route to generate antigen binders quickly, easily and without the need of immunization.

Interpreting Methanol v(sub 2)-Band Emission in Comets Using Empirical Fluorescence g-Factors

NASA Technical Reports Server (NTRS)

DiSanti, Michael; Villanueva, G. L.; Bonev, B. P.; Mumma, M. J.; Paganini, L.; Gibb, E. L.; Magee-Sauer, K.

2011-01-01

For many years we have been developing the ability, through high-resolution spectroscopy targeting ro-vibrational emission in the approximately 3 - 5 micrometer region, to quantify a suite of (approximately 10) parent volatiles in comets using quantum mechanical fluorescence models. Our efforts are ongoing and our latest includes methanol (CH3OH). This is unique among traditionally targeted species in having lacked sufficiently robust models for its symmetric (v(sub 3) band) and asymmetric (v(sub 2) and v(sub 9) bands) C-H3 stretching modes, required to provide accurate predicted intensities for individual spectral lines and hence rotational temperatures and production rates. This has provided the driver for undertaking a detailed empirical study of line intensities, and has led to substantial progress regarding our ability to interpret CH3OH in comets. The present study concentrates on the spectral region from approximately 2970 - 3010 per centimeter (3.367 - 3.322 micrometer), which is dominated by emission in the (v(sub 7) band of C2H6 and the v(sub 2) band of CH3OH, with minor contributions from CH3OH (v(sub 9) band), CH4 (v(sub 3)), and OH prompt emissions (v(sub 1) and v(sub 2)- v(sub 1)). Based on laboratory jet-cooled spectra (at a rotational temperature near 20 K)[1], we incorporated approximately 100 lines of the CH3OH v(sub 2) band, having known frequencies and lower state rotational energies, into our model. Line intensities were determined through comparison with several comets we observed with NIRSPEC at Keck 2, after removal of continuum and additional molecular emissions and correcting for atmospheric extinction. In addition to the above spectral region, NIRSPEC allows simultaneous sampling of the CH3OH v(sub 3) band (centered at 2844 per centimeter, or 3.516 micrometers and several hot bands of H2O in the approximately 2.85 - 2.9 micrometer region, at a nominal spectral resolving power of approximately 25,000 [2]. Empirical g-factors for v(sub 2) lines were based on the production rate as determined from the v(sub 3) Q-branch intensity; application to comets spanning a range of rotational temperatures (approximately 50 - 90 K) will be reported. This work represents an extension of that presented for comet 21P/Giacobini-Zinner at the 2010 Division for Planetary Sciences meeting [3]. Our empirical study also allows for quantifying CH3OH in comets using IR spectrometers for which the v(sub 3) and v(sub 2) bands are not sampled simultaneously, for example CSHELL/NASA IRTF or CRIRES/VLT.

Spectro-imaging observations of Jupiter's 2-μm auroral emission. I. H 3+ distribution and temperature

NASA Astrophysics Data System (ADS)

Raynaud, E.; Lellouch, E.; Maillard, J.-P.; Gladstone, G. R.; Waite, J. H.; Bézard, B.; Drossart, P.; Fouchet, T.

2004-09-01

We report on spectro-imaging infrared observations of Jupiter's auroral zones, acquired in October 1999 and October 2000 with the FTS/BEAR instrument at the Canada-France-Hawaii Telescope. The use of narrow-band filters at 2.09 and 2.12 μm, combined with high spectral resolution (0.2 cm -1), allowed us to map emission from the H 2S1(1) quadrupole line and from several H 3+ lines. The H 2 and H 3+ emission appears to be morphologically different, especially in the north, where the latter notably exhibits a "hot spot" near 150°-170° System III longitude. This hot spot coincides in position with the region of increased and variable hydrocarbon, FUV and X-ray emission, but is not seen in the more uniform H 2S1(1) emission. We also present the first images of the H 2 emission in the southern polar region. The spectra include a total of 14 H 3+ lines, including two hot lines from the 3 ν2- ν2 band, detected on Jupiter for the first time. They can be used to determine H 3+ column densities, rotational ( Trot) and vibrational ( Tvib) temperatures. We find the mean Tvib of the v2=3 state to be lower (960±50 K) than the mean Trot in v2=2 (1170±75 K), indicating an underpopulation of the v2=3 level with respect to local thermodynamical equilibrium. Rotational temperatures and associated column densities are generally higher and lower, respectively, than inferred previously from ν2 observations. This is a likely consequence of a large positive temperature gradient in the sub-microbar auroral atmosphere. While the signal-to-noise is not sufficient to take full advantage of the 2-D capabilities of the observations, the search for correlations between line intensities, Tvib and column densities, indicates that variations in line intensities are mostly due to correlated variations in the H 3+ column densities. The thermostatic role played by H 3+ at ionospheric levels may provide an explanation. The exception is the northern "hot spot," which exhibits a Tvib about 250 K higher than other regions. A partial explanation might invoke a homopause elevation in this region, but a fully consistent scenario is not yet available. The different distributions of the H 2 and H 3+ emission are equally difficult to explain.

Constraining slepton and chargino through compressed top squark search

NASA Astrophysics Data System (ADS)

Konar, Partha; Mondal, Tanmoy; Swain, Abhaya Kumar

2018-04-01

We examine the compressed mass spectrum with sub-TeV top squark (\\tilde{t}) as lightest colored (s)particle in natural supersymmetry (SUSY). Such spectra are searched along with an additional hard jet, not only to boost the soft decay particles, also to yield enough missing transverse momentum. Several interesting kinematic variables are proposed to improve the probe performance for this difficult region, where we concentrate on relatively clean dileptonic channel of the top squark decaying into lightest neutralino (χ 1 0 ), which is also the lightest supersymmetric particle. In this work, we investigate the merit of these kinematic variables, sensitive to compressed mass region extending the search by introducing additional states, chargino and slepton (sneutrino) having masses in between the \\tilde{t} and χ 1 0 . Enhanced production and lack of branching suppression are capable of providing a strong limit on chargino and slepton/sneutrino mass along with top squark mass. We perform a detailed collider analysis using simplified SUSY spectrum and found that with the present LHC data {M}_{\\tilde{t}} can be excluded up to 710 GeV right away for {M}_{χ_1^0} of 640 GeV for a particular mass gap between different states.

Measurement of the {{W }+ }W- cross section in pp collisions at √{s} = 8 TeVand limits on anomalous gauge couplings

NASA Astrophysics Data System (ADS)

Khachatryan, V.; Sirunyan, A. M.; Tumasyan, A.; Adam, W.; Asilar, E.; Bergauer, T.; Brandstetter, J.; Brondolin, E.; Dragicevic, M.; Erö, J.; Flechl, M.; Friedl, M.; Frühwirth, R.; Ghete, V. M.; Hartl, C.; Hörmann, N.; Hrubec, J.; Jeitler, M.; Knünz, V.; König, A.; Krammer, M.; Krätschmer, I.; Liko, D.; Matsushita, T.; Mikulec, I.; Rabady, D.; Rahbaran, B.; Rohringer, H.; Schieck, J.; Schöfbeck, R.; Strauss, J.; Treberer-Treberspurg, W.; Waltenberger, W.; Wulz, C.-E.; Mossolov, V.; Shumeiko, N.; Suarez Gonzalez, J.; Alderweireldt, S.; Cornelis, T.; De Wolf, E. A.; Janssen, X.; Knutsson, A.; Lauwers, J.; Luyckx, S.; Ochesanu, S.; Rougny, R.; Van De Klundert, M.; Van Haevermaet, H.; Van Mechelen, P.; Van Remortel, N.; Van Spilbeeck, A.; Abu Zeid, S.; Blekman, F.; D'Hondt, J.; Daci, N.; De Bruyn, I.; Deroover, K.; Heracleous, N.; Keaveney, J.; Lowette, S.; Moreels, L.; Olbrechts, A.; Python, Q.; Strom, D.; Tavernier, S.; Van Doninck, W.; Van Mulders, P.; Van Onsem, G. P.; Van Parijs, I.; Barria, P.; Caillol, C.; Clerbaux, B.; De Lentdecker, G.; Delannoy, H.; Fasanella, G.; Favart, L.; Gay, A. P. R.; Grebenyuk, A.; Lenzi, T.; Léonard, A.; Maerschalk, T.; Marinov, A.; Perniè, L.; Randle-conde, A.; Reis, T.; Seva, T.; Vander Velde, C.; Vanlaer, P.; Yonamine, R.; Zenoni, F.; Zhang, F.; Beernaert, K.; Benucci, L.; Cimmino, A.; Crucy, S.; Dobur, D.; Fagot, A.; Garcia, G.; Gul, M.; Mccartin, J.; Ocampo Rios, A. A.; Poyraz, D.; Ryckbosch, D.; Salva, S.; Sigamani, M.; Strobbe, N.; Tytgat, M.; Van Driessche, W.; Yazgan, E.; Zaganidis, N.; Basegmez, S.; Beluffi, C.; Bondu, O.; Brochet, S.; Bruno, G.; Castello, R.; Caudron, A.; Ceard, L.; Silveira, G. G. Da; Delaere, C.; Favart, D.; Forthomme, L.; Giammanco, A.; Hollar, J.; Jafari, A.; Jez, P.; Komm, M.; Lemaitre, V.; Mertens, A.; Nuttens, C.; Perrini, L.; Pin, A.; Piotrzkowski, K.; Popov, A.; Quertenmont, L.; Selvaggi, M.; Vidal Marono, M.; Beliy, N.; Hammad, G. H.; Aldá Júnior, W. L.; Alves, G. A.; Brito, L.; Correa Martins Junior, M.; Hensel, C.; Mora Herrera, C.; Moraes, A.; Pol, M. E.; Rebello Teles, P.; Belchior Batista Das Chagas, E.; Carvalho, W.; Chinellato, J.; Custódio, A.; Da Costa, E. M.; De Jesus Damiao, D.; De Oliveira Martins, C.; Fonseca De Souza, S.; Huertas Guativa, L. M.; Malbouisson, H.; Matos Figueiredo, D.; Mundim, L.; Nogima, H.; Prado Da Silva, W. L.; Santoro, A.; Sznajder, A.; Tonelli Manganote, E. J.; Vilela Pereira, A.; Ahuja, S.; Bernardes, C. A.; De Souza Santos, A.; Dogra, S.; Fernandez Perez Tomei, T. R.; Gregores, E. M.; Mercadante, P. G.; Moon, C. S.; Novaes, S. F.; Padula, Sandra S.; Romero Abad, D.; Ruiz Vargas, J. C.; Aleksandrov, A.; Genchev, V.; Hadjiiska, R.; Iaydjiev, P.; Piperov, S.; Rodozov, M.; Stoykova, S.; Sultanov, G.; Vutova, M.; Dimitrov, A.; Glushkov, I.; Litov, L.; Pavlov, B.; Petkov, P.; Ahmad, M.; Bian, J. G.; Chen, G. M.; Chen, H. S.; Chen, M.; Cheng, T.; Du, R.; Jiang, C. H.; Plestina, R.; Romeo, F.; Shaheen, S. M.; Tao, J.; Wang, C.; Wang, Z.; Zhang, H.; Asawatangtrakuldee, C.; Ban, Y.; Li, Q.; Liu, S.; Mao, Y.; Qian, S. J.; Wang, D.; Xu, Z.; Zou, W.; Avila, C.; Cabrera, A.; Chaparro Sierra, L. F.; Florez, C.; Gomez, J. P.; Gomez Moreno, B.; Sanabria, J. C.; Godinovic, N.; Lelas, D.; Polic, D.; Puljak, I.; Ribeiro Cipriano, P. M.; Antunovic, Z.; Kovac, M.; Brigljevic, V.; Kadija, K.; Luetic, J.; Micanovic, S.; Sudic, L.; Attikis, A.; Mavromanolakis, G.; Mousa, J.; Nicolaou, C.; Ptochos, F.; Razis, P. A.; Rykaczewski, H.; Bodlak, M.; Finger, M.; Finger, M.; Abdelalim, A. A.; Awad, A.; Mahrous, A.; Radi, A.; Calpas, B.; Kadastik, M.; Murumaa, M.; Raidal, M.; Tiko, A.; Veelken, C.; Eerola, P.; Pekkanen, J.; Voutilainen, M.; Härkönen, J.; Karimäki, V.; Kinnunen, R.; Lampén, T.; Lassila-Perini, K.; Lehti, S.; Lindén, T.; Luukka, P.; Mäenpää, T.; Peltola, T.; Tuominen, E.; Tuominiemi, J.; Tuovinen, E.; Wendland, L.; Talvitie, J.; Tuuva, T.; Besancon, M.; Couderc, F.; Dejardin, M.; Denegri, D.; Fabbro, B.; Faure, J. L.; Favaro, C.; Ferri, F.; Ganjour, S.; Givernaud, A.; Gras, P.; Hamel de Monchenault, G.; Jarry, P.; Locci, E.; Machet, M.; Malcles, J.; Rander, J.; Rosowsky, A.; Titov, M.; Zghiche, A.; Antropov, I.; Baffioni, S.; Beaudette, F.; Busson, P.; Cadamuro, L.; Chapon, E.; Charlot, C.; Dahms, T.; Davignon, O.; Filipovic, N.; Florent, A.; Granier de Cassagnac, R.; Lisniak, S.; Mastrolorenzo, L.; Miné, P.; Naranjo, I. N.; Nguyen, M.; Ochando, C.; Ortona, G.; Paganini, P.; Regnard, S.; Salerno, R.; Sauvan, J. B.; Sirois, Y.; Strebler, T.; Yilmaz, Y.; Zabi, A.; Agram, J.-L.; Andrea, J.; Aubin, A.; Bloch, D.; Brom, J.-M.; Buttignol, M.; Chabert, E. C.; Chanon, N.; Collard, C.; Conte, E.; Coubez, X.; Fontaine, J.-C.; Gelé, D.; Goerlach, U.; Goetzmann, C.; Le Bihan, A.-C.; Merlin, J. A.; Skovpen, K.; Van Hove, P.; Gadrat, S.; Beauceron, S.; Bernet, C.; Boudoul, G.; Bouvier, E.; Carrillo Montoya, C. A.; Chasserat, J.; Chierici, R.; Contardo, D.; Courbon, B.; Depasse, P.; El Mamouni, H.; Fan, J.; Fay, J.; Gascon, S.; Gouzevitch, M.; Ille, B.; Lagarde, F.; Laktineh, I. B.; Lethuillier, M.; Mirabito, L.; Pequegnot, A. L.; Perries, S.; Ruiz Alvarez, J. D.; Sabes, D.; Sgandurra, L.; Sordini, V.; Vander Donckt, M.; Verdier, P.; Viret, S.; Xiao, H.; Toriashvili, T.; Lomidze, D.; Autermann, C.; Beranek, S.; Edelhoff, M.; Feld, L.; Heister, A.; Kiesel, M. K.; Klein, K.; Lipinski, M.; Ostapchuk, A.; Preuten, M.; Raupach, F.; Schael, S.; Schulte, J. F.; Verlage, T.; Weber, H.; Wittmer, B.; Zhukov, V.; Ata, M.; Brodski, M.; Dietz-Laursonn, E.; Duchardt, D.; Endres, M.; Erdmann, M.; Erdweg, S.; Esch, T.; Fischer, R.; Güth, A.; Hebbeker, T.; Heidemann, C.; Hoepfner, K.; Klingebiel, D.; Knutzen, S.; Kreuzer, P.; Merschmeyer, M.; Meyer, A.; Millet, P.; Olschewski, M.; Padeken, K.; Papacz, P.; Pook, T.; Radziej, M.; Reithler, H.; Rieger, M.; Scheuch, F.; Sonnenschein, L.; Teyssier, D.; Thüer, S.; Cherepanov, V.; Erdogan, Y.; Flügge, G.; Geenen, H.; Geisler, M.; Hoehle, F.; Kargoll, B.; Kress, T.; Kuessel, Y.; Künsken, A.; Lingemann, J.; Nehrkorn, A.; Nowack, A.; Nugent, I. M.; Pistone, C.; Pooth, O.; Stahl, A.; Aldaya Martin, M.; Asin, I.; Bartosik, N.; Behnke, O.; Behrens, U.; Bell, A. J.; Borras, K.; Burgmeier, A.; Cakir, A.; Calligaris, L.; Campbell, A.; Choudhury, S.; Costanza, F.; Diez Pardos, C.; Dolinska, G.; Dooling, S.; Dorland, T.; Eckerlin, G.; Eckstein, D.; Eichhorn, T.; Flucke, G.; Gallo, E.; Garay Garcia, J.; Geiser, A.; Gizhko, A.; Gunnellini, P.; Hauk, J.; Hempel, M.; Jung, H.; Kalogeropoulos, A.; Karacheban, O.; Kasemann, M.; Katsas, P.; Kieseler, J.; Kleinwort, C.; Korol, I.; Lange, W.; Leonard, J.; Lipka, K.; Lobanov, A.; Lohmann, W.; Mankel, R.; Marfin, I.; Melzer-Pellmann, I.-A.; Meyer, A. B.; Mittag, G.; Mnich, J.; Mussgiller, A.; Naumann-Emme, S.; Nayak, A.; Ntomari, E.; Perrey, H.; Pitzl, D.; Placakyte, R.; Raspereza, A.; Roland, B.; Sahin, M. Ö.; Saxena, P.; Schoerner-Sadenius, T.; Schröder, M.; Seitz, C.; Spannagel, S.; Trippkewitz, K. D.; Wissing, C.; Blobel, V.; Centis Vignali, M.; Draeger, A. R.; Erfle, J.; Garutti, E.; Goebel, K.; Gonzalez, D.; Görner, M.; Haller, J.; Hoffmann, M.; Höing, R. S.; Junkes, A.; Klanner, R.; Kogler, R.; Lapsien, T.; Lenz, T.; Marchesini, I.; Marconi, D.; Nowatschin, D.; Ott, J.; Pantaleo, F.; Peiffer, T.; Perieanu, A.; Pietsch, N.; Poehlsen, J.; Rathjens, D.; Sander, C.; Schettler, H.; Schleper, P.; Schlieckau, E.; Schmidt, A.; Schwandt, J.; Seidel, M.; Sola, V.; Stadie, H.; Steinbrück, G.; Tholen, H.; Troendle, D.; Usai, E.; Vanelderen, L.; Vanhoefer, A.; Akbiyik, M.; Barth, C.; Baus, C.; Berger, J.; Böser, C.; Butz, E.; Chwalek, T.; Colombo, F.; De Boer, W.; Descroix, A.; Dierlamm, A.; Fink, S.; Frensch, F.; Giffels, M.; Gilbert, A.; Hartmann, F.; Heindl, S. M.; Husemann, U.; Kassel, F.; Katkov, I.; Kornmayer, A.; Lobelle Pardo, P.; Maier, B.; Mildner, H.; Mozer, M. U.; Müller, T.; Müller, Th.; Plagge, M.; Quast, G.; Rabbertz, K.; Röcker, S.; Roscher, F.; Simonis, H. J.; Stober, F. M.; Ulrich, R.; Wagner-Kuhr, J.; Wayand, S.; Weber, M.; Weiler, T.; Wöhrmann, C.; Wolf, R.; Anagnostou, G.; Daskalakis, G.; Geralis, T.; Giakoumopoulou, V. 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T.; Holzner, A.; Kelley, R.; Klein, D.; Letts, J.; Macneill, I.; Olivito, D.; Padhi, S.; Pieri, M.; Sani, M.; Sharma, V.; Simon, S.; Tadel, M.; Vartak, A.; Wasserbaech, S.; Welke, C.; Würthwein, F.; Yagil, A.; Zevi Della Porta, G.; Barge, D.; Bradmiller-Feld, J.; Campagnari, C.; Dishaw, A.; Dutta, V.; Flowers, K.; Franco Sevilla, M.; Geffert, P.; George, C.; Golf, F.; Gouskos, L.; Gran, J.; Incandela, J.; Justus, C.; Mccoll, N.; Mullin, S. D.; Richman, J.; Stuart, D.; Suarez, I.; To, W.; West, C.; Yoo, J.; Anderson, D.; Apresyan, A.; Bornheim, A.; Bunn, J.; Chen, Y.; Duarte, J.; Mott, A.; Newman, H. B.; Pena, C.; Pierini, M.; Spiropulu, M.; Vlimant, J. R.; Xie, S.; Zhu, R. Y.; Azzolini, V.; Calamba, A.; Carlson, B.; Ferguson, T.; Iiyama, Y.; Paulini, M.; Russ, J.; Sun, M.; Vogel, H.; Vorobiev, I.; Cumalat, J. P.; Ford, W. T.; Gaz, A.; Jensen, F.; Johnson, A.; Krohn, M.; Mulholland, T.; Nauenberg, U.; Smith, J. G.; Stenson, K.; Wagner, S. R.; Alexander, J.; Chatterjee, A.; Chaves, J.; Chu, J.; Dittmer, S.; Eggert, N.; Mirman, N.; Nicolas Kaufman, G.; Patterson, J. R.; Rinkevicius, A.; Ryd, A.; Skinnari, L.; Soffi, L.; Sun, W.; Tan, S. M.; Teo, W. D.; Thom, J.; Thompson, J.; Tucker, J.; Weng, Y.; Wittich, P.; Abdullin, S.; Albrow, M.; Anderson, J.; Apollinari, G.; Bauerdick, L. A. T.; Beretvas, A.; Berryhill, J.; Bhat, P. C.; Bolla, G.; Burkett, K.; Butler, J. N.; Cheung, H. W. K.; Chlebana, F.; Cihangir, S.; Elvira, V. D.; Fisk, I.; Freeman, J.; Gottschalk, E.; Gray, L.; Green, D.; Grünendahl, S.; Gutsche, O.; Hanlon, J.; Hare, D.; Harris, R. M.; Hirschauer, J.; Hooberman, B.; Hu, Z.; Jindariani, S.; Johnson, M.; Joshi, U.; Jung, A. W.; Klima, B.; Kreis, B.; Kwan, S.; Lammel, S.; Linacre, J.; Lincoln, D.; Lipton, R.; Liu, T.; Lopes De Sá, R.; Lykken, J.; Maeshima, K.; Marraffino, J. M.; Martinez Outschoorn, V. I.; Maruyama, S.; Mason, D.; McBride, P.; Merkel, P.; Mishra, K.; Mrenna, S.; Nahn, S.; Newman-Holmes, C.; O'Dell, V.; Pedro, K.; Prokofyev, O.; Rakness, G.; Sexton-Kennedy, E.; Soha, A.; Spalding, W. J.; Spiegel, L.; Taylor, L.; Tkaczyk, S.; Tran, N. V.; Uplegger, L.; Vaandering, E. W.; Vernieri, C.; Verzocchi, M.; Vidal, R.; Weber, H. A.; Whitbeck, A.; Yang, F.; Yin, H.; Acosta, D.; Avery, P.; Bortignon, P.; Bourilkov, D.; Carnes, A.; Carver, M.; Curry, D.; Das, S.; Di Giovanni, G. P.; Field, R. D.; Fisher, M.; Furic, I. K.; Hugon, J.; Konigsberg, J.; Korytov, A.; Low, J. F.; Ma, P.; Matchev, K.; Mei, H.; Milenovic, P.; Mitselmakher, G.; Muniz, L.; Rank, D.; Rossin, R.; Shchutska, L.; Snowball, M.; Sperka, D.; Wang, J.; Wang, S.; Yelton, J.; Hewamanage, S.; Linn, S.; Markowitz, P.; Martinez, G.; Rodriguez, J. L.; Ackert, A.; Adams, J. R.; Adams, T.; Askew, A.; Bochenek, J.; Diamond, B.; Haas, J.; Hagopian, S.; Hagopian, V.; Johnson, K. F.; Khatiwada, A.; Prosper, H.; Veeraraghavan, V.; Weinberg, M.; Bhopatkar, V.; Hohlmann, M.; Kalakhety, H.; Mareskas-palcek, D.; Roy, T.; Yumiceva, F.; Adams, M. R.; Apanasevich, L.; Berry, D.; Betts, R. R.; Bucinskaite, I.; Cavanaugh, R.; Evdokimov, O.; Gauthier, L.; Gerber, C. E.; Hofman, D. J.; Kurt, P.; O'Brien, C.; Sandoval Gonzalez, l. D.; Silkworth, C.; Turner, P.; Varelas, N.; Wu, Z.; Zakaria, M.; Bilki, B.; Clarida, W.; Dilsiz, K.; Durgut, S.; Gandrajula, R. P.; Haytmyradov, M.; Khristenko, V.; Merlo, J.-P.; Mermerkaya, H.; Mestvirishvili, A.; Moeller, A.; Nachtman, J.; Ogul, H.; Onel, Y.; Ozok, F.; Penzo, A.; Snyder, C.; Tan, P.; Tiras, E.; Wetzel, J.; Yi, K.; Anderson, I.; Barnett, B. A.; Blumenfeld, B.; Fehling, D.; Feng, L.; Gritsan, A. V.; Maksimovic, P.; Martin, C.; Nash, K.; Osherson, M.; Swartz, M.; Xiao, M.; Xin, Y.; Baringer, P.; Bean, A.; Benelli, G.; Bruner, C.; Gray, J.; Kenny, R. P.; Majumder, D.; Malek, M.; Murray, M.; Noonan, D.; Sanders, S.; Stringer, R.; Wang, Q.; Wood, J. S.; Chakaberia, I.; Ivanov, A.; Kaadze, K.; Khalil, S.; Makouski, M.; Maravin, Y.; Mohammadi, A.; Saini, L. K.; Skhirtladze, N.; Svintradze, I.; Toda, S.; Lange, D.; Rebassoo, F.; Wright, D.; Anelli, C.; Baden, A.; Baron, O.; Belloni, A.; Calvert, B.; Eno, S. C.; Ferraioli, C.; Gomez, J. A.; Hadley, N. J.; Jabeen, S.; Kellogg, R. G.; Kolberg, T.; Kunkle, J.; Lu, Y.; Mignerey, A. C.; Shin, Y. H.; Skuja, A.; Tonjes, M. B.; Tonwar, S. C.; Apyan, A.; Barbieri, R.; Baty, A.; Bierwagen, K.; Brandt, S.; Busza, W.; Cali, I. A.; Demiragli, Z.; Di Matteo, L.; Gomez Ceballos, G.; Goncharov, M.; Gulhan, D.; Innocenti, G. M.; Klute, M.; Kovalskyi, D.; Lai, Y. S.; Lee, Y.-J.; Levin, A.; Luckey, P. D.; Mcginn, C.; Mironov, C.; Niu, X.; Paus, C.; Ralph, D.; Roland, C.; Roland, G.; Salfeld-Nebgen, J.; Stephans, G. S. F.; Sumorok, K.; Varma, M.; Velicanu, D.; Veverka, J.; Wang, J.; Wang, T. W.; Wyslouch, B.; Yang, M.; Zhukova, V.; Dahmes, B.; Finkel, A.; Gude, A.; Hansen, P.; Kalafut, S.; Kao, S. C.; Klapoetke, K.; Kubota, Y.; Lesko, Z.; Mans, J.; Nourbakhsh, S.; Ruckstuhl, N.; Rusack, R.; Tambe, N.; Turkewitz, J.; Acosta, J. G.; Oliveros, S.; Avdeeva, E.; Bloom, K.; Bose, S.; Claes, D. R.; Dominguez, A.; Fangmeier, C.; Gonzalez Suarez, R.; Kamalieddin, R.; Keller, J.; Knowlton, D.; Kravchenko, I.; Lazo-Flores, J.; Meier, F.; Monroy, J.; Ratnikov, F.; Siado, J. E.; Snow, G. R.; Alyari, M.; Dolen, J.; George, J.; Godshalk, A.; Iashvili, I.; Kaisen, J.; Kharchilava, A.; Kumar, A.; Rappoccio, S.; Alverson, G.; Barberis, E.; Baumgartel, D.; Chasco, M.; Hortiangtham, A.; Massironi, A.; Morse, D. M.; Nash, D.; Orimoto, T.; Teixeira De Lima, R.; Trocino, D.; Wang, R.-J.; Wood, D.; Zhang, J.; Hahn, K. A.; Kubik, A.; Mucia, N.; Odell, N.; Pollack, B.; Pozdnyakov, A.; Schmitt, M.; Stoynev, S.; Sung, K.; Trovato, M.; Velasco, M.; Won, S.; Brinkerhoff, A.; Dev, N.; Hildreth, M.; Jessop, C.; Karmgard, D. J.; Kellams, N.; Lannon, K.; Lynch, S.; Marinelli, N.; Meng, F.; Mueller, C.; Musienko, Y.; Pearson, T.; Planer, M.; Reinsvold, A.; Ruchti, R.; Smith, G.; Valls, N.; Wayne, M.; Wolf, M.; Woodard, A.; Antonelli, L.; Brinson, J.; Bylsma, B.; Durkin, L. S.; Flowers, S.; Hart, A.; Hill, C.; Hughes, R.; Kotov, K.; Ling, T. Y.; Liu, B.; Luo, W.; Puigh, D.; Rodenburg, M.; Winer, B. L.; Wulsin, H. W.; Driga, O.; Elmer, P.; Hardenbrook, J.; Hebda, P.; Koay, S. A.; Lujan, P.; Marlow, D.; Medvedeva, T.; Mooney, M.; Olsen, J.; Palmer, C.; Piroué, P.; Quan, X.; Saka, H.; Stickland, D.; Tully, C.; Werner, J. S.; Zuranski, A.; Malik, S.; Barnes, V. E.; Benedetti, D.; Bortoletto, D.; Gutay, L.; Jha, M. K.; Jones, M.; Jung, K.; Kress, M.; Miller, D. H.; Neumeister, N.; Primavera, F.; Radburn-Smith, B. C.; Shi, X.; Shipsey, I.; Silvers, D.; Sun, J.; Svyatkovskiy, A.; Wang, F.; Xie, W.; Xu, L.; Zablocki, J.; Parashar, N.; Stupak, J.; Adair, A.; Akgun, B.; Chen, Z.; Ecklund, K. M.; Geurts, F. J. M.; Guilbaud, M.; Li, W.; Michlin, B.; Northup, M.; Padley, B. P.; Redjimi, R.; Roberts, J.; Rorie, J.; Tu, Z.; Zabel, J.; Betchart, B.; Bodek, A.; de Barbaro, P.; Demina, R.; Eshaq, Y.; Ferbel, T.; Galanti, M.; Garcia-Bellido, A.; Goldenzweig, P.; Han, J.; Harel, A.; Hindrichs, O.; Khukhunaishvili, A.; Petrillo, G.; Verzetti, M.; Demortier, L.; Arora, S.; Barker, A.; Chou, J. P.; Contreras-Campana, C.; Contreras-Campana, E.; Duggan, D.; Ferencek, D.; Gershtein, Y.; Gray, R.; Halkiadakis, E.; Hidas, D.; Hughes, E.; Kaplan, S.; Kunnawalkam Elayavalli, R.; Lath, A.; Panwalkar, S.; Park, M.; Salur, S.; Schnetzer, S.; Sheffield, D.; Somalwar, S.; Stone, R.; Thomas, S.; Thomassen, P.; Walker, M.; Foerster, M.; Riley, G.; Rose, K.; Spanier, S.; York, A.; Bouhali, O.; Castaneda Hernandez, A.; Dalchenko, M.; De Mattia, M.; Delgado, A.; Dildick, S.; Eusebi, R.; Flanagan, W.; Gilmore, J.; Kamon, T.; Krutelyov, V.; Montalvo, R.; Mueller, R.; Osipenkov, I.; Pakhotin, Y.; Patel, R.; Perloff, A.; Roe, J.; Rose, A.; Safonov, A.; Tatarinov, A.; Ulmer, K. A.; Akchurin, N.; Cowden, C.; Damgov, J.; Dragoiu, C.; Dudero, P. R.; Faulkner, J.; Kunori, S.; Lamichhane, K.; Lee, S. W.; Libeiro, T.; Undleeb, S.; Volobouev, I.; Appelt, E.; Delannoy, A. G.; Greene, S.; Gurrola, A.; Janjam, R.; Johns, W.; Maguire, C.; Mao, Y.; Melo, A.; Sheldon, P.; Snook, B.; Tuo, S.; Velkovska, J.; Xu, Q.; Arenton, M. W.; Boutle, S.; Cox, B.; Francis, B.; Goodell, J.; Hirosky, R.; Ledovskoy, A.; Li, H.; Lin, C.; Neu, C.; Wolfe, E.; Wood, J.; Xia, F.; Clarke, C.; Harr, R.; Karchin, P. E.; Kottachchi Kankanamge Don, C.; Lamichhane, P.; Sturdy, J.; Belknap, D. A.; Carlsmith, D.; Cepeda, M.; Christian, A.; Dasu, S.; Dodd, L.; Duric, S.; Friis, E.; Gomber, B.; Hall-Wilton, R.; Herndon, M.; Hervé, A.; Klabbers, P.; Lanaro, A.; Levine, A.; Long, K.; Loveless, R.; Mohapatra, A.; Ojalvo, I.; Perry, T.; Pierro, G. A.; Polese, G.; Ross, I.; Ruggles, T.; Sarangi, T.; Savin, A.; Sharma, A.; Smith, N.; Smith, W. H.; Taylor, D.; Woods, N.; CMS Collaboration

2016-07-01

A measurement of the W boson pair production cross section in proton-proton collisions at √{s} = 8 TeV is presented. The data collected with the CMS detector at the LHC correspond to an integrated luminosity of 19.4 {fb}^ {-1}. The {{W }+ }W- candidates are selected from events with two charged leptons, electrons or muons, and large missing transverse energy. The measured {{W }+ }W- cross section is 60.1± 0.9 {(stat)} ± 3.2 {(exp)} ± 3.1 {(theo)} ± 1.6 {(lumi)} { pb} = 60.1± 4.8 { pb} , consistent with the standard model prediction. The {{W }+ }W- cross sections are also measured in two different fiducial phase space regions. The normalized differential cross section is measured as a function of kinematic variables of the final-state charged leptons and compared with several perturbative QCD predictions. Limits on anomalous gauge couplings associated with dimension-six operators are also given in the framework of an effective field theory. The corresponding 95 % confidence level intervals are -5.7< c_{WWW}/Λ ^2 < 5.9 TeV^{-2}, -11.4< cW/Λ ^2 < 5.4 TeV^{-2}, -29.2< cB/Λ ^2 < 23.9 TeV^{-2}, in the HISZ basis.

OSSE observations of NGC 1275 in the 0.05-10.0 MeV range

NASA Astrophysics Data System (ADS)

Osako, C. Y.; Ulmer, M. P.; Grabelsky, D. A.; Purcell, W. R.; Strickman, M. S.; Johnson, W. N.; Kinzer, R. L.; Kurfess, J. D.; Jung, G. V.

1994-11-01

We made observations of NGC 1275 with the Compton Gamma-Ray Observatory's Oriented Scintillation Spectrometer Experiment (OSSE) between 1991 November 28 and December 12. We did not detect the source during this viewing period. Our 3 sigma upper limit to a detection in the approximately 50-90 keV range is 6 x 10-6 photons/sq cm/s/keV. This flux is more than 10 times lower than the 3 sigma detection in the same energy range reported by Rothschild et al. for their OSO 7 observations. Our results are discussed in comparison with radio observations and models for the X-ray emission, and we show that it is likely that most of the approx. greater than 10 keV photons come from the nuclear region of NGC 1275. We find no significant correlation between the variable radio intensity and the hard X-ray flux of the entire NGC 1275 source. Simultaneous Very Large Baseline Array and gamma-ray observations are needed to test the self-Compton synchrotron models for gamma-ray emission from the core of NGC 1275. Our results also provide a lower limit to the magnetic field of approximately 2 x 10-7 gauss for the approximately 5 min radio source centered on NGC 1275.

Recent developments of DMI's operational system: Coupled Ecosystem-Circulation-and SPM model.

NASA Astrophysics Data System (ADS)

Murawski, Jens; Tian, Tian; Dobrynin, Mikhail

2010-05-01

ECOOP is a pan- European project with 72 partners from 29 countries around the Baltic Sea, the North Sea, the Iberia-Biscay-Ireland region, the Mediterranean Sea and the Black Sea. The project aims at the development and the integration of the different coastal and regional observation and forecasting systems. The Danish Meteorological Institute DMI coordinates the project and is responsible for the Baltic Sea regional forecasting System. Over the project period, the Baltic Sea system was developed from a purely hydro dynamical model (version V1), running operationally since summer 2009, to a coupled model platform (version V2), including model components for the simulation of suspended particles, data assimilation and ecosystem variables. The ECOOP V2 model is currently tested and validated, and will replace the V1 version soon. The coupled biogeochemical- and circulation model runs operationally since November 2009. The daily forecasts are presented at DMI's homepage http:/ocean.dmi.dk. The presentation includes a short description of the ECOOP forecasting system, discusses the model results and shows the outcome of the model validation.

Drivers of the primate thalamus

PubMed Central

Rovó, Zita; Ulbert, István; Acsády, László

2012-01-01

The activity of thalamocortical neurons is largely determined by giant excitatory terminals, called drivers. These afferents may arise from neocortex or from subcortical centers; however their exact distribution, segregation or putative absence in given thalamic nuclei are unknown. To unravel the nucleus-specific composition of drivers, we mapped the entire macaque thalamus utilizing vesicular glutamate transporters 1 and 2 to label cortical and subcortical afferents, respectively. Large thalamic territories were innervated exclusively either by giant vGLUT2- or vGLUT1-positive boutons. Co-distribution of drivers with different origin was not abundant. In several thalamic regions, no giant terminals of any type could be detected at light microscopic level. Electron microscopic observation of these territories revealed either the complete absence of large multisynaptic excitatory terminals (basal ganglia-recipient nuclei) or the presence of both vGLUT1- and vGLUT2-positive terminals, which were significantly smaller than their giant counterparts (intralaminar nuclei, medial pulvinar). In the basal ganglia-recipient thalamus, giant inhibitory terminals replaced the excitatory driver inputs. The pulvinar and the mediodorsal nucleus displayed subnuclear heterogeneity in their driver assemblies. These results show that distinct thalamic territories can be under pure subcortical or cortical control; however there is significant variability in the composition of major excitatory inputs in several thalamic regions. Since thalamic information transfer depends on the origin and complexity of the excitatory inputs, this suggests that the computations performed by individual thalamic regions display considerable variability. Finally, the map of driver distribution may help to resolve the morphological basis of human diseases involving different parts of the thalamus. PMID:23223308

The population structure of Vibrio cholerae from the Chandigarh Region of Northern India.

PubMed

Abd El Ghany, Moataz; Chander, Jagadish; Mutreja, Ankur; Rashid, Mamoon; Hill-Cawthorne, Grant A; Ali, Shahjahan; Naeem, Raeece; Thomson, Nicholas R; Dougan, Gordon; Pain, Arnab

2014-07-01

Cholera infection continues to be a threat to global public health. The current cholera pandemic associated with Vibrio cholerae El Tor has now been ongoing for over half a century. Thirty-eight V. cholerae El Tor isolates associated with a cholera outbreak in 2009 from the Chandigarh region of India were characterised by a combination of microbiology, molecular typing and whole-genome sequencing. The genomic analysis indicated that two clones of V. cholera circulated in the region and caused disease during this time. These clones fell into two distinct sub-clades that map independently onto wave 3 of the phylogenetic tree of seventh pandemic V. cholerae El Tor. Sequence analyses of the cholera toxin gene, the Vibrio seventh Pandemic Island II (VSPII) and SXT element correlated with this phylogenetic position of the two clades on the El Tor tree. The clade 2 isolates, characterized by a drug-resistant profile and the expression of a distinct cholera toxin, are closely related to the recent V. cholerae isolated elsewhere, including Haiti, but fell on a distinct branch of the tree, showing they were independent outbreaks. Multi-Locus Sequence Typing (MLST) distinguishes two sequence types among the 38 isolates, that did not correspond to the clades defined by whole-genome sequencing. Multi-Locus Variable-length tandem-nucleotide repeat Analysis (MLVA) identified 16 distinct clusters. The use of whole-genome sequencing enabled the identification of two clones of V. cholerae that circulated during the 2009 Chandigarh outbreak. These clones harboured a similar structure of ICEVchHai1 but differed mainly in the structure of CTX phage and VSPII. The limited capacity of MLST and MLVA to discriminate between the clones that circulated in the 2009 Chandigarh outbreak highlights the value of whole-genome sequencing as a route to the identification of further genetic markers to subtype V. cholerae isolates.

The anteroventral third ventricle region is critical for the behavioral desensitization caused by repeated injections of angiotensin II.

PubMed

Vento, Peter J; Daniels, Derek

2014-01-01

A single central injection of angiotensin II (AngII) potently increases water intake; however, a growing body of research suggests that repeated, acute intracerebroventricular injections of AngII cause a reduction in the dipsogenic response to subsequent AngII. This AngII-induced behavioral desensitization is specific to the effects of angiotensin and mediated by the angiotensin type-1 (AT1) receptor. The neuroanatomical substrate for this phenomenon, however, remains unknown. The anteroventral third ventricle (AV3V) region is an important site for the behavioral and physiological actions of AngII. Therefore, we hypothesized that this region also mediates the effects of repeated central AngII administration. In support of this hypothesis, we found that repeated injections of AngII into the AV3V reduced water intake stimulated by a test injection of AngII given into this region. Moreover, repeated AngII injections in the AV3V reduced water intake after AngII was injected into the lateral ventricle. These studies also demonstrate that activation of the AT1 receptor within the AV3V is required for AngII-induced behavioral desensitization because direct injection of the AT1 receptor antagonist, losartan, into the AV3V blocked the desensitizing effect of repeated AngII injections into the lateral ventricle. These findings provide additional support for a role of the AV3V in the dipsogenic actions of AngII, and suggest that this region is critical for the desensitization that occurs after acute repeated central injections of AngII. Copyright © 2013 Elsevier B.V. All rights reserved.

X-ray Observations of the Bright Old Nova V603 Aquilae

NASA Technical Reports Server (NTRS)

Mukai, K.; Orio, M.

2004-01-01

We report on our Chandra and RXTE observations of the bright old nova, V603 Aql, performed in 2001 April, supplemented by our analysis of archival X-ray data on this object. We find that the RXTE data are contaminated by the Galactic Ridge X-ray emission. After accounting for this effect, we find a high level of aperiodic variability in the RXTE data, at a level consistent with the uncontaminated Chandra data. The Chandra HETG spectrum clearly originates in a multi-temperature plasma. We constrain the possible emission measure distribution of the plasma through a combination of global and local fits. The X-ray luminosity and the spectral shape of V603 Aql resemble those of SS Cyg in transition between quiescence and outburst. The fact that the X-ray flux variability is only weakly energy dependent can be interpreted by supposing that the variability is due to changes in the maximum temperature of the plasma. The plasma density is likely to be high, and the emission region is likely to be compact. Finally, the apparent overabundance of Ne is consistent with V603 Aql being a young system.

First Spitzer Space Telescope Observations of Magnetic Cataclysmic Variables: Evidence of Excess Emission at 3-8 μm

NASA Astrophysics Data System (ADS)

Howell, Steve B.; Brinkworth, Carolyn; Hoard, D. W.; Wachter, Stefanie; Harrison, Thomas; Chun, Howard; Thomas, Beth; Stefaniak, Linda; Ciardi, David R.; Szkody, Paula; van Belle, Gerard

2006-07-01

We present the first observations of magnetic cataclysmic variables using the Spitzer Space Telescope. We used the Infrared Array Camera to obtain photometry of the Polars EF Eri, GG Leo, V347 Pav, and RX J0154.0-5947 at 3.6, 4.5, 5.8, and 8.0 μm, respectively. In all of our targets, we detect excess mid-infrared emission over that expected from the component stars alone. We explore the origin of this IR excess by examining bremsstrahlung, cyclotron emission, circumbinary dust, and L/T brown dwarf secondary stars. Bremsstrahlung and cyclotron emission appear unlikely to be significant contributors to the observed fluxes. At present, the most likely candidate for the excess emission is dust that is probably located in a circumbinary disk with an inner temperature near 800 K. However, a simple dust disk plus any reasonable low-mass or brown dwarf-like secondary star is unable to fully explain the observed flux densities in the 3-8 μm region.

Measurement of the $W^+W^-$ cross section in pp collisions at $$\\sqrt{s}$$ = 8 TeV and limits on anomalous gauge couplings

DOE PAGES

Khachatryan, Vardan

2016-07-15

A measurement of the W boson pair production cross section in proton-proton collisions at √ s = 8 TeV is presented. The data we collected with the CMS detector at the LHC correspond to an integrated luminosity of 19.4 fb -1 . The W +W - candidates are selected from events with two charged leptons, electrons or muons, and large missing transverse energy. The measured W +W - cross section is 60.1 ± 0.9 (stat) ± 3.2 (exp) ± 3.1 (theo) ± 1.6 (lumi) pb = 60.1 ± 4.8 pb, consistent with the standard model prediction. The W +W -crossmore » sections are also measured in two different fiducial phase space regions. In addition, the normalized differential cross section is measured as a function of kinematic variables of the final-state charged leptons and compared with several perturbative QCD predictions. Limits on anomalous gauge couplings associated with dimension-six operators are also given in the framework of an effective field theory. Finally, the corresponding 95% confidence level intervals are -5.7 < c WWW/Λ 2 < 5.9 TeV -2, -11.4 < c W/Λ 2 < 5.4 TeV -2 , -29.2 < c B/Λ 2 < 23.9 TeV -2, in the HISZ basis.« less

Parametric Methods for Dynamic 11C-Phenytoin PET Studies.

PubMed

Mansor, Syahir; Yaqub, Maqsood; Boellaard, Ronald; Froklage, Femke E; de Vries, Anke; Bakker, Esther D M; Voskuyl, Rob A; Eriksson, Jonas; Schwarte, Lothar A; Verbeek, Joost; Windhorst, Albert D; Lammertsma, Adriaan A

2017-03-01

In this study, the performance of various methods for generating quantitative parametric images of dynamic 11 C-phenytoin PET studies was evaluated. Methods: Double-baseline 60-min dynamic 11 C-phenytoin PET studies, including online arterial sampling, were acquired for 6 healthy subjects. Parametric images were generated using Logan plot analysis, a basis function method, and spectral analysis. Parametric distribution volume (V T ) and influx rate ( K 1 ) were compared with those obtained from nonlinear regression analysis of time-activity curves. In addition, global and regional test-retest (TRT) variability was determined for parametric K 1 and V T values. Results: Biases in V T observed with all parametric methods were less than 5%. For K 1 , spectral analysis showed a negative bias of 16%. The mean TRT variabilities of V T and K 1 were less than 10% for all methods. Shortening the scan duration to 45 min provided similar V T and K 1 with comparable TRT performance compared with 60-min data. Conclusion: Among the various parametric methods tested, the basis function method provided parametric V T and K 1 values with the least bias compared with nonlinear regression data and showed TRT variabilities lower than 5%, also for smaller volume-of-interest sizes (i.e., higher noise levels) and shorter scan duration. © 2017 by the Society of Nuclear Medicine and Molecular Imaging.

AV3V lesions attenuate the cardiovascular responses produced by blood-borne excitatory amino acid analogs

NASA Technical Reports Server (NTRS)

Whalen, E. J.; Beltz, T. G.; Lewis, S. J.; Johnson, A. K.

1999-01-01

Systemic injections of the excitatory amino acid (EAA) analogs, kainic acid (KA) and N-methyl-D-aspartate (NMDA), produce a pressor response in conscious rats that is caused by a centrally mediated activation of sympathetic drive and the release of arginine vasopressin (AVP). This study tested the hypothesis that the tissue surrounding the anteroventral part of the third ventricle (AV3V) plays a role in the expression of the pressor responses produced by systemically injected EAA analogs. Specifically, we examined whether prior electrolytic ablation of the AV3V region would affect the pressor responses to KA and NMDA (1 mg/kg iv) in conscious rats. The KA-induced pressor response was smaller in AV3V-lesioned than in sham-lesioned rats (11 +/- 2 vs. 29 +/- 2 mmHg; P < 0.05). After ganglion blockade, KA produced a pressor response in sham-lesioned but not AV3V-lesioned rats (+27 +/- 3 vs. +1 +/- 2 mmHg; P < 0.05). The KA-induced pressor response in ganglion-blocked sham-lesioned rats was abolished by a vasopressin V1-receptor antagonist. Similar results were obtained with NMDA. The pressor response to AVP (10 ng/kg iv) was slightly smaller in AV3V-lesioned than in sham-lesioned ganglion-blocked rats (45 +/- 3 vs. 57 +/- 4 mmHg; P < 0.05). This study demonstrates that the pressor responses to systemically injected EAA analogs are smaller in AV3V-lesioned rats. The EAA analogs may produce pressor responses by stimulation of EAA receptors in the AV3V region, or the AV3V region may play an important role in the expression of these responses.

Structure in the lowermost mantle from seismic anisotropy

NASA Astrophysics Data System (ADS)

Walpole, J.; Wookey, J. M.; Nowacki, A.; Walker, A.; Kendall, J. M.; Masters, G.; Forte, A. M.

2017-12-01

Anisotropy is well established in D'' and places important constraints on the nature and dynamics of this elusive region. We present the results of a recent study probing anisotropy in D'', over a large area, using shear wave splitting on core-reflected ScS phases. Our dataset contains laterally continuous coverage beneath a large swath of east Asia - extending about 3000 km along the CMB - from south-east Asia to the north-east Pacific. The centre of this area represents a large down-welling core for subduction that has occurred over several super-continent cycles. In the centre of this region we observe a clear VSV}>V{SH fabric, in direct conflict with the prevailing view that fast, `cold', regions are associated with VSH}>V{SV fabric. Furthermore, systematic rotation of the fast axis traces out an apparent dome-like feature extending over thousands of km, albeit complicated by some short-scale variability. The dataset also samples regions where slab material may be actively impinging on the CMB; and a region corresponding to the edge of the Pacific LLSVP. We interpret our results in light of a combined computational geodynamic-petrofabric-seismic study designed to test the possibility that anisotropy is caused by the lattice preferred orientation of post-perovskite. We take into account the important finite-frequency effects of wave propagation in our synthetics by using the SPECFEM3D_GLOBE code; this can lead to drastically different results when compared to the less accurate ray theory.

A Consistent Picture Emerges: A Compact X-Ray Continuum Emission Region in the Gravitationally Lensed Quasar SDSS J0924+0219

NASA Astrophysics Data System (ADS)

MacLeod, Chelsea L.; Morgan, Christopher W.; Mosquera, A.; Kochanek, C. S.; Tewes, M.; Courbin, F.; Meylan, G.; Chen, B.; Dai, X.; Chartas, G.

2015-06-01

We analyze the optical, UV, and X-ray microlensing variability of the lensed quasar SDSS J0924+0219 using six epochs of Chandra data in two energy bands (spanning 0.4-8.0 keV, or 1-20 keV in the quasar rest frame), 10 epochs of F275W (rest-frame 1089 Å) Hubble Space Telescope data, and high-cadence R-band (rest-frame 2770 Å) monitoring spanning 11 years. Our joint analysis provides robust constraints on the extent of the X-ray continuum emission region and the projected area of the accretion disk. The best-fit half-light radius of the soft X-ray continuum emission region is between 5× {10}13 and 1015 cm, and we find an upper limit of 1015 cm for the hard X-rays. The best-fit soft-band size is about 13 times smaller than the optical size, and roughly 7{{GM}}{BH}/{c}2 for a 2.8× {10}8 {M}⊙ black hole, similar to the results for other systems. We find that the UV emitting region falls in between the optical and X-ray emitting regions at 1014 cm \\lt {r}1/2,{UV}\\lt 3× {10}15 cm. Finally, the optical size is significantly larger, by 1.5σ, than the theoretical thin-disk estimate based on the observed, magnification-corrected I-band flux, suggesting a shallower temperature profile than expected for a standard disk.

National Earthquake Information Center Seismic Event Detections on Multiple Scales

NASA Astrophysics Data System (ADS)

Patton, J.; Yeck, W. L.; Benz, H.; Earle, P. S.; Soto-Cordero, L.; Johnson, C. E.

2017-12-01

The U.S. Geological Survey National Earthquake Information Center (NEIC) monitors seismicity on local, regional, and global scales using automatic picks from more than 2,000 near-real time seismic stations. This presents unique challenges in automated event detection due to the high variability in data quality, network geometries and density, and distance-dependent variability in observed seismic signals. To lower the overall detection threshold while minimizing false detection rates, NEIC has begun to test the incorporation of new detection and picking algorithms, including multiband (Lomax et al., 2012) and kurtosis (Baillard et al., 2014) pickers, and a new bayesian associator (Glass 3.0). The Glass 3.0 associator allows for simultaneous processing of variably scaled detection grids, each with a unique set of nucleation criteria (e.g., nucleation threshold, minimum associated picks, nucleation phases) to meet specific monitoring goals. We test the efficacy of these new tools on event detection in networks of various scales and geometries, compare our results with previous catalogs, and discuss lessons learned. For example, we find that on local and regional scales, rapid nucleation of small events may require event nucleation with both P and higher-amplitude secondary phases (e.g., S or Lg). We provide examples of the implementation of a scale-independent associator for an induced seismicity sequence (local-scale), a large aftershock sequence (regional-scale), and for monitoring global seismicity. Baillard, C., Crawford, W. C., Ballu, V., Hibert, C., & Mangeney, A. (2014). An automatic kurtosis-based P-and S-phase picker designed for local seismic networks. Bulletin of the Seismological Society of America, 104(1), 394-409. Lomax, A., Satriano, C., & Vassallo, M. (2012). Automatic picker developments and optimization: FilterPicker - a robust, broadband picker for real-time seismic monitoring and earthquake early-warning, Seism. Res. Lett. , 83, 531-540, doi: 10.1785/gssrl.83.3.531.

Ultra-trace analysis of furanic compounds in transformer/rectifier oils with water extraction and high-performance liquid chromatography.

PubMed

Lin, Monica; Lin, Kham; Lin, Amanda; Gras, Ronda; Luong, Jim

2016-07-01

A novel approach for the determination of parts-per-billion level of 5-hydroxymethyl-2-furaldehyde, furfuryl alcohol, furfural, 2-furyl methyl ketone, and 5-methylfurfural in transformer or rectifier oils has been successfully innovated and implemented. Various extraction methods including solid-phase extraction, liquid-liquid extraction using methanol, acetonitrile, and water were studied. Water was by far the most efficient solvent for use as an extraction medium. Separation of the analytes was conducted using a 4.6 mm × 250 mm × 3.5 μm Agilent Zorbax column while detection and quantitation were conducted with a variable wavelength UV detector. Detection limits of all furans were at 1 ppb v/v with linear ranges range from 5 to 1000 ppb v/v with correlation coefficients of 0.997 or better. A relative standard deviation of at most 2.4% at 1000 ppb v/v and 7.3% at 5 ppb v/v and a recovery from 43% to 90% depending on the analyte monitored were obtained. The method was purposely designed to be environmental friendly with water as an extraction medium. Also, the method uses 80% water and 20% acetonitrile with a mere 0.2 mL/min of acetonitrile in an acetonitrile/water mixture as mobile phase. The analytical technique has been demonstrated to be highly reliable with low cost of ownership, suitable for deployment in quality control labs or in regions where available analytical resources and solvents are difficult to procure. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

The anteroventral third ventricle region is critical for the behavioral desensitization caused by repeated injections of angiotensin II

PubMed Central

Vento, Peter J.; Daniels, Derek

2013-01-01

A single central injection of angiotensin II (AngII) potently increases water intake; however, a growing body of research suggests that repeated, acute intracerebroventricular injections of AngII cause a reduction in the dipsogenic response to subsequent AngII. This AngII-induced behavioral desensitization is specific to the effects of angiotensin and mediated by the angiotensin type-1 (AT1) receptor. The neuroanatomical substrate for this phenomenon, however, remains unknown. The anteroventral third ventricle region (AV3V) is an important site for the behavioral and physiological actions of AngII. Therefore, we hypothesized that this region also mediates the effects of repeated central AngII administration. In support of this hypothesis, we found that repeated injections of AngII into the AV3V reduced water intake stimulated by a test injection of AngII given into this region. Moreover, repeated AngII injections in the AV3V reduced water intake after AngII was injected into the lateral ventricle. These studies also demonstrate that activation of the AT1 receptor within the AV3V is required for AngII-induced behavioral desensitization because direct injection of the AT1 receptor antagonist, losartan, into the AV3V blocked the desensitizing effect of repeated AngII injections into the lateral ventricle. These findings provide additional support for a role of the AV3V in the dipsogenic actions of AngII, and suggest that this region is critical for the desensitization that occurs after acute repeated central injections of AngII. PMID:24144549

Hindcast of extreme sea states in North Atlantic extratropical storms

NASA Astrophysics Data System (ADS)

Ponce de León, Sonia; Guedes Soares, Carlos

2015-02-01

This study examines the variability of freak wave parameters around the eye of northern hemisphere extratropical cyclones. The data was obtained from a hindcast performed with the WAve Model (WAM) model forced by the wind fields of the Climate Forecast System Reanalysis (CFSR). The hindcast results were validated against the wave buoys and satellite altimetry data showing a good correlation. The variability of different wave parameters was assessed by applying the empirical orthogonal functions (EOF) technique on the hindcast data. From the EOF analysis, it can be concluded that the first empirical orthogonal function (V1) accounts for greater share of variability of significant wave height (Hs), peak period (Tp), directional spreading (SPR) and Benjamin-Feir index (BFI). The share of variance in V1 varies for cyclone and variable: for the 2nd storm and Hs V1 contains 96 % of variance while for the 3rd storm and BFI V1 accounts only for 26 % of variance. The spatial patterns of V1 show that the variables are distributed around the cyclones centres mainly in a lobular fashion.

Surfatron accelerator in the local interstellar cloud

NASA Astrophysics Data System (ADS)

Loznikov, V. M.; Erokhin, N. S.; Zol'nikova, N. N.; Mikhailovskaya, L. A.

2017-01-01

Taking into account results of numerous experiments, the variability of the energy spectra of cosmic rays (protons and helium nuclei) in the energy range of 10 GeV to 107 GeV is explained on the basis of a hypothesis of the existence of two variable sources close to the Sun. The first (soft) surfatron source (with a size of 100 AU) is located at the periphery of the heliosphere. The second (hard) surfatron source (with a size of 1 pc) is situated in the Local Interstellar Cloud (LIC) at a distance of <1 pc. The constant background is described by a power-law spectrum with a slope of 2.75. The variable heliospheric surfatron source is described by a power-law spectrum with a variable amplitude, slope, and cutoff energy, the maximum cutoff energy being in the range of E CH/ Z < 1000 GeV. The variable surfatron source in the LIC is described by a power-law spectrum with a variable amplitude, slope, and cut-off energy, the maximum cut-off energy being E CL/ Z ≤ 3 × 106 GeV. The proposed model is used to approximate data from several experiments performed at close times. The energy of each cosmic-ray component is calculated. The possibility of surfatron acceleration of Fe nuclei ( Z = 26) in the LIC up to an energy of E CL 1017 eV and electron and positrons to the "knee" in the energy spectrum is predicted. By numerically solving a system of nonlinear equations describing the interaction between an electromagnetic wave and a charged particle with an energy of up to E/ Z 3 × 106 GeV, the possibility of trapping, confinement, and acceleration of charged cosmic-ray particles by a quasi-longitudinal plasma wave is demonstrated.

Search for supersymmetry with Higgs boson to diphoton decays using the razor variables at s = 13 TeV

DOE Office of Scientific and Technical Information (OSTI.GOV)

Sirunyan, A. M.; Tumasyan, A.; Adam, W.

An inclusive search for anomalous Higgs boson production in the diphoton decay channel and in association with at least one jet is presented, using LHC proton–proton collision data collected by the CMS experiment at a center-of-mass energy of 13 TeV and corresponding to an integrated luminosity of 35.9fb -1. The razor variables M R and R 2, as well as the momentum and mass resolution of the diphoton system, are used to categorize events into different search regions. The search result is interpreted in the context of strong and electroweak production of supersymmetric particles. We exclude bottom squark pair-production withmore » masses below 450 GeV for bottom squarks decaying to a bottom quark, a Higgs boson, and the lightest supersymmetric particle (LSP) for LSP masses below 250 GeV. For wino-like chargino–neutralino production, we exclude charginos with mass below 170 GeV for LSP masses below 25 GeV. In the GMSB scenario, we exclude charginos with mass below 205 GeV for neutralinos decaying to a Higgs boson and a goldstino LSP with 100% branching fraction.« less

Search for supersymmetry with Higgs boson to diphoton decays using the razor variables at √{ s } = 13TeV

NASA Astrophysics Data System (ADS)

Sirunyan, A. M.; Tumasyan, A.; Adam, W.; Ambrogi, F.; Asilar, E.; Bergauer, T.; Brandstetter, J.; Brondolin, E.; Dragicevic, M.; Erö, J.; Flechl, M.; Friedl, M.; Frühwirth, R.; Ghete, V. M.; Grossmann, J.; Hrubec, J.; Jeitler, M.; König, A.; Krammer, N.; Krätschmer, I.; Liko, D.; Madlener, T.; Mikulec, I.; Pree, E.; Rabady, D.; Rad, N.; Rohringer, H.; Schieck, J.; Schöfbeck, R.; Spanring, M.; Spitzbart, D.; Strauss, J.; Waltenberger, W.; Wittmann, J.; Wulz, C.-E.; Zarucki, M.; Chekhovsky, V.; Mossolov, V.; Suarez Gonzalez, J.; De Wolf, E. A.; Di Croce, D.; Janssen, X.; Lauwers, J.; Van De Klundert, M.; Van Haevermaet, H.; Van Mechelen, P.; Van Remortel, N.; Abu Zeid, S.; Blekman, F.; D'Hondt, J.; De Bruyn, I.; De Clercq, J.; Deroover, K.; Flouris, G.; Lontkovskyi, D.; Lowette, S.; Moortgat, S.; Moreels, L.; Olbrechts, A.; Python, Q.; Skovpen, K.; Tavernier, S.; Van Doninck, W.; Van Mulders, P.; Van Parijs, I.; Brun, H.; Clerbaux, B.; De Lentdecker, G.; Delannoy, H.; Fasanella, G.; Favart, L.; Goldouzian, R.; Grebenyuk, A.; Karapostoli, G.; Lenzi, T.; Luetic, J.; Maerschalk, T.; Marinov, A.; Randle-conde, A.; Seva, T.; Vander Velde, C.; Vanlaer, P.; Vannerom, D.; Yonamine, R.; Zenoni, F.; Zhang, F.; Cimmino, A.; Cornelis, T.; Dobur, D.; Fagot, A.; Gul, M.; Khvastunov, I.; Poyraz, D.; Roskas, C.; Salva, S.; Tytgat, M.; Verbeke, W.; Zaganidis, N.; Bakhshiansohi, H.; Bondu, O.; Brochet, S.; Bruno, G.; Caudron, A.; De Visscher, S.; Delaere, C.; Delcourt, M.; Francois, B.; Giammanco, A.; Jafari, A.; Komm, M.; Krintiras, G.; Lemaitre, V.; Magitteri, A.; Mertens, A.; Musich, M.; Piotrzkowski, K.; Quertenmont, L.; Vidal Marono, M.; Wertz, S.; Beliy, N.; Aldá Júnior, W. L.; Alves, F. L.; Alves, G. A.; Brito, L.; Correa Martins Junior, M.; Hensel, C.; Moraes, A.; Pol, M. E.; Rebello Teles, P.; Belchior Batista Das Chagas, E.; Carvalho, W.; Chinellato, J.; Custódio, A.; Da Costa, E. M.; Da Silveira, G. G.; De Jesus Damiao, D.; Fonseca De Souza, S.; Huertas Guativa, L. M.; Malbouisson, H.; Melo De Almeida, M.; Mora Herrera, C.; Mundim, L.; Nogima, H.; Santoro, A.; Sznajder, A.; Tonelli Manganote, E. J.; Torres Da Silva De Araujo, F.; Vilela Pereira, A.; Ahuja, S.; Bernardes, C. A.; Fernandez Perez Tomei, T. R.; Gregores, E. M.; Mercadante, P. G.; Novaes, S. F.; Padula, Sandra S.; Romero Abad, D.; Ruiz Vargas, J. C.; Aleksandrov, A.; Hadjiiska, R.; Iaydjiev, P.; Misheva, M.; Rodozov, M.; Shopova, M.; Stoykova, S.; Sultanov, G.; Dimitrov, A.; Glushkov, I.; Litov, L.; Pavlov, B.; Petkov, P.; Fang, W.; Gao, X.; Ahmad, M.; Bian, J. G.; Chen, G. M.; Chen, H. S.; Chen, M.; Chen, Y.; Jiang, C. H.; Leggat, D.; Liao, H.; Liu, Z.; Romeo, F.; Shaheen, S. M.; Spiezia, A.; Tao, J.; Wang, C.; Wang, Z.; Yazgan, E.; Zhang, H.; Zhao, J.; Ban, Y.; Chen, G.; Li, Q.; Liu, S.; Mao, Y.; Qian, S. J.; Wang, D.; Xu, Z.; Avila, C.; Cabrera, A.; Chaparro Sierra, L. F.; Florez, C.; González Hernández, C. F.; Ruiz Alvarez, J. D.; Courbon, B.; Godinovic, N.; Lelas, D.; Puljak, I.; Ribeiro Cipriano, P. M.; Sculac, T.; Antunovic, Z.; Kovac, M.; Brigljevic, V.; Ferencek, D.; Kadija, K.; Mesic, B.; Starodumov, A.; Susa, T.; Ather, M. W.; Attikis, A.; Mavromanolakis, G.; Mousa, J.; Nicolaou, C.; Ptochos, F.; Razis, P. A.; Rykaczewski, H.; Finger, M.; Finger, M.; Carrera Jarrin, E.; Abdelalim, A. A.; Mohammed, Y.; Salama, E.; Dewanjee, R. K.; Kadastik, M.; Perrini, L.; Raidal, M.; Tiko, A.; Veelken, C.; Eerola, P.; Pekkanen, J.; Voutilainen, M.; Härkönen, J.; Järvinen, T.; Karimäki, V.; Kinnunen, R.; Lampén, T.; Lassila-Perini, K.; Lehti, S.; Lindén, T.; Luukka, P.; Tuominen, E.; Tuominiemi, J.; Tuovinen, E.; Talvitie, J.; Tuuva, T.; Besancon, M.; Couderc, F.; Dejardin, M.; Denegri, D.; Faure, J. L.; Ferri, F.; Ganjour, S.; Ghosh, S.; Givernaud, A.; Gras, P.; Hamel de Monchenault, G.; Jarry, P.; Kucher, I.; Locci, E.; Machet, M.; Malcles, J.; Negro, G.; Rander, J.; Rosowsky, A.; Sahin, M. Ö.; Titov, M.; Abdulsalam, A.; Antropov, I.; Baffioni, S.; Beaudette, F.; Busson, P.; Cadamuro, L.; Charlot, C.; Granier de Cassagnac, R.; Jo, M.; Lisniak, S.; Lobanov, A.; Martin Blanco, J.; Nguyen, M.; Ochando, C.; Ortona, G.; Paganini, P.; Pigard, P.; Regnard, S.; Salerno, R.; Sauvan, J. B.; Sirois, Y.; Stahl Leiton, A. G.; Strebler, T.; Yilmaz, Y.; Zabi, A.; Zghiche, A.; Agram, J.-L.; Andrea, J.; Bloch, D.; Brom, J.-M.; Buttignol, M.; Chabert, E. C.; Chanon, N.; Collard, C.; Conte, E.; Coubez, X.; Fontaine, J.-C.; Gelé, D.; Goerlach, U.; Jansová, M.; Le Bihan, A.-C.; Tonon, N.; Van Hove, P.; Gadrat, S.; Beauceron, S.; Bernet, C.; Boudoul, G.; Chierici, R.; Contardo, D.; Depasse, P.; El Mamouni, H.; Fay, J.; Finco, L.; Gascon, S.; Gouzevitch, M.; Grenier, G.; Ille, B.; Lagarde, F.; Laktineh, I. B.; Lethuillier, M.; Mirabito, L.; Pequegnot, A. L.; Perries, S.; Popov, A.; Sordini, V.; Vander Donckt, M.; Viret, S.; Khvedelidze, A.; Tsamalaidze, Z.; Autermann, C.; Beranek, S.; Feld, L.; Kiesel, M. K.; Klein, K.; Lipinski, M.; Preuten, M.; Schomakers, C.; Schulz, J.; Verlage, T.; Albert, A.; Dietz-Laursonn, E.; Duchardt, D.; Endres, M.; Erdmann, M.; Erdweg, S.; Esch, T.; Fischer, R.; Güth, A.; Hamer, M.; Hebbeker, T.; Heidemann, C.; Hoepfner, K.; Knutzen, S.; Merschmeyer, M.; Meyer, A.; Millet, P.; Mukherjee, S.; Olschewski, M.; Padeken, K.; Pook, T.; Radziej, M.; Reithler, H.; Rieger, M.; Scheuch, F.; Teyssier, D.; Thüer, S.; Flügge, G.; Kargoll, B.; Kress, T.; Künsken, A.; Lingemann, J.; Müller, T.; Nehrkorn, A.; Nowack, A.; Pistone, C.; Pooth, O.; Stahl, A.; Aldaya Martin, M.; Arndt, T.; Asawatangtrakuldee, C.; Beernaert, K.; Behnke, O.; Behrens, U.; Bermúdez Martínez, A.; Bin Anuar, A. A.; Borras, K.; Botta, V.; Campbell, A.; Connor, P.; Contreras-Campana, C.; Costanza, F.; Diez Pardos, C.; Eckerlin, G.; Eckstein, D.; Eichhorn, T.; Eren, E.; Gallo, E.; Garay Garcia, J.; Geiser, A.; Gizhko, A.; Grados Luyando, J. M.; Grohsjean, A.; Gunnellini, P.; Harb, A.; Hauk, J.; Hempel, M.; Jung, H.; Kalogeropoulos, A.; Kasemann, M.; Keaveney, J.; Kleinwort, C.; Korol, I.; Krücker, D.; Lange, W.; Lelek, A.; Lenz, T.; Leonard, J.; Lipka, K.; Lohmann, W.; Mankel, R.; Melzer-Pellmann, I.-A.; Meyer, A. B.; Mittag, G.; Mnich, J.; Mussgiller, A.; Ntomari, E.; Pitzl, D.; Placakyte, R.; Raspereza, A.; Roland, B.; Savitskyi, M.; Saxena, P.; Shevchenko, R.; Spannagel, S.; Stefaniuk, N.; Van Onsem, G. P.; Walsh, R.; Wen, Y.; Wichmann, K.; Wissing, C.; Zenaiev, O.; Bein, S.; Blobel, V.; Centis Vignali, M.; Dreyer, T.; Garutti, E.; Gonzalez, D.; Haller, J.; Hinzmann, A.; Hoffmann, M.; Karavdina, A.; Klanner, R.; Kogler, R.; Kovalchuk, N.; Kurz, S.; Lapsien, T.; Marchesini, I.; Marconi, D.; Meyer, M.; Niedziela, M.; Nowatschin, D.; Pantaleo, F.; Peiffer, T.; Perieanu, A.; Scharf, C.; Schleper, P.; Schmidt, A.; Schumann, S.; Schwandt, J.; Sonneveld, J.; Stadie, H.; Steinbrück, G.; Stober, F. M.; Stöver, M.; Tholen, H.; Troendle, D.; Usai, E.; Vanelderen, L.; Vanhoefer, A.; Vormwald, B.; Akbiyik, M.; Barth, C.; Baur, S.; Butz, E.; Caspart, R.; Chwalek, T.; Colombo, F.; De Boer, W.; Dierlamm, A.; Freund, B.; Friese, R.; Giffels, M.; Gilbert, A.; Haitz, D.; Hartmann, F.; Heindl, S. M.; Husemann, U.; Kassel, F.; Kudella, S.; Mildner, H.; Mozer, M. U.; Müller, Th.; Plagge, M.; Quast, G.; Rabbertz, K.; Schröder, M.; Shvetsov, I.; Sieber, G.; Simonis, H. J.; Ulrich, R.; Wayand, S.; Weber, M.; Weiler, T.; Williamson, S.; Wöhrmann, C.; Wolf, R.; Anagnostou, G.; Daskalakis, G.; Geralis, T.; Giakoumopoulou, V. A.; Kyriakis, A.; Loukas, D.; Topsis-Giotis, I.; Kesisoglou, S.; Panagiotou, A.; Saoulidou, N.; Evangelou, I.; Foudas, C.; Kokkas, P.; Mallios, S.; Manthos, N.; Papadopoulos, I.; Paradas, E.; Strologas, J.; Triantis, F. A.; Csanad, M.; Filipovic, N.; Pasztor, G.; Bencze, G.; Hajdu, C.; Horvath, D.; Hunyadi, Á.; Sikler, F.; Veszpremi, V.; Vesztergombi, G.; Zsigmond, A. J.; Beni, N.; Czellar, S.; Karancsi, J.; Makovec, A.; Molnar, J.; Szillasi, Z.; Bartók, M.; Raics, P.; Trocsanyi, Z. L.; Ujvari, B.; Choudhury, S.; Komaragiri, J. R.; Bahinipati, S.; Bhowmik, S.; Mal, P.; Mandal, K.; Nayak, A.; Sahoo, D. K.; Sahoo, N.; Swain, S. K.; Bansal, S.; Beri, S. B.; Bhatnagar, V.; Bhawandeep, U.; Chawla, R.; Dhingra, N.; Kalsi, A. K.; Kaur, A.; Kaur, M.; Kumar, R.; Kumari, P.; Mehta, A.; Singh, J. B.; Walia, G.; Kumar, Ashok; Shah, Aashaq; Bhardwaj, A.; Chauhan, S.; Choudhary, B. C.; Garg, R. B.; Keshri, S.; Kumar, A.; Malhotra, S.; Naimuddin, M.; Ranjan, K.; Sharma, R.; Sharma, V.; Bhardwaj, R.; Bhattacharya, R.; Bhattacharya, S.; Dey, S.; Dutt, S.; Dutta, S.; Ghosh, S.; Majumdar, N.; Modak, A.; Mondal, K.; Mukhopadhyay, S.; Nandan, S.; Purohit, A.; Roy, A.; Roy, D.; Roy Chowdhury, S.; Sarkar, S.; Sharan, M.; Thakur, S.; Behera, P. K.; Chudasama, R.; Dutta, D.; Jha, V.; Kumar, V.; Mohanty, A. K.; Netrakanti, P. K.; Pant, L. M.; Shukla, P.; Topkar, A.; Aziz, T.; Dugad, S.; Mahakud, B.; Mitra, S.; Mohanty, G. B.; Sur, N.; Sutar, B.; Banerjee, S.; Bhattacharya, S.; Chatterjee, S.; Das, P.; Guchait, M.; Jain, Sa.; Kumar, S.; Maity, M.; Majumder, G.; Mazumdar, K.; Sarkar, T.; Wickramage, N.; Chauhan, S.; Dube, S.; Hegde, V.; Kapoor, A.; Kothekar, K.; Pandey, S.; Rane, A.; Sharma, S.; Chenarani, S.; Eskandari Tadavani, E.; Etesami, S. M.; Khakzad, M.; Mohammadi Najafabadi, M.; Naseri, M.; Paktinat Mehdiabadi, S.; Rezaei Hosseinabadi, F.; Safarzadeh, B.; Zeinali, M.; Felcini, M.; Grunewald, M.; Abbrescia, M.; Calabria, C.; Caputo, C.; Colaleo, A.; Creanza, D.; Cristella, L.; De Filippis, N.; De Palma, M.; Errico, F.; Fiore, L.; Iaselli, G.; Lezki, S.; Maggi, G.; Maggi, M.; Miniello, G.; My, S.; Nuzzo, S.; Pompili, A.; Pugliese, G.; Radogna, R.; Ranieri, A.; Selvaggi, G.; Sharma, A.; Silvestris, L.; Venditti, R.; Verwilligen, P.; Abbiendi, G.; Battilana, C.; Bonacorsi, D.; Braibant-Giacomelli, S.; Campanini, R.; Capiluppi, P.; Castro, A.; Cavallo, F. R.; Chhibra, S. S.; Codispoti, G.; Cuffiani, M.; Dallavalle, G. M.; Fabbri, F.; Fanfani, A.; Fasanella, D.; Giacomelli, P.; Grandi, C.; Guiducci, L.; Marcellini, S.; Masetti, G.; Montanari, A.; Navarria, F. L.; Perrotta, A.; Rossi, A. M.; Rovelli, T.; Siroli, G. P.; Tosi, N.; Albergo, S.; Costa, S.; Di Mattia, A.; Giordano, F.; Potenza, R.; Tricomi, A.; Tuve, C.; Barbagli, G.; Chatterjee, K.; Ciulli, V.; Civinini, C.; D'Alessandro, R.; Focardi, E.; Lenzi, P.; Meschini, M.; Paoletti, S.; Russo, L.; Sguazzoni, G.; Strom, D.; Viliani, L.; Benussi, L.; Bianco, S.; Fabbri, F.; Piccolo, D.; Primavera, F.; Calvelli, V.; Ferro, F.; Robutti, E.; Tosi, S.; Brianza, L.; Brivio, F.; Ciriolo, V.; Dinardo, M. E.; Fiorendi, S.; Gennai, S.; Ghezzi, A.; Govoni, P.; Malberti, M.; Malvezzi, S.; Manzoni, R. A.; Menasce, D.; Moroni, L.; Paganoni, M.; Pauwels, K.; Pedrini, D.; Pigazzini, S.; Ragazzi, S.; Tabarelli de Fatis, T.; Buontempo, S.; Cavallo, N.; Di Guida, S.; Fabozzi, F.; Fienga, F.; Iorio, A. O. M.; Khan, W. 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S.; Lee, J.; Lee, S.; Lee, S. W.; Moon, C. S.; Oh, Y. D.; Sekmen, S.; Son, D. C.; Yang, Y. C.; Lee, A.; Kim, H.; Moon, D. H.; Oh, G.; Brochero Cifuentes, J. A.; Goh, J.; Kim, T. J.; Cho, S.; Choi, S.; Go, Y.; Gyun, D.; Ha, S.; Hong, B.; Jo, Y.; Kim, Y.; Lee, K.; Lee, K. S.; Lee, S.; Lim, J.; Park, S. K.; Roh, Y.; Almond, J.; Kim, J.; Kim, J. S.; Lee, H.; Lee, K.; Nam, K.; Oh, S. B.; Radburn-Smith, B. C.; Seo, S. h.; Yang, U. K.; Yoo, H. D.; Yu, G. B.; Choi, M.; Kim, H.; Kim, J. H.; Lee, J. S. H.; Park, I. C.; Ryu, G.; Choi, Y.; Hwang, C.; Lee, J.; Yu, I.; Dudenas, V.; Juodagalvis, A.; Vaitkus, J.; Ahmed, I.; Ibrahim, Z. A.; Md Ali, M. A. B.; Mohamad Idris, F.; Wan Abdullah, W. A. T.; Yusli, M. N.; Zolkapli, Z.; Castilla-Valdez, H.; De La Cruz-Burelo, E.; Duran, C.; Heredia-De La Cruz, I.; Lopez-Fernandez, R.; Mejia Guisao, J.; Rabadán Trejo, R. I.; Ramirez Sanchez, G.; Reyes-Almanza, R.; Sanchez-Hernandez, A.; Carrillo Moreno, S.; Oropeza Barrera, C.; Vazquez Valencia, F.; Pedraza, I.; Salazar Ibarguen, H. A.; Uribe Estrada, C.; Morelos Pineda, A.; Krofcheck, D.; Butler, P. H.; Ahmad, A.; Ahmad, M.; Hassan, Q.; Hoorani, H. R.; Saddique, A.; Shah, M. A.; Shoaib, M.; Waqas, M.; Bialkowska, H.; Bluj, M.; Boimska, B.; Frueboes, T.; Górski, M.; Kazana, M.; Nawrocki, K.; Romanowska-Rybinska, K.; Szleper, M.; Zalewski, P.; Bunkowski, K.; Byszuk, A.; Doroba, K.; Kalinowski, A.; Konecki, M.; Krolikowski, J.; Misiura, M.; Olszewski, M.; Pyskir, A.; Walczak, M.; Bargassa, P.; Beirão Da Cruz E Silva, C.; Calpas, B.; Di Francesco, A.; Faccioli, P.; Gallinaro, M.; Hollar, J.; Leonardo, N.; Lloret Iglesias, L.; Nemallapudi, M. 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P.; Flix, J.; Fouz, M. C.; Garcia-Abia, P.; Gonzalez Lopez, O.; Goy Lopez, S.; Hernandez, J. M.; Josa, M. I.; Pérez-Calero Yzquierdo, A.; Puerta Pelayo, J.; Quintario Olmeda, A.; Redondo, I.; Romero, L.; Soares, M. S.; Álvarez Fernández, A.; de Trocóniz, J. F.; Missiroli, M.; Moran, D.; Cuevas, J.; Erice, C.; Fernandez Menendez, J.; Gonzalez Caballero, I.; González Fernández, J. R.; Palencia Cortezon, E.; Sanchez Cruz, S.; Suárez Andrés, I.; Vischia, P.; Vizan Garcia, J. M.; Cabrillo, I. J.; Calderon, A.; Chazin Quero, B.; Curras, E.; Fernandez, M.; Garcia-Ferrero, J.; Gomez, G.; Lopez Virto, A.; Marco, J.; Martinez Rivero, C.; Martinez Ruiz del Arbol, P.; Matorras, F.; Piedra Gomez, J.; Rodrigo, T.; Ruiz-Jimeno, A.; Scodellaro, L.; Trevisani, N.; Vila, I.; Vilar Cortabitarte, R.; Abbaneo, D.; Auffray, E.; Baillon, P.; Ball, A. 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A.; Mersi, S.; Meschi, E.; Milenovic, P.; Moortgat, F.; Mulders, M.; Neugebauer, H.; Orfanelli, S.; Orsini, L.; Pape, L.; Perez, E.; Peruzzi, M.; Petrilli, A.; Petrucciani, G.; Pfeiffer, A.; Pierini, M.; Racz, A.; Reis, T.; Rolandi, G.; Rovere, M.; Sakulin, H.; Schäfer, C.; Schwick, C.; Seidel, M.; Selvaggi, M.; Sharma, A.; Silva, P.; Sphicas, P.; Steggemann, J.; Stoye, M.; Tosi, M.; Treille, D.; Triossi, A.; Tsirou, A.; Veckalns, V.; Veres, G. I.; Verweij, M.; Wardle, N.; Zeuner, W. D.; Bertl, W.; Caminada, L.; Deiters, K.; Erdmann, W.; Horisberger, R.; Ingram, Q.; Kaestli, H. C.; Kotlinski, D.; Langenegger, U.; Rohe, T.; Wiederkehr, S. A.; Bachmair, F.; Bäni, L.; Berger, P.; Bianchini, L.; Casal, B.; Dissertori, G.; Dittmar, M.; Donegà, M.; Grab, C.; Heidegger, C.; Hits, D.; Hoss, J.; Kasieczka, G.; Klijnsma, T.; Lustermann, W.; Mangano, B.; Marionneau, M.; Meinhard, M. 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R.; Williams, T.; Bainbridge, R.; Breeze, S.; Buchmuller, O.; Bundock, A.; Casasso, S.; Citron, M.; Colling, D.; Corpe, L.; Dauncey, P.; Davies, G.; De Wit, A.; Della Negra, M.; Di Maria, R.; Elwood, A.; Haddad, Y.; Hall, G.; Iles, G.; James, T.; Lane, R.; Laner, C.; Lyons, L.; Magnan, A.-M.; Malik, S.; Mastrolorenzo, L.; Matsushita, T.; Nash, J.; Nikitenko, A.; Palladino, V.; Pesaresi, M.; Raymond, D. M.; Richards, A.; Rose, A.; Scott, E.; Seez, C.; Shtipliyski, A.; Summers, S.; Tapper, A.; Uchida, K.; Vazquez Acosta, M.; Virdee, T.; Winterbottom, D.; Wright, J.; Zenz, S. C.; Cole, J. E.; Hobson, P. R.; Khan, A.; Kyberd, P.; Reid, I. D.; Symonds, P.; Teodorescu, L.; Turner, M.; Borzou, A.; Call, K.; Dittmann, J.; Hatakeyama, K.; Liu, H.; Pastika, N.; Smith, C.; Bartek, R.; Dominguez, A.; Buccilli, A.; Cooper, S. 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R.; Olmedo Negrete, M.; Paneva, M. I.; Shrinivas, A.; Si, W.; Wang, L.; Wei, H.; Wimpenny, S.; Yates, B. R.; Branson, J. G.; Cittolin, S.; Derdzinski, M.; Gerosa, R.; Hashemi, B.; Holzner, A.; Klein, D.; Kole, G.; Krutelyov, V.; Letts, J.; Macneill, I.; Masciovecchio, M.; Olivito, D.; Padhi, S.; Pieri, M.; Sani, M.; Sharma, V.; Simon, S.; Tadel, M.; Vartak, A.; Wasserbaech, S.; Wood, J.; Würthwein, F.; Yagil, A.; Zevi Della Porta, G.; Amin, N.; Bhandari, R.; Bradmiller-Feld, J.; Campagnari, C.; Dishaw, A.; Dutta, V.; Franco Sevilla, M.; George, C.; Golf, F.; Gouskos, L.; Gran, J.; Heller, R.; Incandela, J.; Mullin, S. D.; Ovcharova, A.; Qu, H.; Richman, J.; Stuart, D.; Suarez, I.; Yoo, J.; Anderson, D.; Bendavid, J.; Bornheim, A.; Lawhorn, J. M.; Newman, H. B.; Nguyen, T.; Pena, C.; Spiropulu, M.; Vlimant, J. R.; Xie, S.; Zhang, Z.; Zhu, R. Y.; Andrews, M. B.; Ferguson, T.; Mudholkar, T.; Paulini, M.; Russ, J.; Sun, M.; Vogel, H.; Vorobiev, I.; Weinberg, M.; Cumalat, J. P.; Ford, W. T.; Jensen, F.; Johnson, A.; Krohn, M.; Leontsinis, S.; Mulholland, T.; Stenson, K.; Wagner, S. R.; Alexander, J.; Chaves, J.; Chu, J.; Dittmer, S.; Mcdermott, K.; Mirman, N.; Patterson, J. R.; Rinkevicius, A.; Ryd, A.; Skinnari, L.; Soffi, L.; Tan, S. M.; Tao, Z.; Thom, J.; Tucker, J.; Wittich, P.; Zientek, M.; Abdullin, S.; Albrow, M.; Apollinari, G.; Apresyan, A.; Apyan, A.; Banerjee, S.; Bauerdick, L. A. T.; Beretvas, A.; Berryhill, J.; Bhat, P. C.; Bolla, G.; Burkett, K.; Butler, J. N.; Canepa, A.; Cerati, G. B.; Cheung, H. W. K.; Chlebana, F.; Cremonesi, M.; Duarte, J.; Elvira, V. D.; Freeman, J.; Gecse, Z.; Gottschalk, E.; Gray, L.; Green, D.; Grünendahl, S.; Gutsche, O.; Harris, R. M.; Hasegawa, S.; Hirschauer, J.; Hu, Z.; Jayatilaka, B.; Jindariani, S.; Johnson, M.; Joshi, U.; Klima, B.; Kreis, B.; Lammel, S.; Lincoln, D.; Lipton, R.; Liu, M.; Liu, T.; Lopes De Sá, R.; Lykken, J.; Maeshima, K.; Magini, N.; Marraffino, J. 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M.; Bhopatkar, V.; Colafranceschi, S.; Hohlmann, M.; Noonan, D.; Roy, T.; Yumiceva, F.; Adams, M. R.; Apanasevich, L.; Berry, D.; Betts, R. R.; Cavanaugh, R.; Chen, X.; Evdokimov, O.; Gerber, C. E.; Hangal, D. A.; Hofman, D. J.; Jung, K.; Kamin, J.; Sandoval Gonzalez, I. D.; Tonjes, M. B.; Trauger, H.; Varelas, N.; Wang, H.; Wu, Z.; Zhang, J.; Bilki, B.; Clarida, W.; Dilsiz, K.; Durgut, S.; Gandrajula, R. P.; Haytmyradov, M.; Khristenko, V.; Merlo, J.-P.; Mermerkaya, H.; Mestvirishvili, A.; Moeller, A.; Nachtman, J.; Ogul, H.; Onel, Y.; Ozok, F.; Penzo, A.; Snyder, C.; Tiras, E.; Wetzel, J.; Yi, K.; Blumenfeld, B.; Cocoros, A.; Eminizer, N.; Fehling, D.; Feng, L.; Gritsan, A. V.; Maksimovic, P.; Roskes, J.; Sarica, U.; Swartz, M.; Xiao, M.; You, C.; Al-bataineh, A.; Baringer, P.; Bean, A.; Boren, S.; Bowen, J.; Castle, J.; Khalil, S.; Kropivnitskaya, A.; Majumder, D.; Mcbrayer, W.; Murray, M.; Royon, C.; Sanders, S.; Schmitz, E.; Stringer, R.; Tapia Takaki, J. D.; Wang, Q.; Ivanov, A.; Kaadze, K.; Maravin, Y.; Mohammadi, A.; Saini, L. K.; Skhirtladze, N.; Toda, S.; Rebassoo, F.; Wright, D.; Anelli, C.; Baden, A.; Baron, O.; Belloni, A.; Calvert, B.; Eno, S. C.; Ferraioli, C.; Hadley, N. J.; Jabeen, S.; Jeng, G. Y.; Kellogg, R. G.; Kunkle, J.; Mignerey, A. C.; Ricci-Tam, F.; Shin, Y. H.; Skuja, A.; Tonwar, S. C.; Abercrombie, D.; Allen, B.; Azzolini, V.; Barbieri, R.; Baty, A.; Bi, R.; Brandt, S.; Busza, W.; Cali, I. A.; D'Alfonso, M.; Demiragli, Z.; Gomez Ceballos, G.; Goncharov, M.; Hsu, D.; Iiyama, Y.; Innocenti, G. M.; Klute, M.; Kovalskyi, D.; Lai, Y. S.; Lee, Y.-J.; Levin, A.; Luckey, P. D.; Maier, B.; Marini, A. C.; Mcginn, C.; Mironov, C.; Narayanan, S.; Niu, X.; Paus, C.; Roland, C.; Roland, G.; Salfeld-Nebgen, J.; Stephans, G. S. F.; Tatar, K.; Velicanu, D.; Wang, J.; Wang, T. W.; Wyslouch, B.; Benvenuti, A. C.; Chatterjee, R. M.; Evans, A.; Hansen, P.; Kalafut, S.; Kubota, Y.; Lesko, Z.; Mans, J.; Nourbakhsh, S.; Ruckstuhl, N.; Rusack, R.; Turkewitz, J.; Acosta, J. G.; Oliveros, S.; Avdeeva, E.; Bloom, K.; Claes, D. R.; Fangmeier, C.; Gonzalez Suarez, R.; Kamalieddin, R.; Kravchenko, I.; Monroy, J.; Siado, J. E.; Snow, G. R.; Stieger, B.; Alyari, M.; Dolen, J.; Godshalk, A.; Harrington, C.; Iashvili, I.; Nguyen, D.; Parker, A.; Rappoccio, S.; Roozbahani, B.; Alverson, G.; Barberis, E.; Hortiangtham, A.; Massironi, A.; Morse, D. M.; Nash, D.; Orimoto, T.; Teixeira De Lima, R.; Trocino, D.; Wood, D.; Bhattacharya, S.; Charaf, O.; Hahn, K. A.; Mucia, N.; Odell, N.; Pollack, B.; Schmitt, M. H.; Sung, K.; Trovato, M.; Velasco, M.; Dev, N.; Hildreth, M.; Hurtado Anampa, K.; Jessop, C.; Karmgard, D. J.; Kellams, N.; Lannon, K.; Loukas, N.; Marinelli, N.; Meng, F.; Mueller, C.; Musienko, Y.; Planer, M.; Reinsvold, A.; Ruchti, R.; Smith, G.; Taroni, S.; Wayne, M.; Wolf, M.; Woodard, A.; Alimena, J.; Antonelli, L.; Bylsma, B.; Durkin, L. S.; Flowers, S.; Francis, B.; Hart, A.; Hill, C.; Ji, W.; Liu, B.; Luo, W.; Puigh, D.; Winer, B. L.; Wulsin, H. W.; Benaglia, A.; Cooperstein, S.; Driga, O.; Elmer, P.; Hardenbrook, J.; Hebda, P.; Higginbotham, S.; Lange, D.; Luo, J.; Marlow, D.; Mei, K.; Ojalvo, I.; Olsen, J.; Palmer, C.; Piroué, P.; Stickland, D.; Tully, C.; Malik, S.; Norberg, S.; Barker, A.; Barnes, V. E.; Folgueras, S.; Gutay, L.; Jha, M. K.; Jones, M.; Jung, A. W.; Khatiwada, A.; Miller, D. H.; Neumeister, N.; Peng, C. C.; Schulte, J. F.; Sun, J.; Wang, F.; Xie, W.; Cheng, T.; Parashar, N.; Stupak, J.; Adair, A.; Akgun, B.; Chen, Z.; Ecklund, K. M.; Geurts, F. J. M.; Guilbaud, M.; Li, W.; Michlin, B.; Northup, M.; Padley, B. P.; Roberts, J.; Rorie, J.; Tu, Z.; Zabel, J.; Bodek, A.; de Barbaro, P.; Demina, R.; Duh, Y. t.; Ferbel, T.; Galanti, M.; Garcia-Bellido, A.; Han, J.; Hindrichs, O.; Khukhunaishvili, A.; Lo, K. H.; Tan, P.; Verzetti, M.; Ciesielski, R.; Goulianos, K.; Mesropian, C.; Agapitos, A.; Chou, J. P.; Gershtein, Y.; Gómez Espinosa, T. A.; Halkiadakis, E.; Heindl, M.; Hughes, E.; Kaplan, S.; Kunnawalkam Elayavalli, R.; Kyriacou, S.; Lath, A.; Montalvo, R.; Nash, K.; Osherson, M.; Saka, H.; Salur, S.; Schnetzer, S.; Sheffield, D.; Somalwar, S.; Stone, R.; Thomas, S.; Thomassen, P.; Walker, M.; Delannoy, A. G.; Foerster, M.; Heideman, J.; Riley, G.; Rose, K.; Spanier, S.; Thapa, K.; Bouhali, O.; Castaneda Hernandez, A.; Celik, A.; Dalchenko, M.; De Mattia, M.; Delgado, A.; Dildick, S.; Eusebi, R.; Gilmore, J.; Huang, T.; Kamon, T.; Mueller, R.; Pakhotin, Y.; Patel, R.; Perloff, A.; Perniè, L.; Rathjens, D.; Safonov, A.; Tatarinov, A.; Ulmer, K. A.; Akchurin, N.; Damgov, J.; De Guio, F.; Dudero, P. R.; Faulkner, J.; Gurpinar, E.; Kunori, S.; Lamichhane, K.; Lee, S. W.; Libeiro, T.; Peltola, T.; Undleeb, S.; Volobouev, I.; Wang, Z.; Greene, S.; Gurrola, A.; Janjam, R.; Johns, W.; Maguire, C.; Melo, A.; Ni, H.; Sheldon, P.; Tuo, S.; Velkovska, J.; Xu, Q.; Arenton, M. W.; Barria, P.; Cox, B.; Hirosky, R.; Ledovskoy, A.; Li, H.; Neu, C.; Sinthuprasith, T.; Sun, X.; Wang, Y.; Wolfe, E.; Xia, F.; Harr, R.; Karchin, P. E.; Sturdy, J.; Zaleski, S.; Brodski, M.; Buchanan, J.; Caillol, C.; Dasu, S.; Dodd, L.; Duric, S.; Gomber, B.; Grothe, M.; Herndon, M.; Hervé, A.; Hussain, U.; Klabbers, P.; Lanaro, A.; Levine, A.; Long, K.; Loveless, R.; Pierro, G. A.; Polese, G.; Ruggles, T.; Savin, A.; Smith, N.; Smith, W. H.; Taylor, D.; Woods, N.; CMS Collaboration

2018-04-01

An inclusive search for anomalous Higgs boson production in the diphoton decay channel and in association with at least one jet is presented, using LHC proton-proton collision data collected by the CMS experiment at a center-of-mass energy of 13 TeV and corresponding to an integrated luminosity of 35.9fb-1. The razor variables MR and R2, as well as the momentum and mass resolution of the diphoton system, are used to categorize events into different search regions. The search result is interpreted in the context of strong and electroweak production of supersymmetric particles. We exclude bottom squark pair-production with masses below 450 GeV for bottom squarks decaying to a bottom quark, a Higgs boson, and the lightest supersymmetric particle (LSP) for LSP masses below 250 GeV. For wino-like chargino-neutralino production, we exclude charginos with mass below 170 GeV for LSP masses below 25 GeV. In the GMSB scenario, we exclude charginos with mass below 205 GeV for neutralinos decaying to a Higgs boson and a goldstino LSP with 100% branching fraction.

Search for supersymmetry with Higgs boson to diphoton decays using the razor variables at s = 13 TeV

DOE PAGES

Sirunyan, A. M.; Tumasyan, A.; Adam, W.; ...

2018-01-31

An inclusive search for anomalous Higgs boson production in the diphoton decay channel and in association with at least one jet is presented, using LHC proton–proton collision data collected by the CMS experiment at a center-of-mass energy of 13 TeV and corresponding to an integrated luminosity of 35.9fb -1. The razor variables M R and R 2, as well as the momentum and mass resolution of the diphoton system, are used to categorize events into different search regions. The search result is interpreted in the context of strong and electroweak production of supersymmetric particles. We exclude bottom squark pair-production withmore » masses below 450 GeV for bottom squarks decaying to a bottom quark, a Higgs boson, and the lightest supersymmetric particle (LSP) for LSP masses below 250 GeV. For wino-like chargino–neutralino production, we exclude charginos with mass below 170 GeV for LSP masses below 25 GeV. In the GMSB scenario, we exclude charginos with mass below 205 GeV for neutralinos decaying to a Higgs boson and a goldstino LSP with 100% branching fraction.« less

Methods of atomic oxygen and ozone retrieval from observations of the O2 dayglow emissions in the MLT region

NASA Astrophysics Data System (ADS)

Yankovsky, Valentine; Martyshenko, Kseniia; Manuilova, Rada

2015-04-01

The problem of creating the new methods of remote sensing of altitude profile of the [O(3P)] and [O3] in the daytime is actual for the mesosphere and lower thermosphere range. Currently there is no reliable method for remote sensing of altitude profile of the [O(3P)], but atomic oxygen is a key component in the mechanism of the atmosphere cooling by quenching of vibrationally excited CO2 molecules and also one of basic quencher of excited components in MLT region. The airglow emission in 1.27 µm IR Atm(0 - 0) band from [O2(a1Δg, v=0)] has been used as a proxy for [O3] in MLT for over a decade. However, lifetime of O2(a1Δg, v=0) is more than 1 hour, therefore this method is not suitable for detecting of relatively rapid [O3] variations which occur due to the variability of the solar spectrum in the UV range (120 - 320 nm) and other space factors. The aim of this study is revealing of proxies for retrievals of [O(3P)] and [O3]. In the framework of developed model of electronic vibrational kinetics of excited products of O3 and O2 photolysis in MLT of the Earth (model YM-2011) [1] we consider the photolysis of O2 in the Schumann-Runge continuum and Lyaman-A H atom and of O3 in Hartley band and for excited products of photolysis ( O2(a1Δg, v=0 - 5), O2(b1Σ+g, v=0, 1, 2) and excited oxygen atom O(1D)) we took into account more than 60 aeronomical reactions of photoexcitation and deexcitation by energy transfer between the excited levels and of quenching of the levels in collisions with O(3P) O2, N2, O(3P), O3, CO2. We tested 5 excited components, namely, O2(b1Σ+g, v=0, 1, 2), O2(a1Δg, v=0 - 5) and O(1D) as the O(3P) and O3 proxies. The total system of kinetic equations for 10 components has been solved and altitude profiles of concentrations of O(1D), O2(b1Σ+g, v=0, 1, 2), and O2(a1Δg, v=0 - 5) have been calculated. To compare characteristics of assumed proxies we used sensitivity analysis of the proxy concentrations altitude profiles to variations of [O3] and [O(3P)] and have calculated the altitude profiles of: 1) photochemical lifetimes of excited states; 2) volume emission rates (VER) of these excited components; 3) the relative uncertainties values of [O(3P)] and [O3] retrieved from intensities of emissions formed by the corresponding radiative transitions. Based on this complex analysis we concluded that the optimal proxy for [O(3P)] retrieval are O2(b1Σ+g, v=0) and/or O2(b1Σ+g, v=2) at 90-150 km, and for [O3] retrieval are O2(b1Σ+g, v=1) and/or O2(a1Δg, v=0) at 40-97 km. It should be noted, that lifetimes of O2(b1Σ+g, v=0, 1, 2) are not more than 10 s in MLT, what gave the opportunity to register the short-period [O(3P)] and [O3] variations 1. Yankovsky V. A., Manuilova R. O., Babaev A. S., Feofilov A. G., Kutepov A. A. 2011. Model of electronic-vibrational kinetics of the O3 and O2 photolysis products in the middle atmosphere: applications to water vapor retrievals from SABER/TIMED 6.3 µm radiance measurements. International Journal of Remote Sensing, V. 33, N. 12, P. 3065-3078.

Decadal evaluation of regional climate, air quality, and their interactions over the continental US and their interactions using WRF/Chem version 3.6.1

NASA Astrophysics Data System (ADS)

Yahya, Khairunnisa; Wang, Kai; Campbell, Patrick; Glotfelty, Timothy; He, Jian; Zhang, Yang

2016-02-01

The Weather Research and Forecasting model with Chemistry (WRF/Chem) v3.6.1 with the Carbon Bond 2005 (CB05) gas-phase mechanism is evaluated for its first decadal application during 2001-2010 using the Representative Concentration Pathway 8.5 (RCP 8.5) emissions to assess its capability and appropriateness for long-term climatological simulations. The initial and boundary conditions are downscaled from the modified Community Earth System Model/Community Atmosphere Model (CESM/CAM5) v1.2.2. The meteorological initial and boundary conditions are bias-corrected using the National Center for Environmental Protection's Final (FNL) Operational Global Analysis data. Climatological evaluations are carried out for meteorological, chemical, and aerosol-cloud-radiation variables against data from surface networks and satellite retrievals. The model performs very well for the 2 m temperature (T2) for the 10-year period, with only a small cold bias of -0.3 °C. Biases in other meteorological variables including relative humidity at 2 m, wind speed at 10 m, and precipitation tend to be site- and season-specific; however, with the exception of T2, consistent annual biases exist for most of the years from 2001 to 2010. Ozone mixing ratios are slightly overpredicted at both urban and rural locations with a normalized mean bias (NMB) of 9.7 % but underpredicted at rural locations with an NMB of -8.8 %. PM2.5 concentrations are moderately overpredicted with an NMB of 23.3 % at rural sites but slightly underpredicted with an NMB of -10.8 % at urban/suburban sites. In general, the model performs relatively well for chemical and meteorological variables, and not as well for aerosol-cloud-radiation variables. Cloud-aerosol variables including aerosol optical depth, cloud water path, cloud optical thickness, and cloud droplet number concentration are generally underpredicted on average across the continental US. Overpredictions of several cloud variables over the eastern US result in underpredictions of radiation variables (such as net shortwave radiation - GSW - with a mean bias - MB - of -5.7 W m-2) and overpredictions of shortwave and longwave cloud forcing (MBs of ˜ 7 to 8 W m-2), which are important climate variables. While the current performance is deemed to be acceptable, improvements to the bias-correction method for CESM downscaling and the model parameterizations of cloud dynamics and thermodynamics, as well as aerosol-cloud interactions, can potentially improve model performance for long-term climate simulations.

Regional evaluation of particulate matter composition in an Atlantic coastal area (Cantabria region, northern Spain): Spatial variations in different urban and rural environments

NASA Astrophysics Data System (ADS)

Arruti, A.; Fernández-Olmo, I.; Irabien, A.

2011-07-01

The aim of this study was to determine the major components (Na, Ca, K, Mg, Fe, Al, NH 4+, SO 42-, NO 3-, Cl - and TC) and trace-metal levels (As, Ni, Cd, Pb, Ti, V, Cr, Mn, Cu, Mo, Rh and Hg) in PM 10 and PM 2.5 at an Atlantic coastal city (Santander, Cantabria region, Northern Spain). Additional samples were collected in other urban sites of the Cantabria region to assess the metal content found in different urban environments within the region. To control for the mass attributed to inland regional background particulate matter, samples were also collected in Los Tojos village. The spatial variability of the major PM components shows that PM origins are different at inland and coastal sites. In the coastal city of Santander, the most important contributors are (i) the marine aerosol and (ii) the secondary inorganic aerosol (SIA) and the total carbon (TC) in PM 10 and PM 2.5, respectively. Additionally, the influence of the coastal location on the ionic balance of PM is also studied. The trace metal spatial variability is studied using the coefficient of divergence (COD), which shows that the levels of trace metals at the three studied urban sites are mainly influenced by local emission sources. The main local tracers are identified as follows: Mn in the Santander area; Mo, Cr and Pb at Reinosa; and Ni and V at Castro Urdiales. A more detailed source apportionment study of the local trace metals at Santander is conducted by Principal Component Analysis (PCA) and Positive Matrix Factorisation (PMF); these two receptor models report complementary information. From these statistical analyses, the identified sources of trace metals in PM 10 are urban background sources, industrial sources and traffic. The industrial factor was dominated by Mn, Cu and Pb, which are trace metals used in steel production and manganese-ferroalloy production plant. With respect to PM 2.5, the identified emission sources of trace metals are combustion processes as well as traffic and industrial sources.

Diel Variability of Total and Speciated Water-Soluble Inorganic Iodine in PM2.5 Aerosol at a Southern California Coastal Site

NASA Astrophysics Data System (ADS)

Pszenny, A.; Cotter, K.; Deegan, B.; Fischer, E.; Johnson, D.

2007-12-01

PM2.5 aerosol was sampled over nominal 3-hour intervals at the head of Zuma Beach in Malibu, California (USA) from 6 to 24 October 2006 by filtration at 1.13 m3 min-1 (STP) through 20 x 25 cm cellulose fiber (Whatman 41) filters that had been rinsed with deionized water (DIW). Exposed filters were removed from support cartridges as soon as possible after retrieval (usually within 2 hours), immediately sealed in clean polyethylene bags, and stored frozen until further processing. Following the field campaign one quarter of each filter was pressed into a pellet (2.0 cm diameter x 0.5 cm thick) and analyzed by neutron activation for total concentrations of I and several other trace elements. Our preliminary analyses indicate that sodium and iodine show a clear diel variation characterized by higher concentrations from late morning to early evening. We hypothesize that this diel variability is related to a persistent land/sea breeze circulation associated with the nearby coastal region. Other elements are indicative of variability in other aerosol sources such as soil dust (Al, Mn) and fossil fuel combustion (V). Second quarters are currently being extracted in DIW and analyzed in two ways: 1) for iodide by ion chromatography, and 2) for inorganic iodine in higher oxidation states (i.e., V to 0) by chemical reduction with ascorbic acid followed by determination of iodide by ion chromatography. Results of the trace element and speciated iodine analyses will be presented.

Multiple-Locus Variable-Number Tandem-Repeat Analysis in Genotyping Yersinia enterocolitica Strains from Human and Porcine Origins

PubMed Central

Laukkanen-Ninios, R.; Ortiz Martínez, P.; Siitonen, A.; Fredriksson-Ahomaa, M.; Korkeala, H.

2013-01-01

Sporadic and epidemiologically linked Yersinia enterocolitica strains (n = 379) isolated from fecal samples from human patients, tonsil or fecal samples from pigs collected at slaughterhouses, and pork samples collected at meat stores were genotyped using multiple-locus variable-number tandem-repeat analysis (MLVA) with six loci, i.e., V2A, V4, V5, V6, V7, and V9. In total, 312 different MLVA types were found. Similar types were detected (i) in fecal samples collected from human patients over 2 to 3 consecutive years, (ii) in samples from humans and pigs, and (iii) in samples from pigs that originated from the same farms. Among porcine strains, we found farm-specific MLVA profiles. Variations in the numbers of tandem repeats from one to four for variable-number tandem-repeat (VNTR) loci V2A, V5, V6, and V7 were observed within a farm. MLVA was applicable for serotypes O:3, O:5,27, and O:9 and appeared to be a highly discriminating tool for distinguishing sporadic and outbreak-related strains. With long-term use, interpretation of the results became more challenging due to variations in more-discriminating loci, as was observed for strains originating from pig farms. Additionally, we encountered unexpectedly short V2A VNTR fragments and sequenced them. According to the sequencing results, updated guidelines for interpreting V2A VNTR results were prepared. PMID:23637293

Simple and rapid quantification of serotonin transporter binding using [11C]DASB bolus plus constant infusion.

PubMed

Gryglewski, G; Rischka, L; Philippe, C; Hahn, A; James, G M; Klebermass, E; Hienert, M; Silberbauer, L; Vanicek, T; Kautzky, A; Berroterán-Infante, N; Nics, L; Traub-Weidinger, T; Mitterhauser, M; Wadsak, W; Hacker, M; Kasper, S; Lanzenberger, R

2017-04-01

In-vivo quantification of serotonin transporters (SERT) in human brain has been a mainstay of molecular imaging in the field of neuropsychiatric disorders and helped to explore the underpinnings of several medical conditions, therapeutic and environmental influences. The emergence of PET/MR hybrid systems and the heterogeneity of SERT binding call for the development of efficient methods making the investigation of larger or vulnerable populations with limited scanner time and simultaneous changes in molecular and functional measures possible. We propose [ 11 C]DASB bolus plus constant infusion for these applications and validate it against standard analyses of dynamic PET data. [ 11 C]DASB bolus/infusion optimization was performed on data acquired after [ 11 C]DASB bolus in 8 healthy subjects. Subsequently, 16 subjects underwent one scan using [ 11 C]DASB bolus plus constant infusion with K bol 160-179min and one scan after [ 11 C]DASB bolus for inter-method reliability analysis. Arterial blood sampling and metabolite analysis were performed for all scans. Distribution volumes (V T ) were obtained using Logan plots for bolus scans and ratios between tissue and plasma parent activity for bolus plus infusion scans for different time spans of the scan (V T-70 for 60-70min after start of tracer infusion, V T-90 for 75-90min, V T-120 for 100-120min) in 9 subjects. Omitting blood data, binding potentials (BP ND ) obtained using multilinear reference tissue modeling (MRTM2) and cerebellar gray matter as reference region were compared in 11 subjects. A K bol of 160min was observed to be optimal for rapid equilibration in thalamus and striatum. V T-70 showed good intraclass correlation coefficients (ICCs) of 0.61-0.70 for thalamus, striatal regions and olfactory cortex with bias ≤5.1% compared to bolus scans. ICCs increased to 0.72-0.78 for V T-90 and 0.77-0.93 for V T-120 in these regions. BP ND-90 had negligible bias ≤2.5%, low variability ≤7.9% and ICCs of 0.74-0.87; BP ND-120 had ICCs of 0.73-0.90. Low-binding cortical regions and cerebellar gray matter showed a positive bias of ~8% and ICCs 0.57-0.68 at V T-90 . Cortical BP ND suffered from high variability and bias, best results were obtained for olfactory cortex and anterior cingulate cortex with ICC=0.74-0.75 for BP ND-90 . High-density regions amygdala and midbrain had a negative bias of -5.5% and -22.5% at V T-90 with ICC 0.70 and 0.63, respectively. We have optimized the equilibrium method with [ 11 C]DASB bolus plus constant infusion and demonstrated good inter-method reliability with accepted standard methods and for SERT quantification using both V T and BP ND in a range of different brain regions. With as little as 10-15min of scanning valid estimates of SERT V T and BP ND in thalamus, amygdala, striatal and high-binding cortical regions could be obtained. Blood sampling seems vital for valid quantification of SERT in low-binding cortical regions. These methods allow the investigation of up to three subjects with a single radiosynthesis. Copyright © 2017 Elsevier Inc. All rights reserved.

Induction Hazard Assessment: The Variability of Geoelectric Responses During Geomagnetic Storms Within Common Hazard Zones

NASA Astrophysics Data System (ADS)

Cuttler, S. W.; Love, J. J.; Swidinsky, A.

2017-12-01

Geomagnetic field data obtained through the INTERMAGNET program are convolved with four validated EarthScope USArray impedances to estimate the geoelectric variations throughout the duration of a geomagnetic storm. A four day long geomagnetic storm began on June 22, 2016, and was recorded at the Brandon (BRD), Manitoba and Fredericksburg (FRD), Virginia magnetic observatories over four days. Two impedance tensors corresponding to each magnetic observatory produce extremely different responses, despite being within close geographical proximity. Estimated time series of the geoelectric field throughout the duration of the geomagnetic storm were calculated, providing an understanding of how the geoelectric field differs across small geographic distances within the same geomagnetic hazard zones derived from prior geomagnetic hazard assessment. We show that the geoelectric response of two sites within 200km of one another can differ by up to two orders of magnitude (4245 mV/km at one location and 38 mV/km at another location 125km away). In addition, we compare these results with estimations of the geoelectric field generated from synthetic 1-dimensional resistivity models commonly used to represent large geographic regions when assessing geomagnetically induced current (GIC) hazards. This comparison shows that estimations of the geomagnetic field from these models differ greatly from estimations produced from Earthscope USArray sites (1205 mV/km in the 1D and 4245 mV/km in the 3D case in one example). This study demonstrates that the application of uniform 1-dimensional resistivity models of the subsurface to wide geographic regions is insufficient to predict the geoelectric hazard at a given location. Furthermore an evaluation of the 3-dimensional resistivity distribution at a given location is necessary to produce a reliable estimation of how the geoelectric field evolves over the course of a geomagnetic storm.

Variability and trends of local/regional scale surface climate in northern Africa during the twentieth century

NASA Astrophysics Data System (ADS)

Djomou, Zéphirin Yepdo; Monkam, David; Woafo, Paul

2014-08-01

Four regions are detected in northern Africa (20° W-40° E, 0-30° N) by applying the cluster analysis method on the annual rainfall anomalies of the period 1901-2000. The first region (R1), an arid land, covers essentially the north of 17.75° N from west to east of the study zone. The second region (R2), a semiarid land with a Sahelian climate, less warm than the dry climate of R1, is centred on Chad, with almost regular extension to the west towards Mauritania, and to the east, including the north of the Central African Republic and the Sudan. The region 3 (R3), a wet land, is centred on the Ivory Coast and covers totally Liberia, the south part of Ghana, Togo, Benin and the southwest of Nigeria. The fourth region (R4), corresponding to the wet equatorial forest, covers a part of Senegal, the Central Africa, the south of Sudan and a part of Ethiopia. An analysis of observed temperature and precipitation variability and trends throughout the twentieth century over these regions is presented. Summer, winter and annual data are examined using a range of variability measures. Statistically, significant warming trends are found over the majority of regions. The trends have a magnitude of up to 1.5 K per century. Only a few precipitation trends are statistically significant. Regional temperature and precipitation show pronounced variability at scales from interannual to multi-decadal. The interannual variability shows significant variations and trends throughout the century, the latter being mostly negative for precipitation and both positive and negative for temperature. Temperature and precipitation anomalies show a chaotic-type behaviour in which the regional conditions oscillate around the long-term mean trend and occasionally fall into long-lasting (up to 10 years or more) anomaly regimes. A generally modest temporal correlation is found between anomalies of different regions and between temperature and precipitation anomalies for the same region. This correlation is mostly positive for temperature in cases of adjacent regions. Several cases of negative interregional precipitation anomaly correlation are found. The El Niño Southern Oscillation significantly affects the anomaly variability patterns over a number of regions, mainly regions 3 (R3) and 4 (R4), while the North Atlantic Oscillation significantly affects the variability over arid and semiarid regions, R1 and R2.

Cardiovascular responses to injections of angiotensin II or carbachol into the rostral ventrolateral medulla in rats with AV3V lesions.

PubMed

Vieira, Alexandre Antonio; Colombari, Eduardo; De Luca, Laurival A; Colombari, Débora S A; De Paula, Patrícia M; Menani, José V

2013-11-27

Injection of l-glutamate (GLU) into the rostral ventrolateral medulla (RVLM) produces sympathetically-mediated pressor responses that depend on the integrity of the tissue surrounding the anteroventral third ventricle (AV3V region). The injection of angiotensin II (ANG II) or the cholinergic agonist carbachol into the RVLM also produces pressor responses. In the present study, we investigated if the lesion of the AV3V region affects the pressor responses to ANG II or carbachol injected into the RVLM in unanesthetized rats. Male Holtzman rats with sham or electrolytic AV3V lesions and a stainless steel cannula implanted into the RVLM were used. The pressor responses to ANG II (200ng/100nl) injected into the RVLM were reduced by acute (1 day) (12±3 vs. sham lesions: 26±4mmHg) or chronic (15 days) AV3V lesions (12±5 vs. sham lesions: 27±4mmHg), whereas acute or chronic AV3V lesions did not affect the pressor responses to carbachol (1nmol/100nl) injected into the RVLM. The present results suggest that the AV3V region modulates the excitability of the RVLM neurons involved with the pressor response produced by the activation of angiotensinergic mechanisms in this area. Copyright © 2013 Elsevier Ireland Ltd. All rights reserved.

Molecular Epidemiology and Genetic Variation of Pathogenic Vibrio parahaemolyticus in Peru

PubMed Central

Gavilan, Ronnie G.; Zamudio, Maria L.; Martinez-Urtaza, Jaime

2013-01-01

Vibrio parahaemolyticus is a foodborne pathogen that has become a public health concern at the global scale. The epidemiological significance of V. parahaemolyticus infections in Latin America received little attention until the winter of 1997 when cases related to the pandemic clone were detected in the region, changing the epidemic dynamics of this pathogen in Peru. With the aim to assess the impact of the arrival of the pandemic clone on local populations of pathogenic V. parahaemolyticus in Peru, we investigated the population genetics and genomic variation in a complete collection of non-pandemic strains recovered from clinical sources in Peru during the pre- and post-emergence periods of the pandemic clone. A total of 56 clinical strains isolated in Peru during the period 1994 to 2007, 13 strains from Chile and 20 strains from Asia were characterized by Multilocus Sequence Typing (MLST) and checked for the presence of Variable Genomic Regions (VGRs). The emergence of O3:K6 cases in Peru implied a drastic disruption of the seasonal dynamics of infections and a shift in the serotype dominance of pathogenic V. parahaemolyticus. After the arrival of the pandemic clone, a great diversity of serovars not previously reported was detected in the country, which supports the introduction of additional populations cohabitating with the pandemic group. Moreover, the presence of genomic regions characteristic of the pandemic clone in other non-pandemic strains may represent early evidence of genetic transfer from the introduced population to the local communities. Finally, the results of this study stress the importance of population admixture, horizontal genetic transfer and homologous recombination as major events shaping the structure and diversity of pathogenic V. parahaemolyticus. PMID:23696906

Regulation of pathogenicity in hop stunt viroid-related group II citrus viroids.

PubMed

Reanwarakorn, K; Semancik, J S

1998-12-01

Nucleotide sequences were determined for two hop stunt viroid-related Group II citrus viroids characterized as either a cachexia disease non-pathogenic variant (CVd-IIa) or a pathogenic variant (CVd-IIb). Sequence identity between the two variants of 95.6% indicated a conserved genome with the principal region of nucleotide difference clustered in the variable (V) domain. Full-length viroid RT-PCR cDNA products were cloned into plasmid SP72. Viroid cDNA clones as well as derived RNA transcripts were transmissible to citron (Citrus medica L.) and Luffa aegyptiaca Mill. To determine the locus of cachexia pathogenicity as well as symptom expression in Luffa, chimeric viroid cDNA clones were constructed from segments of either the left terminal, pathogenic and conserved (T1-P-C) domains or the conserved, variable and right terminal (C-V-T2) domains of CVd-IIa or CVd-IIb in reciprocal exchanges. Symptoms induced by the various chimeric constructs on the two bioassay hosts reflected the differential response observed with CVd-IIa and -IIb. Constructs with the C-V-T2 domains region from clone-IIa induced severe symptoms on Luffa typical of CVd-IIa, but were non-symptomatic on mandarin as a bioassay host for the cachexia disease. Constructs with the same region (C-V-T2) from the clone-IIb genome induced only mild symptoms on Luffa, but produced a severe reaction on mandarin, as observed for CVd-IIb. Specific site-directed mutations were introduced into the V domain of the CVd-IIa clone to construct viroid cDNA clones with either partial or complete conversions to the CVd-IIb sequence. With the introduction of six site-specific changes into the V domain of the clone-IIa genome, cachexia pathogenicity was acquired as well as a moderation of severe symptoms on Luffa.

Atmospheric conditions associated with extreme fire activity in the Western Mediterranean region.

PubMed

Amraoui, Malik; Pereira, Mário G; DaCamara, Carlos C; Calado, Teresa J

2015-08-15

Active fire information provided by TERRA and AQUA instruments on-board sun-synchronous polar MODIS platform is used to describe fire activity in the Western Mediterranean and to identify and characterize the synoptic patterns of several meteorological fields associated with the occurrence of extreme fire activity episodes (EEs). The spatial distribution of the fire pixels during the period of 2003-2012 leads to the identification of two most affected sub-regions, namely the Northern and Western parts of the Iberian Peninsula (NWIP) and Northern Africa (NAFR). The temporal distribution of the fire pixels in these two sub-regions is characterized by: (i) high and non-concurrent inter- and intra-annual variability with maximum values during the summer of 2003 and 2005 in NWIP and 2007 and 2012 in NAFR; and, (ii) high intra-annual variability dominated by a prominent annual cycle with a main peak centred in August in both sub-regions and a less pronounced secondary peak in March only evident in NWIP region. The 34 EEs identified were grouped according to the location, period of occurrence and spatial configuration of the associated synoptic patterns into 3 clusters (NWIP-summer, NWIP-winter and NAFR-summer). Results from the composite analysis reveal similar fire weather conditions (statistically significant positive anomalies of air temperature and negative anomalies of air relative humidity) but associated with different circulation patterns at lower and mid-levels of the atmosphere associated with the occurrence of EEs in each cluster of the Western Mediterranean region. Copyright © 2015 Elsevier B.V. All rights reserved.

Genes encoding Xenopus laevis Ig L chains: Implications for the evolution of [kappa] and [lambda] chains

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zezza, D.J.; Stewart, S.E.; Steiner, L.A.

1992-12-15

Xenopus laevis Ig contain two distinct types of L chains, designated [rho] or L1 and [sigma] or L2. The authors have analyzed Xenopus genomic DNA by Southern blotting with cDNA probes specific for L1 V and C regions. Many fragments hybridized to the V probe, but only one or two fragments hybridized to the C probe. Corresponding C, J, and V gene segments were identified on clones isolated from a genomic library prepared from the same DNA. One clone contains a C gene segment separated from a J gene segment by an intron of 3.4 kb. The J and Cmore » gene segments are nearly identical in sequence to cDNA clones analyzed previously. The C segment is somewhat more similar and the J segment considerably more similar in sequence to the corresponding segments of mammalian [kappa] chains than to those of mammalian [lambda] chains. Upstream of the J segment is a typical recombination signal sequence with a spacer of 23 bp, as in J[kappa]. A second clone from the library contains four V gene segments, separated by 2.1 to 3.6 kb. Two of these, V1 and V3, have the expected structural and regulatory features of V genes, and are very similar in sequence to each other and to mammalian V[kappa]. A third gene segment, V2, resembles V1 and V3 in its coding region and nearby 5[prime]-flanking region, but diverges in sequence 5[prime] to position [minus]95 with loss of the octamer promoter element. The fourth V-like segment is similar to the others at the 3[prime]-end, but upstream of codon 64 bears no resemblance in sequence to any Ig V region. All four V segments have typical recombination signal sequences with 12-bp spacers at their 3[prime]-ends, as in V[kappa]. Taken together, the data suggest that Xenopus L1 L chain genes are members of the [kappa] gene family. 80 refs., 9 figs.« less

Investigation of within- and between-herd variability of bovine leukaemia virus bulk tank milk antibody levels over different sampling intervals in the Canadian Maritimes.

PubMed

John, Emily E; Nekouei, Omid; McClure, J T; Cameron, Marguerite; Keefe, Greg; Stryhn, Henrik

2018-06-01

Bulk tank milk (BTM) samples are used to determine the infection status and estimate dairy herd prevalence for bovine leukaemia virus (BLV) using an antibody ELISA assay. BLV ELISA variability between samples from the same herd or from different herds has not been investigated over long time periods. The main objective of this study was to determine the within-herd and between-herd variability of a BTM BLV ELISA assay over 1-month, 3-month, and 3-year sampling intervals. All of the Canadian Maritime region dairy herds (n = 523) that were active in 2013 and 2016 were included (83.9% and 86.9% of total herds in 2013 and 2016, respectively). BLV antibody levels were measured in three BTM samples collected at 1-month intervals in early 2013 as well as two BTM samples collected over a 3-month interval in early 2016. Random-effects models, with fixed effects for sample replicate and province and random effects for herd, were used to estimate the variability between BTM samples from the same herd and between herds for 1-month, 3-month, and 3-year sampling intervals. The majority of variability of BTM BLV ELISA results was seen between herds (1-month, 6.792 ± 0.533; 3-month, 7.806 ± 0.652; 3-year, 6.222 ± 0.528). Unexplained variance between samples from the same herd, on square-root scale, was greatest for the 3-year (0.976 ± 0.104), followed by the 1-month (0.611 ± 0.035) then the 3-month (0.557 ± 0.071) intervals. Variability of BTM antibody levels within the same herd was present but was much smaller than the variability between herds, and was greatest for the 3-year sampling interval. The 3-month sampling interval resulted in the least variability and is appropriate to use for estimating the baseline level of within-herd prevalence for BLV control programs. Knowledge of the baseline variability and within-herd prevalence can help to determine effectiveness of control programs when BTM sampling is repeated at longer intervals. Copyright © 2018 Elsevier B.V. All rights reserved.

Phenotypic plasticity of Vaccinium meridionale (Ericaceae) in wild populations of mountain forests in Colombia.

PubMed

Ligarreto, Gustavo A; Patiño, Maria del Pilar; Magnitskiy, Stanislav V

2011-06-01

Vaccinium meridionale is a promising crop for the Andean region of South America and is currently available only in the wild. Spontaneous populations of this plant are found across the Colombian mountains, but very few published records on this plant morphology are available. A zonification study of V. meridionale was conducted in four principal areas of a low mountain forest of Colombia (Provinces of Boyacá, Cundinamarca, Santander and Nariño) in 2007. A total of 20 populations and 100 plants of V. meridionale were individually characterized and surveyed, using a list of 26 characters of morphological variables (9 quantitative and 17 qualitative characters). Our results indicated that natural populations of V. meridionale might be found in the tropical forest under a highly heterogeneous climate and microclimate conditions, at different mountain regions between 2 357 and 3 168masl. The shrubs of V. meridionale exhibited a high level of intra-population variation in several quantitative (plant height, stem diameter) and qualitative (growth habit, ramification density, presence of anthocyanins in stems) morphological characters, suggesting an environmentally induced phenotypic plasticity. Plant height, stem diameter and foliar density were the most variable morphological traits, with coefficients of variation higher than 50%. However, several quantitative characters of its reproductive potential, such as berry dimensions, rachis length and number of flowers per inflorescence, resulted with low plasticity with coefficients of variation lower than 30.2%, indicating that these characters were genetically determined. The highest correlation coefficients (p < 0.05) resulted to be between fruit length and fruit width (0.90), leaf length and leaf width (0.78), plant height and stem diameter (0.60), and inflorescence length and flowers number per inflorescence (0.57). The results suggest that an important genetic resource exists for this species in the wild. Low variation in fruit size, which constitutes a target trait for plant breeders, could be useful for selection of cultivars of V. meridionale. The results of this study could also be applied in conservation programs aimed to protect these diverse populations in the mountain forests of Colombia.

Optical Polarization and Spectral Variability in the M87 Jet

NASA Technical Reports Server (NTRS)

Perlman, Eric S.; Adams, Steven C.; Cara, Mihai; Bourque, Matthew; Harris, D. E.; Madrid, Juan P.; Simons, Raymond C.; Clausen-Brown, Eric; Cheung, C. C.; Stawarz, Lukasz;

The GOSSIP on the MCV V347 Pavonis

NASA Astrophysics Data System (ADS)

Potter, S. B.; Cropper, Mark; Hakala, P. J.

Modelling of the polarized cyclotron emission from magnetic cataclysmic variables (MCVs) has been a powerful technique for determining the structure of the accretion zones on the white dwarf. Until now, this has been achieved by constructing emission regions (for example arcs and spots) put in by hand, in order to recover the polarized emission. These models were all inferred indirectly from arguments based on polarization and X-ray light curves. Potter, Hakala & Cropper (1998) presented a technique (Stokes imaging) which objectively and analytically models the polarized emission to recover the structure of the cyclotron emission region(s) in MCVs. We demonstrate this technique with the aid of a test case, then we apply the technique to polarimetric observations of the AM Her system V347 Pav. As the system parameters of V347 Pav (for example its inclination) have not been well determined, we describe an extension to the Stokes imaging technique which also searches the system parameter space (GOSSIP).

Regions of pollution with particulate matter in Poland

NASA Astrophysics Data System (ADS)

Rawicki, Kacper; Czarnecka, Małgorzata; Nidzgorska-Lencewicz, Jadwiga

2018-01-01

The study presents the temporal and spatial variability of particulate matter concentration in Poland in the calendar winter season (December-February). The basis for the study were the hourly and daily values of particulate matter PM10 concentration from the period 2005/06 - 2014/15, obtained from 33 air pollution monitoring stations. In Poland, the obligation to monitor the concentration of the finer fraction of particles smaller than 2.5µm in aerodynamic diameter was introduced only in 2010. Consequently, data on PM2.5 concentration refer to a shorter period, i.e. 2009/10 - 2014/15, and were obtained from 23 stations. Using the cluster analysis (k-means method), three regions of comparable variability of particulate matter concentration were delineated. The largest region, i.e. Region I, comprises the northern and eastern central area of Poland, and its southern boundary is along the line Gorzów Wlkp-Bydgoszcz-Konin-Łódź-Kielce-Lublin. Markedly smaller Region II is located to the south of Region I. By far the smallest area was designated to Region III which covers the south west area of Poland. The delineated regions show a marked variability in terms of mean concentration of both PM fractions in winter (PM10: region I - 33 µg·m-3, region II - 55 µg·m-3, region III - 83 µg·m-3; PM2,5: region I - 35 µg·m-3, region II - 50 µg·m-3, region III - 60 µg·m-3) and, in the case of PM10, the frequency of excessive daily limit value.

New White Dwarfs and Cataclysmic Variables from the FBS

NASA Astrophysics Data System (ADS)

Mickaelian, Areg M.

The Second part of the First Byurakan Survey (FBS) is the continuation of the Markarian Survey and is aimed at discovery of UVX stellar objects: QSOs Seyferts white dwarfs hot subdwarfs cataclysmic variables etc. +33o<δ<+45o and +61o<δ<+90o regions at |b|>15o has been covered so far. 1103 blue stellar objects have been selected including 716 new ones. Observations with the Byurakan 2.6m SAO (Russia) 6m and Haute-Provence 1.93m telescopes revealed more than 50 new white dwarfs and 7 cataclysmic variables including a new bright (V=12.6) novalike cataclysmic variable of SW Sex subclass RXS J16437+3402 found by cross-correlation of ROSAT/USNO objects and further inspection of the FBS spectra and having a period within the period ``gap"" for such objects. The white dwarfs are being studied to reveal pulsating ones (ZZ Ceti stars) magnetic WDs polars (AM Her type objects) planetary nebulae nuclei (DO stars PG 1159 type objects) etc. Polarimetric observations have been undertaken as well: FBS 1704+347 is found to be a possible polar and FBS 1815+381 a variable magnetic WD. The total number of WDs is estimated to be 270 in the whole sample (24%) and cataclysmic variables - 35 (3%)

VizieR Online Data Catalog: Gould's Belt VLA survey. V. Perseus region (Pech+, 2016)

NASA Astrophysics Data System (ADS)

Pech, G.; Loinard, L.; Dzib, S. A.; Mioduszewski, A. J.; Rodriguez, L. F.; Ortiz-Leon, G. N.; Rivera, J. L.; Torres, R. M.; Boden, A. F.; Hartman, L.; Kounkel, M. A.; Evans, N. J., II; Briceno, C.; Tobin, J.; Zapata, L. A.

2018-01-01

The observations were collected with the VLA of the National Radio Astronomy Observatory in B and BnA configurations. Two frequency subbands, each 1 GHz wide and centered at 4.5 and 7.5 GHz, respectively, were recorded simultaneously. The observations were obtained in three sessions, on 2011 March 06/13, April 14/25, and May 01/02/10/19/22, typically separated from one another by a month. This dual-frequency, multiepoch strategy was chosen to enable the characterization of the spectral index and variability of the detected sources, as well as to help with the identification of the emission mechanisms. (3 data files).

Evaluations of Different Hypervariable Regions of Archaeal 16S rRNA Genes in Profiling of Methanogens by Archaea-Specific PCR and Denaturing Gradient Gel Electrophoresis▿

PubMed Central

Yu, Zhongtang; García-González, Rubén; Schanbacher, Floyd L.; Morrison, Mark

2008-01-01

Different hypervariable (V) regions of the archaeal 16S rRNA gene (rrs) were compared systematically to establish a preferred V region(s) for use in Archaea-specific PCR-denaturing gradient gel electrophoresis (DGGE). The PCR products of the V3 region produced the most informative DGGE profiles and permitted identification of common methanogens from rumen samples from sheep. This study also showed that different methanogens might be detected when different V regions are targeted by PCR-DGGE. Dietary fat appeared to transiently stimulate Methanosphaera stadtmanae but inhibit Methanobrevibacter sp. strain AbM4 in rumen samples. PMID:18083874

Global assessment of surfing conditions: seasonal, interannual and long-term variability

NASA Astrophysics Data System (ADS)

Espejo, A.; Losada, I.; Mendez, F.

2012-12-01

International surfing destinations owe a great debt to specific combinations of wind-wave, thermal conditions and local bathymetry. As surf quality depends on a vast number of geophysical variables, a multivariable standardized index on the basis of expert judgment is proposed to analyze surf resource in a worldwide domain. Data needed is obtained by combining several datasets (reanalyses): 60-year satellite-calibrated spectral wave hindcast (GOW, WaveWatchIII), wind fields from NCEP/NCAR, global sea surface temperature from ERSST.v3b, and global tides from TPXO7.1. A summary of the global surf resource is presented, which highlights the high degree of variability in surfable events. According to general atmospheric circulation, results show that west facing low to middle latitude coasts are more suitable for surfing, especially those in Southern Hemisphere. Month to month analysis reveals strong seasonal changes in the occurrence of surfable events, enhancing those in North Atlantic or North Pacific. Interannual variability is investigated by comparing occurrence values with global and regional climate patterns showing a great influence at both, global and regional scales. Analysis of long term trends shows an increase in the probability of surfable events over the west facing coasts on the planet (i.e. + 30 hours/year in California). The resulting maps provide useful information for surfers and surf related stakeholders, coastal planning, education, and basic research.; Figure 1. Global distribution of medium quality (a) and high quality surf conditions probability (b).

A multi-wavelength study of pre-main sequence stars in the Taurus-Auriga star-forming region

NASA Astrophysics Data System (ADS)

Guenther, E. W.; Stelzer, B.; Neuhäuser, R.; Hillwig, T. C.; Durisen, R. H.; Menten, K. M.; Greimel, R.; Barwig, H.; Englhauser, J.; Robb, R. M.

2000-05-01

Although many lowmass pre-main sequence stars are strong X-ray sources, the origin of the X-ray emission is not well known. Since these objects are variable at all frequencies, simultaneous observations in X-rays and in other wavelengths are able to constrain the properties of the X-ray emitting regions. In this paper, we report quasi-simultaneous observations in X-rays, the optical, and the radio regime for classical and weak-line T Tauri stars from the Taurus-Auriga star-forming region. We find that all detected T Tauri stars show significant night-to-night variations of the X-ray emission. For three of the stars, FM Tau and CW Tau, both classical T Tauri stars, and V773 Tau, a weak-line T Tauri star, the variations are especially large. From observations taken simultaneously, we also find that there is some correspondence between the strength of Hα and the X-ray brightness in V773 Tau. The lack of a strong correlation leads us to conclude that the X-ray emission of V773 Tau is not a superposition of flares. However, we suggest that a weak correlation occurs because chromospherically active regions and regions of strong X-ray emission are generally related. V773 Tau was detected at 8.46 GHz as a weakly circularly polarised but highly variable source. We also find that the X-ray emission and the equivalent width of Hα remained unchanged, while large variations of the flux density in the radio regime were observed. This clearly indicates that the emitting regions are different. Using optical spectroscopy we detected a flare in Hα and event which showed a flare-like light-curve of the continuum brightness in FM Tau. However, ROSAT did not observe the field at the times of these flares. Nevertheless, an interesting X-ray event was observed in V773 Tau, during which the flux increased for about 8 hours and then decreased back to the same level in 5 hours. We interpret this as a long-duration event similar to those seen on the sun and other active stars. In the course of the observations, we discovered a new weak-line T Tauri star, GSC-1839-5674. Results are also presented for several other stars in the ROSAT field.

A high-density relativistic reflection origin for the soft and hard X-ray excess emission from Mrk 1044

NASA Astrophysics Data System (ADS)

Mallick, L.; Alston, W. N.; Parker, M. L.; Fabian, A. C.; Pinto, C.; Dewangan, G. C.; Markowitz, A.; Gandhi, P.; Kembhavi, A. K.; Misra, R.

2018-06-01

We present the first results from a detailed spectral-timing analysis of a long (˜130 ks) XMM-Newton observation and quasi-simultaneous NuSTAR and Swift observations of the highly-accreting narrow-line Seyfert 1 galaxy Mrk 1044. The broadband (0.3-50 keV) spectrum reveals the presence of a strong soft X-ray excess emission below ˜1.5 keV, iron Kα emission complex at ˜6 -7 keV and a `Compton hump' at ˜15 -30 keV. We find that the relativistic reflection from a high-density accretion disc with a broken power-law emissivity profile can simultaneously explain the soft X-ray excess, highly ionized broad iron line and the Compton hump. At low frequencies ([2 - 6] × 10-5 Hz), the power-law continuum dominated 1.5-5 keV band lags behind the reflection dominated 0.3-1 keV band, which is explained with a combination of propagation fluctuation and Comptonization processes, while at higher frequencies ([1 - 2] × 10-4 Hz), we detect a soft lag which is interpreted as a signature of X-ray reverberation from the accretion disc. The fractional root-mean-squared (rms) variability of the source decreases with energy and is well described by two variable components: a less variable relativistic disc reflection and a more variable direct coronal emission. Our combined spectral-timing analyses suggest that the observed broadband X-ray variability of Mrk 1044 is mainly driven by variations in the location or geometry of the optically thin, hot corona.

Analysis of chronic lymphotic leukemia transcriptomic profile: differences between molecular subgroups.

PubMed

Jantus Lewintre, Eloisa; Reinoso Martín, Cristina; Montaner, David; Marín, Miguel; José Terol, María; Farrás, Rosa; Benet, Isabel; Calvete, Juan J; Dopazo, Joaquín; García-Conde, Javier

2009-01-01

B cell chronic lymphocytic leukemia (CLL) is a lymphoproliferative disorder with a variable clinical course. Patients with unmutated IgV(H) gene show a shorter progression-free and overall survival than patients with immunoglobulin heavy chain variable regions (IgV(H)) gene mutated. In addition, BCL6 mutations identify a subgroup of patients with high risk of progression. Gene expression was analysed in 36 early-stage patients using high-density microarrays. Around 150 genes differentially expressed were found according to IgV(H) mutations, whereas no difference was found according to BCL6 mutations. Functional profiling methods allowed us to distinguish KEGG and gene ontology terms showing coordinated gene expression changes across subgroups of CLL. We validated a set of differentially expressed genes according to IgV(H) status, scoring them as putative prognostic markers in CLL. Among them, CRY1, LPL, CD82 and DUSP22 are the ones with at least equal or superior performance to ZAP70 which is actually the most used surrogate marker of IgV(H) status.

Identification and analysis of host proteins that interact with the 3'-untranslated region of tick-borne encephalitis virus genomic RNA.

PubMed

Muto, Memi; Kamitani, Wataru; Sakai, Mizuki; Hirano, Minato; Kobayashi, Shintaro; Kariwa, Hiroaki; Yoshii, Kentaro

2018-04-02

Tick-borne encephalitis virus (TBEV) causes severe neurological disease, but the pathogenetic mechanism is unclear. The conformational structure of the 3'-untranslated region (UTR) of TBEV is associated with its virulence. We tried to identify host proteins interacting with the 3'-UTR of TBEV. Cellular proteins of HEK293T cells were co-precipitated with biotinylated RNAs of the 3'-UTR of low- and high-virulence TBEV strains and subjected to mass spectrometry analysis. Fifteen host proteins were found to bind to the 3'-UTR of TBEV, four of which-cold shock domain containing-E1 (CSDE1), spermatid perinuclear RNA binding protein (STRBP), fragile X mental retardation protein (FMRP), and interleukin enhancer binding factor 3 (ILF3)-bound specifically to that of the low-virulence strain. An RNA immunoprecipitation and pull-down assay confirmed the interactions of the complete 3'-UTRs of TBEV genomic RNA with CSDE1, FMRP, and ILF3. Partial deletion of the stem loop (SL) 3 to SL 5 structure of the variable region of the 3'-UTR did not affect interactions with the host proteins, but the interactions were markedly suppressed by deletion of the complete SL 3, 4, and 5 structures, as in the high-virulence TBEV strain. Further analysis of the roles of host proteins in the neurologic pathogenicity of TBEV is warranted. Copyright © 2018 Elsevier B.V. All rights reserved.

AV3V lesions reduce the pressor response to L-glutamate into the RVLM.

PubMed

Vieira, Alexandre Antonio; Colombari, Eduardo; De Luca, Laurival A; Colombari, Débora Simões de Almeida; Menani, José V

2006-05-01

Neurons from the rostral ventrolateral medulla (RVLM) directly activate sympathetic pre-ganglionic neurons in the spinal cord. Hypertensive responses and sympathetic activation produced by different stimuli are strongly affected by lesions of the preoptic periventricular tissue surrounding the anteroventral third ventricle (AV3V region). Therefore, in the present study, we investigated the effects of acute (1 day) and chronic (15 days) electrolytic lesions of the AV3V region on the pressor responses produced by injections of the excitatory amino acid L-glutamate into the RVLM of unanesthetized rats. Male Holtzman rats with sham or electrolytic AV3V lesions and a stainless steel cannula implanted into the RVLM were used. The pressor responses produced by injections of L-glutamate (1, 5 and 10 nmol/100 nl) into the RVLM were reduced 1 day (9 +/- 4, 39 +/- 6 and 37 +/- 4 mm Hg, respectively) and 15 days after AV3V lesions (13 +/- 6, 39 +/- 4 and 43 +/- 4 mm Hg, respectively, vs. sham lesions: 29 +/- 3, 50 +/- 2 and 58 +/- 3 mm Hg, respectively). Injections of L-glutamate into the RVLM in sham or AV3V-lesioned rats produced no significant change in the heart rate (HR). Baroreflex bradycardia and tachycardia produced by iv phenylephrine or sodium nitroprusside, respectively, and the pressor and bradycardic responses to chemoreflex activation with iv potassium cyanide were not modified by AV3V lesions. The results suggest that signals from the AV3V region are important for sympathetic activation induced by L-glutamate into the RVLM.

A Diagnostic Test for Determining the Location of the GeV Emission in Powerful Blazars

NASA Technical Reports Server (NTRS)

Dotson, Amanda; Georganopoulos, Markos; Kazanas, Demosthenes; Perlman, Eric

2011-01-01

An issue currently under debate in the literature is how far from the black hole is the Fermi-observed GeV emission of powerful blazars emitted. Here we present a clear diagnostic tool for testing whether the Ge V emission site is located within the sub-pc broad emission line (BLR) region or further out in the few pc scale molecular torus (MT) environment. Within the BLR the scatteri takes place at the onset of the Klein-Nishina regime, causing the electron cooling time to become almost energy independent and as a result, the variation of high-energy emission is expected to be achromatic. Contrarily, if the emission site is located outside the BLR, the expected GeY variability is energy-dependent and with amplitude increasing with energy. We demonstrate this using time-dependent numerical simulations of blazar variability.

Correlation between SiO v = 3 J = 1 → 0 maser excitation and the light curve of a long-period variable star

NASA Astrophysics Data System (ADS)

Oyadomari, Miyako; Imai, Hiroshi; Nagayama, Takumi; Oyama, Tomoaki; Matsumoto, Naoko; Nakashima, Jun-ichi; Cho, Se-Hyung

2018-06-01

In order to understand the excitation mechanisms of silicon monoxide (SiO) masers around long-period variables (LPVs), we have investigated distributions of the SiO v = 2 and v = 3 J = 1 → 0 masers around 12 LPVs by very long baseline interferometry (VLBI) observations with the VLBI Exploration of Radio Astrometry (VERA) and the Nobeyama 45 m telescopes. VLBI fringes of the v = 3 maser emission were detected for five LPVs. The composite maps of the v = 2 and v = 3 masers were made for T Cep, W Hya, WX Psc, and R Leo using the spectral line phase-referencing technique. The v = 2 maser spots were distributed in a ring-like form around the central stars, while it is difficult to recognize any specific morphology in the v = 3 maser distributions due to the small number of v = 3 spots detected. However in T Cep, we find that the distribution of the v = 3 maser spots correlates well with the v = 2 masers within a few milliarcseconds (0.2-0.3 au) in position and 1 km s-1 in line-of-sight velocity at the light curve phase of ϕ = 0.28 (ϕ = 0.0 and 1.0 correspond to the visible light maxima). This correlation implies that the mechanism of line-overlapping between the mid-infrared lines of H2O and SiO molecules works in T Cep at ϕ = 0.28. We discuss the possibility that the line-overlapping may work at the limited duration from the maximum to the minimum of the stellar light curve.

Correlation between SiO v = 3 J = 1 → 0 maser excitation and the light curve of a long-period variable star

NASA Astrophysics Data System (ADS)

Oyadomari, Miyako; Imai, Hiroshi; Nagayama, Takumi; Oyama, Tomoaki; Matsumoto, Naoko; Nakashima, Jun-ichi; Cho, Se-Hyung

2018-03-01

In order to understand the excitation mechanisms of silicon monoxide (SiO) masers around long-period variables (LPVs), we have investigated distributions of the SiO v = 2 and v = 3 J = 1 → 0 masers around 12 LPVs by very long baseline interferometry (VLBI) observations with the VLBI Exploration of Radio Astrometry (VERA) and the Nobeyama 45 m telescopes. VLBI fringes of the v = 3 maser emission were detected for five LPVs. The composite maps of the v = 2 and v = 3 masers were made for T Cep, W Hya, WX Psc, and R Leo using the spectral line phase-referencing technique. The v = 2 maser spots were distributed in a ring-like form around the central stars, while it is difficult to recognize any specific morphology in the v = 3 maser distributions due to the small number of v = 3 spots detected. However in T Cep, we find that the distribution of the v = 3 maser spots correlates well with the v = 2 masers within a few milliarcseconds (0.2-0.3 au) in position and 1 km s-1 in line-of-sight velocity at the light curve phase of ϕ = 0.28 (ϕ = 0.0 and 1.0 correspond to the visible light maxima). This correlation implies that the mechanism of line-overlapping between the mid-infrared lines of H2O and SiO molecules works in T Cep at ϕ = 0.28. We discuss the possibility that the line-overlapping may work at the limited duration from the maximum to the minimum of the stellar light curve.

Singular vector-based targeted observations of chemical constituents: description and first application of the EURAD-IM-SVA v1.0

NASA Astrophysics Data System (ADS)

Goris, N.; Elbern, H.

2015-12-01

Measurements of the large-dimensional chemical state of the atmosphere provide only sparse snapshots of the state of the system due to their typically insufficient temporal and spatial density. In order to optimize the measurement configurations despite those limitations, the present work describes the identification of sensitive states of the chemical system as optimal target areas for adaptive observations. For this purpose, the technique of singular vector analysis (SVA), which has proven effective for targeted observations in numerical weather prediction, is implemented in the EURAD-IM (EURopean Air pollution and Dispersion - Inverse Model) chemical transport model, yielding the EURAD-IM-SVA v1.0. Besides initial values, emissions are investigated as critical simulation controlling targeting variables. For both variants, singular vectors are applied to determine the optimal placement for observations and moreover to quantify which chemical compounds have to be observed with preference. Based on measurements of the airship based ZEPTER-2 campaign, the EURAD-IM-SVA v1.0 has been evaluated by conducting a comprehensive set of model runs involving different initial states and simulation lengths. For the sake of brevity, we concentrate our attention on the following chemical compounds, O3, NO, NO2, HCHO, CO, HONO, and OH, and focus on their influence on selected O3 profiles. Our analysis shows that the optimal placement for observations of chemical species is not entirely determined by mere transport and mixing processes. Rather, a combination of initial chemical concentrations, chemical conversions, and meteorological processes determines the influence of chemical compounds and regions. We furthermore demonstrate that the optimal placement of observations of emission strengths is highly dependent on the location of emission sources and that the benefit of including emissions as target variables outperforms the value of initial value optimization with growing simulation length. The obtained results confirm the benefit of considering both initial values and emission strengths as target variables and of applying the EURAD-IM-SVA v1.0 for measurement decision guidance with respect to chemical compounds.

Potts-model critical manifolds revisited

DOE PAGES

Scullard, Christian R.; Jacobsen, Jesper Lykke

2016-02-11

We compute the critical polynomials for the q-state Potts model on all Archimedean lattices, using a parallel implementation of the algorithm of Ref. [1] that gives us access to larger sizes than previously possible. The exact polynomials are computed for bases of size 6 6 unit cells, and the root in the temperature variable v = e K-1 is determined numerically at q = 1 for bases of size 8 8. This leads to improved results for bond percolation thresholds, and for the Potts-model critical manifolds in the real (q; v) plane. In the two most favourable cases, we findmore » now the kagome-lattice threshold to eleven digits and that of the (3; 12 2) lattice to thirteen. Our critical manifolds reveal many interesting features in the antiferromagnetic region of the Potts model, and determine accurately the extent of the Berker-Kadano phase for the lattices studied.« less

The variables V477 Peg and MW Com observation results

NASA Astrophysics Data System (ADS)

Bahý, V.; Gajtanska, M.; Hanisko, P.; Krišták, L.

2018-04-01

The paper deals with our results of the photometric observations of two variable stars and with basic interprettions of our results. We have observed the V477 Pegassi and MW Comae systems. We have obtained their light curves in the integral light and in the B, V, R and I filters. The color indices have been computed and there have been realized the models of the both systems by the usage of the BM3 software. These models are presented in our study too.

Effect of the coating material on root dentin remineralization in vitro.

PubMed

Shiiya, Toru; Tomiyama, Kiyoshi; Iizuka, Junko; Hasegawa, Haruhiko; Kuramochi, Erika; Fujino, Fukue; Ohashi, Katsura; Nihei, Tomotaro; Teranaka, Toshio; Mukai, Yoshiharu

2014-10-01

A fluoride-releasing coating material containing surface pre-reacted glass-ionomer (S-PRG) filler has become commercially available. However, there has been no detailed investigation of its remineralization effects at various tooth surface regions. The remineralization effects of S-PRG filler-containing coating material at different sites of demineralized dentin surfaces in vitro were evaluated. Baseline lesions were prepared on bovine root dentin surfaces by immersion in demineralization buffer and divided into four groups: (B)--baseline lesion; (P)--S-PRG filler-containing material; (V)--S-PRG filler-free coating material as negative control; and (X)--resin-modified glass- ionomer as positive control. Material was applied to half the lesion surface, then P, V and X were remineralized in a gel system. Mineral profiles, integrated mineral loss (IML) and lesion depth (LD) at four regions, i.e. 1--exposed dentin surface adjacent to the material; 2--at a distance from the material; 3--beneath the material near to the edge; and 4--at a distance from the edge, were analyzed by transversal microradiography. Data were analyzed using ANOVA and Games-Howell test with α = 0.05. B showed typical artificial demineralized lesion. The IMLs of V, P and X at regions 1 and 2, and P and X at region 3 were significantly lower than that of B, however, those of V at region 3 and the other three groups at region 4 were not significantly different from that of B. At region 1, P and X showed significantly lower IMLs than V. At region 2, the IML of X showed significantly lower IML than V. There was no significant difference between P and X. The LD values of V, P and X at all regions were not significantly different from that of B. Fluoride, strontium and silicate ions released from the S-PRG filler would provide a favorable environment for remineralization of the demineralized dentin in P.

From 20.9 to 22.3% Cu(In,Ga)(S,Se)2 solar cell: Reduced recombination rate at the heterojunction and the depletion region due to K-treatment

NASA Astrophysics Data System (ADS)

Tai, Kong Fai; Kamada, Rui; Yagioka, Takeshi; Kato, Takuya; Sugimoto, Hiroki

2017-08-01

Certified efficiency of 22.3% has been achieved for Cu(In,Ga)(Se,S)2 solar cell. Compared to our previous record cell with 20.9% efficiency, the major breakthrough is due to the increased V oc, benefited from potassium treatment. A lower reverse saturation current and a longer carrier collection length deduced from electron-beam induced current indicate that the degree of carrier recombination at the heterojunction and depletion region for the 22.3% cell is lower. Further characterizations (capacitance-voltage profiling, temperature-dependent V oc, Suns-V oc) and analysis indicate that the recombination coefficients at all regions were reduced, especially for the interface and depletion regions. Device simulation was performed assuming varying defect densities to model the current-voltage curve for the 22.3% cell. The best model was also used to estimate the achievable V oc if defect densities were further reduced. Furthermore, by using higher bandgap Cd-free buffer layers, a higher J sc was achieved which gives an in-house solar cell efficiency of 22.8%. Recombination analysis on the 22.8% cell indicates that the interface recombination is further reduced, but the recombination coefficients at the depletion region was higher, pointing out that further improvement on the depletion region recombination could help to achieve a higher V oc and therefore an efficiency beyond 23%.

Evolution of human immunodeficiency virus type 1 in perinatally infected infants with rapid and slow progression to disease.

PubMed Central

Salvatori, F; Masiero, S; Giaquinto, C; Wade, C M; Brown, A J; Chieco-Bianchi, L; De Rossi, A

1997-01-01

We addressed the relationship between the origin and evolution of human immunodeficiency virus type 1 (HIV-1) variants and disease outcome in perinatally infected infants by studying the V3 regions of viral variants in samples obtained from five transmitting mothers at delivery and obtained sequentially over the first year of life from their infected infants, two of whom (rapid progressors) rapidly progressed to having AIDS. Phylogenetic analyses disclosed that the V3 sequences from each mother-infant pair clustered together and were clearly distinct from those of the other pairs. Within each pair, the child's sequences formed a monophyletic group, indicating that a single variant initiated the infection in both rapid and slow progressors. Plasma HIV-1 RNA levels increased in all five infants during their first months of life and then declined within the first semester of life only in the three slow progressors. V3 variability increased over time in all infants, but no differences in the pattern of V3 evolution in terms of potential viral phenotype were observed. The numbers of synonymous and nonsynonymous substitutions varied during the first semester of life regardless of viral load, CD4+-cell count, and disease progression. Conversely, during the second semester of life the rate of nonsynonymous substitutions was higher than that of synonymous substitutions in the slow progressors but not in the rapid progressors, thus suggesting a stronger host selective pressure in the former. In view of the proposal that V3 genetic evolution is driven mainly by host immune constraints, these findings suggest that while the immune response to V3 might contribute to regulating viral levels after the first semester of life, it is unlikely to play a determinant role in the initial viral decline soon after birth. PMID:9151863

First complete genome sequences of genogroup V, genotype 3 porcine sapoviruses: common 5'-terminal genomic feature of sapoviruses.

PubMed

Oka, Tomoichiro; Doan, Yen Hai; Shimoike, Takashi; Haga, Kei; Takizawa, Takenori

2017-12-01

Sapoviruses (SaVs) are enteric viruses and have been detected in various mammals. They are divided into multiple genogroups and genotypes based on the entire major capsid protein (VP1) encoding region sequences. In this study, we determined the first complete genome sequences of two genogroup V, genotype 3 (GV.3) SaV strains detected from swine fecal samples, in combination with Illumina MiSeq sequencing of the libraries prepared from viral RNA and PCR products. The lengths of the viral genome (7494 nucleotides [nt] excluding polyA tail) and short 5'-untranslated region (14 nt) as well as two predicted open reading frames are similar to those of other SaVs. The amino acid differences between the two porcine SaVs are most frequent in the central region of the VP1-encoding region. A stem-loop structure which was predicted in the first 41 nt of the 5'-terminal region of GV.3 SaVs and the other available complete genome sequences of SaVs may have a critical role in viral genome replication. Our study provides complete genome sequences of rarely reported GV.3 SaV strains and highlights the common 5'-terminal genomic feature of SaVs detected from different mammalian species.

A survey for variable young stars with small telescopes: First results from HOYS-CAPS

NASA Astrophysics Data System (ADS)

Froebrich, D.; Campbell-White, J.; Scholz, A.; Eislöffel, J.; Zegmott, T.; Billington, S. J.; Donohoe, J.; Makin, S. V.; Hibbert, R.; Newport, R. J.; Pickard, R.; Quinn, N.; Rodda, T.; Piehler, G.; Shelley, M.; Parkinson, S.; Wiersema, K.; Walton, I.

2018-05-01

Variability in Young Stellar Objects (YSOs) is one of their primary characteristics. Long-term, multi-filter, high-cadence monitoring of large YSO samples is the key to understand the partly unusual light-curves that many of these objects show. Here we introduce and present the first results of the HOYS-CAPScitizen science project which aims to perform such monitoring for nearby (d < 1 kpc) and young (age < 10 Myr) clusters and star forming regions, visible from the northern hemisphere, with small telescopes. We have identified and characterised 466 variable (413 confirmed young) stars in 8 young, nearby clusters. All sources vary by at least 0.2 mag in V, have been observed at least 15 times in V, R and I in the same night over a period of about 2 yrs and have a Stetson index of larger than 1. This is one of the largest samples of variable YSOs observed over such a time-span and cadence in multiple filters. About two thirds of our sample are classical T-Tauri stars, while the rest are objects with depleted or transition disks. Objects characterised as bursters show by far the highest variability. Dippers and objects whose variability is dominated by occultations from normal interstellar dust or dust with larger grains (or opaque material) have smaller amplitudes. We have established a hierarchical clustering algorithm based on the light-curve properties which allows the identification of the YSOs with the most unusual behaviour, and to group sources with similar properties. We discuss in detail the light-curves of the unusual objects V2492 Cyg, V350 Cep and 2MASS J21383981+5708470.

The 2-79 keV X-ray Spectrum of the Circinus Galaxy with NuSTAR, XMM-Newton and Chandra: a Fully Compton-Thick Active Galactic Nucleus

DOE PAGES

Arevalo, P.; Bauer, F. E.; Puccetti, S.; ...

2014-07-30

Here, the Circinus galaxy is one of the closest obscured active galactic nuclei (AGNs), making it an ideal target for detailed study. Combining archival Chandra and XMM-Newton data with new NuSTAR observations, we model the 2-79 keV spectrum to constrain the primary AGN continuum and to derive physical parameters for the obscuring material. Chandra's high angular resolution allows a separation of nuclear and off-nuclear galactic emission. In the off-nuclear diffuse emission, we find signatures of strong cold reflection, including high equivalent-width neutral Fe lines. This Compton-scattered off-nuclear emission amounts to 18% of the nuclear flux in the Fe line region,more » but becomes comparable to the nuclear emission above 30 keV. The new analysis no longer supports a prominent transmitted AGN component in the observed band. We find that the nuclear spectrum is consistent with Compton scattering by an optically thick torus, where the intrinsic spectrum is a power law of photon index Γ = 2.2-2.4, the torus has an equatorial column density of N H = (6-10) × 10 24 cm –2, and the intrinsic AGN 2-10 keV luminosity is (2.3-5.1) × 10 42 erg s –1. These values place Circinus along the same relations as unobscured AGNs in accretion rate versus Γ and L X versus L IR phase space. NuSTAR's high sensitivity and low background allow us to study the short timescale variability of Circinus at X-ray energies above 10 keV for the first time. Here, the lack of detected variability favors a Compton-thick absorber, in line with the spectral fitting results.« less

To development of analytical theory of rotational motion of the Moon

NASA Astrophysics Data System (ADS)

Barkin, Yu. V.; Ferrandiz, J. M.; Navarro, J. F.

2009-04-01

Resume. In the work the analytical theory of forced librations of the Moon considered as a celestial body with a liquid core and rigid non-spherical mantle is developed. For the basic variables: Andoyer, Poincare and Eulerian angles, and also for various dynamic characteristics of the Moon the tables for amplitudes, periods and phases of perturbations of the first order have been constructed. Resonant periods of free librations have been estimated. The influence of a liquid core results in decreasing of the period of free librations in longitude approximately on 0.316 day, and in change of the period of free pole wobble of the Moon on 25.8 days. In the first approximation the liquid core does not render influence on the value of Cassini's inclination and on the period of precession of the angular momentum vector. However it causes an additional "quasi-diurnal" librations with period about 27.165 days. In comparison with model of rigid non-spherical of the Moon the presence of a liquid core should result in increase of amplitudes of the Moon librations in longitude on 0.06 %. 1 Development of analytical theory of rotational motion of the Moon with liquid core and rigid mantle. The work has been realized in following stages. 1. Canonical equations of rotation of the Moon with liquid core and elastic mantle in Andoyer and Poincare variables have been constructed. Developments of second harmonic of force function of the Moon in pointed variables have been obtained for accurate trigonometric presentation of perturbations of the Moon orbital motion. 2. Two approaches (two methods) of construction of analytical theory have been developed. These approaches use different principles for eliminating of singularities for axial rotation of the Moon. One is based on direct application of Andoyer variables by changing of notations of moments of inertia [1]. Second is based on application of Poincare elements. For comparison both approaches are developed. 3. The main equation for determination of Cassini's inclination and its solution has been obtained in the case of accurate orbit of the Moon. An dynamical explanation of Cassini's laws has been done for model of the Moon with liquid core [2]. 4. Compact formulae for perturbations of the first (and second) order have been constructed for general used variables and for different kinematical and dynamical characteristics of the Moon (23 variables and characteristics: Andoyer-Poincare variables, classical variables, components of angular velocity and angular momentums of the Moon and its core). 5. Analytical formulae for 4 periods of free librations of the Moon have been constructed: for librations in longitude, in pole wobble, for free precession, and "quasi-diurnal" librations, caused by the liquid core. 6. The dynamical effects in the Moon rotation, caused by secular orbital perturbations of the Earth and Sun, have been studied. 2 Structure perturbations of the first order and their tabulation. For example, perturbations (periodic and of mixed type) in inclination ?and in node h of angular momentum of the Moon are determined by formulae: ? = ?0 + ‘ ???(1) cosθv, h = ? + ‘ ¥?¥h?(1) sinθ?. Here ?0 = 1033′50" is the Cassini's inclination of the Moon; ??(1), h?(1)are constant coefficients; θv = v1lM + v2lS + v3F + v4D, ? = (v1,v2,v3,v4)Tare combinations of known classical arguments of the Moon orbital theory; v1,v2,v3 and v4 are integer. 3 Influence of the liquid core and its ellipticity ɛ on amplitudes of the Moon forced and free librations. An influence of the liquid core and its ellipticity is determined by positive correction to amplitudes of librations for model of the rigid Moon. If the amplitudes of librations of rigid Moon we note as 1, so the corresponding amplitudes of librations of the Moon with the liquid core will be characterized by parameter 1 + L, where correction for liquid core is determined by formula L = Cc(1- ɛ2)•C ? Cc•C = 0.5996 × 10-3, where Cand Ccis the polar moments of inertia of the Moon and its core;ɛ = (a2 - b2)• (a2 + b2)? (a - b)•a is an ellipticity of equatorial ellipse of core cavity with semi-axes a and b. So all amplitudes of librations in longitude due to the liquid core are increased on 0.06%. A small effect of ellipticity has more smaller order. Here as example we present formula for perturbations of the first order of the Moon in longitude: (1) 21-+-L λ = 6n0 I C22Ã- ‘ ‘ D (1) (? )- D(-1) (? ) Ã- (- 1)?5-?1.?2.?3+2.?4.?5--0----?1.?2.?3-2.?4.?25-0-sin(v1lM + v2lS + v3F + v4D ) ¥?¥>0 ?5 (v1nM + v2nS + v3nF + v4nD) I = C•(mr2) is the dimensionless moment of inertia of the Moon (m and rare it's the mass and mean radius). Kinoshita's inclination functions D?1.?2.?3.?4.?5(±1)(? 0) are determined by known formulae through the value of Cassini's angle? = 1033′50". v1nM + v2nS + v3nF + v4nD = ˙θv1,v2,v3,v4 are derivatives with respect to the time of corresponding linear combinations of classical arguments of lunar orbit theory; nM,nS,nF and nD are velocities of changes of these arguments; C22 is the selenopotential coefficient; n02 = fm⊕•a3, a is an unperturbed value of semi-axis major of lunar orbit, fis a gravitational constant. The perturbations of the first order for others variables and considered dynamical characteristics have the structure similar to the formula for ˜λ(1). In given table 1 we present amplitudes of forced librations in longitude of intermediate Andoyer plane λ?1,?2,?3,?4 (in arc seconds) and perturbations of angular velocity of the Moon axial rotation ??1,?2,?3,?4 (in units10-4nF). T?1,?2,?3,?4are periods of corresponding perturbations. Table 1. Main perturbations in the Moon librations in longitude. ?1 ?2 ?3 ?4 T?1,?2,?3,?4 λ?1,?2,?3,?4 0 1 0 0 365.26 81"02 1 0 0 0 27.555 -15"65 1 -1 0 -1 -3232.9 9"85 2 0 0 -2 205.89 9"69 1 0 0 -2 31.81 4"15 1 0 0 -1 411.78 -2"98 2 0 -2 0 -1095.2 -1"86 2 -1 0 -2 471.89 0"74 0 0 0 2 14.77 -0"61 The results of tabulations of amplitudes of perturbations in the Moon rotation give good agreement with earlier constructed theories for its rigid model. Barkin's work partially was financially accepted by Spanish grants, Japanese-Russian grant N-07-02-91212 and by RFBR grant N 08-02-00367. References [1] Barkin, Yu. (1987) An Analytical Theory of the Lunar Rotational Motion. In: Figure and Dynamics of the Earth, Moon and Planets/ Proceedings of the Int. Symp. (Prague, Czechoslovakia, Sept. 15-20, 1986)/ Monogr. Ser. of UGTK, Prague. pp. 657-677. [2] Ferrandiz, J., Barkin, Yu. (2003) New approach to development of Moon rotation theory. Procced. of Inter. Conf. "Astrometry, Geodynamics and Solar System Dynamics". Journees 2003 (Sept. 22-25, 2003, St. Peters., Russia). IPA RAS, 199-200.

Partial Correlation-Based Retinotopically Organized Resting-State Functional Connectivity Within and Between Areas of the Visual Cortex Reflects More Than Cortical Distance

PubMed Central

Dawson, Debra Ann; Lam, Jack; Lewis, Lindsay B.; Carbonell, Felix; Mendola, Janine D.

2016-01-01

Abstract Numerous studies have demonstrated functional magnetic resonance imaging (fMRI)-based resting-state functional connectivity (RSFC) between cortical areas. Recent evidence suggests that synchronous fluctuations in blood oxygenation level-dependent fMRI reflect functional organization at a scale finer than that of visual areas. In this study, we investigated whether RSFCs within and between lower visual areas are retinotopically organized and whether retinotopically organized RSFC merely reflects cortical distance. Subjects underwent retinotopic mapping and separately resting-state fMRI. Visual areas V1, V2, and V3, were subdivided into regions of interest (ROIs) according to quadrants and visual field eccentricity. Functional connectivity (FC) was computed based on Pearson's linear correlation (correlation), and Pearson's linear partial correlation (correlation between two time courses after the time courses from all other regions in the network are regressed out). Within a quadrant, within visual areas, all correlation and nearly all partial correlation FC measures showed statistical significance. Consistently in V1, V2, and to a lesser extent in V3, correlation decreased with increasing eccentricity separation. Consistent with previously reported monkey anatomical connectivity, correlation/partial correlation values between regions from adjacent areas (V1-V2 and V2-V3) were higher than those between nonadjacent areas (V1-V3). Within a quadrant, partial correlation showed consistent significance between regions from two different areas with the same or adjacent eccentricities. Pairs of ROIs with similar eccentricity showed higher correlation/partial correlation than pairs distant in eccentricity. Between dorsal and ventral quadrants, partial correlation between common and adjacent eccentricity regions within a visual area showed statistical significance; this extended to more distant eccentricity regions in V1. Within and between quadrants, correlation decreased approximately linearly with increasing distances separating the tested ROIs. Partial correlation showed a more complex dependence on cortical distance: it decreased exponentially with increasing distance within a quadrant, but was best fit by a quadratic function between quadrants. We conclude that RSFCs within and between lower visual areas are retinotopically organized. Correlation-based FC is nonselectively high across lower visual areas, even between regions that do not share direct anatomical connections. The mechanisms likely involve network effects caused by the dense anatomical connectivity within this network and projections from higher visual areas. FC based on partial correlation, which minimizes network effects, follows expectations based on direct anatomical connections in the monkey visual cortex better than correlation. Last, partial correlation-based retinotopically organized RSFC reflects more than cortical distance effects. PMID:26415043

Partial Correlation-Based Retinotopically Organized Resting-State Functional Connectivity Within and Between Areas of the Visual Cortex Reflects More Than Cortical Distance.

PubMed

Dawson, Debra Ann; Lam, Jack; Lewis, Lindsay B; Carbonell, Felix; Mendola, Janine D; Shmuel, Amir

2016-02-01

Numerous studies have demonstrated functional magnetic resonance imaging (fMRI)-based resting-state functional connectivity (RSFC) between cortical areas. Recent evidence suggests that synchronous fluctuations in blood oxygenation level-dependent fMRI reflect functional organization at a scale finer than that of visual areas. In this study, we investigated whether RSFCs within and between lower visual areas are retinotopically organized and whether retinotopically organized RSFC merely reflects cortical distance. Subjects underwent retinotopic mapping and separately resting-state fMRI. Visual areas V1, V2, and V3, were subdivided into regions of interest (ROIs) according to quadrants and visual field eccentricity. Functional connectivity (FC) was computed based on Pearson's linear correlation (correlation), and Pearson's linear partial correlation (correlation between two time courses after the time courses from all other regions in the network are regressed out). Within a quadrant, within visual areas, all correlation and nearly all partial correlation FC measures showed statistical significance. Consistently in V1, V2, and to a lesser extent in V3, correlation decreased with increasing eccentricity separation. Consistent with previously reported monkey anatomical connectivity, correlation/partial correlation values between regions from adjacent areas (V1-V2 and V2-V3) were higher than those between nonadjacent areas (V1-V3). Within a quadrant, partial correlation showed consistent significance between regions from two different areas with the same or adjacent eccentricities. Pairs of ROIs with similar eccentricity showed higher correlation/partial correlation than pairs distant in eccentricity. Between dorsal and ventral quadrants, partial correlation between common and adjacent eccentricity regions within a visual area showed statistical significance; this extended to more distant eccentricity regions in V1. Within and between quadrants, correlation decreased approximately linearly with increasing distances separating the tested ROIs. Partial correlation showed a more complex dependence on cortical distance: it decreased exponentially with increasing distance within a quadrant, but was best fit by a quadratic function between quadrants. We conclude that RSFCs within and between lower visual areas are retinotopically organized. Correlation-based FC is nonselectively high across lower visual areas, even between regions that do not share direct anatomical connections. The mechanisms likely involve network effects caused by the dense anatomical connectivity within this network and projections from higher visual areas. FC based on partial correlation, which minimizes network effects, follows expectations based on direct anatomical connections in the monkey visual cortex better than correlation. Last, partial correlation-based retinotopically organized RSFC reflects more than cortical distance effects.

Effects of chronic lesions of the anteroventral third ventricle region on baroreceptor reflex function in conscious rats

NASA Technical Reports Server (NTRS)

Lewis, S. J.; Whalen, E. J.; Beltz, T. G.; Johnson, A. K.

1999-01-01

This study determined baroreceptor reflex (BR) function in conscious rats which had received sham or electrolytic lesions of the anteroventral third ventricle (AV3V) 54-56 days previously. Resting mean arterial pressure (MAP) and heart rate (HR) values of the AV3V-lesion rats were similar to those of sham-lesion rats (P>0.05 for both comparisons). The sensitivity of the BR-mediated tachycardia in AV3V-lesion was greater than in sham-lesion rats (-9. 92+/-1.00 vs. -4.54+/-0.45 bpm/mmHg, P<0.05). The sensitivity of the BR-mediated bradycardia in AV3V-lesion rats was also greater than in rats with sham lesions (-3.56+/-0.38 vs. -2.06+/-0.42 bpm/mmHg, P<0. 05). The AV3V lesions did not affect other BR parameters. These findings demonstrate that chronic lesions of the AV3V region increase the sensitivity of the baroreceptor HR reflex in conscious rats. Copyright 1999 Published by Elsevier Science B.V.

A novel COL11A1 missense mutation in siblings with non-ocular Stickler syndrome.

PubMed

Kohmoto, Tomohiro; Tsuji, Atsumi; Morita, Kei-Ichi; Naruto, Takuya; Masuda, Kiyoshi; Kashimada, Kenichi; Enomoto, Keisuke; Morio, Tomohiro; Harada, Hiroyuki; Imoto, Issei

2016-01-01

Stickler syndrome (STL) is an autosomal, dominantly inherited, clinically variable and genetically heterogeneous connective tissue disorder characterized by ocular, auditory, orofacial and skeletal abnormalities. We conducted targeted resequencing using a next-generation sequencer for molecular diagnosis of a 2-year-old girl who was clinically suspected of having STL with Pierre Robin sequence. We detected a novel heterozygous missense mutation, NM_001854.3:n.4838G>A [NM_001854.3 (COL11A1_v001):c.4520G>A], in COL11A1, resulting in a Gly to Asp substitution at position 1507 [NM_001854.3(COL11A1_i001)] within one of the collagen-like domains of the triple helical region. The same mutation was detected in her 4-year-old brother with cleft palate and high-frequency sensorineural hearing loss.

The perils of climate change: In utero exposure to temperature variability and birth outcomes in the Andean region.

PubMed

Molina, Oswaldo; Saldarriaga, Victor

2017-02-01

The discussion on the effects of climate change on human activity has primarily focused on how increasing temperature levels can impair human health. However, less attention has been paid to the effect of increased climate variability on health. We investigate how in utero exposure to temperature variability, measured as the fluctuations relative to the historical local temperature mean, affects birth outcomes in the Andean region. Our results suggest that exposure to a temperate one standard deviation relative to the municipality's long-term temperature mean during pregnancy reduces birth weight by 20g. and increases the probability a child is born with low birth weight by a 0.7 percentage point. We also explore potential channels driving our results and find some evidence that increased temperature variability can lead to a decrease in health care and increased food insecurity during pregnancy. Copyright © 2016 Elsevier B.V. All rights reserved.

The dependence on atmospheric resolution of ENSO and related East Asian-western North Pacific summer climate variability in a coupled model

NASA Astrophysics Data System (ADS)

Liu, Bo; Zhao, Guijie; Huang, Gang; Wang, Pengfei; Yan, Bangliang

2017-08-01

The authors present results for El Niño-Southern Oscillation (ENSO) and East Asian-western North Pacific climate variability simulated in a new version high-resolution coupled model (ICM.V2) developed at the Center for Monsoon System Research of the Institute of Atmospheric Physics (CMSR, IAP), Chinese Academy of Sciences. The analyses are based on the last 100-year output of a 1000-year simulation. Results are compared to an earlier version of the same coupled model (ICM.V1), reanalysis, and observations. The two versions of ICM have similar physics but different atmospheric resolution. The simulated climatological mean states show marked improvement over many regions, especially the tropics in ICM.V2 compared to those in ICM.V1. The common bias in the cold tongue has reduced, and the warm biases along the ocean boundaries have improved as well. With improved simulation of ENSO, including its period and strength, the ENSO-related western North Pacific summer climate variability becomes more realistic compared to the observations. The simulated East Asian summer monsoon anomalies in the El Niño decaying summer are substantially more realistic in ICM.V2, which might be related to a better simulation of the Indo-Pacific Ocean capacitor (IPOC) effect and Pacific decadal oscillation (PDO).

Spatial-frequency variability of the eddy kinetic energy in the South Atlantic Ocean

NASA Astrophysics Data System (ADS)

Cecilio, C. M.; Gherardi, D. F.; Souza, R.; Correa-Ramirez, M.

2013-05-01

In the South Atlantic Ocean (SAO) part of the inter-oceanic flow is accomplished through the issuance of anticyclonic eddies by the Agulhas Retroflection. This region, known as Agulhas Leakage (AL), is responsible by the intermittent shedding of eddies in the SAO. The propagation of these eddies into the SAO induces wave processes that allows the interaction between modes of variability of different basins, ranging from high to low frequency. Modelling studies suggests that the Indian-Atlantic inter-ocean exchange is strongly related to the structure of the wind field, in particular with the position of the maximum Southern Hemisphere westerly winds. This study aims to investigate the variations of the large-scale and regional mesoscale eddy field over the SAO using a frequency domain technique, Multiple Taper Method with Singular Value Decomposition (MTM-SVD). The MTM-SVD approach is applied to examine the individual and joint spatiotemporal variability modes of eddy kinetic energy (EKE) and winds stress. The EKE is estimated from geostrophic velocity anomalies data distributed by Aviso and winds stress from winds dataset of Cross-Calibrated Multi-Platform (CCMP) project from PO.DAAC. The impact of the AL in the SAO, was assessed first for the entire region and subsequently applied in the regions of higher mesoscale activity, which are the Brazil-Malvinas Confluence (BMC), the AL, and the Brazilian Current (BC) region. The results of local fractional variance (LFV) of EKE obtained by the MTM-SVD method show a strong significant annual variability in SAO and BC region while in BMC and in AL this frequency is weaker. In the most energetic mesoscale activity regions (BMC and AL) the pattern of variability is distinct. In the BMC region the interannual variability is dominated while in the AL region the most part of variability is associated by high frequency. The joint LFV spectrum of wind and EKE show an out-of-phase relationship between the AL region and BMC region in the interannual frequencies (3 to 5 years). The dominant frequencies can be seen in 1,5 to 3 years period band and in the intrasazonal frequencies, 0,3 to 0,5 years. The results suggests that the EKE variability patterns are different in the SAO wich might be related to the influence of eddies from AL.

Role of the anterior region of the third ventricle in the cardiovascular responses produced by systemic injection of a nitric oxide synthase inhibitor

NASA Technical Reports Server (NTRS)

Lewis, S. J.; Whalen, E. J.; Beltz, T. G.; Johnson, A. K.

1999-01-01

This study examined whether a prior electrolytic lesion of the tissue surrounding the anteroventral third ventricle (AV3V) would affect the increase in mean arterial blood pressure (MAP) and the fall in heart rate (HR) produced by systemic injection of the nitric oxide synthesis (NOS) inhibitor, NG-nitro-L-arginine methyl ester (L-NAME; 25 micromol/kg, i.v.) in conscious rats. L-NAME produced a smaller increase in MAP in AV3V-lesion than in sham-lesion rats (+19+/-3 vs. +40+/-3 mmHg, respectively; P<0.05). In contrast, L-NAME produced similar falls in HR in the AV3V-lesion and sham-lesion rats (-103+/-15 vs. -97+/-8 bpm, respectively; P<0.05). These findings demonstrate that the L-NAME-induced pressor response is dependent upon the integrity of the AV3V region, whereas the L-NAME-induced bradycardia is not. Copyright 1999 Elsevier Science B. V.

Validating a visual version of the metronome response task.

PubMed

Laflamme, Patrick; Seli, Paul; Smilek, Daniel

2018-02-12

The metronome response task (MRT)-a sustained-attention task that requires participants to produce a response in synchrony with an audible metronome-was recently developed to index response variability in the context of studies on mind wandering. In the present studies, we report on the development and validation of a visual version of the MRT (the visual metronome response task; vMRT), which uses the rhythmic presentation of visual, rather than auditory, stimuli. Participants completed the vMRT (Studies 1 and 2) and the original (auditory-based) MRT (Study 2) while also responding to intermittent thought probes asking them to report the depth of their mind wandering. The results showed that (1) individual differences in response variability during the vMRT are highly reliable; (2) prior to thought probes, response variability increases with increasing depth of mind wandering; (3) response variability is highly consistent between the vMRT and the original MRT; and (4) both response variability and depth of mind wandering increase with increasing time on task. Our results indicate that the original MRT findings are consistent across the visual and auditory modalities, and that the response variability measured in both tasks indexes a non-modality-specific tendency toward behavioral variability. The vMRT will be useful in the place of the MRT in experimental contexts in which researchers' designs require a visual-based primary task.

Dip Spectroscopy of the Low Mass X-Ray Binary XB 1254-690

NASA Technical Reports Server (NTRS)

Smale, Alan P.; Church, M. J.; BalucinskaChurch, M.; White, Nicholas E. (Technical Monitor)

2002-01-01

We observed the low mass X-ray binary XB 1254-690 with the Rossi X-ray Timing Explorer in 2001 May and December. During the first observation strong dipping on the 3.9-hr orbital period and a high degree of variability were observed, along with "shoulders" approx. 15% deep during extended intervals on each side of the main dips. The first observation also included pronounced flaring activity. The non-dip spectrum obtained using the PCA instrument was well-described by a two-component model consisting of a blackbody with kT = 1.30 +/- 0.10 keV plus a cut-off power law representation of Comptonized emission with power law photon index 1.10 +/- 0.46 and a cut-off energy of 5.9(sup +3.0, sub -1.4) keV. The intensity decrease in the shoulders of dipping is energy-independent, consistent with electron scattering in the outer ionized regions of the absorber. In deep dipping the depth of dipping reached 100%, in the energy band below 5 keV, indicating that all emitting regions were covered by absorber. Intensity-selected dip spectra were well-fit by a model in which the point-like blackbody is rapidly covered, while the extended Comptonized emission is progressively overlapped by the absorber, with the, covering fraction rising to 95% in the deepest portion of the dip. The intensity of this component in the dip spectra could be modeled by a combination of electron scattering and photoelectric absorption. Dipping did not occur during the 2001 December observation, but remarkably, both bursting and flaring were observed contemporaneously.

Modeling and molecular dynamics simulations of the V33 variant of the integrin subunit β3: Structural comparison with the L33 (HPA-1a) and P33 (HPA-1b) variants.

PubMed

Jallu, Vincent; Poulain, Pierre; Fuchs, Patrick F J; Kaplan, Cecile; de Brevern, Alexandre G

2014-10-01

The human platelet alloantigen (HPA)-1 system, the first cause of alloimmune thrombocytopenia in Caucasians, results from leucine-to-proline substitution (alleles 1a and 1b) of residue 33 in β3 subunit of the integrin αIIbβ3. A third variant with a valine (V33) has been described. Although leucine and valine share similar physicochemical properties, sera containing alloantibodies to the HPA-1a antigen variably reacted with V33-β3, suggesting structural alterations of β3. To analyze the effect of the L33V transition, molecular dynamics simulations were performed on a 3D structural model of the V33 form of the whole β3 extracellular domain (690 residues). Dynamics of the PSI (carrying residue 33), I-EGF-1, and I-EGF-2 domains of β3 were compared to previously obtained dynamics of HPA-1a structure and HPA-1b structural model using classical and innovative developments (a structural alphabet). Clustering approach and local structure analysis showed that L33-β3 and V33-β3 mostly share common structures co-existing in different dynamic equilibria. The L33V substitution mainly displaces the equilibrium between common structures. These observations can explain the variable reactivity of anti-HPA-1a alloantibodies suggesting that molecular dynamic plays a key role in the binding of these alloantibodies. Unlike the L33P substitution, the L33V transition would not affect the structure flexibility of the β3 knee, and consequently the functions of αIIbβ3. Copyright © 2014 Elsevier Masson SAS. All rights reserved.

Development and validation of satellite-based estimates of surface visibility

NASA Astrophysics Data System (ADS)

Brunner, J.; Pierce, R. B.; Lenzen, A.

2016-02-01

A satellite-based surface visibility retrieval has been developed using Moderate Resolution Imaging Spectroradiometer (MODIS) measurements as a proxy for Advanced Baseline Imager (ABI) data from the next generation of Geostationary Operational Environmental Satellites (GOES-R). The retrieval uses a multiple linear regression approach to relate satellite aerosol optical depth, fog/low cloud probability and thickness retrievals, and meteorological variables from numerical weather prediction forecasts to National Weather Service Automated Surface Observing System (ASOS) surface visibility measurements. Validation using independent ASOS measurements shows that the GOES-R ABI surface visibility retrieval (V) has an overall success rate of 64.5 % for classifying clear (V ≥ 30 km), moderate (10 km ≤ V < 30 km), low (2 km ≤ V < 10 km), and poor (V < 2 km) visibilities and shows the most skill during June through September, when Heidke skill scores are between 0.2 and 0.4. We demonstrate that the aerosol (clear-sky) component of the GOES-R ABI visibility retrieval can be used to augment measurements from the United States Environmental Protection Agency (EPA) and National Park Service (NPS) Interagency Monitoring of Protected Visual Environments (IMPROVE) network and provide useful information to the regional planning offices responsible for developing mitigation strategies required under the EPA's Regional Haze Rule, particularly during regional haze events associated with smoke from wildfires.

Development and validation of satellite based estimates of surface visibility

NASA Astrophysics Data System (ADS)

Brunner, J.; Pierce, R. B.; Lenzen, A.

2015-10-01

A satellite based surface visibility retrieval has been developed using Moderate Resolution Imaging Spectroradiometer (MODIS) measurements as a proxy for Advanced Baseline Imager (ABI) data from the next generation of Geostationary Operational Environmental Satellites (GOES-R). The retrieval uses a multiple linear regression approach to relate satellite aerosol optical depth, fog/low cloud probability and thickness retrievals, and meteorological variables from numerical weather prediction forecasts to National Weather Service Automated Surface Observing System (ASOS) surface visibility measurements. Validation using independent ASOS measurements shows that the GOES-R ABI surface visibility retrieval (V) has an overall success rate of 64.5% for classifying Clear (V ≥ 30 km), Moderate (10 km ≤ V < 30 km), Low (2 km ≤ V < 10 km) and Poor (V < 2 km) visibilities and shows the most skill during June through September, when Heidke skill scores are between 0.2 and 0.4. We demonstrate that the aerosol (clear sky) component of the GOES-R ABI visibility retrieval can be used to augment measurements from the United States Environmental Protection Agency (EPA) and National Park Service (NPS) Interagency Monitoring of Protected Visual Environments (IMPROVE) network, and provide useful information to the regional planning offices responsible for developing mitigation strategies required under the EPA's Regional Haze Rule, particularly during regional haze events associated with smoke from wildfires.

Distinct roles of visual, parietal, and frontal motor cortices in memory-guided sensorimotor decisions.

PubMed

Goard, Michael J; Pho, Gerald N; Woodson, Jonathan; Sur, Mriganka

2016-08-04

Mapping specific sensory features to future motor actions is a crucial capability of mammalian nervous systems. We investigated the role of visual (V1), posterior parietal (PPC), and frontal motor (fMC) cortices for sensorimotor mapping in mice during performance of a memory-guided visual discrimination task. Large-scale calcium imaging revealed that V1, PPC, and fMC neurons exhibited heterogeneous responses spanning all task epochs (stimulus, delay, response). Population analyses demonstrated unique encoding of stimulus identity and behavioral choice information across regions, with V1 encoding stimulus, fMC encoding choice even early in the trial, and PPC multiplexing the two variables. Optogenetic inhibition during behavior revealed that all regions were necessary during the stimulus epoch, but only fMC was required during the delay and response epochs. Stimulus identity can thus be rapidly transformed into behavioral choice, requiring V1, PPC, and fMC during the transformation period, but only fMC for maintaining the choice in memory prior to execution.

V458 Vul (Nova Vul 2007) becomes a highly-variable supersoft X-ray source

NASA Astrophysics Data System (ADS)

Drake, J. J.; Page, K. L.; Osborne, J. P.; Beardmore, A. P.; Ness, J.-U.; Starrfield, S.; Schwarz, G.; Tsujimoto, M.; Wesson, R.; Bode, M.; Rodriguez-Gil, P.; Gaensicke, B.; Steeghs, D.; Knigge, C.; Takei, D.; Zijlstra, A.

2008-09-01

Swift X-ray Telescope (XRT) monitoring observations of V458 Vul (Nova Vul 2007, S. Nakano, IAUC 8861) have found it to be entering a new phase characterised by a highly variable supersoft X-ray component accompanied by partially anti-correlated variations in the ultraviolet. An earlier report of entry into the supersoft phase (ATel #1246) has proven premature. XRT observations obtained from 2008 June 18 - September 1 found the nova to have declined in X-ray luminosity by a factor of 3 to an average of 0.02 count/s in the 0.3-10 keV band compared with the 2007 November-December period (ATel #1603).

Empirical STORM-E Model. [I. Theoretical and Observational Basis

NASA Technical Reports Server (NTRS)

Mertens, Christopher J.; Xu, Xiaojing; Bilitza, Dieter; Mlynczak, Martin G.; Russell, James M., III

2013-01-01

Auroral nighttime infrared emission observed by the Sounding of the Atmosphere using Broadband Emission Radiometry (SABER) instrument onboard the Thermosphere-Ionosphere-Mesosphere Energetics and Dynamics (TIMED) satellite is used to develop an empirical model of geomagnetic storm enhancements to E-region peak electron densities. The empirical model is called STORM-E and will be incorporated into the 2012 release of the International Reference Ionosphere (IRI). The proxy for characterizing the E-region response to geomagnetic forcing is NO+(v) volume emission rates (VER) derived from the TIMED/SABER 4.3 lm channel limb radiance measurements. The storm-time response of the NO+(v) 4.3 lm VER is sensitive to auroral particle precipitation. A statistical database of storm-time to climatological quiet-time ratios of SABER-observed NO+(v) 4.3 lm VER are fit to widely available geomagnetic indices using the theoretical framework of linear impulse-response theory. The STORM-E model provides a dynamic storm-time correction factor to adjust a known quiescent E-region electron density peak concentration for geomagnetic enhancements due to auroral particle precipitation. Part II of this series describes the explicit development of the empirical storm-time correction factor for E-region peak electron densities, and shows comparisons of E-region electron densities between STORM-E predictions and incoherent scatter radar measurements. In this paper, Part I of the series, the efficacy of using SABER-derived NO+(v) VER as a proxy for the E-region response to solar-geomagnetic disturbances is presented. Furthermore, a detailed description of the algorithms and methodologies used to derive NO+(v) VER from SABER 4.3 lm limb emission measurements is given. Finally, an assessment of key uncertainties in retrieving NO+(v) VER is presented

OH and halogen atom influence on the variability of non-methane hydrocarbons in the Antarctic Boundary Layer

NASA Astrophysics Data System (ADS)

Read, Katie A.; Lewis, Alastair C.; Salmon, Rhian A.; Jones, Anna E.; Bauguitte, Stéphane

2007-02-01

Measurements of C2-C8 non-methane hydrocarbons (NMHCs) have been made in situ at Halley Base, Antarctica (75°35'S, 26°19'W) from February 2004 to February 2005 as part of the Chemistry of the Antarctic Boundary Layer and the Interface with Snow (CHABLIS) experiment. The data show long- and short-term variabilities in NMHCs controlled by the seasonal and geographic dependence of emissions and variation in atmospheric removal rates and pathways. Ethane, propane, iso-butane, n-butane and acetylene abundances followed a general OH-dependent sinusoidal seasonal cycle. The yearly averages were 186, 31, 3.2, 4.9 and 19 pptV, respectively, lower than those which were reported in some previous studies. Superimposed on a seasonal cycle was shorter-term variability that could be attributed to both synoptic airmass variability and localized loss processes due to other radical species. Hydrocarbon variability during periods of hour-to-day-long surface O3 depletion in late winter/early spring indicated active halogen atom chemistry estimated to be in the range 1.7 × 103-3.4 × 104 atom cm-3 for Cl and 4.8 × 106-9.6 × 107 atom cm-3 for Br. Longer-term negative deviations from sinusoidal behaviour in the late August were indicative of NMHC reaction with a persistent [Cl] of 2.3 × 103 atom cm-3. Maximum ethene and propene of 157 and 179 pptV, respectively, were observed in the late February/early March, consistent with increased oceanic biogenic emissions; however, their presence was significant year-round (June-August concentrations of 17.1 +/- 18.3 and 7.9 +/- 20.0 pptV, respectively).

NuSTAR and multifrequency study of the two high-redshift blazars S5 0836+710 and PKS 2149-303

DOE PAGES

Tagliaferri, Gianpiero; Ghisellini, G.; Perri, M.; ...

2015-07-09

Powerful blazars are flat-spectrum radio quasars whose emission is dominated by a Compton component peaking between a few hundred keV and a few hundred MeV. We observed two bright blazars, PKS 2149–306 at redshift z = 2.345 and S5 0836+710 at z = 2.172, in the hard X-ray band with the Nuclear Spectroscopic Telescope Array satellite. Simultaneous soft-X-rays and UV–optical observations were performed with the Swift satellite, while near-infrared (near-IR) data were obtained with the Rapid Eye Mount telescope. To study their variability, we repeated these observations for both sources on a timescale of a few months. While no fastmore » variability was detected during a single observation, both sources were variable in the X-ray band, up to 50%, between the two observations, with larger variability at higher energies. No variability was detected in the optical/NIR band. These data, together with Fermi-Large Area Telescope, Wide-field Infrared Survey Explorer, and other literature data, are then used to study the overall spectral energy distributions (SEDs) of these blazars. Although the jet nonthermal emission dominates the SED, it leaves the UV band unhidden, allowing us to detect the thermal emission of the disk and to estimate the black hole mass. The nonthermal emission is well reproduced by a one-zone leptonic model by the synchrotron, self-Compton, and external Compton processes. Our data are better reproduced if we assume that the location of the dissipation region of the jet, R diss, is in between the torus and the broad-line region. As a result, the observed variability is explained by changing a minimum number of model parameters by a very small amount.« less

NuSTAR AND MULTIFREQUENCY STUDY OF THE TWO HIGH-REDSHIFT BLAZARS S5 0836+710 AND PKS 2149–306

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tagliaferri, G.; Ghisellini, G.; Covino, S.

Powerful blazars are flat-spectrum radio quasars whose emission is dominated by a Compton component peaking between a few hundred keV and a few hundred MeV. We observed two bright blazars, PKS 2149–306 at redshift z = 2.345 and S5 0836+710 at z = 2.172, in the hard X-ray band with the Nuclear Spectroscopic Telescope Array satellite. Simultaneous soft-X-rays and UV–optical observations were performed with the Swift satellite, while near-infrared (near-IR) data were obtained with the Rapid Eye Mount telescope. To study their variability, we repeated these observations for both sources on a timescale of a few months. While no fastmore » variability was detected during a single observation, both sources were variable in the X-ray band, up to 50%, between the two observations, with larger variability at higher energies. No variability was detected in the optical/NIR band. These data, together with Fermi-Large Area Telescope, Wide-field Infrared Survey Explorer, and other literature data, are then used to study the overall spectral energy distributions (SEDs) of these blazars. Although the jet nonthermal emission dominates the SED, it leaves the UV band unhidden, allowing us to detect the thermal emission of the disk and to estimate the black hole mass. The nonthermal emission is well reproduced by a one-zone leptonic model by the synchrotron, self-Compton, and external Compton processes. Our data are better reproduced if we assume that the location of the dissipation region of the jet, R{sub diss}, is in between the torus and the broad-line region. The observed variability is explained by changing a minimum number of model parameters by a very small amount.« less

NuSTAR and multifrequency study of the two high-redshift blazars S5 0836+710 and PKS 2149-303

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tagliaferri, Gianpiero; Ghisellini, G.; Perri, M.

Powerful blazars are flat-spectrum radio quasars whose emission is dominated by a Compton component peaking between a few hundred keV and a few hundred MeV. We observed two bright blazars, PKS 2149–306 at redshift z = 2.345 and S5 0836+710 at z = 2.172, in the hard X-ray band with the Nuclear Spectroscopic Telescope Array satellite. Simultaneous soft-X-rays and UV–optical observations were performed with the Swift satellite, while near-infrared (near-IR) data were obtained with the Rapid Eye Mount telescope. To study their variability, we repeated these observations for both sources on a timescale of a few months. While no fastmore » variability was detected during a single observation, both sources were variable in the X-ray band, up to 50%, between the two observations, with larger variability at higher energies. No variability was detected in the optical/NIR band. These data, together with Fermi-Large Area Telescope, Wide-field Infrared Survey Explorer, and other literature data, are then used to study the overall spectral energy distributions (SEDs) of these blazars. Although the jet nonthermal emission dominates the SED, it leaves the UV band unhidden, allowing us to detect the thermal emission of the disk and to estimate the black hole mass. The nonthermal emission is well reproduced by a one-zone leptonic model by the synchrotron, self-Compton, and external Compton processes. Our data are better reproduced if we assume that the location of the dissipation region of the jet, R diss, is in between the torus and the broad-line region. As a result, the observed variability is explained by changing a minimum number of model parameters by a very small amount.« less

Existence of various human parvovirus B19 genotypes in Chinese plasma pools: genotype 1, genotype 3, putative intergenotypic recombinant variants and new genotypes.

PubMed

Jia, Junting; Ma, Yuyuan; Zhao, Xiong; Huangfu, Chaoji; Zhong, Yadi; Fang, Chi; Fan, Rui; Lv, Maomin; Zhang, Jingang

2016-09-17

Human parvovirus B19 (B19V) is a frequent contaminant of blood and plasma-derived medicinal products. Three distinct genotypes of B19V have been identified. The distribution of the three B19V genotypes has been investigated in various regions or countries. However, in China, data on the existence of different B19V genotypes are limited. One hundred and eighteen B19V-DNA positive source plasma pool samples collected from three Chinese blood products manufacturers were analyzed. The subgenomic NS1/VP1u region junction of B19V was amplified by nested PCR. These amplified products were then cloned and subsequently sequenced. For genotyping, their phylogenetic inferences were constructed based on the NS1/VP1-unique region. Then putative recombination events were analyzed and identified. Phylogenetic analysis of 118 B19V sequences attributed 61.86 % to genotype 1a, 10.17 % to genotype 1b, and 17.80 % to genotype 3b. All the genotype 3b sequences obtained in this study grouped as a specific, closely related cluster with B19V strain D91.1. Four 1a/3b recombinants and 5 new atypical B19V variants with no recombination events were identified. There were at least 3 subtypes (1a, 1b and 3b) of B19V circulating in China. Furthermore, putative B19V 1a/3b recombinants and unclassified strains were identified as well. Such recombinant and unclassified strains may contribute to the genetic diversity of B19V and consequently complicate the B19V infection diagnosis and NAT screening. Further studies will be required to elucidate the biological significance of the recombinant and unclassified strains.

The ASAS-SN Catalog of Variable Stars I: The Serendipitous Survey

NASA Astrophysics Data System (ADS)

Jayasinghe, T.; Kochanek, C. S.; Stanek, K. Z.; Shappee, B. J.; Holoien, T. W.-S.; Thompson, Todd A.; Prieto, J. L.; Dong, Subo; Pawlak, M.; Shields, J. V.; Pojmanski, G.; Otero, S.; Britt, C. A.; Will, D.

2018-04-01

The All-Sky Automated Survey for Supernovae (ASAS-SN) is the first optical survey to routinely monitor the whole sky with a cadence of ˜2 - 3 days down to V≲ 17 mag. ASAS-SN has monitored the whole sky since 2014, collecting ˜100 - 500 epochs of observations per field. The V-band light curves for candidate variables identified during the search for supernovae are classified using a random forest classifier and visually verified. We present a catalog of 66,533 bright, new variable stars discovered during our search for supernovae, including 27,753 periodic variables and 38,780 irregular variables. V-band light curves for the ASAS-SN variables are available through the ASAS-SN variable stars database (https://asas-sn.osu.edu/variables). The database will begin to include the light curves of known variable stars in the near future along with the results for a systematic, all-sky variability survey.

Prophylactic dissection of level V in primary mucosal SCC in the clinically N positive neck: A systematic review.

PubMed

McLean, Timothy; Kerr, Stephen J; Giddings, Charles E B

2017-09-01

To review the evidence for level V dissection in the management of previously untreated mucosal squamous cell carcinoma (SCC) of the head and neck presenting with nodal metastasis when level V is clinically uninvolved. The Preferred Reporting Items for Systematic Review and Meta-Analyses (PRISMA) were used to conduct a systematic review of the current literature, including all English language articles published after 1990. A literature search was performed on November 29, 2015, of Medline, EMBASE, Cumulative Index to Nursing and Allied Health Literature (CINAHL), and the Cochrane Library. The search yielded a total of 270 papers. Strict inclusion and exclusion criteria were applied, leaving 20 eligible papers. Overall prevalence was calculated using random effect meta-analysis. The overall prevalence of level V occult disease in the node (N)-positive neck, irrespective of subsite, was 2.56% (95% confidence interval 1.29-3.84) (2,368 patients and 2,533 necks). The prevalence of occult level V metastasis was up to 7.7% for oral cavity and 8.3% for oropharyngeal tumors. Five studies reported regional recurrence rates over variable time periods. There is exceedingly limited data on outcomes, such as spinal accessory nerve function, quality of life, and perioperative complications. Mucosal head and neck SCC presenting with nodal metastasis but with level V clinically uninvolved has a low prevalence of occult level V disease. Routine dissection of level V does not appear to be warranted; however, a definitive conclusion is unable to be drawn due to limited data on morbidity and oncological outcomes. Laryngoscope, 127:2074-2080, 2017. © 2017 The American Laryngological, Rhinological and Otological Society, Inc.

A new multi-line cusp magnetic field plasma device (MPD) with variable magnetic field.

PubMed

Patel, A D; Sharma, M; Ramasubramanian, N; Ganesh, R; Chattopadhyay, P K

2018-04-01

A new multi-line cusp magnetic field plasma device consisting of electromagnets with core material has been constructed with a capability to experimentally control the relative volume fractions of magnetized to unmagnetized plasma volume as well as accurate control on the gradient length scales of mean density and temperature profiles. Argon plasma has been produced using a hot tungsten cathode over a wide range of pressures 5 × 10 -5 -1 × 10 -3 mbar, achieving plasma densities ranging from 10 9 to 10 11 cm -3 and the electron temperature in the range 1-8 eV. The radial profiles of plasma parameters measured along the non-cusp region (in between two consecutive magnets) show a finite region with uniform and quiescent plasma, where the magnetic field is very low such that the ions are unmagnetized. Beyond that region, both plasma species are magnetized and the profiles show gradients both in temperature and density. The electrostatic fluctuation measured using a Langmuir probe radially along the non-cusp region shows less than 1% (δI isat /I isat < 1%). The plasma thus produced will be used to study new and hitherto unexplored physics parameter space relevant to both laboratory multi-scale plasmas and astrophysical plasmas.

Long-Term Variability of AGN at Hard X-Rays

NASA Technical Reports Server (NTRS)

Soldi, S.; Beckmann, V.; Baumgartner W. H.; Ponti, G.; Shrader, C. R.; Lubinski, P.; Krimm, H. A.; Mattana, F.; Tueller, J.

2013-01-01

Variability at all observed wavelengths is a distinctive property of active galactic nuclei (AGN). Hard X-rays provide us with a view of the innermost regions of AGN, mostly unbiased by absorption along the line of sight. Characterizing the intrinsic hard X-ray variability of a large AGN sample and comparing it to the results obtained at lower X-ray energies can significantly contribute to our understanding of the mechanisms underlying the high-energy radiation. Methods. Swift/BAT provides us with the unique opportunity to follow, on time scales of days to years and with a regular sampling, the 14-195 keV emission of the largest AGN sample available up to date for this kind of investigation. As a continuation of an early work on the first 9 months of BAT data, we study the amplitude of the variations, and their dependence on sub-class and on energy, for a sample of 110 radio quiet and radio loud AGN selected from the BAT 58-month survey. About 80 of the AGN in the sample are found to exhibit significant variability on months to years time scales, radio loud sources being the most variable. The amplitude of the variations and their energy dependence are incompatible with variability being driven at hard X-rays by changes of the absorption column density. In general, the variations in the 14-24 and 35-100 keV bands are well correlated, suggesting a common origin of the variability across the BAT energy band. However, radio quiet AGN display on average 10 larger variations at 14-24 keV than at 35-100 keV and a softer-when-brighter behavior for most of the Seyfert galaxies with detectable spectral variability on month time scale. In addition, sources with harder spectra are found to be more variable than softer ones. These properties are generally consistent with a variable power law continuum, in flux and shape, pivoting at energies 50 keV, to which a constant reflection component is superposed. When the same time scales are considered, the timing properties of AGN at hard X-rays are comparable to those at lower energies, with at least some of the differences possibly ascribable to components contributing differently in the two energy domains (e.g., reflection, absorption).

Potential utilization for the evaluation of particulate and gaseous pollutants at an urban site near a major highway.

PubMed

Agudelo-Castañeda, Dayana M; Teixeira, Elba C; Schneider, Ismael L; Pereira, Felipe N; Oliveira, Marcos L S; Taffarel, Silvio R; Sehn, Janaína L; Ramos, Claudete G; Silva, Luis F O

2016-02-01

Works of particle number and mass concentration variability have a great importance since they may indicate better the influence of vehicle emissions in an urban region. Moreover, the importance of this work lies in the fact that there are few studies in Brazil, where the fuel used has unique characteristics. Consequently, this paper presents measurements of particle number (size range 0.3-10 μm), particle mass (PM10, PM2.5, PM1), O3 and NOx (NO, NO2), in a site near a major highway at the Metropolitan Area of Porto Alegre, south Brazil. Measurements were carried out during two years: 2012 and 2013. Particle number and mass concentrations were measured using an optical counter with a PM10 analyzer. Results showed that concentrations of N0.3-1 (0.3-1 μm) were the highest, although similar to N1-2.5 (1-2.5 μm). Daily variability of the analyzed pollutants followed the traffic pattern. Moreover, NO2, O3, and particle number were higher during the day, whereas NO, NOx, and particle matter showed higher concentrations during nighttime. Traffic influence was evidenced by the mean concentrations of weekends and weekdays, being higher for the latter. Correlation of particles and gases with meteorological variables, together with the application of PCA confirmed the influence of vehicle exhaust discharges. Copyright © 2015 Elsevier B.V. All rights reserved.

Propagation velocity and space-time correlation of perturbations in turbulent channel flow

NASA Technical Reports Server (NTRS)

Kim, John; Hussain, Fazle

1992-01-01

A database obtained from direct numerical simulation of a turbulent channel flow is analyzed to extract the propagation velocity V of velocity, vorticity, and pressure fluctuations from their space-time correlations. A surprising result is that V is approximately the same as the local mean velocity for most of the channel, except for the near-wall region. For y(+) is less than or equal to 15, V is virtually constant, implying that perturbations of all flow variables propagate like waves near the wall. In this region V is 55 percent of the centerline velocity U(sub c) for velocity and vorticity perturbations and 75 percent of U(sub c) for pressure perturbations. Scale-dependence of V is also examined by analyzing the bandpass filtered flow fields. Comprehensive documentation of the propagation velocities and space-time correlation data, which should prove useful in the evaluation of Taylor's hypothesis is presented. An attempt was made to explain some of the data in terms of our current understanding of organized structures, although not all of the data can be explained this way.

Ex vivo detection of adenovirus specific CD4{sup +} T-cell responses to HLA-DR-epitopes of the Hexon protein show a contracted specificity of T{sub HELPER} cells following stem cell transplantation

DOE Office of Scientific and Technical Information (OSTI.GOV)

Serangeli, Celine; Bicanic, Oliver; Scheible, Michael H.

2010-02-20

Human adenovirus (HAdV) is a cause of significant morbidity and mortality in immunocompromised patients, especially after stem cell transplantation (SCT). Viral clearance has been attributed to CD4{sup +} T-cell responses against the Hexon-protein, but the frequency of specific T{sub HELPER} cells is extremely low or not detectable ex vivo and preference for different CD4{sup +} T-cell epitopes is variable among individuals. We therefore analyzed 44 healthy donors and 6 SCT-recipients for Hexon-specific CD4{sup +}-responses ex vivo, to identify epitopes which would be broadly applicable. We selected 19 candidate epitopes with predicted restriction to HLA-DR1/DR3/DR4/DR7; 16 were located within the highlymore » conserved regions, indicating cross-reactivity of T cells among HAdV-subspecies. Ten epitopes induced CD4{sup +}-proliferation in >50% of individuals, confirmed by intracellular IFN-gamma detection. Three SCT recipients who recovered from an infection with HAdV displayed reactivity towards only a single hexon epitope, whereas healthy individuals were responsive to two to eight epitopes (median 3). The ex vivo detection of Hexon-specific CD4{sup +} T-cells, without any long-term culture in vitro, enables the detection and generation of HAdV-specific CD4{sup +} T cells for adoptive T-cell transfer against HAdV-infection post SCT.« less

Methyl Chloride V5 Region Line Shape Parameters and Rotational Constants for the V2, V5 and 2V3 Vibrational Band

NASA Technical Reports Server (NTRS)

Chackerian, C., Jr.; Brown, L. R.; Lacome, N.; Tarrago, G.

1998-01-01

Methyl chloride (CH3Cl) is relatively abundant in the Earth's atmosphere, and because it is easily photodissociated is an important source of the chlorine atoms which are involved in the destruction of atmospheric ozone.

Chlorophyll-a variability in the Seychelles-Chagos Thermocline Ridge: Analysis of a coupled biophysical model

NASA Astrophysics Data System (ADS)

Dilmahamod, A. F.; Hermes, J. C.; Reason, C. J. C.

2016-02-01

The biological variability of the upwelling region of the Seychelles-Chagos Thermocline Ridge (SCTR), both at surface and subsurface levels, is investigated using monthly outputs of a coupled biophysical model from 1958 to 2011. Owing to its large spatial distribution and sensitivity to climate variability, the SCTR is studied as three distinct regions; namely, sub-regions 1 (western; 5°S-12°S, 55°E-65°E), 2 (central; 5°S-12°S, 65°E-75°E) and 3 (eastern; 5°S-12°S, 75°E-90°E). Surface and subsurface chlorophyll-a (Chl-a) exhibit completely different response mechanisms in sub-region 3 compared to sub-regions 1 and 2 during El Niño Southern Oscillation (ENSO) and Indian Ocean Dipole (IOD) events. During the intense 1997/1998 ENSO-IOD event, the high Chl-a tongue observed in the eastern Indian Ocean induces an increase in surface concentration in sub-region 3, whose subsurface variability is also substantially less (more) impacted by downwelling (upwelling) Rossby waves generated by El Niño (La Niña) forcing. After filtering out the annual signal, wavelet analysis of surface Chl-a revealed a significant 6 month periodicity in sub-regions 1 and 2 whereas a 5-year signal dominated in sub-region 3. The latter suggests that sub-region 3 is more prone to different ENSO/IOD influences, due to its proximity to the eastern Indian Ocean. In the unfiltered data, the subsurface Chl-a in sub-region 3 exhibits a strong signal near 1 year, with sub-regions 1 and 2 having a pronounced 6-year and 5-year signals respectively. These analyses show that the SCTR cannot be investigated as a single homogeneous region due to its large spatial distribution and different response mechanisms to climate events. Furthermore, changes in SST, thermocline depth, winds and Chl-a before and after the 1976-1977 climate shift differed across the SCTR, further highlighting the heterogeneity of this sensitive region in the Indian Ocean.

Evolution and Control of 2219 Aluminum Microstructural Features through Electron Beam Freeform Fabrication

NASA Technical Reports Server (NTRS)

Taminger, Karen M.; Hafley, Robert A.; Domack, Marcia S.

2006-01-01

Electron beam freeform fabrication (EBF3) is a new layer-additive process that has been developed for near-net shape fabrication of complex structures. EBF3 uses an electron beam to create a molten pool on the surface of a substrate. Wire is fed into the molten pool and the part translated with respect to the beam to build up a 3-dimensional structure one layer at a time. Unlike many other freeform fabrication processes, the energy coupling of the electron beam is extremely well suited to processing of aluminum alloys. The layer-additive nature of the EBF3 process results in a tortuous thermal path producing complex microstructures including: small homogeneous equiaxed grains; dendritic growth contained within larger grains; and/or pervasive dendritic formation in the interpass regions of the deposits. Several process control variables contribute to the formation of these different microstructures, including translation speed, wire feed rate, beam current and accelerating voltage. In electron beam processing, higher accelerating voltages embed the energy deeper below the surface of the substrate. Two EBF3 systems have been established at NASA Langley, one with a low-voltage (10-30kV) and the other a high-voltage (30-60 kV) electron beam gun. Aluminum alloy 2219 was processed over a range of different variables to explore the design space and correlate the resultant microstructures with the processing parameters. This report is specifically exploring the impact of accelerating voltage. Of particular interest is correlating energy to the resultant material characteristics to determine the potential of achieving microstructural control through precise management of the heat flux and cooling rates during deposition.

Evaluating the performance of ENVI-met model in diurnal cycles for different meteorological conditions

NASA Astrophysics Data System (ADS)

Acero, Juan A.; Arrizabalaga, Jon

2018-01-01

Urban areas are known to modify meteorological variables producing important differences in small spatial scales (i.e. microscale). These affect human thermal comfort conditions and the dispersion of pollutants, especially those emitted inside the urban area, which finally influence quality of life and the use of public open spaces. In this study, the diurnal evolution of meteorological variables measured in four urban spaces is compared with the results provided by ENVI-met (v 4.0). Measurements were carried out during 3 days with different meteorological conditions in Bilbao in the north of the Iberian Peninsula. The evaluation of the model accuracy (i.e. the degree to which modelled values approach measured values) was carried out with several quantitative difference metrics. The results for air temperature and humidity show a good agreement of measured and modelled values independently of the regional meteorological conditions. However, in the case of mean radiant temperature and wind speed, relevant differences are encountered highlighting the limitation of the model to estimate these meteorological variables precisely during diurnal cycles, in the considered evaluation conditions (sites and weather).

Diversity of human immunodeficiency virus type 1 subtypes in Kagera and Kilimanjaro regions, Tanzania.

PubMed

Nyombi, Balthazar M; Kristiansen, Knut I; Bjune, Gunnar; Müller, Fredrik; Holm-Hansen, Carol

2008-06-01

A strategy to prevent the spread of HIV-1 worldwide is complicated by the high genetic diversity of the virus. To gain a better understanding of the HIV-1 genetic diversity in Tanzania, a molecular epidemiological investigation was conducted in Kagera and Kilimanjaro regions. While several studies have addressed HIV-1 subtypes in Tanzania, this is the first study to describe the virus subtypes circulating in Kagera. The Kagera region is the epicenter of the HIV-1 epidemic in Africa, and it was therefore of interest to compare the prevalence of HIV subtypes in this region and Kilimanjaro. Blood samples were obtained from 246 HIV-1-infected pregnant women attending antenatal clinics. Plasma HIV-1 RNA was extracted, amplified, and sequenced in the env C2V3 and/or pol regions from 209 samples. Based on the analysis of env C2V3 and pol sequences, 47.4% had concordant subtypes, 19.1% were discordant indicating recombination, and for 33.5% sequences were obtained for only one region. The distribution HIV-1 subtypes based on the phylogenetic analysis of paired env C2V3/ pol sequences in Kagera region was A/A (27.8%), C/C (29.6%), D/D (16.7%), and unique recombinant forms (25.9%), and in Kilimanjaro region was A/A (32.9%), C/C (25.9%), D/D (10.6%), CRF10_CD (1.2%), and unique recombinant forms (29.4%). The env C2V3 subsubtype A2 and env C2V3/pol CRF10_CD were also observed indicating that these recombinants are circulating in Tanzania. The high diversity of HIV-1 subtypes and the high prevalence of recombinants demonstrated in this study necessitate expanded and continuous monitoring of the epidemic in Tanzania. The trend may have implications for current national control strategies against the HIV-1 epidemic.

X-ray spectrum and variability of the quasar PG 1211+143

NASA Technical Reports Server (NTRS)

Yaqoob, Tahir; Serlemitsos, Peter; Mushotzky, Richard; Madejski, Greg; Turner, T. Jane; Kunieda, Hideyo

1994-01-01

We present preliminary results of an ASCA observation of the classic soft-excess quasar PG 1211+143. The overall ASCA spectrum can be characterized by a blackbody with a temperature of approximately 125 eV (quasar frame) and a power law with photon index of approximately 2. Simultaneous ROSAT data are suggestive of further steepening of the spectrum just below the ASCA band. Comparison with previous observations shows that the soft flux in the 0.1-2 keV band varies by at least a factor of approximately 16, scaling roughly as the square of the hard flux in the 2-10 keV band over a timescale of approximately 13.5 yr. We also find evidence of short-term amplitude variability of up to a factor of approximately 2 on a timescale of approximately 2 x 10(exp 4) sec, in both the soft and hard flux so that the soft and hard photons are likely to originate from the same, compact, region. The data rule out variable absorption (cold or ionized) as the origin of the soft excess, favoring an intrinsic emission component. However, we argue against optically thin emission for the 'blue bump' in PG 1211+143. The large amplitude soft X-ray variability may be indicative of variations in the effective temperature, or peak, of the soft component. There is only marginal evidence for Fe K line emission between 6-7 keV in the quasar frame.

Design Optimization of Ge/GaAs-Based Heterojunction Gate-All-Around (GAA) Arch-Shaped Tunneling Field-Effect Transistor (A-TFET).

PubMed

Seo, Jae Hwa; Yoon, Young Jun; Kang, In Man

2018-09-01

The Ge/GaAs-based heterojunction gate-all-around (GAA) arch-shaped tunneling field-effect transistor (A-TFET) have been designed and optimized using technology computer-aided design (TCAD) simulations. In our previous work, the silicon-based A-TFET was designed and demonstrated. However, to progress the electrical characteristics of A-TFET, the III-V compound heterojunction structures which has enhanced electrical properties must be adopted. Thus, the germanium with gallium arsenide (Ge/GaAs) is considered as key materials of A-TFET. The proposed device has a Ge-based p-doped source, GaAs-based i-doped channel and GaAs-based n-doped drain. Due to the critical issues of device performances, the doping concentration of source and channel region (Dsource, Dchannel), height of source region (Hsource) and epitaxially grown thickness of channel (tepi) was selected as design optimization variables of Ge/GaAs-based GAA A-TFET. The DC characteristics such as on-state current (ion), off-state current (ioff), subthreshold-swing (S) were of extracted and analyzed. Finally, the proposed device has a gate length (LG) of 90 nm, Dsource 5 × 1019 cm-3, Dchannel of 1018 cm-3, tepi of 4 nm, Hsource of 90 nm, R of 10 nm and demonstrate an ion of 2 mA/μm, S of 12.9 mV/dec.

OPTICAL PHOTOMETRIC AND POLARIMETRIC INVESTIGATION OF NGC 1931

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pandey, A. K.; Eswaraiah, C.; Sharma, Saurabh

We present optical photometric and polarimetric observations of stars toward NGC 1931 with the aim of deriving cluster parameters such as distance, reddening, age, and luminosity/mass function as well as understanding dust properties and star formation in the region. The distance to the cluster is found to be 2.3 {+-} 0.3 kpc and the reddening E(B - V) in the region is found to be variable. The stellar density contours reveal two clusters in the region. The observations suggest a differing reddening law within the cluster region. Polarization efficiency of the dust grains toward the direction of the cluster ismore » found to be less than that for the general diffuse interstellar medium (ISM). The slope of the mass function (-0.98 {+-} 0.22) in the southern region in the mass range of 0.8 < M/M {sub Sun} < 9.8 is found to be shallower in comparison to that in the northern region (-1.26 {+-} 0.23), which is comparable to the Salpeter value (-1.35). The K-band luminosity function (KLF) of the region is found to be comparable to the average value of the slope ({approx}0.4) for young clusters obtained by Lada and Lada; however, the slope of the KLF is steeper in the northern region as compared to the southern region. The region is probably ionized by two B2 main-sequence-type stars. The mean age of the young stellar objects (YSOs) is found to be 2 {+-} 1 Myr, which suggests that the identified YSOs could be younger than the ionizing sources of the region. The morphology of the region, the distribution and ages of the YSOs, and ionizing sources indicate a triggered star formation in the region.« less

Regional changes in vertebra morphology during ontogeny reflect the life history of Atlantic cod (Gadus morhua L.)

PubMed Central

Fjelldal, Per G; Totland, Geir K; Hansen, Tom; Kryvi, Harald; Wang, Xiyuan; Søndergaard, Jens L; Grotmol, Sindre

2013-01-01

This study examined vertebra formation, morphology, regional characters, and bending properties of the vertebral column of Atlantic cod throughout its life cycle (0–6 years). The first structure to form was the foremost neural arch, 21 days post hatching (dph), and the first vertebra centrum to form – as a chordacentrum – was the 3rd centrum at 28 dph. Thereafter, the notochord centra developed in a regular sequence towards the head and caudal fin. All vertebrae were formed within 50 dph. The vertebral column consisted of 52 (± 2) vertebrae (V) and could be divided into four distinct regions: (i) the cervical region (neck) (V1 and V2), characterized by short vertebra centra, prominent neural spines and absence of articulations with ribs; (ii) the abdominal region (trunk) (V3–V19), characterized by vertebrae with wing-shaped transverse processes (parapophyses) that all articulate with a rib; (iii) the caudal region (tail) (V20–V40), where the vertebra centra have haemal arches with prominent haemal spines; (iv) the ural region (V41 to the last vertebra), characterized by broad neural and haemal spines, providing sites of origin for muscles inserting on the fin rays – lepidotrichs – of the tail fin. The number of vertebrae in the cervical, abdominal and caudal regions was found to be constant, whereas in the ural region, numbers varied from 12 to 15. Geometric modelling based on combination of vertebra lengths, diameters and intervertebral distances showed an even flexibility throughout the column, except in the ural region, where flexibility increased. Throughout ontogeny, the vertebra centra of the different regions followed distinct patterns of growth; the relative length of the vertebrae increased in the cervical and abdominal regions, and decreased in the caudal and ural regions with increasing age. This may reflect changes in swimming mode with age, and/or that the production of large volumes of gametes during sexual maturation requires a significant increase in abdominal cavity volume. PMID:23587057

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kimura, Shin-Ichi; Ito, Takahiro; Hosaka, Masahito

A novel variably polarized angle-resolved photoemission spectroscopy beamline in the vacuum-ultraviolet (VUV) region has been installed at the UVSOR-II 750 MeV synchrotron light source. The beamline is equipped with a 3 m long APPLE-II type undulator with horizontally/vertically linear and right/left circular polarizations, a 10 m Wadsworth type monochromator covering a photon energy range of 6-43 eV, and a 200 mm radius hemispherical photoelectron analyzer with an electron lens of a {+-}18 deg. acceptance angle. Due to the low emittance of the UVSOR-II storage ring, the light source is regarded as an entrance slit, and the undulator light is directlymore » led to a grating by two plane mirrors in the monochromator while maintaining a balance between high-energy resolution and high photon flux. The energy resolving power (h{nu}/{Delta}h{nu}) and photon flux of the monochromator are typically 1x10{sup 4} and 10{sup 12} photons/s, respectively, with a 100 {mu}m exit slit. The beamline is used for angle-resolved photoemission spectroscopy with an energy resolution of a few meV covering the UV-to-VUV energy range.« less

1.5Mb deletion of chromosome 4p16.3 associated with postnatal growth delay, psychomotor impairment, epilepsy, impulsive behavior and asynchronous skeletal development.

PubMed

Misceo, D; Barøy, T; Helle, J R; Braaten, O; Fannemel, M; Frengen, E

2012-10-01

Several Wolf-Hirschhorn syndrome patients have been studied, mouse models for a few candidate genes have been constructed and two WHS critical regions have been postulated, but the molecular basis of the syndrome remains poorly understood. Single gene contributions to phenotypes of microdeletion syndromes have often been based on the study of patients carrying small, atypical deletions. We report a 5-year-old girl harboring an atypical 1.5Mb del4p16.3 and review seven previously published patients carrying a similar deletion. They show a variable clinical presentation and the only consistent feature is post-natal growth delay. However, four of eight patients carry a ring (4), and ring chromosomes in general are associated with growth deficiency. The Greek helmet profile is absent, although a trend towards common dysmorphic features exists. Variable expressivity and incomplete penetrance might play a role in WHS, resulting in difficult clinical diagnosis and challenge in understanding of the genotype/phenotype correlation. Copyright © 2012 Elsevier B.V. All rights reserved.

The variable star population in the globular cluster NGC 6934

NASA Astrophysics Data System (ADS)

Yepez, M. A.; Arellano Ferro, A.; Muneer, S.; Giridhar, Sunetra

2018-04-01

We report an analysis of new V and I CCD time-series photometry of the globular cluster NGC 6934. Through the Fourier decomposition of the RR Lyrae light curves the mean values of [Fe/H] and the distance of the cluster were estimated; we found: [Fe/H]UVES = - 1.48 ± 0.14 and d = 16.03 ± 0.42 kpc, and [Fe/H]UVES = - 1.43 ± 0.11 and d = 15.91 ± 0.39 kpc, from the calibrations of RRab and RRc stars respectively. Independent distance estimations from SX Phe and SR stars are also discussed. Individual absolute magnitudes, radii and masses are also reported for RR Lyrae stars. We found 12 new variables: 4 RRab, 3 SX Phe, 2 W Virginis (CW) and 3 semi-regular (SR). The inter-mode or "either-or" region in the instability strip is shared by the RRab and RRc stars. This characteristic, observed only in some OoI clusters and never seen in an OoII, is discussed in terms of mass distribution in the ZAHB.

Transmission disequilibrium testing of arginine vasopressin receptor 1A (AVPR1A) polymorphisms in autism.

PubMed

Kim, S-J; Young, L J; Gonen, D; Veenstra-VanderWeele, J; Courchesne, R; Courchesne, E; Lord, C; Leventhal, B L; Cook, E H; Insel, T R

2002-01-01

Impairment in social reciprocity is a central component of autism. In preclinical studies, arginine vasopressin (AVP) has been shown to increase a range of social behaviors, including affiliation and attachment, via the V(1a) receptor (AVPR1A) in the brain. Both the behavioral effects of AVP and the neural distribution of the V1a receptor vary greatly across mammalian species. This difference in regional receptor expression as well as differences in social behavior may result from a highly variable repetitive sequence in the 5' flanking region of the V1a gene (AVPR1A). Given this comparative evidence for a role in inter-species variation in social behavior, we explored whether within our own species, variation in the human AVPR1A may contribute to individual variations in social behavior, with autism representing an extreme form of social impairment. We genotyped two microsatellite polymorphisms from the 5' flanking region of AVPR1A for 115 autism trios and found nominally significant transmission disequilibrium between autism and one of the microsatellite markers by Multiallelic Transmission/Disequilibrium test (MTDT) that was not significant after Bonferroni correction. We also screened approximately 2 kb of the 5' flanking region and the coding region and identified 10 single nucleotide polymorphisms.

Inter-individual and intragenomic variations in the ITS region of Clonorchis sinensis (Trematoda: Opisthorchiidae) from Russia and Vietnam.

PubMed

Tatonova, Yulia V; Chelomina, Galina N; Nguyen, Hung Manh

2017-11-01

Here we examined the intraspecific genetic variability of Clonorchis sinensis from Russia and Vietnam using nuclear DNA sequences (the 5.8S gene and two internal transcribed spacers of the ribosomal cluster). Despite the low level of variability in the ITS1 region, this marker has revealed some features of C. sinensis across multiple geographic regions. The genetic diversity levels for the Russian and Vietnamese populations were similar (0.1 and 0.09%, respectively) but were significantly lower than the C. sinensis from China (0.31%). About half of the sequences of the Chinese (53%) and Korean (47%) populations and about a tenth of the Vietnamese (12%) and Russian (8%) sequences included a 5bp insertion. No sequences with nucleotide substitutions both upstream and downstream of the 5bp insertion were found within the whole data set. The population of northern China had both sequence variants (with substitutions either upstream or downstream of the insertion), while only one of these variants was presented at the other localities. The Vietnamese population had a higher frequency of intragenomic polymorphism than the Russian population (69% vs. 46% and 23% vs. 3% at the 114bp and 339bp positions, respectively). These data are discussed in connection with parasite origin and adaptation, and also its invasive capacity and drug-resistance. Copyright © 2017 Elsevier B.V. All rights reserved.

Testing the Auroral Current-Voltage Relation in Multiple Arcs

NASA Astrophysics Data System (ADS)

Cameron, T. G.; Knudsen, D. J.; Cully, C. M.

2013-12-01

The well-known current-voltage relation within auroral inverted-V regions [Knight, Planet. Space Sci., 21, 741, 1973] predicts current carried by an auroral flux tube given the total potential drop between a plasma-sheet source region and the ionosphere. Numerous previous studies have tested this relation using spacecraft that traverse auroral arcs at low (ionospheric) or mid altitudes. Typically, the potential drop is estimated at the peak of the inverted-V, and field-aligned current is estimated from magnetometer data; statistical information is then gathered over many arc crossings that occur over a wide range of source conditions. In this study we use electron data from the FAST satellite to examine the current-voltage relation in multiple arc sets, in which the key source parameters (plasma sheet density and temperature) are presumed to be identical. We argue that this approach provides a more sensitive test of the Knight relation, and we seek to explain remaining variability with factors other than source variability. This study is supported by a grant from the Natural Sciences and Engineering Research Council of Canada.

Antibody Light-Chain-Restricted Recognition of the Site of Immune Pressure in the RV144 HIV-1 Vaccine Trial Is Phylogenetically Conserved

DOE PAGES

Wiehe, Kevin; Easterhoff, David; Luo, Kan; ...

2014-11-29

In HIV-1, the ability to mount antibody responses to conserved, neutralizing epitopes is critical for protection. Here we have studied the light chain usage of human and rhesus macaque antibodies targeted to a dominant region of the HIV-1 envelope second variable (V2) region involving lysine (K) 169, the site of immune pressure in the RV144 vaccine efficacy trial. We found that humans and rhesus macaques used orthologous lambda variable gene segments encoding a glutamic acid-aspartic acid (ED) motif for K169 recognition. Structure determination of an unmutated ancestor antibody demonstrated that the V2 binding site was preconfigured for ED motif-mediated recognitionmore » prior to maturation. Thus, light chain usage for recognition of the site of immune pressure in the RV144 trial is highly conserved across species. In conclusion, these data indicate that the HIV-1 K169-recognizing ED motif has persisted over the diversification between rhesus macaques and humans, suggesting an evolutionary advantage of this antibody recognition mode.« less

Antibody Light-Chain-Restricted Recognition of the Site of Immune Pressure in the RV144 HIV-1 Vaccine Trial Is Phylogenetically Conserved

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wiehe, Kevin; Easterhoff, David; Luo, Kan

In HIV-1, the ability to mount antibody responses to conserved, neutralizing epitopes is critical for protection. Here we have studied the light chain usage of human and rhesus macaque antibodies targeted to a dominant region of the HIV-1 envelope second variable (V2) region involving lysine (K) 169, the site of immune pressure in the RV144 vaccine efficacy trial. We found that humans and rhesus macaques used orthologous lambda variable gene segments encoding a glutamic acid-aspartic acid (ED) motif for K169 recognition. Structure determination of an unmutated ancestor antibody demonstrated that the V2 binding site was preconfigured for ED motif-mediated recognitionmore » prior to maturation. Thus, light chain usage for recognition of the site of immune pressure in the RV144 trial is highly conserved across species. In conclusion, these data indicate that the HIV-1 K169-recognizing ED motif has persisted over the diversification between rhesus macaques and humans, suggesting an evolutionary advantage of this antibody recognition mode.« less

Impacts of seasonal and regional variability in biogenic VOC emissions on surface ozone in the Pearl River Delta region, China

DOE Office of Scientific and Technical Information (OSTI.GOV)

Situ, S.; Guenther, Alex B.; Wang, X. J.

In this study, the BVOC emissions in November 2010 over the Pearl River Delta (PRD) region in southern China have been estimated by the latest version of a Biogenic Volatile Organic Compound (BVOC) emission model (MEGAN v2.1). The evaluation of MEGAN performance at a representative forest site within this region indicates MEGAN can estimate BVOC emissions reasonably well in this region except overestimating isoprene emission in autumn for reasons that are discussed in this manuscript. Along with the output from MEGAN, the Weather Research and Forecasting model with chemistry (WRF-Chem) is used to estimate the impacts of BVOC emissions onmore » surface ozone in the PRD region. The results show BVOC emissions increase the daytime ozone peak by *3 ppb on average, and the max hourly impacts of BVOC emissions on the daytime ozone peak is 24.8 ppb. Surface ozone mixing ratios in the central area of Guangzhou- Foshan and the western Jiangmen are most sensitive to BVOC emissions BVOCs from outside and central PRD influence the central area of Guangzhou-Foshan and the western Jiangmen significantly while BVOCs from rural PRD mainly influence the western Jiangmen. The impacts of BVOC emissions on surface ozone differ in different PRD cities, and the impact varies in different seasons. Foshan and Jiangmen being most affected in autumn, result in 6.0 ppb and 5.5 ppb increases in surface ozone concentrations, while Guangzhou and Huizhou become more affected in summer. Three additional experiments concerning the sensitivity of surface ozone to MEGAN input variables show that surface ozone is more sensitive to landcover change, followed by emission factors and meteorology.« less

v-Src oncogene product increases sphingosine kinase 1 expression through mRNA stabilization: alteration of AU-rich element-binding proteins.

PubMed

Sobue, S; Murakami, M; Banno, Y; Ito, H; Kimura, A; Gao, S; Furuhata, A; Takagi, A; Kojima, T; Suzuki, M; Nozawa, Y; Murate, T

2008-10-09

Sphingosine kinase 1 (SPHK1) is overexpressed in solid tumors and leukemia. However, the mechanism of SPHK1 overexpression by oncogenes has not been defined. We found that v-Src-transformed NIH3T3 cells showed a high SPHK1 mRNA, SPHK1 protein and SPHK enzyme activity. siRNA of SPHK1 inhibited the growth of v-Src-NIH3T3, suggesting the involvement of SPHK1 in v-Src-induced oncogenesis. v-Src-NIH3T3 showed activations of protein kinase C-alpha, signal transducers and activators of transcription 3 and c-Jun NH(2)-terminal kinase. Their inhibition suppressed SPHK1 expression in v-Src-NIH3T3, whereas their overexpression increased SPHK1 mRNA in NIH3T3. Unexpectedly, the nuclear run-on assay and the promoter analysis using 5'-promoter region of mouse SPHK1 did not show any significant difference between mock- and v-Src-NIH3T3. Furthermore, the half-life of SPHK1 mRNA in mock-NIH3T3 was nearly 15 min, whereas that of v-Src-NIH3T3 was much longer. Examination of two AU-rich region-binding proteins, AUF1 and HuR, that regulate mRNA decay reciprocally, showed decreased total AUF1 protein associated with increased tyrosine-phosphorylated form and increased serine-phosphorylated HuR protein in v-Src-NIH3T3. Modulation of AUF1 and HuR by their overexpression or siRNA revealed that SPHK1 mRNA in v-Src- and mock-NIH3T3 was regulated reciprocally by these factors. Our results showed, for the first time, a novel mechanism of v-Src-induced SPHK1 overexpression.

SteamTables: An approach of multiple variable sets

NASA Astrophysics Data System (ADS)

Verma, Mahendra P.

2009-10-01

Using the IAPWS-95 formulation, an ActiveX component SteamTablesIIE in Visual Basic 6.0 is developed to calculate thermodynamic properties of pure water as a function of two independent intensive variables: (1) temperature ( T) or pressure ( P) and (2) T, P, volume ( V), internal energy ( U), enthalpy ( H), entropy ( S) or Gibbs free energy ( G). The second variable cannot be the same as variable 1. Additionally, it calculates the properties along the separation boundaries (i.e., sublimation, saturation, critical isochor, ice I melting, ice III to ice IIV melting and minimum volume curves) considering the input parameter as T or P for the variable 1. SteamTablesIIE is an extension of the ActiveX component SteamTables implemented earlier considering T (190 to 2000 K) and P (3.23×10 -8 to 10000 MPa) as independent variables. It takes into account the following 27 intensive properties: temperature ( T), pressure ( P), fraction, state, volume ( V), density ( Den), compressibility factor ( Z0), internal energy ( U), enthalpy ( H), Gibbs free energy ( G), Helmholtz free energy ( A), entropy ( S), heat capacity at constant pressure ( C p), heat capacity at constant volume ( C v), coefficient of thermal expansion ( CTE), isothermal compressibility ( Z iso), speed of sound ( VelS), partial derivative of P with T at constant V ( dPdT), partial derivative of T with V at constant P ( dTdV), partial derivative of V with P at constant T ( dVdP), Joule-Thomson coefficient ( JTC), isothermal throttling coefficient ( IJTC), viscosity ( Vis), thermal conductivity ( ThrmCond), surface tension ( SurfTen), Prandtl number ( PrdNum) and dielectric constant ( DielCons).

X-Ray Intraday Variability of Five TeV Blazars with NuSTAR

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pandey, Ashwani; Gupta, Alok C.; Wiita, Paul J., E-mail: ashwanitapan@gmail.com, E-mail: acgupta30@gmail.com, E-mail: wiitap@tcnj.edu

We have examined 40 Nuclear Spectroscopic Telescope Array ( NuSTAR ) light curves (LCs) of five TeV emitting high synchrotron peaked blazars: 1ES 0229+200, Mrk 421, Mrk 501, 1ES 1959+650, and PKS 2155−304. Four of the blazars showed intraday variability in the NuSTAR energy range of 3–79 keV. Using an autocorrelation function analysis we searched for intraday variability timescales in these LCs and found indications of several between 2.5 and 32.8 ks in eight LCs of Mrk 421, a timescale around 8.0 ks for one LC of Mrk 501, and timescales of 29.6 and 57.4 ks in two LCs ofmore » PKS 2155-304. The other two blazars’ LCs do not show any evidence for intraday variability timescales shorter than the lengths of those observations; however, the data were both sparser and noisier for them. We found positive correlations with zero lag between soft (3–10 keV) and hard (10–79 keV) bands for most of the LCs, indicating that their emissions originate from the same electron population. We examined spectral variability using a hardness ratio analysis and noticed a general “harder-when-brighter” behavior. The 22 LCs of Mrk 421 observed between 2012 July and 2013 April show that this source was in a quiescent state for an extended period of time and then underwent an unprecedented double-peaked outburst while monitored on a daily basis during 2013 April 10–16. We briefly discuss models capable of explaining these blazar emissions.« less

Suppression of threshold voltage variability in MOSFETs by adjustment of ion implantation parameters

NASA Astrophysics Data System (ADS)

Park, Jae Hyun; Chang, Tae-sig; Kim, Minsuk; Woo, Sola; Kim, Sangsig

2018-01-01

In this study, we investigate threshold voltage (VTH) variability of metal-oxide-semiconductor field-effect transistors induced by random dopant fluctuation (RDF). Our simulation work demonstrates not only the influence of the implantation parameters such as its dose, tilt angle, energy, and rotation angle on the RDF-induced VTH variability, but also the solution to reduce the effect of this variability. By adjusting the ion implantation parameters, the 3σ (VTH) is reduced from 43.8 mV to 28.9 mV. This 34% reduction is significant, considering that our technique is very cost effective and facilitates easy fabrication, increasing availability.

Surfatron accelerator in the local interstellar cloud

DOE Office of Scientific and Technical Information (OSTI.GOV)

Loznikov, V. M., E-mail: vloznikov@yandex.ru; Erokhin, N. S.; Zol’nikova, N. N.

2017-01-15

Taking into account results of numerous experiments, the variability of the energy spectra of cosmic rays (protons and helium nuclei) in the energy range of 10 GeV to ~10{sup 7} GeV is explained on the basis of a hypothesis of the existence of two variable sources close to the Sun. The first (soft) surfatron source (with a size of ~100 AU) is located at the periphery of the heliosphere. The second (hard) surfatron source (with a size of ~1 pc) is situated in the Local Interstellar Cloud (LIC) at a distance of <1 pc. The constant background is described bymore » a power-law spectrum with a slope of ~2.75. The variable heliospheric surfatron source is described by a power-law spectrum with a variable amplitude, slope, and cutoff energy, the maximum cutoff energy being in the range of E{sub CH}/Z < 1000 GeV. The variable surfatron source in the LIC is described by a power-law spectrum with a variable amplitude, slope, and cut-off energy, the maximum cut-off energy being E{sub Ð}¡{sub L}/Z ≤ 3 × 10{sup 6} GeV. The proposed model is used to approximate data from several experiments performed at close times. The energy of each cosmic-ray component is calculated. The possibility of surfatron acceleration of Fe nuclei (Z = 26) in the LIC up to an energy of E{sub CL} ~ 10{sup 17} eV and electron and positrons to the “knee” in the energy spectrum is predicted. By numerically solving a system of nonlinear equations describing the interaction between an electromagnetic wave and a charged particle with an energy of up to E/Z ~ 3 × 10{sup 6} GeV, the possibility of trapping, confinement, and acceleration of charged cosmic-ray particles by a quasi-longitudinal plasma wave is demonstrated.« less

V1327 Aquilae: A New RR Lyrae variable with an extremely high radial velocity

NASA Astrophysics Data System (ADS)

Galeev, A. I.; Bikmaev, I. F.; Borisov, N. V.; Zhuchkov, R. Ya.; Shimanskii, V. V.; Khabibullina, M. L.; Sakhibullin, N. A.

2008-07-01

We have carried out photometry and spectroscopy of the star V1327 Aql ( R = 16 m ) as part of our program of observations of poorly studied cataclysmic variables using the 1.5-m optical Russian—Turkish telescope (RTT-150, Turkey) and the 6-m telescope of the Special Astrophysical Observatory of the Russian Academy of Sciences. After analyzing our photometry, we have re-classified the variable as an RR Lyrae star. Our BV R photometry during 10 nights reveals brightness variations with the period 12h49m, with the B, V, and R amplitudes being 1.36 m , 1.13 m , and 1.11 m , respectively. We derived the first estimates of the star’s atmospheric parameters from our moderate-resolution spectra: T eff = 6280 K, log g = 3.3, [M/H] = -1.05. The extremely high radial velocity of the star’s motion ( V R = -470 km/s) and the star’s large distances to the Galactic center (13.1 kpc) and disk (4.2 kpc) testify to a probable extragalactic origin of this object.

Strong influence of variable treatment on the performance of numerically defined ecological regions.

PubMed

Snelder, Ton; Lehmann, Anthony; Lamouroux, Nicolas; Leathwick, John; Allenbach, Karin

2009-10-01

Numerical clustering has frequently been used to define hierarchically organized ecological regionalizations, but there has been little robust evaluation of their performance (i.e., the degree to which regions discriminate areas with similar ecological character). In this study we investigated the effect of the weighting and treatment of input variables on the performance of regionalizations defined by agglomerative clustering across a range of hierarchical levels. For this purpose, we developed three ecological regionalizations of Switzerland of increasing complexity using agglomerative clustering. Environmental data for our analysis were drawn from a 400 m grid and consisted of estimates of 11 environmental variables for each grid cell describing climate, topography and lithology. Regionalization 1 was defined from the environmental variables which were given equal weights. We used the same variables in Regionalization 2 but weighted and transformed them on the basis of a dissimilarity model that was fitted to land cover composition data derived for a random sample of cells from interpretation of aerial photographs. Regionalization 3 was a further two-stage development of Regionalization 2 where specific classifications, also weighted and transformed using dissimilarity models, were applied to 25 small scale "sub-domains" defined by Regionalization 2. Performance was assessed in terms of the discrimination of land cover composition for an independent set of sites using classification strength (CS), which measured the similarity of land cover composition within classes and the dissimilarity between classes. Regionalization 2 performed significantly better than Regionalization 1, but the largest gains in performance, compared to Regionalization 1, occurred at coarse hierarchical levels (i.e., CS did not increase significantly beyond the 25-region level). Regionalization 3 performed better than Regionalization 2 beyond the 25-region level and CS values continued to increase to the 95-region level. The results show that the performance of regionalizations defined by agglomerative clustering are sensitive to variable weighting and transformation. We conclude that large gains in performance can be achieved by training classifications using dissimilarity models. However, these gains are restricted to a narrow range of hierarchical levels because agglomerative clustering is unable to represent the variation in importance of variables at different spatial scales. We suggest that further advances in the numerical definition of hierarchically organized ecological regionalizations will be possible with techniques developed in the field of statistical modeling of the distribution of community composition.

The Optical-Mid-infrared Extinction Law of the l = 165° Sightline in the Galactic Plane: Diversity of the Extinction Law in the Diffuse Interstellar Medium

NASA Astrophysics Data System (ADS)

Wang, Shu; Jiang, B. W.; Zhao, He; Chen, Xiaodian; de Grijs, Richard

2017-10-01

Understanding the effects of dust extinction is important to properly interpret observations. The optical total-to-selective extinction ratio, {R}V={A}V/E(B-V), is widely used to describe extinction variations in ultraviolet and optical bands. Since the {R}V=3.1 extinction curve adequately represents the average extinction law of diffuse regions in the Milky Way, it is commonly used to correct observational measurements along sightlines toward diffuse regions in the interstellar medium. However, the {R}V value may vary even along different diffuse interstellar medium sightlines. In this paper, we investigate the optical-mid-infrared (mid-IR) extinction law toward a very diffuse region at l=165^\\circ in the Galactic plane, which was selected based on a CO emission map. Adopting red clump stars as extinction tracers, we determine the optical-mid-IR extinction law for our diffuse region in two APASS bands (B,V), three XSTPS-GAC bands (g,r,I), three 2MASS bands (J,H,{K}s), and two WISE bands (W1,W2). Specifically, 18 red clump stars were selected from the APOGEE-RC catalog based on spectroscopic data in order to explore the diversity of the extinction law. We find that the optical extinction curves exhibit appreciable diversity. The corresponding {R}V ranges from 1.7 to 3.8, while the mean {R}V value of 2.8 is consistent with the widely adopted average value of 3.1 for Galactic diffuse clouds. There is no apparent correlation between {R}V value and color excess E(B-V) in the range of interest, from 0.2 to 0.6 mag, or with specific visual extinction per kiloparsec, {A}V/d.

Assessing hygienic behavior of Apis mellifera unicolor (Hymenoptera: Apidae), the endemic honey bee from Madagascar.

PubMed

Rasolofoarivao, H; Delatte, H; Raveloson Ravaomanarivo, L H; Reynaud, B; Clémencet, J

2015-06-01

Hygienic behavior (HB) is one of the natural mechanisms of honey bee for limiting the spread of brood diseases and Varroa destructor parasitic mite. Objective of our study was to measure HB of Apis mellifera unicolor colonies (N = 403) from three geographic regions (one infested and two free of V. destructor) in Madagascar. The pin-killing method was used for evaluation of the HB. Responses were measured from 3 h 30 min to 7 h after perforation of the cells. Colonies were very effective in detecting perforated cells. In the first 4 h, on average, they detected at least 50% of the pin-killed brood. Six hours after cell perforation, colonies tested (N = 91) showed a wide range of uncapped (0 to 100%) and cleaned cells (0 to 82%). Global distribution of the rate of cleaned cells at 6 h was multimodal and hygienic responses could be split in three classes. Colonies from the three regions showed a significant difference in HB responses. Three hypotheses (geographic, genetic traits, presence of V. destructor) are further discussed to explain variability of HB responses among the regions. Levels of HB efficiency of A. mellifera unicolor colonies are among the greatest levels reported for A. mellifera subspecies. Presence of highly hygienic colonies is a great opportunity for future breeding program in selection for HB.

Intracellular diversity of the V4 and V9 regions of the 18S rRNA in marine protists (radiolarians) assessed by high-throughput sequencing.

PubMed

Decelle, Johan; Romac, Sarah; Sasaki, Eriko; Not, Fabrice; Mahé, Frédéric

2014-01-01

Metabarcoding is a powerful tool for exploring microbial diversity in the environment, but its accurate interpretation is impeded by diverse technical (e.g. PCR and sequencing errors) and biological biases (e.g. intra-individual polymorphism) that remain poorly understood. To help interpret environmental metabarcoding datasets, we investigated the intracellular diversity of the V4 and V9 regions of the 18S rRNA gene from Acantharia and Nassellaria (radiolarians) using 454 pyrosequencing. Individual cells of radiolarians were isolated, and PCRs were performed with generalist primers to amplify the V4 and V9 regions. Different denoising procedures were employed to filter the pyrosequenced raw amplicons (Acacia, AmpliconNoise, Linkage method). For each of the six isolated cells, an average of 541 V4 and 562 V9 amplicons assigned to radiolarians were obtained, from which one numerically dominant sequence and several minor variants were found. At the 97% identity, a diversity metrics commonly used in environmental surveys, up to 5 distinct OTUs were detected in a single cell. However, most amplicons grouped within a single OTU whereas other OTUs contained very few amplicons. Different analytical methods provided evidence that most minor variants forming different OTUs correspond to PCR and sequencing artifacts. Duplicate PCR and sequencing from the same DNA extract of a single cell had only 9 to 16% of unique amplicons in common, and alignment visualization of V4 and V9 amplicons showed that most minor variants contained substitutions in highly-conserved regions. We conclude that intracellular variability of the 18S rRNA in radiolarians is very limited despite its multi-copy nature and the existence of multiple nuclei in these protists. Our study recommends some technical guidelines to conservatively discard artificial amplicons from metabarcoding datasets, and thus properly assess the diversity and richness of protists in the environment.

Dissociating frontal regions that co-lateralize with different ventral occipitotemporal regions during word processing.

PubMed

Seghier, Mohamed L; Price, Cathy J

2013-08-01

The ventral occipitotemporal sulcus (vOT) sustains strong interactions with the inferior frontal cortex during word processing. Consequently, activation in both regions co-lateralize towards the same hemisphere in healthy subjects. Because the determinants of lateralisation differ across posterior, middle and anterior vOT subregions, we investigated whether lateralisation in different inferior frontal regions would co-vary with lateralisation in the three different vOT subregions. A whole brain analysis found that, during semantic decisions on written words, laterality covaried in (1) posterior vOT and the precentral gyrus; (2) middle vOT and the pars opercularis, pars triangularis, and supramarginal gyrus; and (3) anterior vOT and the pars orbitalis, middle frontal gyrus and thalamus. These findings increase the spatial resolution of our understanding of how vOT interacts with other brain areas during semantic categorisation on words. Copyright © 2013 The Authors. Published by Elsevier Inc. All rights reserved.

Dissociating frontal regions that co-lateralize with different ventral occipitotemporal regions during word processing☆

PubMed Central

Seghier, Mohamed L.; Price, Cathy J.

2013-01-01

The ventral occipitotemporal sulcus (vOT) sustains strong interactions with the inferior frontal cortex during word processing. Consequently, activation in both regions co-lateralize towards the same hemisphere in healthy subjects. Because the determinants of lateralisation differ across posterior, middle and anterior vOT subregions, we investigated whether lateralisation in different inferior frontal regions would co-vary with lateralisation in the three different vOT subregions. A whole brain analysis found that, during semantic decisions on written words, laterality covaried in (1) posterior vOT and the precentral gyrus; (2) middle vOT and the pars opercularis, pars triangularis, and supramarginal gyrus; and (3) anterior vOT and the pars orbitalis, middle frontal gyrus and thalamus. These findings increase the spatial resolution of our understanding of how vOT interacts with other brain areas during semantic categorisation on words. PMID:23728081

Human papillomavirus detection in cervical neoplasia attributed to 12 high-risk human papillomavirus genotypes by region.

PubMed

Castellsagué, Xavier; Ault, Kevin A; Bosch, F Xavier; Brown, Darron; Cuzick, Jack; Ferris, Daron G; Joura, Elmar A; Garland, Suzanne M; Giuliano, Anna R; Hernandez-Avila, Mauricio; Huh, Warner; Iversen, Ole-Erik; Kjaer, Susanne K; Luna, Joaquin; Monsonego, Joseph; Muñoz, Nubia; Myers, Evan; Paavonen, Jorma; Pitisuttihum, Punnee; Steben, Marc; Wheeler, Cosette M; Perez, Gonzalo; Saah, Alfred; Luxembourg, Alain; Sings, Heather L; Velicer, Christine

2016-12-01

We estimated the proportion of cervical intraepithelial neoplasia (CIN) cases attributed to 14 HPV types, including quadrivalent (qHPV) (6/11/16/18) and 9-valent (9vHPV) (6/11/16/18/31/33/45/52/58) vaccine types, by region METHODS: Women ages 15-26 and 24-45 years from 5 regions were enrolled in qHPV vaccine clinical trials. Among 10,706 women (placebo arms), 1539 CIN1, 945 CIN2/3, and 24 adenocarcinoma in situ (AIS) cases were diagnosed by pathology panel consensus. Predominant HPV types were 16/51/52/56 (anogenital infection), 16/39/51/52/56 (CIN1), and 16/31/52/58 (CIN2/3). In regions with largest sample sizes, minimal regional variation was observed in 9vHPV type prevalence in CIN1 (~50%) and CIN2/3 (81-85%). Types 31/33/45/52/58 accounted for 25-30% of CIN1 in Latin America and Europe, but 14-18% in North America and Asia. Types 31/33/45/52/58 accounted for 33-38% of CIN2/3 in Latin America (younger women), Europe, and Asia, but 17-18% of CIN2/3 in Latin America (older women) and North America. Non-vaccine HPV types 35/39/51/56/59 had similar or higher prevalence than qHPV types in CIN1 and were attributed to 2-11% of CIN2/3. The 9vHPV vaccine could potentially prevent the majority of CIN1-3, irrespective of geographic region. Notwithstanding, non-vaccine types 35/39/51/56/59 may still be responsible for some CIN1, and to a lesser extent CIN2/3. Copyright © 2016 The Authors. Published by Elsevier B.V. All rights reserved.

The Distorted Winds of V444 Cygni: New Insights from Spectropolarimetry

NASA Astrophysics Data System (ADS)

Hoffman, Jennifer L.; Ashley, Sierra F.; Ornelas, Jose L.; Fullard, Andrew; Lomax, Jamie R.; Shrestha, Manisha; Babler, Brian L.; Bjorkman, Jon Eric; Bjorkman, Karen S.; Davidson, James W.; Meade, Marilyn; Nordsieck, Kenneth H.; Richardson, Noel

2017-01-01

V444 Cygni is a close, eclipsing WR+O binary system characterized by strong X-ray emission and colliding winds whose shapes are distorted by its rapid orbital velocity and powerful radiative forces. It also exhibits periodic polarimetric variability both in the continuum and in the strong emission lines of He II λ4686, Hα+He I λ6560, and N IV λ7125 these line polarization variations probe the distribution of line formation regions in the complex winds. Sparse spectropolarimetric coverage has limited the reliability of the line polarization analysis in past studies. We here present new line polarization curves that incorporate 11 recent observations of V444 Cyg, obtained with the HPOL spectropolarimeter at the University of Toledo’s Ritter Observatory, into the existing dataset. Because most of these data were taken with the blue grating, we focus primarily on the improved He II λ4686 polarization curve. Although the data display significant stochastic variability by virtue of spanning 27 years, the addition of the new observations allows a more robust analysis than was previously possible. We discuss our interpretation of the updated curves in light of current models for V444 Cyg and other WR+O binary systems. Accurately characterizing the structures of the wind collision regions in such systems is key to understanding the evolution of such massive binary systems and properly accounting for their contribution to the supernova (and possible GRB) progenitor population.

Effects of Atlantic warm pool variability over climate of South America tropical transition zone

NASA Astrophysics Data System (ADS)

Ricaurte Villota, Constanza; Romero-Rodríguez, Deisy; Andrés Ordoñez-Zuñiga, Silvio; Murcia-Riaño, Magnolia; Coca-Domínguez, Oswaldo

2016-04-01

Colombia is located in the northwestern corner of South America in a climatically complex region due to the influence processes modulators of climate both the Pacific and Atlantic region, becoming in a transition zone between phenomena of northern and southern hemisphere. Variations in the climatic conditions of this region, especially rainfall, have been attributed to the influence of the El Nino Southern Oscillation (ENSO), but little is known about the interaction within Atlantic Ocean and specifically Caribbean Sea with the environmental conditions of this region. In this work We studied the influence of the Atlantic Warm Pool (AWP) on the Colombian Caribbean (CC) climate using data of Sea Surface Temperature (SST) between 1900 - 2014 from ERSST V4, compared with in situ data SIMAC (National System for Coral Reef Monitoring in Colombia - INVEMAR), rainfall between 1953-2013 of meteorological stations located at main airports in the Colombian Caribbean zone, administered by IDEAM, and winds data between 2003 - 2014 from WindSat sensor. The parameters analyzed showed spatial differences throughout the study area. SST anomalies, representing the variability of the AWP, showed to be associated with Multidecadal Atlantic Oscillation (AMO) and with the index of sea surface temperature of the North-tropical Atlantic (NTA), the variations was on 3 to 5 years on the ENSO scale and of approximately 11 years possibly related to solar cycles. Rainfall anomalies in the central and northern CC respond to changes in SST, while in the south zone these are not fully engage and show a high relationship with the ENSO. Finally, the winds also respond to changes in SST and showed a signal approximately 90 days possibly related to the Madden-Julian Oscillation, whose intensity depends on the CC region being analyzed. The results confirm that region is a transition zone in which operate several forcing, the variability of climate conditions is difficult to attribute only one, as ENSO, since the role of the AWP in the climate of this region and especially in the central part proves to be decisive, probably due to changes in moisture and heat flows transferred to the atmosphere.

Geophysical variables and behavior: XXI. Geomagnetic variation as possible enhancement stimuli for UFO reports preceding earthtremors.

PubMed

Persinger, M A

1985-02-01

The contribution of geomagnetic variation to the occurrence of UFORs (reports of UFOs) within the New Madrid States during the 6-mo. increments before increases in the numbers of IV-V or less intensity earthquakes within the central USA was determined. Although statistically significant zero-order correlations existed between measures of earthquakes, UFORs and geomagnetic variability, the association between the latter two deteriorated markedly when their shared variance with earthquakes was held constant. These outcomes are compatible with the hypothesis that geomagnetic variability (or phenomena associated with it) may enhance UFORs but only if tectonic stress and strain are increasing within the region.

Observations of cataclysmic variables with IUE

NASA Technical Reports Server (NTRS)

Hartmann, L.; Raymond, J.

1981-01-01

Observations are reported of the cataclysmic variables AN UMa, 2AO311-227, VV Pup, DQ Her, and GK Per. Continuum emission was detected in the short wavelength region in DQ Her. This object exhibits a quasi-blackbody spectrum at short wavelengths, such blackbody components are a common property of the variables AM Her, SS Cyg, and U Gem, suggesting an underlying similarity in the activity of these diverse systems. Flat continuum components at longer wavelengths in general are not compatible with standard disk models. The emission line ratios in AE Aqr are anomalous in that C IV is absent to a very low level relative to N V.

Resolving the Large Scale Spectral Variability of the Luminous Seyfert 1 Galaxy 1H 0419-577

NASA Technical Reports Server (NTRS)

Pounds, K. A.; Reeves, J. N.; Page, K. L.; OBrien, P. T.

2004-01-01

An XMM-Newton observation of the luminous Seyfert 1 galaxy 1H 0419-577 in September 2002, when the source was in an extreme low-flux state, found a very hard X-ray spectrum at 1-10 keV with a strong soft excess below approximately 1 keV. Comparison with an earlier XMM-Newton observation when 1H 0419-577 was X-ray bright indicated the dominant spectral variability was due to a steep power law or cool Comptonized thermal emission. Four further XMM-Newton observations, with 1H 0419-577 in intermediate flux states, now support that conclusion, while we also find the variable emission component in intermediate state difference spectra to be strongly modified by absorption in low ionisation matter. The variable soft excess is seen to be an artefact of absorption of the underlying continuum while the core soft emission is attributed to recombination in an extended region of more highly ionised gas. This new analysis underlines the importance of fully accounting for absorption in characterizing AGN X-ray spectra.

DsaV methyltransferase and its isoschizomers contain a conserved segment that is similar to the segment in Hhai methyltransferase that is in contact with DNA bases.

PubMed Central

Gopal, J; Yebra, M J; Bhagwat, A S

1994-01-01

The methyltransferase (MTase) in the DsaV restriction--modification system methylates within 5'-CCNGG sequences. We have cloned the gene for this MTase and determined its sequence. The predicted sequence of the MTase protein contains sequence motifs conserved among all cytosine-5 MTases and is most similar to other MTases that methylate CCNGG sequences, namely M.ScrFI and M.SsoII. All three MTases methylate the internal cytosine within their recognition sequence. The 'variable' region within the three enzymes that methylate CCNGG can be aligned with the sequences of two enzymes that methylate CCWGG sequences. Remarkably, two segments within this region contain significant similarity with the region of M.HhaI that is known to contact DNA bases. These alignments suggest that many cytosine-5 MTases are likely to interact with DNA using a similar structural framework. Images PMID:7971279

The Search for Bright Variable Stars in Open Cluster NGC 6819.

NASA Astrophysics Data System (ADS)

Talamantes, Antonio; Sandquist, E. L.

2009-01-01

During this research period data was taken for seven nights at the 1m telescope at Mt. Laguna Observatory for the open cluster NGC 6819. For four of the nights data was taken using a V-band filter. For the three nights remaining nights the data was taken using an R-band filter. Photometry was done using the ISIS image subtraction package. Six new variable stars were located using these techniques. These variable types include a pulsating variable, five detached eclipsing binaries. Of the detached eclipsing binaries, three are near the cluster turnoff and two in the blue straggler region(and one of these has total eclipses). Nine previously known variables(six contact binaries, two detached eclipsing binaries and one near-contact binary) were also studied.

Detection and Identification of Gastrointestinal Lactobacillus Species by Using Denaturing Gradient Gel Electrophoresis and Species-Specific PCR Primers

PubMed Central

Walter, J.; Tannock, G. W.; Tilsala-Timisjarvi, A.; Rodtong, S.; Loach, D. M.; Munro, K.; Alatossava, T.

2000-01-01

Denaturing gradient gel electrophoresis (DGGE) of DNA fragments obtained by PCR amplification of the V2-V3 region of the 16S rRNA gene was used to detect the presence of Lactobacillus species in the stomach contents of mice. Lactobacillus isolates cultured from human and porcine gastrointestinal samples were identified to the species level by using a combination of DGGE and species-specific PCR primers that targeted 16S-23S rRNA intergenic spacer region or 16S rRNA gene sequences. The identifications obtained by this approach were confirmed by sequencing the V2-V3 region of the 16S rRNA gene and by a BLAST search of the GenBank database. PMID:10618239

Optimisation of 16S rRNA gut microbiota profiling of extremely low birth weight infants.

PubMed

Alcon-Giner, Cristina; Caim, Shabhonam; Mitra, Suparna; Ketskemety, Jennifer; Wegmann, Udo; Wain, John; Belteki, Gusztav; Clarke, Paul; Hall, Lindsay J

2017-11-02

Infants born prematurely, particularly extremely low birth weight infants (ELBW) have altered gut microbial communities. Factors such as maternal health, gut immaturity, delivery mode, and antibiotic treatments are associated with microbiota disturbances, and are linked to an increased risk of certain diseases such as necrotising enterocolitis. Therefore, there is a requirement to optimally characterise microbial profiles in this at-risk cohort, via standardisation of methods, particularly for studying the influence of microbiota therapies (e.g. probiotic supplementation) on community profiles and health outcomes. Profiling of faecal samples using the 16S rRNA gene is a cost-efficient method for large-scale clinical studies to gain insights into the gut microbiota and additionally allows characterisation of cohorts were sample quantities are compromised (e.g. ELBW infants). However, DNA extraction method, and the 16S rRNA region targeted can significantly change bacterial community profiles obtained, and so confound comparisons between studies. Thus, we sought to optimise a 16S rRNA profiling protocol to allow standardisation for studying ELBW infant faecal samples, with or without probiotic supplementation. Using ELBW faecal samples, we compared three different DNA extraction methods, and subsequently PCR amplified and sequenced three hypervariable regions of the 16S rRNA gene (V1 + V2 + V3), (V4 + V5) and (V6 + V7 + V8), and compared two bioinformatics approaches to analyse results (OTU and paired end). Paired shotgun metagenomics was used as a 'gold-standard'. Results indicated a longer bead-beating step was required for optimal bacterial DNA extraction and that sequencing regions (V1 + V2 + V3) and (V6 + V7 + V8) provided the most representative taxonomic profiles, which was confirmed via shotgun analysis. Samples sequenced using the (V4 + V5) region were found to be underrepresented in specific taxa including Bifidobacterium, and had altered diversity profiles. Both bioinformatics 16S rRNA pipelines used in this study (OTU and paired end) presented similar taxonomic profiles at genus level. We determined that DNA extraction from ELBW faecal samples, particularly those infants receiving probiotic supplementation, should include a prolonged beat-beating step. Furthermore, use of the 16S rRNA (V1 + V2 + V3) and (V6 + V7 + V8) regions provides reliable representation of ELBW microbiota profiles, while inclusion of the (V4 + V5) region may not be appropriate for studies where Bifidobacterium constitutes a resident microbiota member.

Independent variable complexity for regional regression of the flow duration curve in ungauged basins

NASA Astrophysics Data System (ADS)

Fouad, Geoffrey; Skupin, André; Hope, Allen

2016-04-01

The flow duration curve (FDC) is one of the most widely used tools to quantify streamflow. Its percentile flows are often required for water resource applications, but these values must be predicted for ungauged basins with insufficient or no streamflow data. Regional regression is a commonly used approach for predicting percentile flows that involves identifying hydrologic regions and calibrating regression models to each region. The independent variables used to describe the physiographic and climatic setting of the basins are a critical component of regional regression, yet few studies have investigated their effect on resulting predictions. In this study, the complexity of the independent variables needed for regional regression is investigated. Different levels of variable complexity are applied for a regional regression consisting of 918 basins in the US. Both the hydrologic regions and regression models are determined according to the different sets of variables, and the accuracy of resulting predictions is assessed. The different sets of variables include (1) a simple set of three variables strongly tied to the FDC (mean annual precipitation, potential evapotranspiration, and baseflow index), (2) a traditional set of variables describing the average physiographic and climatic conditions of the basins, and (3) a more complex set of variables extending the traditional variables to include statistics describing the distribution of physiographic data and temporal components of climatic data. The latter set of variables is not typically used in regional regression, and is evaluated for its potential to predict percentile flows. The simplest set of only three variables performed similarly to the other more complex sets of variables. Traditional variables used to describe climate, topography, and soil offered little more to the predictions, and the experimental set of variables describing the distribution of basin data in more detail did not improve predictions. These results are largely reflective of cross-correlation existing in hydrologic datasets, and highlight the limited predictive power of many traditionally used variables for regional regression. A parsimonious approach including fewer variables chosen based on their connection to streamflow may be more efficient than a data mining approach including many different variables. Future regional regression studies may benefit from having a hydrologic rationale for including different variables and attempting to create new variables related to streamflow.

Transcription factor Sp1 regulates T-type Ca(2+) channel CaV 3.1 gene expression.

PubMed

González-Ramírez, Ricardo; Martínez-Hernández, Elizabeth; Sandoval, Alejandro; Felix, Ricardo

2014-05-01

Voltage-gated T-type Ca(2+) (CaV 3) channels mediate a number of physiological events in developing and mature cells, and are implicated in neurological and cardiovascular diseases. In mammals, there are three distinct T-channel genes (CACNA1G, CACNA1H, and CACNA1I) encoding proteins (CaV 3.1-CaV 3.3) that differ in their localization as well as in molecular, biophysical, and pharmacological properties. The CACNA1G is a large gene that contains 38 exons and is localized in chromosome 17q22. Only basic characteristics of the CACNA1G gene promoter region have been investigated classifying it as a TATA-less sequence containing several potential transcription factor-binding motifs. Here, we cloned and characterized a proximal promoter region and initiated the analysis of transcription factors that control CaV 3.1 channel expression using the murine Cacna1g gene as a model. We isolated a ∼1.5 kb 5'-upstream region of Cacna1g and verified its transcriptional activity in the mouse neuroblastoma N1E-115 cell line. In silico analysis revealed that this region possesses a TATA-less minimal promoter that includes two potential transcription start sites and four binding sites for the transcription factor Sp1. The ability of one of these sites to interact with the transcription factor was confirmed by electrophoretic mobility shift assays. Consistent with this, Sp1 over-expression enhanced promoter activity while siRNA-mediated Sp1 silencing significantly decreased the level of CaV 3.1 protein and reduced the amplitude of whole-cell T-type Ca(2+) currents expressed in the N1E-115 cells. These results provide new insights into the molecular mechanisms that control CaV 3.1 channel expression. © 2013 Wiley Periodicals, Inc.

Measurement of the ZZ production cross section in proton-proton collisions at $$ \\sqrt{s}=8 $$ TeV using the ZZ → ℓ –ℓ +ℓ'ℓ' + and $$ZZ\\to {\\ell}^{-}{\\ell}^{+}\

DOE Office of Scientific and Technical Information (OSTI.GOV)

Aaboud, M.; Aad, G.; Abbott, B.

A measurement of the ZZ production cross section in the ℓ –ℓ +ℓ' –ℓ' + and ℓ –ℓ +νν¯channels (ℓ = e, μ) in proton-proton collisions at √s = 8TeV at the Large Hadron Collider at CERN, using data corresponding to an integrated luminosity of 20.3 fb –1 collected by the ATLAS experiment in 2012 is presented. The fiducial cross sections for ZZ → ℓ –ℓ +ℓ' –ℓ' + and ZZ → ℓ –ℓ +νν¯ are measured in selected phase-space regions. The total cross section for ZZ events produced with both Z bosons in the mass range 66 to 116more » GeV is measured from the combination of the two channels to be 7.3±0.4(stat)±0.3(syst) –0.1 –0.2(lumi)pb, which is consistent with the Standard Model prediction of 6.6 –0.6 +0.7pb. The differential cross sections in bins of various kinematic variables are presented. The differential event yield as a function of the transverse momentum of the leading Z boson is used to set limits on anomalous neutral triple gauge boson couplings in ZZ production.« less

High energy gamma ray astronomy

NASA Technical Reports Server (NTRS)

Fichtel, Carl E.

1987-01-01

High energy gamma ray astronomy has evolved with the space age. Nonexistent twenty-five years ago, there is now a general sketch of the gamma ray sky which should develop into a detailed picture with the results expected to be forthcoming over the next decade. The galactic plane is the dominant feature of the gamma ray sky, the longitude and latitude distribution being generally correlated with galactic structural features including the spiral arms. Two molecular clouds were already seen. Two of the three strongest gamma ray sources are pulsars. The highly variable X-ray source Cygnus X-3 was seen at one time, but not another in the 100 MeV region, and it was also observed at very high energies. Beyond the Milky Way Galaxy, there is seen a diffuse radiation, whose origin remains uncertain, as well as at least one quasar, 3C 273. Looking to the future, the satellite opportunities for high energy gamma ray astronomy in the near term are the GAMMA-I planned to be launched in late 1987 and the Gamma Ray Observatory, scheduled for launch in 1990. The Gamma Ray Observatory will carry a total of four instruments covering the entire energy range from 30,000 eV to 3 x 10 to the 10th eV with over an order of magnitude increase in sensitivity relative to previous satellite instruments.

Measurement of the ZZ production cross section in proton-proton collisions at $$ \\sqrt{s}=8 $$ TeV using the ZZ → ℓ –ℓ +ℓ'ℓ' + and $$ZZ\\to {\\ell}^{-}{\\ell}^{+}\

DOE PAGES

Aaboud, M.; Aad, G.; Abbott, B.; ...

2017-01-24

A measurement of the ZZ production cross section in the ℓ –ℓ +ℓ' –ℓ' + and ℓ –ℓ +νν¯channels (ℓ = e, μ) in proton-proton collisions at √s = 8TeV at the Large Hadron Collider at CERN, using data corresponding to an integrated luminosity of 20.3 fb –1 collected by the ATLAS experiment in 2012 is presented. The fiducial cross sections for ZZ → ℓ –ℓ +ℓ' –ℓ' + and ZZ → ℓ –ℓ +νν¯ are measured in selected phase-space regions. The total cross section for ZZ events produced with both Z bosons in the mass range 66 to 116more » GeV is measured from the combination of the two channels to be 7.3±0.4(stat)±0.3(syst) –0.1 –0.2(lumi)pb, which is consistent with the Standard Model prediction of 6.6 –0.6 +0.7pb. The differential cross sections in bins of various kinematic variables are presented. The differential event yield as a function of the transverse momentum of the leading Z boson is used to set limits on anomalous neutral triple gauge boson couplings in ZZ production.« less

The Florida manatee (Trichechus manatus latirostris) immunoglobulin heavy chain suggests the importance of clan III variable segments in repertoire diversity

USGS Publications Warehouse

Breaux, Breanna; Deiss, Thaddeus C.; Chen, Patricia L.; Cruz-Schneider, Maria Paula; Sena, Leonardo; Hunter, Margaret E.; Bonde, Robert K.; Criscitiello, Michael F.

2017-01-01

Manatees are a vulnerable, charismatic sentinel species from the evolutionarily divergent Afrotheria. Manatee health and resistance to infectious disease is of great concern to conservation groups, but little is known about their immune system. To develop manatee-specific tools for monitoring health, we first must have a general knowledge of how the immunoglobulin heavy (IgH) chain locus is organized and transcriptionally expressed. Using the genomic scaffolds of the Florida manatee (Trichechus manatus latirostris), we characterized the potential IgH segmental diversity and constant region isotypic diversity and performed the first Afrotherian repertoire analysis. The Florida manatee has low V(D)J combinatorial diversity (3744 potential combinations) and few constant region isotypes. They also lack clan III V segments, which may have caused reduced VH segment numbers. However, we found productive somatic hypermutation concentrated in the complementarity determining regions. In conclusion, manatees have limited IGHV clan and combinatorial diversity. This suggests that clan III V segments are essential for maintaining IgH locus diversity.

The Florida manatee (Trichechus manatus latirostris) immunoglobulin heavy chain suggests the importance of clan III variable segments in repertoire diversity.

PubMed

Breaux, Breanna; Deiss, Thaddeus C; Chen, Patricia L; Cruz-Schneider, Maria Paula; Sena, Leonardo; Hunter, Margaret E; Bonde, Robert K; Criscitiello, Michael F

2017-07-01

Manatees are a vulnerable, charismatic sentinel species from the evolutionarily divergent Afrotheria. Manatee health and resistance to infectious disease is of great concern to conservation groups, but little is known about their immune system. To develop manatee-specific tools for monitoring health, we first must have a general knowledge of how the immunoglobulin heavy (IgH) chain locus is organized and transcriptionally expressed. Using the genomic scaffolds of the Florida manatee (Trichechus manatus latirostris), we characterized the potential IgH segmental diversity and constant region isotypic diversity and performed the first Afrotherian repertoire analysis. The Florida manatee has low V(D)J combinatorial diversity (3744 potential combinations) and few constant region isotypes. They also lack clan III V segments, which may have caused reduced VH segment numbers. However, we found productive somatic hypermutation concentrated in the complementarity determining regions. In conclusion, manatees have limited IGHV clan and combinatorial diversity. This suggests that clan III V segments are essential for maintaining IgH locus diversity. Copyright © 2017 Elsevier Ltd. All rights reserved.

Sensitivity of global terrestrial carbon cycle dynamics to variability in satellite-observed burned area

NASA Astrophysics Data System (ADS)

Poulter, Benjamin; Cadule, Patricia; Cheiney, Audrey; Ciais, Philippe; Hodson, Elke; Peylin, Philippe; Plummer, Stephen; Spessa, Allan; Saatchi, Sassan; Yue, Chao; Zimmermann, Niklaus E.

2015-02-01

Fire plays an important role in terrestrial ecosystems by regulating biogeochemistry, biogeography, and energy budgets, yet despite the importance of fire as an integral ecosystem process, significant advances remain to improve its prognostic representation in carbon cycle models. To recommend and to help prioritize model improvements, this study investigates the sensitivity of a coupled global biogeography and biogeochemistry model, LPJ, to observed burned area measured by three independent satellite-derived products, GFED v3.1, L3JRC, and GlobCarbon. Model variables are compared with benchmarks that include pantropical aboveground biomass, global tree cover, and CO2 and CO trace gas concentrations. Depending on prescribed burned area product, global aboveground carbon stocks varied by 300 Pg C, and woody cover ranged from 50 to 73 Mkm2. Tree cover and biomass were both reduced linearly with increasing burned area, i.e., at regional scales, a 10% reduction in tree cover per 1000 km2, and 0.04-to-0.40 Mg C reduction per 1000 km2. In boreal regions, satellite burned area improved simulated tree cover and biomass distributions, but in savanna regions, model-data correlations decreased. Global net biome production was relatively insensitive to burned area, and the long-term land carbon sink was robust, 2.5 Pg C yr-1, suggesting that feedbacks from ecosystem respiration compensated for reductions in fuel consumption via fire. CO2 transport provided further evidence that heterotrophic respiration compensated any emission reductions in the absence of fire, with minor differences in modeled CO2 fluxes among burned area products. CO was a more sensitive indicator for evaluating fire emissions, with MODIS-GFED burned area producing CO concentrations largely in agreement with independent observations in high latitudes. This study illustrates how ensembles of burned area data sets can be used to diagnose model structures and parameters for further improvement and also highlights the importance in considering uncertainties and variability in observed burned area data products for model applications.

Plasma IgG to Linear Epitopes in the V2 and V3 Regions of HIV-1 gp120 Correlate with a Reduced Risk of Infection in the RV144 Vaccine Efficacy Trial

PubMed Central

Gottardo, Raphael; Bailer, Robert T.; Korber, Bette T.; Gnanakaran, S.; Phillips, Joshua; Shen, Xiaoying; Tomaras, Georgia D.; Turk, Ellen; Imholte, Gregory; Eckler, Larry; Wenschuh, Holger; Zerweck, Johannes; Greene, Kelli; Gao, Hongmei; Berman, Phillip W.; Francis, Donald; Sinangil, Faruk; Lee, Carter; Nitayaphan, Sorachai; Rerks-Ngarm, Supachai; Kaewkungwal, Jaranit; Pitisuttithum, Punnee; Tartaglia, James; Robb, Merlin L.; Michael, Nelson L.; Kim, Jerome H.; Zolla-Pazner, Susan; Haynes, Barton F.; Mascola, John R.; Self, Steve; Gilbert, Peter; Montefiori, David C.

2013-01-01

Neutralizing and non-neutralizing antibodies to linear epitopes on HIV-1 envelope glycoproteins have potential to mediate antiviral effector functions that could be beneficial to vaccine-induced protection. Here, plasma IgG responses were assessed in three HIV-1 gp120 vaccine efficacy trials (RV144, Vax003, Vax004) and in HIV-1-infected individuals by using arrays of overlapping peptides spanning the entire consensus gp160 of all major genetic subtypes and circulating recombinant forms (CRFs) of the virus. In RV144, where 31.2% efficacy against HIV-1 infection was seen, dominant responses targeted the C1, V2, V3 and C5 regions of gp120. An analysis of RV144 case-control samples showed that IgG to V2 CRF01_AE significantly inversely correlated with infection risk (OR= 0.54, p=0.0042), as did the response to other V2 subtypes (OR=0.60-0.63, p=0.016-0.025). The response to V3 CRF01_AE also inversely correlated with infection risk but only in vaccine recipients who had lower levels of other antibodies, especially Env-specific plasma IgA (OR=0.49, p=0.007) and neutralizing antibodies (OR=0.5, p=0.008). Responses to C1 and C5 showed no significant correlation with infection risk. In Vax003 and Vax004, where no significant protection was seen, serum IgG responses targeted the same epitopes as in RV144 with the exception of an additional C1 reactivity in Vax003 and infrequent V2 reactivity in Vax004. In HIV-1 infected subjects, dominant responses targeted the V3 and C5 regions of gp120, as well as the immunodominant domain, heptad repeat 1 (HR-1) and membrane proximal external region (MPER) of gp41. These results highlight the presence of several dominant linear B cell epitopes on the HIV-1 envelope glycoproteins. They also generate the hypothesis that IgG to linear epitopes in the V2 and V3 regions of gp120 are part of a complex interplay of immune responses that contributed to protection in RV144. PMID:24086607

Effects of Physiochemical Factors on Prokaryotic Biodiversity in Malaysian Circumneutral Hot Springs.

PubMed

Chan, Chia S; Chan, Kok-Gan; Ee, Robson; Hong, Kar-Wai; Urbieta, María S; Donati, Edgardo R; Shamsir, Mohd S; Goh, Kian M

2017-01-01

Malaysia has a great number of hot springs, especially along the flank of the Banjaran Titiwangsa mountain range. Biological studies of the Malaysian hot springs are rare because of the lack of comprehensive information on their microbial communities. In this study, we report a cultivation-independent census to describe microbial communities in six hot springs. The Ulu Slim (US), Sungai Klah (SK), Dusun Tua (DT), Sungai Serai (SS), Semenyih (SE), and Ayer Hangat (AH) hot springs exhibit circumneutral pH with temperatures ranging from 43°C to 90°C. Genomic DNA was extracted from environmental samples and the V3-V4 hypervariable regions of 16S rRNA genes were amplified, sequenced, and analyzed. High-throughput sequencing analysis showed that microbial richness was high in all samples as indicated by the detection of 6,334-26,244 operational taxonomy units. In total, 59, 61, 72, 73, 65, and 52 bacterial phyla were identified in the US, SK, DT, SS, SE, and AH hot springs, respectively. Generally, Firmicutes and Proteobacteria dominated the bacterial communities in all hot springs. Archaeal communities mainly consisted of Crenarchaeota, Euryarchaeota, and Parvarchaeota. In beta diversity analysis, the hot spring microbial memberships were clustered primarily on the basis of temperature and salinity. Canonical correlation analysis to assess the relationship between the microbial communities and physicochemical variables revealed that diversity patterns were best explained by a combination of physicochemical variables, rather than by individual abiotic variables such as temperature and salinity.

Effects of Physiochemical Factors on Prokaryotic Biodiversity in Malaysian Circumneutral Hot Springs

PubMed Central

Chan, Chia S.; Chan, Kok-Gan; Ee, Robson; Hong, Kar-Wai; Urbieta, María S.; Donati, Edgardo R.; Shamsir, Mohd S.; Goh, Kian M.

2017-01-01

Malaysia has a great number of hot springs, especially along the flank of the Banjaran Titiwangsa mountain range. Biological studies of the Malaysian hot springs are rare because of the lack of comprehensive information on their microbial communities. In this study, we report a cultivation-independent census to describe microbial communities in six hot springs. The Ulu Slim (US), Sungai Klah (SK), Dusun Tua (DT), Sungai Serai (SS), Semenyih (SE), and Ayer Hangat (AH) hot springs exhibit circumneutral pH with temperatures ranging from 43°C to 90°C. Genomic DNA was extracted from environmental samples and the V3–V4 hypervariable regions of 16S rRNA genes were amplified, sequenced, and analyzed. High-throughput sequencing analysis showed that microbial richness was high in all samples as indicated by the detection of 6,334–26,244 operational taxonomy units. In total, 59, 61, 72, 73, 65, and 52 bacterial phyla were identified in the US, SK, DT, SS, SE, and AH hot springs, respectively. Generally, Firmicutes and Proteobacteria dominated the bacterial communities in all hot springs. Archaeal communities mainly consisted of Crenarchaeota, Euryarchaeota, and Parvarchaeota. In beta diversity analysis, the hot spring microbial memberships were clustered primarily on the basis of temperature and salinity. Canonical correlation analysis to assess the relationship between the microbial communities and physicochemical variables revealed that diversity patterns were best explained by a combination of physicochemical variables, rather than by individual abiotic variables such as temperature and salinity. PMID:28729863

Understanding the Long-Term Spectral Variability of Cygnus X-1 from BATSE and ASM Observations

NASA Technical Reports Server (NTRS)

Zdziarski, Andrzej A.; Poutanen, Juri; Paciesas, William S.; Wen, Linqing; Six, N. Frank (Technical Monitor)

2002-01-01

We present a spectral analysis of observations of Cygnus X-1 by the RXTE/ASM (1.5-12 keV) and CGRO/BATSE (20-300 keV), including about 1200 days of simultaneous data. We find a number of correlations between intensities and hardnesses in different energy bands from 1.5 keV to 300 keV. In the hard (low) spectral state, there is a negative correlation between the ASM 1.5-12 keV flux and the hardness at any energy. In the soft (high) spectral state, the ASM flux is positively correlated with the ASM hardness (as previously reported) but uncorrelated with the BATSE hardness. In both spectral states, the BATSE hardness correlates with the flux above 100 keV, while it shows no correlation with the flux in the 20-100 keV range. At the same time, there is clear correlation between the BATSE fluxes below and above 100 keV. In the hard state, most of the variability can be explained by softening the overall spectrum with a pivot at approximately 50 keV. The observations show that there has to be another, independent variability pattern of lower amplitude where the spectral shape does not change when the luminosity changes. In the soft state, the variability is mostly caused by a variable hard (Comptonized) spectral component of a constant shape superimposed on a constant soft blackbody component. These variability patterns are in agreement with the dependence of the rms variability on the photon energy in the two states. We interpret the observed correlations in terms of theoretical Comptonization models. In the hard state, the variability appears to be driven mostly by changing flux in seed photons Comptonized in a hot thermal plasma cloud with an approximately constant power supply. In the soft state, the variability is consistent with flares of hybrid, thermal/nonthermal, plasma with variable power above a stable cold disk. Also, based on broadband pointed observations simultaneous with those of the ASM and BATSE, we find the intrinsic bolometric luminosity increases by a factor of approximately 3-4 from the hard state to the soft one, which supports models of the state transition based on a change of the accretion rate.

Estimating Selected Streamflow Statistics Representative of 1930-2002 in West Virginia

USGS Publications Warehouse

Wiley, Jeffrey B.

2008-01-01

Regional equations and procedures were developed for estimating 1-, 3-, 7-, 14-, and 30-day 2-year; 1-, 3-, 7-, 14-, and 30-day 5-year; and 1-, 3-, 7-, 14-, and 30-day 10-year hydrologically based low-flow frequency values for unregulated streams in West Virginia. Regional equations and procedures also were developed for estimating the 1-day, 3-year and 4-day, 3-year biologically based low-flow frequency values; the U.S. Environmental Protection Agency harmonic-mean flows; and the 10-, 25-, 50-, 75-, and 90-percent flow-duration values. Regional equations were developed using ordinary least-squares regression using statistics from 117 U.S. Geological Survey continuous streamflow-gaging stations as dependent variables and basin characteristics as independent variables. Equations for three regions in West Virginia - North, South-Central, and Eastern Panhandle - were determined. Drainage area, precipitation, and longitude of the basin centroid are significant independent variables in one or more of the equations. Estimating procedures are presented for determining statistics at a gaging station, a partial-record station, and an ungaged location. Examples of some estimating procedures are presented.

Understanding the Long-Term Spectral Variability of Cygnus X-1 with Burst and Transient Source Experiment and All-Sky Monitor Observations

NASA Technical Reports Server (NTRS)

Zdziarski, Andrzej A.; Poutanen, Juri; Paciesas, William S.; Wen, Lin-Qing

2002-01-01

We present a comprehensive analysis of all observations of Cyg X-1 by the Compton Gamma Ray Observatory Burst and Transient Source Experiment (BATSE; 20-300 keV) and by the Rossi X-Ray Timing Explorer all-sky monitor (ASM; 1.5-12 keV) until 2002 June, including approximately 1200 days of simultaneous data. We find a number of correlations between fluxes and hardnesses in different energy bands. In the hard (low) spectral state, there is a negative correlation between the ASM 1.5-12 keV flux and the hardness at any energy. In the soft (high) spectral state, the ASM flux is positively correlated with the ASM hardness but uncorrelated with the BATSE hardness. In both spectral states, the BATSE hardness correlates with the flux above 100 keV, while it shows no correlation with the 20-100 keV flux. At the same time, there is clear correlation between the BATSE fluxes below and above 100 keV. In the hard state, most of the variability can be explained by softening the overall spectrum with a pivot at approximately 50 keV. There is also another, independent variability pattern of lower amplitude where the spectral shape does not change when the luminosity changes. In the soft state, the variability is mostly caused by a variable hard (Comptonized) spectral component of a constant shape superposed on a constant soft blackbody component. These variability patterns are in agreement with the dependencies of the rms variability on the photon energy in the two states. We also study in detail recent soft states from late 2000 until 2002. The last of them has lasted thus far for more than 200 days. Their spectra are generally harder in the 1.5-5 keV band and similar or softer in the 3-12 keV band than the spectra of the 1996 soft state, whereas the rms variability is stronger in all the ASM bands. On the other hand, the 1994 soft state transition observed by BATSE appears very similar to the 1996 one. We interpret the variability patterns in terms of theoretical Comptonization models. In the hard state, the variability appears to be driven mostly by changing flux in seed photons Comptonized in a hot thermal plasma cloud with an approximately constant power supply. In the soft state, the variability is consistent with flares of hybrid, thermal/nonthermal, plasma with variable power above a stable cold disk. The spectral and timing differences between the 1996 and 2000-2002 soft states are explained by a decrease of the color disk temperature. Also, on the basis of broadband pointed observations simultaneous with those of the ASM and BATSE, we find the intrinsic bolometric luminosity increases by a factor of approximately 3-4 from the hard state to the soft one, which supports models of the state transition based on a change of the accretion rate.

Variability among the Most Rapidly Evolving Plastid Genomic Regions is Lineage-Specific: Implications of Pairwise Genome Comparisons in Pyrus (Rosaceae) and Other Angiosperms for Marker Choice

PubMed Central

Ter-Voskanyan, Hasmik; Allgaier, Martin; Borsch, Thomas

2014-01-01

Plastid genomes exhibit different levels of variability in their sequences, depending on the respective kinds of genomic regions. Genes are usually more conserved while noncoding introns and spacers evolve at a faster pace. While a set of about thirty maximum variable noncoding genomic regions has been suggested to provide universally promising phylogenetic markers throughout angiosperms, applications often require several regions to be sequenced for many individuals. Our project aims to illuminate evolutionary relationships and species-limits in the genus Pyrus (Rosaceae)—a typical case with very low genetic distances between taxa. In this study, we have sequenced the plastid genome of Pyrus spinosa and aligned it to the already available P. pyrifolia sequence. The overall p-distance of the two Pyrus genomes was 0.00145. The intergenic spacers between ndhC–trnV, trnR–atpA, ndhF–rpl32, psbM–trnD, and trnQ–rps16 were the most variable regions, also comprising the highest total numbers of substitutions, indels and inversions (potentially informative characters). Our comparative analysis of further plastid genome pairs with similar low p-distances from Oenothera (representing another rosid), Olea (asterids) and Cymbidium (monocots) showed in each case a different ranking of genomic regions in terms of variability and potentially informative characters. Only two intergenic spacers (ndhF–rpl32 and trnK–rps16) were consistently found among the 30 top-ranked regions. We have mapped the occurrence of substitutions and microstructural mutations in the four genome pairs. High AT content in specific sequence elements seems to foster frequent mutations. We conclude that the variability among the fastest evolving plastid genomic regions is lineage-specific and thus cannot be precisely predicted across angiosperms. The often lineage-specific occurrence of stem-loop elements in the sequences of introns and spacers also governs lineage-specific mutations. Sequencing whole plastid genomes to find markers for evolutionary analyses is therefore particularly useful when overall genetic distances are low. PMID:25405773

Time-Series Photometry of Variable Stars in the Globular Cluster NGC 288

NASA Astrophysics Data System (ADS)

Lee, Dong-Joo; Koo, Jae-Rim; Hong, Kyeongsoo; Kim, Seung-Lee; Lee, Jae Woo; Lee, Chung-Uk; Jeon, Young-Beom; Kim, Yun-Hak; Lim, Beomdu; Ryu, Yoon-Hyun; Cha, Sang-Mok; Lee, Yongseok; Kim, Dong-Jin; Park, Byeong-Gon; Kim, Chun-Hwey

2016-12-01

We present the results of BV time-series photometry of the globular cluster NGC 288. Observations were carried out to search for variable stars using the Korea Microlensing Telescope Network (KMTNet) 1.6-m telescopes and a 4k pre-science CCD camera during a test observation from August to December, 2014. We found a new SX Phe star and confirmed twelve previously known variable stars in NGC 288. For the semi-regular variable star V1, we newly determined a period of 37.3 days from light curves spanning 137 days. The light-curve solution of the eclipsing binary V10 indicates that the system is probably a detached system. The pulsation properties of nine SX Phe stars were examined by applying multiple frequency analysis to their light curves. We derived a new Period-Luminosity (P-L) relation, < M_{V} rangle = -2.476(±0.300) log P - 0.354(±0.385), from six SX Phe stars showing the fundamental mode. Additionally, the period ratios of three SX Phe stars that probably have a double-radial mode were investigated; P_{FO}/P_{F} = 0.779 for V5, P_{TO}/P_{FO} = 0.685 for V9, P_{SO}/P_{FO} = 0.811 for V11. This paper is the first contribution in a series assessing the detections and properties of variable stars in six southern globular clusters with the KMTNet system.

Evaluation of TRMM 3B42V7 product on extreme precipitation measurements over peninsular Malaysia

NASA Astrophysics Data System (ADS)

Paska, Jacquoelyne; Lau, Alvin M. S.; Tan, Mou Leong; Tan, Kok Chooi

2017-10-01

Climate variability has become a matter worth our attention as this issue has unveiled to the extreme water-related disasters such as flood and drought. Increments in heavy precipitation have happened over the past century and future climate scenarios show that it may alter the recurrence, timing, force, and length of these occasions. Satellite precipitation products (SPPs) could be used as representation of precipitation over a large region. This could be useful for the monitoring of the precipitation pattern as well as extreme events. Nevertheless, application of these products in monitoring extreme precipitation is still limited because insufficiency of quality assessment. This study aims to evaluate the performance of the Tropical Rainfall Measuring Mission (TRMM) Multi-satellite Precipitation Analysis (TMPA) 3B42V7 product in capturing the behavior of extreme precipitation events over Peninsular Malaysia from 2000 to 2015. Four extreme precipitation indices, in two general categories of absolute threshold (R10mm, R20mm and R50mm) and maximum (Rx1d) indices that recommended by the Expert Team on Climate Change Detection and Indices (ETCCDI) were used. General evaluation has shown that the TRMM 3B42V7 product performed good on the measurements of monthly and annual precipitation. In the respect of extreme precipitation measurements, weak to moderate positive correlations were found between the TRMM 3B42 product and rain gauges over Peninsular Malaysia. The TRMM 3B42V7 product overestimated the R10mm and R20mm indices, while an underestimation was found for the R50mm and Rx1d indices.

Storm/Quiet Ratio Comparisons Between TIMED/SABER NO (sup +)(v) Volume Emission Rates and Incoherent Scatter Radar Electron Densities at E-Region Altitudes

NASA Technical Reports Server (NTRS)

Fernandez, J. R.; Mertens, C. J.; Bilitza, D.; Xu, X.; Russell, J. M., III; Mlynczak, M. G.

2009-01-01

Broadband infrared limb emission at 4.3 microns is measured by the TIMED/SABER instrument. At night, these emission observations at E-region altitudes are used to derive the so called NO+(v) Volume Emission Rate (VER). NO+(v) VER can be derived by removing the background CO2(v3) 4.3 microns radiance contribution using SABER-based non-LTE radiation transfer models, and by performing a standard Abel inversion on the residual radiance. SABER observations show that NO+(v) VER is significantly enhanced during magnetic storms in accordance with increased ionization of the neutral atmosphere by auroral electron precipitation, followed by vibrational excitation of NO+ (i.e., NO+(v)) from fast exothermic ion-neutral reactions, and prompt infrared emission at 4.3 m. Due to charge neutrality, the NO+(v) VER enhancements are highly correlated with electron density enhancements, as observed for example by Incoherent Scatter Radar (ISR). In order to characterize the response of the storm-time E-region from both SABER and ISR measurements, a Storm/Quiet ratio (SQR) quantity is defined as a function of altitude. For SABER, the SQR is the ratio of the storm-to-quiet NO+(v) VER. SQR is the storm-to-quiet ratio of electron densities for ISR. In this work, we compare SABER and ISR SQR values between 100 to 120 km. Results indicate good agreement between these measurements. SQR values are intended to be used as a correction factor to be included in an empirical storm-time correction to the International Reference Ionosphere model at E-region altitudes.

Cadaver Thanatomicrobiome Signatures: The Ubiquitous Nature of Clostridium Species in Human Decomposition.

PubMed

Javan, Gulnaz T; Finley, Sheree J; Smith, Tasia; Miller, Joselyn; Wilkinson, Jeremy E

2017-01-01

Human thanatomicrobiome studies have established that an abundant number of putrefactive bacteria within internal organs of decaying bodies are obligate anaerobes, Clostridium spp. These microorganisms have been implicated as etiological agents in potentially life-threatening infections; notwithstanding, the scale and trajectory of these microbes after death have not been elucidated. We performed phylogenetic surveys of thanatomicrobiome signatures of cadavers' internal organs to compare the microbial diversity between the 16S rRNA gene V4 hypervariable region and V3-4 conjoined regions from livers and spleens of 45 cadavers undergoing forensic microbiological studies. Phylogenetic analyses of 16S rRNA gene sequences revealed that the V4 region had a significantly higher mean Chao1 richness within the total microbiome data. Permutational multivariate analysis of variance statistical tests, based on unweighted UniFrac distances, demonstrated that taxa compositions were significantly different between V4 and V3-4 hypervariable regions ( p < 0.001). Of note, we present the first study, using the largest cohort of criminal cases to date, that two hypervariable regions show discriminatory power for human postmortem microbial diversity. In conclusion, here we propose the impact of hypervariable region selection for the 16S rRNA gene in differentiating thanatomicrobiomic profiles to provide empirical data to explain a unique concept, the Postmortem Clostridium Effect.

Ionized Absorbers in Active Galactic Nuclei and Very Steap Soft X-Ray Quasars

NASA Technical Reports Server (NTRS)

Fiore, Fabrizio; White, Nicholas (Technical Monitor)

2000-01-01

Steep soft X-ray (0.1-2 keV) quasars share several unusual properties: narrow Balmer lines, strong Fe II emission, large and fast X-ray variability, and a rather steep 2-10 keV spectrum. These intriguing objects have been suggested to be the analogues of Galactic black hole candidates in the high, soft state. We present here results from ASCA observations for two of these quasars: NAB 0205 + 024 and PG 1244 + 026. Both objects show similar variations (factor of approximately 2 in 10 ks), despite a factor of approximately 10 difference in the 0.5-10 keV luminosity (7.3 x 10(exp 43) erg/s for PG 1244 + 026 and 6.4 x 10(exp 44) erg/s for NAB 0205 + 024, assuming isotropic emission, H(sub 0) = 50.0 and q(sub 0) = 0.0). The X-ray continuum of the two quasars flattens by 0.5-1 going from the 0.1-2 keV band towards higher energies, strengthening recent results on another half-dozen steep soft X-ray active galactic nuclei. PG 1244 + 026 shows a significant feature in the '1-keV' region, which can be described either as a broad emission line centered at 0.95 keV (quasar frame) or as edge or line absorption at 1.17 (1.22) keV. The line emission could be a result of reflection from a highly ionized accretion disc, in line with the view that steep soft X-ray quasars are emitting close to the Eddington luminosity. Photoelectric edge absorption or resonant line absorption could be produced by gas outflowing at a large velocity (0.3-0.6 c).

Wind Power Energy in Southern Brazil: evaluation using a mesoscale meteorological model

NASA Astrophysics Data System (ADS)

Krusche, Nisia; Stoevesandt, Bernhard; Chang, Chi-Yao; Peralta, Carlos

2015-04-01

In recent years, several wind farms were build in the coast of Rio Grande do Sul state. This region of Brazil was identified, in wind energy studies, as most favorable to the development of wind power energy, along with the Northeast part of the country. Site assessments of wind power, over long periods to estimate the power production and forecasts over short periods can be used for planning of power distribution and enhancements on Brazil's present capacity to use this resource. The computational power available today allows the simulation of the atmospheric flow in great detail. For instance, one of the authors participated in a research that demonstrated the interaction between the lake and maritime breeze in this region through the use of a atmospheric model. Therefore, we aim to evaluate simulations of wind conditions and its potential to generate energy in this region. The model applied is the Weather Research and Forecasting , which is the mesoscale weather forecast software. The calculation domain is centered in 32oS and 52oW, in the southern region of Rio Grande do Sul state. The initial conditions of the simulation are taken from the global weather forecast in the time period from October 1st to October 31st, 2006. The wind power potential was calculated for a generic turbine, with a blade length of 52 m, using the expression: P=1/2*d*A*Cp*v^3, where P is the wind power energy (in Watts), d is the density (equal to 1.23 kg/m^3), A is the area section, which is equal to 8500 m2 , and v is the intensity of the velocity. The evaluation was done for a turbine placed at 50 m and 150 m of height. A threshold was chosen for a turbine production of 1.5 MW to estimate the potential of the site. In contrast to northern Brazilian region, which has a rather constant wind condition, this region shows a great variation of power output due to the weather variability. During the period of the study, at least three frontal systems went over the region, and thre was a associated variation of wind intensity. The monthly average indicate several small regions with a higher value of energy. Average production higher than 1.5 MW, for the area inland, was of 72.9% for a turbine at 150 m height but only 13.1% for one at 50 m height. This initial study indicates the variability of the region in terms of wind power availability. It can be extended to the study of extreme situations, as the case of very strong winds that knocked down 8 wind turbines in this region on the 20 of December of 2014. Simulations with high degree of spacial details will be the next step in this investigation.

Multi-year downscaling application of two-way coupled WRF v3.4 and CMAQ v5.0.2 over east Asia for regional climate and air quality modeling: model evaluation and aerosol direct effects

NASA Astrophysics Data System (ADS)

Hong, Chaopeng; Zhang, Qiang; Zhang, Yang; Tang, Youhua; Tong, Daniel; He, Kebin

2017-06-01

In this study, a regional coupled climate-chemistry modeling system using the dynamical downscaling technique was established by linking the global Community Earth System Model (CESM) and the regional two-way coupled Weather Research and Forecasting - Community Multi-scale Air Quality (WRF-CMAQ) model for the purpose of comprehensive assessments of regional climate change and air quality and their interactions within one modeling framework. The modeling system was applied over east Asia for a multi-year climatological application during 2006-2010, driven with CESM downscaling data under Representative Concentration Pathways 4.5 (RCP4.5), along with a short-term air quality application in representative months in 2013 that was driven with a reanalysis dataset. A comprehensive model evaluation was conducted against observations from surface networks and satellite observations to assess the model's performance. This study presents the first application and evaluation of the two-way coupled WRF-CMAQ model for climatological simulations using the dynamical downscaling technique. The model was able to satisfactorily predict major meteorological variables. The improved statistical performance for the 2 m temperature (T2) in this study (with a mean bias of -0.6 °C) compared with the Coupled Model Intercomparison Project Phase 5 (CMIP5) multi-models might be related to the use of the regional model WRF and the bias-correction technique applied for CESM downscaling. The model showed good ability to predict PM2. 5 in winter (with a normalized mean bias (NMB) of 6.4 % in 2013) and O3 in summer (with an NMB of 18.2 % in 2013) in terms of statistical performance and spatial distributions. Compared with global models that tend to underpredict PM2. 5 concentrations in China, WRF-CMAQ was able to capture the high PM2. 5 concentrations in urban areas. In general, the two-way coupled WRF-CMAQ model performed well for both climatological and air quality applications. The coupled modeling system with direct aerosol feedbacks predicted aerosol optical depth relatively well and significantly reduced the overprediction in downward shortwave radiation at the surface (SWDOWN) over polluted regions in China. The performance of cloud variables was not as good as other meteorological variables, and underpredictions of cloud fraction resulted in overpredictions of SWDOWN and underpredictions of shortwave and longwave cloud forcing. The importance of climate-chemistry interactions was demonstrated via the impacts of aerosol direct effects on climate and air quality. The aerosol effects on climate and air quality in east Asia (e.g., SWDOWN and T2 decreased by 21.8 W m-2 and 0.45 °C, respectively, and most pollutant concentrations increased by 4.8-9.5 % in January over China's major cities) were more significant than in other regions because of higher aerosol loadings that resulted from severe regional pollution, which indicates the need for applying online-coupled models over east Asia for regional climate and air quality modeling and to study the important climate-chemistry interactions. This work established a baseline for WRF-CMAQ simulations for a future period under the RCP4.5 climate scenario, which will be presented in a future paper.

Osteogenesis imperfecta type V: Genetic and clinical findings in eleven Chinese patients.

PubMed

Liu, Yi; Wang, Jiawei; Ma, Doudou; Lv, Fang; Xu, Xiaojie; Xia, Weibo; Jiang, Yan; Wang, Ou; Xing, Xiaoping; Zhou, Peiran; Wang, Jianyi; Yu, Wei; Li, Mei

2016-11-01

Osteogenesis imperfecta (OI) type V is a rare inherited disease characterized by multiple fractures, intraosseous membrane calcification, and hypercallus formation. We investigate the causative gene, phenotype and also observe the effects of zoledronic acid in Chinese OI type V patients. The clinical phenotype and causative gene mutation was investigated in eleven patients with type V OI. Patients were given a dose of zoledronic acid 5mg intravenously. Fracture incidence and Z-score of bone mineral density (BMD) were evaluated. Serum levels of biomarkers such as cross linked C-telopeptide of type I collagen (β-CTX) and safety parameters were assessed. The c.-14C>T mutation in the 5' untranslated region of IFITM5 was detected in all patients. The phenotype was largely variable, and no significant correlation of genotype and phenotype was found. After one dose of zoledronic acid infusion, fracture incidence significantly dropped from 2fractures/year before treatment to 0fracture/year after treatment (P=0.01). Z score of lumbar spine BMD elevated from -2.6 to -1.3 (P<0.001). Serum β-CTX level decreased by 50% (P<0.05). No serious adverse event was found. No obvious correlation was found between the genotype and phenotype. Zoledronic acid had significantly skeletal protective effects in OI of type V. Copyright © 2016 Elsevier B.V. All rights reserved.

Recommended acetylene line list in the 20-240 cm-1 and 400-630 cm-1 regions: New measurements and global modeling

NASA Astrophysics Data System (ADS)

Jacquemart, David; Lyulin, Oleg; Perevalov, Valery I.

2017-12-01

A new recommended 12C2H2 line list for the 13-248 cm-1 and 390-634 cm-1 regions is presented. It is based on the results of the global modeling of the line positions and intensities performed in Tomsk within the framework of the method of effective operators. To validate the Tomsk calculations new measurements of both line positions and intensities were performed using acetylene spectra recorded between 25 and 680 cm-1 with the AILES-A beamline of SOLEIL synchrotron. Line positions and intensities of 627 transitions belonging to 9 bands have been measured for the first time in this region. Using the results of these new measurements and the published results of the measurements in the 13-248 cm-1 and 390-634 cm-1 regions performed with the same facilities new fittings of the line intensities for the ΔP=0 and ΔP=1 series of transitions have been performed. Here P=5v1+3v2+5v3+v4+v5 is a polyad number, where v1, v2, v3, v4, and v5 are the principal quantum numbers of the acetylene harmonic oscillators. These new sets of the effective dipole moment parameters were used to generate the line list which contains the line positions and intensities of 39 and 29 bands, respectively for the ΔP=0 and ΔP=1 series of transitions. None of these bands is present in the HITRAN 2012 [8] and GEISA 2015 [9] databases. This paper presents the first part of a global work on the validation of Tomsk calculations.

Searches for new phenomena using events with three or more charged leptons in pp collisions at √s = 8 TeV with the ATLAS detector at the LHC

NASA Astrophysics Data System (ADS)

Yu, David Ren-Hwa

This dissertation presents two searches for phenomena beyond the Standard Model using events with three or more charged leptons. The searches are based on 20.3 fb--1 of proton- proton collision data with a center-of-mass energy of [special characters omitted] s = 8 TeV collected by the ATLAS detector at the CERN Large Hadron Collider in 2012. The first is a model-independent search for excesses beyond Standard Model expectations in many signal regions. The events are required to have least three charged leptons, of which at least two are electrons or muons, and at most one is a hadronically decaying ? lepton. The selected events are categorized based on the flavor and charge of the leptons, and the signal regions are defined using several kinematic variables sensitive to beyond the Standard Model phenomena. The second search looks for new heavy leptons decaying resonantly to three electrons or muons, two of which are produced through an intermediate Z boson. The resonant decay produces a narrowly- peaked excess in the trilepton mass spectrum. In both cases, no significant excess beyond Standard Model expectations is observed, and the data are used to set limits on models of new physics. The model-independent trilepton search is used to confront a model of doubly charged scalar particles decaying to etau or mutau, excluding masses below 400 GeV at 95% confidence level. The trilepton resonance search is used to test models of vector-like leptons and the type III neutrino seesaw mechanism. The vector-like lepton model is excluded for most of the mass range 114 GeV -- 176 GeV, while the type III seesaw model is excluded for most the mass range 100 GeV -- 468 GeV. Both searches also present tools to facilitate reinterpretations in the context of other models predicting the production of three or more charged leptons.

Recombination reactions of 5-eV O(3P) atoms on a MgF2 surface

NASA Technical Reports Server (NTRS)

Orient, O. J.; Chutjian, A.; Murad, E.

1990-01-01

A source of hyperthermal, ground-state, impurity-free, atomic oxygen of an energy variable in the range 2-100 eV has been developed. Experimental results are presented of emission spectra in the wavelength range 250-850 nm produced by collisions of 5-eV O(3P) atoms with adsorbed NO and CO molecules on a MgF2 surface.

Role of the Pepino mosaic virus 3'-untranslated region elements in negative-strand RNA synthesis in vitro.

PubMed

Osman, Toba A M; Olsthoorn, René C L; Livieratos, Ioannis C

2014-09-22

Pepino mosaic virus (PepMV) is a mechanically-transmitted positive-strand RNA potexvirus, with a 6410 nt long single-stranded (ss) RNA genome flanked by a 5'-methylguanosine cap and a 3' poly-A tail. Computer-assisted folding of the 64 nt long PepMV 3'-untranslated region (UTR) resulted in the prediction of three stem-loop structures (hp1, hp2, and hp3 in the 3'-5' direction). The importance of these structures and/or sequences for promotion of negative-strand RNA synthesis and binding to the RNA dependent RNA polymerase (RdRp) was tested in vitro using a specific RdRp assay. Hp1, which is highly variable among different PepMV isolates, appeared dispensable for negative-strand synthesis. Hp2, which is characterized by a large U-rich loop, tolerated base-pair changes in its stem as long as they maintained the stem integrity but was very sensitive to changes in the U-rich loop. Hp3, which harbours the conserved potexvirus ACUUAA hexamer motif, was essential for template activity. Template-RNA polymerase binding competition experiments showed that the ACUUAA sequence represents a high-affinity RdRp binding element. Copyright © 2014 Elsevier B.V. All rights reserved.

A novel COL11A1 missense mutation in siblings with non-ocular Stickler syndrome

PubMed Central

Kohmoto, Tomohiro; Tsuji, Atsumi; Morita, Kei-ichi; Naruto, Takuya; Masuda, Kiyoshi; Kashimada, Kenichi; Enomoto, Keisuke; Morio, Tomohiro; Harada, Hiroyuki; Imoto, Issei

2016-01-01

Stickler syndrome (STL) is an autosomal, dominantly inherited, clinically variable and genetically heterogeneous connective tissue disorder characterized by ocular, auditory, orofacial and skeletal abnormalities. We conducted targeted resequencing using a next-generation sequencer for molecular diagnosis of a 2-year-old girl who was clinically suspected of having STL with Pierre Robin sequence. We detected a novel heterozygous missense mutation, NM_001854.3:n.4838G>A [NM_001854.3 (COL11A1_v001):c.4520G>A], in COL11A1, resulting in a Gly to Asp substitution at position 1507 [NM_001854.3(COL11A1_i001)] within one of the collagen-like domains of the triple helical region. The same mutation was detected in her 4-year-old brother with cleft palate and high-frequency sensorineural hearing loss. PMID:27081569

Non-invasive assessment of inter-and intrapatient variability of integrin expression in metastasized prostate cancer by PET.

PubMed

Beer, Ambros J; Schwarzenböck, Sarah M; Zantl, Niko; Souvatzoglou, Michael; Maurer, Tobias; Watzlowik, Petra; Kessler, Horst; Wester, Hans-Jürgen; Schwaiger, Markus; Krause, Bernd Joachim

2016-05-10

Due to the high expression of the integrin αvβ3 not only on endothelial cells, but also on mature osteoclasts and prostate cancer cells, imaging of osseous metastases with αvβ3-targeted tracers seems promising. However, little is known about the patterns of αvβ3-expression in metastasized prostate cancer lesions in-vivo. Thus we evaluated the uptake of the αvβ3-specific PET tracer [18F]Galacto-RGD for assessment of bone metastases in prostate cancer patients. [18F]Galacto-RGD PET identified 58/74 bone-lesions (detection rate of 78.4%) and lymph node metastases in 2/5 patients. The SUVmean was 2.12+/-0.94 (range 0.70-4.38; tumor/blood 1.36+/-0.53; tumor/muscle 2.82+/-1.31) in bone-lesions and 2.21+/-1.18 (range 0.75-3.56) in lymph node metastases. Good visualization and detection of bone metastases was feasible due to a low background activity of the surrounding normal bone tissue. 12 patients with known metastasized prostate cancer according to conventional staging (including bone-scintigraphy and contrast-enhanced CT; median PSA 68.63 ng/ml, range 3.72-1935) were examined with PET after i.v.-injection of [18F]Galacto-RGD. Two blinded nuclear-medicine physicians evaluated the PET-scans in consensus concerning lesion detectability. Volumes-of-interest were drawn in the PET-scans over all metastases defined by conventional staging (maximum of 11 lesions/patient), over the left ventricle, liver and muscle and standardized-uptake-values (SUVs) were calculated. Our data show generally elevated uptake of [18F]Galacto-RGD in bone metastases from prostate cancer with a marked inter- and intrapatient variability. While [18F]Galacto-RGD PET is inferior to bone scintigraphy for detection of osseous metastases, it might be valuable in patient screening and monitoring of αvβ3-targeted therapies due to the high variability of αvβ3-expression.

Seasonal variation in the copepod gut microbiome in the subtropical North Atlantic Ocean.

PubMed

Shoemaker, Katyanne M; Moisander, Pia H

2017-08-01

Characterisation of marine copepod gut microbiome composition and its variability provides information on function of marine food webs, biogeochemical cycles and copepod health. Copepod gut microbiomes were investigated quarterly over two years at the Bermuda Atlantic Time-series Station in the North Atlantic Subtropical Gyre, while assessing seasonal shifts in stable and transient communities. Microbial communities were analysed using amplicon sequencing targeting the bacterial 16S rRNA V3-V4 region and the cyanobacterial ntcA gene. Persistent bacterial groups belonging to Firmicutes, Bacteroidetes and Actinobacteria were present in the copepod guts throughout the year, and showed synchronous changes, suggesting a link to variability in copepod nutritional content. The gut communities were separate from those in the seawater, suggesting the copepod gut hosts long-term, specialized communities. Major temporal variations in the gut communities during the early winter and spring, specifically a high relative abundance of Synechococcus (up to 65%), were attributed to bacterioplankton shifts in the water column, and copepod grazing on these picoplanktonic cyanobacteria. The presence of obligate and facultative anaerobes, including Clostridiales year round, suggests that anaerobic bacterial processes are common in these dynamic microhabitats in the oligotrophic open ocean. © 2017 Society for Applied Microbiology and John Wiley & Sons Ltd.

Thick target total bremsstrahlung spectra of lead compounds in the photon energy region 1-10keV by 90Sr beta particles.

PubMed

Sharma, Suhansar Jit; Singh, Tajinder; Singh, Doordarshi; Singh, Amrit; Dhaliwal, A S

2017-12-01

Total bremsstrahlung spectral photon distribution generated in thick targets of lead compounds Pb(CH 3 COO) 2 ·3H 2 O, Pb(NO 3 ) 2 and PbCl 2 by 90 Sr beta particles has been investigated theoretically and experimentally in the photon energy region 1-10keV. The experimental results are compared with the theoretical models describing ordinary bremsstrahlung and the theoretical model which includes polarization bremsstrahlung into ordinary bremsstrahlung, in stripped approximation. It is observed that the experimental results show better agreement with the model which describes bremsstrahlung in stripped approximation in the energy range 3-10keV. However, the results show positive deviation in the photon energy region of 1-3keV. Further, it has been found that there is a continuous decrease of polarization bremsstrahlung contribution into ordinary bremsstrahlung in the formation of total bremsstrahlung spectra with increase in photon energy. The suppression of polarization bremsstrahlung has been observed due to the presence of large fraction of low Z elements in the compounds. The results clearly indicate that polarization bremsstrahlung plays an important role in the formation of total bremsstrahlung spectra in compounds in the studied energy region. Copyright © 2017 Elsevier Ltd. All rights reserved.

Bipolar Cascade Emitters for Radio-Frequency and Electro-Optical Applications

DTIC Science & Technology

2008-05-01

conduction band of the subsequent stage. (2) At the 50 mA bias , the p-doped OA tunneling region is ∼0.5 eV and the n-doped OA tunneling region is ∼0.1...bands are forward biased at an injection current of 50 mA except for the 3-stage p-doped OA BC LED which at a low voltage bias of 4.3 V, which...Resonant Cavity Light Emitting Diode . . . . . . . 40 3.1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . 40 3.2 Tunnel Junction

Rotational Spectroscopy as a Tool to Investigate Interactions Between Vibrational Polyads in Symmetric Top Molecules: Low-Lying States v_8 ≤ 2 OF Methyl Cyanide

NASA Astrophysics Data System (ADS)

Müller, Holger S. P.; Ordu, Matthias H.; Lewen, Frank; Brown, Linda; Drouin, Brian; Pearson, John; Sung, Keeyoon; Kleiner, Isabelle; Sams, Robert

2015-06-01

Rotational and rovibrational spectra of methyl cyanide were recorded to analyze interactions in low-lying vibrational states and to construct line lists for radio astronomical observations as well as for infrared spectroscopic investigations of planetary atmospheres. The rotational spectra cover large portions of the 36-1627~GHz region. In the infrared (IR), a spectrum was recorded for this study in the region of 2ν_8 around 717~cm-1 with assignments covering 684-765~cm-1. Additional spectra in the ν _8 region were used to validate the analysis. Using ν _8 data as well as spectroscopic parameters for v_4 = 1, v_7 = 1, and v_8 = 3 from previous studies, we analyzed rotational data involving v = 0, v_8 = 1, and v_8 = 2 up to high J and K quantum numbers. We analyzed a strong Δ v_8 = ± 1, Δ K = 0, Δ l = ±3 Fermi resonance between v_8 = 1-1 and v_8 = 2+2 at K = 14 and obtained preliminary results for two further Fermi resonances between v_8 = 2 and 3. We also found resonant Δ v_8 = ± 1, Δ K = ∓ 2, Δ l = ± 1 interactions between v_8 = 1 and 2 and present the first detailed analysis of such a resonance between v_8 = 0 and 1. We discuss the impact of this analysis on the v_8 = 1 and 2 as well as on the axial v = 0 parameters and compare selected CH_3CN parameters with those of CH_3CCH and CH_3NC. We evaluated transition dipole moments of ν _8, 2ν _8 - ν _8, and 2ν _8 for remote sensing in the IR. Part of this work was carried out at the Jet Propulsion Laboratory under contract with the National Aeronautics and Space Administration. M. Koivusaari et al., J. Mol. Spectrosc. 152 (1992) 377-388. A.-M. Tolonen et al., J. Mol. Spectrosc. 160 (1993) 554-565.

Molecular and phylogenetic characterization of bovine coronavirus virus isolated from dairy cattle in Central Region, Thailand.

PubMed

Singasa, Kanokwan; Songserm, Taweesak; Lertwatcharasarakul, Preeda; Arunvipas, Pipat

2017-10-01

Bovine coronavirus (BCoV) is involved mainly in enteric infections in cattle. This study reports the first molecular detection of BCoV in a diarrhea outbreak in dairy cows in the Central Region, Thailand. BCoV was molecularly detected from bloody diarrheic cattle feces by using nested PCR. Agarose gel electrophoresis of three diarrheic fecal samples yielded from the 25 samples desired amplicons that were 488 base pairs and sequencing substantiated that have BCoV. The sequence alignment indicated that nucleotide and amino acid sequences, the three TWD isolated in Thailand, were more quite homologous to each other (amino acid at position 39 of TWD1, TWD3 was proline, but TWD2 was serine) and closely related to OK-0514-3strain (virulent respiratory strain; RBCoV).The amino acid sequencing identities among TWD1, TWD2,TWD3, and OK-0514-3 strain were 96.0 to 96.6%, those at which T3I, H65N, D87G, H127Y, andQ136R were changed. In addition, the phylogenetic tree of the hypervariable region S1subunit spike glycoprotein BCoV gene was composed of three major clades by using the 54 sequences generated and showed that the evolutionally distance, TWD1, TWD2, and TWD3 were the isolated group together and most similar to OK-0514-3 strain (98.2 to 98.5% similarity). Further study will develop ELISA assay for serologic detection of winter dysentery disease.

Localized volume effects for late rectal and anal toxicity after radiotherapy for prostate cancer

DOE Office of Scientific and Technical Information (OSTI.GOV)

Peeters, Stephanie T.H.; Lebesque, Joos V.; Heemsbergen, Wilma D.

2006-03-15

Purpose: To identify dosimetric parameters derived from anorectal, rectal, and anal wall dose distributions that correlate with different late gastrointestinal (GI) complications after three-dimensional conformal radiotherapy for prostate cancer. Methods and Materials: In this analysis, 641 patients from a randomized trial (68 Gy vs. 78 Gy) were included. Toxicity was scored with adapted Radiation Therapy Oncology Group/European Organization for the Research and Treatment of Cancer (RTOG/EORTC) criteria and five specific complications. The variables derived from dose-volume histogram of anorectal, rectal, and anal wall were as follows: % receiving {>=}5-70 Gy (V5-V70), maximum dose (D{sub max}), and mean dose (D{sub mean}).more » The anus was defined as the most caudal 3 cm of the anorectum. Statistics were done with multivariate Cox regression models. Median follow-up was 44 months. Results: Anal dosimetric variables were associated with RTOG/EORTC Grade {>=}2 (V5-V40, D{sub mean}) and incontinence (V5-V70, D{sub mean}). Bleeding correlated most strongly with anorectal V55-V65, and stool frequency with anorectal V40 and D{sub mean}. Use of steroids was weakly related to anal variables. No volume effect was seen for RTOG/EORTC Grade {>=}3 and pain/cramps/tenesmus. Conclusion: Different volume effects were found for various late GI complications. Therefore, to evaluate the risk of late GI toxicity, not only intermediate and high doses to the anorectal wall volume should be taken into account, but also the dose to the anal wall.« less

An Expanded Rossi X-Ray Timing Explorer Survey of X-Ray Variability in Seyfert 1 Galaxies

NASA Astrophysics Data System (ADS)

Markowitz, A.; Edelson, R.

2004-12-01

The first seven years of RXTE monitoring of Seyfert 1 active galactic nuclei have been systematically analyzed to yield five homogeneous samples of 2-12 keV light curves, probing hard X-ray variability on successively longer durations from ~1 day to ~3.5 yr. The 2-10 keV variability on timescales of ~1 day, as probed by ASCA, is included. All sources exhibit stronger X-ray variability toward longer timescales, but the increase is greater for relatively higher luminosity sources. Variability amplitudes are anticorrelated with X-ray luminosity and black hole mass, but amplitudes saturate and become independent of luminosity or black hole mass toward the longest timescales. The data are consistent with the models of power spectral density (PSD) movement described by Markowitz and coworkers and McHardy and coworkers, whereby Seyfert 1 galaxies' variability can be described by a single, universal PSD shape whose break frequency scales with black hole mass. The best-fitting scaling relations between variability timescale, black hole mass, and X-ray luminosity imply an average accretion rate of ~5% of the Eddington limit for the sample. Nearly all sources exhibit stronger variability in the relatively soft 2-4 keV band compared to the 7-12 keV band on all timescales. There are indications that relatively less luminous or less massive sources exhibit a greater degree of spectral variability for a given increase in overall flux.

Fire and Emission Characterization in the Northern Sub-Saharan Africa (NSSA) Region and their Potential Effects on the Regional Climate System

NASA Astrophysics Data System (ADS)

Ellison, L.; Ichoku, C. M.

2013-12-01

Northern Sub-Saharan Africa (NSSA) is known for its consistent vast amounts of seasonal biomass burning each year. These mostly anthropogenic slash-and-burn fires typically used for farming and grazing purposes contributes to a significant proportion of the total global emissions of particulate matter (PM). The consequences of such severe burning could potentially have a noticeable influence on local climate patterns, such as the frequent severe droughts over the past century or the drying of Lake Chad, through both direct and indirect causes. This research therefore focuses on: 1) characterizing the burning patterns and extent within NSSA, 2) accurately quantifying PM emissions that have a direct impact on climate, and 3) exploring potential indirect impacts of burning on climate through evaluation of correlations with various environmental and meteorological parameters. In this study, the NSSA region was first split into nine distinct sub-regions to better analyze the burning patters and climatological changes. The diurnal cycle of fire radiative power (FRP, a quantifiable way of measuring fire radiant heat output) within these different regions differ in amplitude and shape, though the basic shape is the same with months of maximum FRP being between November and January and with practically no fires during the rainy season. Corresponding changes in other climatological variables were studied against changes seen in FRP on a monthly scale, including precipitation, soil moisture, surface evaporation, evapotranspiration (ET), normalized difference vegetation index (NDVI) and aerosol optical depth (AOD). This study includes an analysis of the distinct change in FRP signal that occurred in 2006 for the middle of the NSSA region, which is the area with the highest concentration of fires. A decrease in maximum monthly FRP has been observed since 2006 in this region. Regional changes in PM emissions have also been observed since then, including a large region of decreasing emissions southwest of Lake Chad. These emissions are taken from the new Fire Energetics and Emissions Research (FEER) emissions product that was developed as part of this NSSA research and is based on a global coefficient of emission (Ce) map with high spatial resolution. The FEER algorithm is a top-down approach in an effort to properly account for all emitted PM, which is especially important in the NSSA region because of its high concentration of fire events. When the FEER Ce v1.0 product is combined with the global FRP dataset from the Global Fire Assimilation System (GFAS) v1.0 product to generate PM emissions, estimates of total particulate matter (TPM) are generated. The FEER product estimates average annual TPM emissions in the NSSA region to be around 14 Tg between 2004-2010, which is greater than GFAS v1.0 by a factor of 1.8, and greater than the Global Fire Emissions Database (GFED) v3.1 by a factor of 1.6. Future work will plug these new emission estimates into regional models to gain a better understanding of the impacts of biomass burning on climate in NSSA.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ananthanarayan, B.; Imsong, I. Sentitemsu; Caprini, Irinel

The recently evaluated two-pion contribution to the muon g-2 and the phase of the pion electromagnetic form factor in the elastic region, known from {pi}{pi} scattering by Fermi-Watson theorem, are exploited by analytic techniques for finding correlations between the coefficients of the Taylor expansion at t=0 and the values of the form factor at several points in the spacelike region. We do not use specific parametrizations, and the results are fully independent of the unknown phase in the inelastic region. Using for instance, from recent determinations, =(0.435{+-}0.005) fm{sup 2} and F(-1.6 GeV{sup 2})=0.243{sub -0.014}{sup +0.022}, we obtain themore » allowed ranges 3.75 GeV{sup -4} < or approx. c < or approx. 3.98 GeV{sup -4} and 9.91 GeV{sup -6} < or approx. d < or approx. 10.46 GeV{sup -6} for the curvature and the next Taylor coefficient, with a strong correlation between them. We also predict a large region in the complex plane where the form factor cannot have zeros.« less

Spatial clustering and meteorological drivers of summer ozone in Europe

NASA Astrophysics Data System (ADS)

Carro-Calvo, Leopoldo; Ordóñez, Carlos; García-Herrera, Ricardo; Schnell, Jordan L.

2017-04-01

We present a regionalization of summer near-surface ozone (O3) in Europe. For this purpose we apply a K-means algorithm on a gridded MDA8 O3 (maximum daily average 8-h ozone) dataset covering a European domain [15° W - 30° E, 35°-70° N] at 1° x 1° horizontal resolution for the 1998-2012 period. This dataset was compiled by merging observations from the European Monitoring and Evaluation Programme (EMEP) and the European Environment Agency's air quality database (AirBase). The K-means method allows identifying sets of different regions where the O3 concentrations present coherent spatiotemporal patterns and are thus expected to be driven by similar meteorological factors. After some testing, 9 regions were selected: the British Isles, North-Central Europe, Northern Scandinavia, the Baltic countries, the Iberian Peninsula, Western Europe, South-Central Europe, Eastern Europe and the Balkans. For each region we examine the synoptic situations associated with elevated ozone extremes (days exceeding the 95th percentile of the summer MDA8 O3 distribution). Our analyses reveal that there are basically two different kinds of regions in Europe: (a) those in the centre and south of the continent where ozone extremes are associated with elevated temperature within the same region and (b) those in northern Europe where ozone extremes are driven by southerly advection of air masses from warmer, more polluted areas. Even when the observed patterns were initially identified only for days registering high O3 extremes, all summer days can be projected on such patterns to identify the main modes of meteorological variability of O3. We have found that such modes are partly responsible for the day-to-day variability in the O3 concentrations and can explain a relatively large fraction (from 44 to 88 %, depending on the region) of the interannual variability of summer mean MDA8 O3 during the period of analysis. On the other hand, some major teleconnection patterns have been tested but do not seem to exert a large impact on the variability of surface O3 over most regions. The identification of these independent regions where surface ozone presents a coherent behaviour and responds similarly to specific meteorological modes of variability has multiple applications. For instance, the performance of chemical transport models (CTMs) and chemistry-climate models (CCMs) can be separately assessed over such regions to identify areas where they present large biases that need to be corrected. Our results can also be used to test the models' sensitivity to the day-to-day changing meteorology and to climate change over specific regions.

The Green Bank Ammonia Survey: First Results of NH3 Mapping of the Gould Belt

NASA Astrophysics Data System (ADS)

Friesen, Rachel K.; Pineda, Jaime E.; co-PIs; Rosolowsky, Erik; Alves, Felipe; Chacón-Tanarro, Ana; How-Huan Chen, Hope; Chun-Yuan Chen, Michael; Di Francesco, James; Keown, Jared; Kirk, Helen; Punanova, Anna; Seo, Youngmin; Shirley, Yancy; Ginsburg, Adam; Hall, Christine; Offner, Stella S. R.; Singh, Ayushi; Arce, Héctor G.; Caselli, Paola; Goodman, Alyssa A.; Martin, Peter G.; Matzner, Christopher; Myers, Philip C.; Redaelli, Elena; The GAS Collaboration

2017-07-01

We present an overview of the first data release (DR1) and first-look science from the Green Bank Ammonia Survey (GAS). GAS is a Large Program at the Green Bank Telescope to map all Gould Belt star-forming regions with {A}{{V}}≳ 7 mag visible from the northern hemisphere in emission from NH3 and other key molecular tracers. This first release includes the data for four regions in the Gould Belt clouds: B18 in Taurus, NGC 1333 in Perseus, L1688 in Ophiuchus, and Orion A North in Orion. We compare the NH3 emission to dust continuum emission from Herschel and find that the two tracers correspond closely. We find that NH3 is present in over 60% of the lines of sight with {A}{{V}}≳ 7 mag in three of the four DR1 regions, in agreement with expectations from previous observations. The sole exception is B18, where NH3 is detected toward ∼40% of the lines of sight with {A}{{V}}≳ 7 mag. Moreover, we find that the NH3 emission is generally extended beyond the typical 0.1 pc length scales of dense cores. We produce maps of the gas kinematics, temperature, and NH3 column densities through forward modeling of the hyperfine structure of the NH3 (1, 1) and (2, 2) lines. We show that the NH3 velocity dispersion, {σ }v, and gas kinetic temperature, T K, vary systematically between the regions included in this release, with an increase in both the mean value and the spread of {σ }v and T K with increasing star formation activity. The data presented in this paper are publicly available (https://dataverse.harvard.edu/dataverse/GAS_DR1).

Optimization of conditions for isolation of high quality chitin from shrimp processing raw byproducts using response surface methodology and its characterization.

PubMed

Nidheesh, T; Suresh, P V

2015-06-01

Chitin is one of the most abundant bioactive biopolymer on earth. It is commercially extracted from seafood processing crustacean shell byproducts by harsh thermochemical treatments. The extraction conditions, the source and pretreatment of raw material significantly affect its quality and bioactivity. In this investigation response surface methodology (RSM) has been applied to optimize and evaluate the interaction of variables for extraction of high quality chitin from shrimp processing raw byproducts. Variables such as, concentration of HCl (%, v/v) 4.5 (for wet) and 4.9 (for dry), reaction time 3 h, solid liquid ratio of HCl (w/v) 1:5.5 (for wet) and 1:7.9 (for dry) with two treatments achieved >98 % demineralization of shrimp byproduct. Variables such as, concentration of NaOH 3.6 % (w/v), reaction time 2.5 h, temperature 69.0 ± 1 °C, solid liquid ratio of NaOH 7.4 (w/v) and two treatments accomplished >98 % deproteinization of demineralized byproducts. Significant (p ≤ 0.05-0.001) interactive effects were observed between different variables. Chitin obtained in these conditions had residual content (%, w/w) of ash <0.4 and protein <0.8 and the degree of N-acetylation was >93 % with purity of >98 %. In conclusion, the optimized conditions by RSM can be applied for large scale preparation of high quality chitin from raw shrimp byproduct.

Measurement and analysis of gamma-rays emitted from spent nuclear fuel above 3 MeV.

PubMed

Rodriguez, Douglas C; Anderson, Elaina; Anderson, Kevin K; Campbell, Luke W; Fast, James E; Jarman, Kenneth; Kulisek, Jonathan; Orton, Christopher R; Runkle, Robert C; Stave, Sean

2013-12-01

The gamma-ray spectrum of spent nuclear fuel in the 3-6 MeV energy range is important for active interrogation since gamma rays emitted from nuclear decay are not expected to interfere with measurements in this energy region. There is, unfortunately, a dearth of empirical measurements from spent nuclear fuel in this region. This work is an initial attempt to partially fill this gap by presenting an analysis of gamma-ray spectra collected from a set of spent nuclear fuel sources using a high-purity germanium detector array. This multi-crystal array possesses a large collection volume, providing high energy resolution up to 16 MeV. The results of these measurements establish the continuum count-rate in the energy region between 3 and 6 MeV. Also assessed is the potential for peaks from passive emissions to interfere with peak measurements resulting from active interrogation delayed emissions. As one of the first documented empirical measurements of passive emissions from spent fuel for energies above 3 MeV, this work provides a foundation for active interrogation model validation and detector development. © 2013 Elsevier Ltd. All rights reserved.

Quantifying Spatial and Seasonal Variability in Atmospheric Ammonia with In Situ and Space-Based Observations

NASA Technical Reports Server (NTRS)

Pinder, Robert W.; Walker, John T.; Bash, Jesse O.; Cady-Pereira, Karen E.; Henze, Daven K.; Luo, Mingzhao; Osterman, Gregory B.; Shepard, Mark W.

2011-01-01

Ammonia plays an important role in many biogeochemical processes, yet atmospheric mixing ratios are not well known. Recently, methods have been developed for retrieving NH3 from space-based observations, but they have not been compared to in situ measurements. We have conducted a field campaign combining co-located surface measurements and satellite special observations from the Tropospheric Emission Spectrometer (TES). Our study includes 25 surface monitoring sites spanning 350 km across eastern North Carolina, a region with large seasonal and spatial variability in NH3. From the TES spectra, we retrieve a NH3 representative volume mixing ratio (RVMR), and we restrict our analysis to times when the region of the atmosphere observed by TES is representative of the surface measurement. We find that the TES NH3 RVMR qualitatively captures the seasonal and spatial variability found in eastern North Carolina. Both surface measurements and TES NH3 show a strong correspondence with the number of livestock facilities within 10 km of the observation. Furthermore, we find that TES H3 RVMR captures the month-to-month variability present in the surface observations. The high correspondence with in situ measurements and vast spatial coverage make TES NH3 RVMR a valuable tool for understanding regional and global NH3 fluxes.

Generation of a mouse scFv library specific for porcine aminopeptidase N using the T7 phage display system.

PubMed

Sun, Dongbo; Shi, Hongyan; Chen, Jianfei; Shi, Da; Zhu, Qinghe; Zhang, Hong; Liu, Shengwang; Wang, Yunfeng; Qiu, Huaji; Feng, Li

2012-06-01

Porcine aminopeptidase N (pAPN) is a common cellular receptor for swine transmissible gastroenteritis virus (TGEV) and porcine epidemic diarrhea virus (PEDV). To investigate single-chain fragment variable (scFv) repertoire against pAPN, the genes encoding the immunoglobulin light chain variable region (VL) and heavy chain variable region (VH) were amplified by reverse transcript polymerase chain reaction (RT-PCR) using a series of degenerate primers from the spleen of BABL/c mice immunized with native pAPN. The VL and VH amplicons were combined randomly by a 12 amino acid flexible linker by splicing by overlap extension PCR (SOE-PCR), which produced the scFv gene repertoire. After ligation of the scFv gene repertoire into the T7Select10-3b vector, a mouse scFv phage library specific for pAPN was produced through in vitro packaging. The primary scFv library against pAPN contained 2.0×10(7) recombinant phage clones, and the titer of the amplified library was 3.6×10(9)pfu/mL. BstNI restriction analysis and DNA sequencing revealed that 28 phage clones from the primary pAPN scFv library showed excellent diversity. The effectiveness of the scFv library against pAPN was verified further by phage ELISA using the recombinant protein of the pAPN C subunit as coating antigen. The construction and evaluation of a murine scFv library against the common receptor pAPN of porcine coronaviruses TGEV and PEDV using the T7 phage display system are described. Copyright © 2012 Elsevier B.V. All rights reserved.

A NEW CENSUS OF THE VARIABLE STAR POPULATION IN THE GLOBULAR CLUSTER NGC 2419

DOE Office of Scientific and Technical Information (OSTI.GOV)

Di Criscienzo, M.; Greco, C.; Ripepi, V.

We present B, V, and I CCD light curves for 101 variable stars belonging to the globular cluster NGC 2419, 60 of which are new discoveries, based on data sets obtained at the Telescopio Nazionale Galileo, the Subaru telescope, and the Hubble Space Telescope. The sample includes 75 RR Lyrae stars (38 RRab, 36 RRc, and one RRd), one Population II Cepheid, 12 SX Phoenicis variables, two {delta} Scuti stars, three binary systems, five long-period variables, and three variables of uncertain classification. The pulsation properties of the RR Lyrae variables are close to those of Oosterhoff type II clusters, consistentmore » with the low metal abundance and the cluster horizontal branch morphology, disfavoring (but not totally ruling out) an extragalactic hypothesis for the origin of NGC 2419. The observed properties of RR Lyrae and SX Phoenicis stars are used to estimate the cluster reddening and distance, using a number of different methods. Our final value is {mu}{sub 0} (NGC 2419) = 19.71 {+-} 0.08 mag (D = 87.5 {+-} 3.3 kpc), with E(B - V) = 0.08 {+-} 0.01 mag, [Fe/H] = -2.1 dex on the Zinn and West metallicity scale, and a value of M{sub V} that sets {mu}{sub 0} (LMC) = 18.52 mag. This value is in good agreement with the most recent literature estimates of the distance to NGC 2419.« less

The broad-band x ray spectral variability of Mkn 841

NASA Technical Reports Server (NTRS)

George, I. M.; Nandra, K.; Fabian, A. C.; Turner, T. J.; Done, C.; Day, C. S. R.

1992-01-01

The results of a detailed spectral analysis of four X-ray observations of the luminous Seyfert 1.5 galaxy Mkn 841 performed using the EXOSAT and Ginga satellites over the period June 1984 to July 1990 are reported. Preliminary results from a short ROSAT PSPC observation of Mkn 841 in July 1990 are also presented. Variability is apparent in both the soft (0.1-1.0 keV) and medium (1-20 keV) energy bands. Above 1 keV, the spectra are adequately modelled by a power-law with a strong emission line of equivalent width approximately 450 eV. The energy of the line (approximately 6.4 keV) is indicative of K-shell fluorescence from neutral iron, leading to the interpretation that the line arises via X-ray illumination of cold material surrounding the source. In addition to the flux variability, the continuum shape also changes in a dramatic fashion, with variations in the apparent photon index Delta(Gamma) approximately 0.6. The large equivalent width of the emission line clearly indicates a strongly enhanced reflection component in the source, compared to other Seyferts observed with Ginga. The spectral changes are interpreted in terms of a variable power-law continuum superimposed on a flatter reflection component. For one Ginga observation, the reflected flux appears to dominate the medium energy X-ray emission, resulting in an unusually flat slope (Gamma approximately 1.0). The soft X-ray excess is found to be highly variable by a factor approximately 10. These variations are not correlated with the hard flux, but it seems likely that the soft component arises via reprocessing of the hard X-rays. We find no evidence for intrinsic absorption, with the equivalent hydrogen column density constrained to be less than or equal to few x 10(exp 20) cm(exp -2). The implications of these results for physical models for the emission regions in this and other X-ray bright Seyferts are briefly discussed.

Isolated noncompaction of myocardium associated with calcification in the interventricular septum.

PubMed

Nil, M; Mori, K; Yuasa, Y; Ichida, F

2003-01-01

We describe a 12-year-old male with isolated noncompaction of the myocardium and associated abnormal calcification in the basal interventricular septum, and we present a review of the literature. The patient has been healthy and free of symptoms. The electrocardiogram showed abnormal Q waves in III, V1, V2, and ST elevation in V1-V3. Exercise testing demonstrated ST depression in V4 and V5. Myocardial scintigraphic examination showed a regional reduction in iodine-1,2,3-beta-methyl-iodophenylpentadecanoic acid uptake in the basal interventricular septum. Since coronary angiography demonstrated normal coronary vessels and the trabeculations were not prominent in this region, we hypothesize that coronary microcirculatory dysfunction may cause subendocardial infarction associated with calcification in the same area.

Magnetic stimulation of visual cortex impairs perceptual learning.

PubMed

Baldassarre, Antonello; Capotosto, Paolo; Committeri, Giorgia; Corbetta, Maurizio

2016-12-01

The ability to learn and process visual stimuli more efficiently is important for survival. Previous neuroimaging studies have shown that perceptual learning on a shape identification task differently modulates activity in both frontal-parietal cortical regions and visual cortex (Sigman et al., 2005;Lewis et al., 2009). Specifically, fronto-parietal regions (i.e. intra parietal sulcus, pIPS) became less activated for trained as compared to untrained stimuli, while visual regions (i.e. V2d/V3 and LO) exhibited higher activation for familiar shape. Here, after the intensive training, we employed transcranial magnetic stimulation over both visual occipital and parietal regions, previously shown to be modulated, to investigate their causal role in learning the shape identification task. We report that interference with V2d/V3 and LO increased reaction times to learned stimuli as compared to pIPS and Sham control condition. Moreover, the impairment observed after stimulation over the two visual regions was positive correlated. These results strongly support the causal role of the visual network in the control of the perceptual learning. Copyright © 2016 Elsevier Inc. All rights reserved.

Geographic variability in HIV and injection drug use in Ukraine: implications for integration and expansion of drug treatment and HIV care.

PubMed

Zaller, Nickolas; Mazhnaya, Alonya; Larney, Sarah; Islam, Zahed; Shost, Alyona; Prokhorova, Tatiana; Rybak, Natasha; Flanigan, Timothy

2015-01-01

Ukraine has the highest HIV burden of any European country with much of the current HIV epidemic concentrated among people who inject drugs (PWIDs) and their sexual partners. Opiate substitution therapy (OST) is limited in Ukraine and expansion of OST is urgently needed to help stem the tide of the HIV epidemic. We accessed publicly available data in Ukraine in order to explore geographic variability with respect to prevalence of HIV, PWIDs and OST programmes. The regions of Ukraine with the largest number of opioid dependent persons (the south and eastern portions of the country) correspond to the regions with the highest HIV prevalence and HIV incidence. The number of opioid PWIDs per 100,000 population as well as the number of all OST treatment slots per 100,000 varied significantly across the three HIV prevalence categories. Overall, the proportion of individuals receiving either methadone maintenance therapy (MMT) or buprenorphine maintenance therapy (BMT) was quite low: average across categories: 7.3% and 0.4%, respectively. Additionally, less than half of OST patients receiving MMT or BMT were HIV positive patients. There is significant geographic variability in both numbers of HIV positive individuals and numbers of PWIDs across Ukraine, however, there may be a more concentrated epidemic among PWIDs in many regions of the country. Scale up of addiction treatment for PWID, especially OST, can have a significant impact on preventing injection related morbidity, such as HIV and HCV infection. Ukraine can learn from the mistakes other nations have made in denying critical treatment opportunities to PWID. Copyright © 2014 Elsevier B.V. All rights reserved.

Ammonia and Methane Dairy Emission Plumes in the San Joaquin Valley of California from Individual Feedlot to Regional Scales

NASA Technical Reports Server (NTRS)

Miller, David J.; Sun, Kang; Pan, Da; Zondlo, Mark A.; Nowak, John B.; Liu, Zhen; Diskin, Glenn; Sachse, Glen; Beyersdorf, Andreas; Ferrare, Richard;

Ammonia and methane dairy emissions in the San Joaquin Valley of California from individual feedlot to regional scale

DOE PAGES

Miller, David J.; Sun, Kang; Tao, Lei; ...

2015-09-27

Agricultural ammonia (NH 3) emissions are highly uncertain, with high spatiotemporal variability and a lack of widespread in situ measurements. Regional NH 3 emission estimates using mass balance or emission ratio approaches are uncertain due to variable NH 3 sources and sinks as well as unknown plume correlations with other dairy source tracers. We characterize the spatial distributions of NH 3 and methane (CH 4) dairy plumes using in situ surface and airborne measurements in the Tulare dairy feedlot region of the San Joaquin Valley, California, during the NASA Deriving Information on Surface conditions from Column and Vertically Resolved Observationsmore » Relevant to Air Quality 2013 field campaign. Surface NH 3 and CH 4 mixing ratios exhibit large variability with maxima localized downwind of individual dairy feedlots. The geometric mean NH 3:CH 4 enhancement ratio derived from surface measurements is 0.15 ± 0.03 ppmv ppmv –1. Individual dairy feedlots with spatially distinct NH 3 and CH 4 source pathways led to statistically significant correlations between NH 3 and CH 4 in 68% of the 69 downwind plumes sampled. At longer sampling distances, the NH 3:CH 4 enhancement ratio decreases 20–30%, suggesting the potential for NH 3 deposition as a loss term for plumes within a few kilometers downwind of feedlots. Aircraft boundary layer transect measurements directly above surface mobile measurements in the dairy region show comparable gradients and geometric mean enhancement ratios within measurement uncertainties, even when including NH 3 partitioning to submicron particles. Individual NH 3 and CH 4 plumes sampled at close proximity where losses are minimal are not necessarily correlated due to lack of mixing and distinct source pathways. As a result, our analyses have important implications for constraining NH 3 sink and plume variability influences on regional NH 3 emission estimates and for improving NH 3 emission inventory spatial allocations.« less

B cell Variable genes have evolved their codon usage to focus the targeted patterns of somatic mutation on the complementarity determining regions

PubMed Central

Saini, Jasmine; Hershberg, Uri

2015-01-01

The exceptional ability of B cells to diversify through somatic mutation and improve affinity of the repertoire towards the antigens is the cornerstone of adaptive immunity. Somatic mutation is not evenly distributed and exhibits certain micro-sequence specificities. We show here that the combination of somatic mutation targeting and the codon usage in human B cell receptor (BCR) Variable (V) genes create expected patterns of mutation and post mutation changes that are focused on their complementarity determining regions (CDR). T cell V genes are also skewed in targeting mutations but to a lesser extent and are lacking the codon usage bias observed in BCRs. This suggests that the observed skew in T cell receptors is due to their amino acid usage, which is similar to that of BCRs. The mutation targeting and the codon bias allow B cell CDRs to diversify by specifically accumulating nonconservative changes. We counted the distribution of mutations to CDR in 4 different human datasets. In all four cases we found that the number of actual mutations in the CDR correlated significantly with the V gene mutation biases to the CDR predicted by our models. Finally, it appears that the mutation bias in V genes indeed relates to their long-term survival in actual human repertoires. We observed that resting repertoires of B cells overexpressed V genes that were especially biased towards focused mutation and change in the CDR. This bias in V gene usage was somewhat relaxed at the height of the immune response to a vaccine, presumably because of the need for a wider diversity in a primary response. However, older patients did not retain this flexibility and were biased towards using only highly skewed V genes at all stages of their response. PMID:25660968

B cell variable genes have evolved their codon usage to focus the targeted patterns of somatic mutation on the complementarity determining regions.

PubMed

Saini, Jasmine; Hershberg, Uri

2015-05-01

The exceptional ability of B cells to diversify through somatic mutation and improve affinity of the repertoire toward the antigens is the cornerstone of adaptive immunity. Somatic mutation is not evenly distributed and exhibits certain micro-sequence specificities. We show here that the combination of somatic mutation targeting and the codon usage in human B cell receptor (BCR) Variable (V) genes create expected patterns of mutation and post mutation changes that are focused on their complementarity determining regions (CDR). T cell V genes are also skewed in targeting mutations but to a lesser extent and are lacking the codon usage bias observed in BCRs. This suggests that the observed skew in T cell receptors is due to their amino acid usage, which is similar to that of BCRs. The mutation targeting and the codon bias allow B cell CDRs to diversify by specifically accumulating nonconservative changes. We counted the distribution of mutations to CDR in 4 different human datasets. In all four cases we found that the number of actual mutations in the CDR correlated significantly with the V gene mutation biases to the CDR predicted by our models. Finally, it appears that the mutation bias in V genes indeed relates to their long-term survival in actual human repertoires. We observed that resting repertoires of B cells overexpressed V genes that were especially biased toward focused mutation and change in the CDR. This bias in V gene usage was somewhat relaxed at the height of the immune response to a vaccine, presumably because of the need for a wider diversity in a primary response. However, older patients did not retain this flexibility and were biased toward using only highly skewed V genes at all stages of their response. Copyright © 2015 Elsevier Ltd. All rights reserved.

Optimization of edible coating formulations for improving postharvest quality and shelf life of pear fruit using response surface methodology.

PubMed

Nandane, A S; Dave, Rudri K; Rao, T V Ramana

2017-01-01

The effect of composite edible films containing soy protein isolate (SPI) in combination with additives like hydroxypropyl methylcellulose (HPMC) and olive oil on 'Babughosha' pear ( Pyrus communis L.) stored at ambient temperature (28 ± 5 °C and 60 ± 10% RH) was evaluated using Response surface methodology (RSM). A total of 30 edible coating formulations comprising of SPI (2-6%, w/v), olive oil (0.7-1.1%, v/v), HPMC (0.1-0.5%, w/v) and potassium sorbate (0-0.4% w/v) were evaluated for optimizing the most suitable combination. Quality parameters like weight loss%, TSS, pH and titrable acidity of the stored pears were selected as response variables for optimization. The optimization procedure was carried out using RSM. It was observed that the response variables were mainly effected by concentration of SPI and olive oil in the formulation. Edible coating comprising of SPI 5%, HPMC 0.40%, olive oil 1% and potassium sorbate 0.22% was found to be most suitable combination for pear fruit with predicted values of response variables indicated as weight loss% 3.50, pH 3.41, TSS 11.13 and TA% 0.513.

Analysis of the T-cell receptor repertoire of human T-cell leukemia virus type 1 (HTLV-1) Tax-specific CD8+ cytotoxic T lymphocytes from patients with HTLV-1-associated disease: evidence for oligoclonal expansion.

PubMed

Utz, U; Banks, D; Jacobson, S; Biddison, W E

1996-02-01

Human T-cell leukemia virus type 1 (HTLV-1)-associated myelopathy/tropical spastic paraparesis (HAM/TSP) is a chronic, progressive neurological disease characterized by marked degeneration of the spinal cord and the presence of antibodies against HTLV-1. Patients with HAM/TSP, but not asymptomatic carriers, show very high precursor frequencies of HTLV-1-specific CD8+ T cells in peripheral blood and cerebrospinal fluid, suggestive of a role of these T cells in the pathogenesis of the disease. In HLA-A2+ HAM/TSP patients, HTLV-1-specific T cells were demonstrated to be directed predominantly against one HTLV-1 epitope, namely, Tax11-19. In the present study, we analyzed HLA-A2-restricted HTLV-1 Tax11-19-specific cytotoxic T cells from three patients with HAM/TSP. An analysis of the T-cell receptor (TCR) repertoire of these cells revealed an absence of restricted variable (V) region usage. Different combinations of TCR V alpha and V beta genes were utilized between, but also within, the individual patients for the recognition of Tax11-19. Sequence analysis of the TCR showed evidence for an oligoclonal expansion of few founder T cells in each patient. Apparent structural motifs were identified for the CDR3 regions of the TCR beta chains. One T-cell clone could be detected within the same patient over a period of 3 years. We suggest that these in vivo clonally expanded T cells might play a role in the pathogenesis of HAM/TSP and provide information on HTLV-1-specific TCR which may elucidate the nature of the T cells that infiltrate the central nervous system in HAM/TSP patients.

Binocular Stereoscopy in Visual Areas V-2, V-3, and V-3A of the Macaque Monkey

PubMed Central

Hubel, David H.; Wiesel, Torsten N.; Yeagle, Erin M.; Lafer-Sousa, Rosa; Conway, Bevil R.

2015-01-01

Over 40 years ago, Hubel and Wiesel gave a preliminary report of the first account of cells in monkey cerebral cortex selective for binocular disparity. The cells were located outside of V-1 within a region referred to then as “area 18.” A full-length manuscript never followed, because the demarcation of the visual areas within this region had not been fully worked out. Here, we provide a full description of the physiological experiments and identify the locations of the recorded neurons using a contemporary atlas generated by functional magnetic resonance imaging; we also perform an independent analysis of the location of the neurons relative to an anatomical landmark (the base of the lunate sulcus) that is often coincident with the border between V-2 and V-3. Disparity-tuned cells resided not only in V-2, the area now synonymous with area 18, but also in V-3 and probably within V-3A. The recordings showed that the disparity-tuned cells were biased for near disparities, tended to prefer vertical orientations, clustered by disparity preference, and often required stimulation of both eyes to elicit responses, features strongly suggesting a role in stereoscopic depth perception. PMID:24122139

A Methodology for Modeling Confined, Temperature Sensitive Cushioning Systems

DTIC Science & Technology

1980-06-01

thickness of cushion T, and®- s temperature 0, and as a dependent variable, G, the peak acceleration. The initial model, Equation (IV-11), proved deficient ...k9) = TR * TCTH ALV(60) = Tk * TCTH AL2 V6)= Tk2 * FCTH V2 =TRk * TCrFH *AL V(6~3) =THZ * TC.TH AU! V(,34) =TRa * TCTH 141 Yj)=Tks * T(-Th * AL V(.4b

Volumetric contributions of loop regions of G-quadruplex DNA to the formation of the tertiary structure.

PubMed

Takahashi, Shuntaro; Sugimoto, Naoki

2017-12-01

DNA guanine-quadruplexes (G-quadruplexes) are unique DNA structures formed by guanine-rich sequences. The loop regions of G-quadruplexes play key roles in stability and topology of G-quadruplexes. Here, we investigated volumetric changes induced by pressure in the folding of the G-quadruplex formed by the thrombin binding aptamer (TBA) with mutations within the loop regions. The change of partial molar volume in the transition from coil to G-quadruplex, ∆V tr , of TBA with a mutation from T to A in the 5' most loop (TBA T3A) was 75.5cm 3 mol -1 , which was larger than that of TBA (54.6cm 3 mol -1 ). TBA with a G to T mutation in the central loop (TBA G8T) had thermal stability similar to TBA T3A but a smaller ∆V tr of 41.1cm 3 mol -1 . In the presence of poly(ethylene)glycol 200 (PEG200), ∆V tr values were 14.7cm 3 mol -1 for TBA T3A and 13.2cm 3 mol -1 for TBA G8T. These results suggest that the two mutations destabilize the G-quadruplex structure differently. Thus, volumetric data obtained using pressure-based thermodynamic analyses provides information about the dynamics of the loop regions and the roles of loops in the stabilities and folding of G-quadruplex structures. Copyright © 2017 Elsevier B.V. All rights reserved.

Antimony(V) Adsorption by Variable-Charge Minerals

DTIC Science & Technology

2013-10-01

6‒] and inner-sphere [≡SOSb(OH)5‒] adsorption mechanisms. In general, however, the models generated for single ligand systems required reoptimization...HCO3 and CO3 ) effectively desorbed Sb(V) from hydrous metal (Al and Fe) oxides, clay minerals, and Sb(V)-contaminated sediments, relative to the...temperatures (20- 22°C). 7 A well- crystallized Georgia kaolinite (KGa-1b) from the Source Clays Repository of The Clay Minerals Society (West Lafayette

Towards a better classification of unclear eruptive variables: the cases of V2492 Cyg, V350 Cep, and ASASSN-15qi

NASA Astrophysics Data System (ADS)

Jurdana-Šepić, R.; Munari, U.; Antoniucci, S.; Giannini, T.; Lorenzetti, D.

2018-06-01

Context. Eruptive variables are young stars that show episodic variations of brightness: EXors/FUors variations are commonly associated with enhanced accretion outbursts occurring at intermittent cadence of months/years (EXors) and decades/centuries (FUors). Variations that can be ascribed to a variable extinction along their line of sight are instead classified as UXors. Aims: We aim at investigating the long-term photometric behaviour of three sources classified as eruptive variables. We present data from the archival plates of the Asiago Observatory relative to the fields where the targets are located. For the sake of completeness we have also analysed the Harvard plates of the same regions that cover a much longer historical period, albeit at a lower sensitivity, however we are only able to provide upper limits. Methods: A total of 273 Asiago plates were investigated, providing a total of more than 200 magnitudes for the three stars, which cover a period of about 34 yr between 1958 and 1991. We have compared our data with more recently collected literature data. Results: Our plates analysis of V2492 Cyg provides historical upper limits that seem not to be compatible with the level of the activity monitored during the last decade. Therefore, recently observed accretion phenomena could be associated with the outbursting episodes, more than repetitive obscuration. While a pure extinction does not seem the only mechanism responsible for the ASASSN-15qi fluctuations, it can account quite reasonably for the recent V350 Cep variations.

Effect of pertussis and cholera toxins administered supraspinally on CA3 hippocampal neuronal cell death and the blood glucose level induced by kainic acid in mice.

PubMed

Kim, Chea-Ha; Park, Soo-Hyun; Sim, Yun-Beom; Sharma, Naveen; Kim, Sung-Su; Lim, Su-Min; Jung, Jun-Sub; Suh, Hong-Won

2014-12-01

The effect of cholera toxin (CTX) or pertussis toxin (PTX) administered supraspinally on hippocampal neuronal cell death in CA3 region induced by kainic acid (KA) was examined in mice. After the pretreatment with either PTX or CTX intracerebroventricularly (i.c.v.), mice were administered i.c.v. with KA. The i.c.v. treatment with KA caused a neuronal cell death in CA3 region and PTX, but not CTX, attenuated the KA-induced neuronal cell death. In addition, i.c.v. treatment with KA caused an elevation of the blood glucose level. The i.c.v. PTX pretreatment alone caused a hypoglycemia and inhibited KA-induced hyperglycemic effect. However, i.c.v. pretreatment with CTX did not affect the basal blood glucose level and KA-induced hyperglycemic effect. Moreover, KA administered i.c.v. caused an elevation of corticosterone level and reduction of the blood insulin level. Whereas, i.c.v. pretreatment with PTX further enhanced KA-induced up-regulation of corticosterone level. Furthermore, i.c.v. administration of PTX alone increased the insulin level and KA-induced hypoinsulinemic effect was reversed. In addition, PTX pretreatment reduces the KA-induced seizure activity. Our results suggest that supraspinally administered PTX, exerts neuroprotective effect against KA-induced neuronal cells death in CA3 region and neuroprotective effect of PTX is mediated by the reduction of KA-induced blood glucose level. Copyright © 2014 Elsevier Ireland Ltd and the Japan Neuroscience Society. All rights reserved.

Assessing Hydro-Ecological Vulnerability from Space

NASA Astrophysics Data System (ADS)

Stampoulis, D.; Andreadis, K.; Granger, S. L.; Fisher, J. B.; Turk, F. J.; Behrangi, A.; Das, N. N.; Ines, A.

2015-12-01

The main driver of economic growth in East Africa is agriculture. However, climate change and the resulting intensification of the hydrologic cycle will increase water limitation in this already drought-burdened region, and the challenge of ensuring food security is bound to become critical. Efforts must, therefore, be made to develop appropriate adaptation strategies for agriculture in such regions. Assessing and predicting ecosystem responses to global environmental change can advance management and decision support systems that would improve food security and economic development. The current study uses a plethora of multi-year remote sensing earth observations to study the hydro-ecological vulnerability of the various ecosystems in the water-stressed East African region to droughts. More specifically, we assess the hydrologic sensitivity and resilience of soil moisture and vegetation water content (derived from NRL's WindSat radiometer), during dry spells, for different dry-period durations, and for various vegetation categories. Spatiotemporal patterns and characteristics of the response of the two aforementioned variables to sustained precipitation deficits (derived from TRMM 3B42 V7), as well as their persistence in maintaining their stability are identified. We also assess changes, in space and time, in the normalized radar surface-backscattering cross-sections from NASA's QuikSCAT Scatterometer, to obtain information on the vegetation regimes, as well as changes in vegetation phenometrics using the enhanced vegetation index (EVI) derived from MODIS. Quantifying the response and characterizing the resilience of the two aforementioned major hydrological attributes using various remote sensing techniques that complement each other, can provide critical insight into the region's vulnerability and adaptive capacity with respect to rainfall variability.

Beam tracking simulation in the central region of a 13 MeV PET cyclotron

NASA Astrophysics Data System (ADS)

Anggraita, Pramudita; Santosa, Budi; Taufik, Mulyani, Emy; Diah, Frida Iswinning

2012-06-01

This paper reports the trajectories simulation of proton beam in the central region of a 13 MeV PET cyclotron, operating with negative proton beam (for easier beam extraction using a stripper foil), 40 kV peak accelerating dee voltage at fourth harmonic frequency of 77.88 MHz, and average magnetic field of 1.275 T. The central region covers fields of 240mm × 240mm × 30mm size at 1mm resolution. The calculation was also done at finer 0.25mm resolution covering fields of 30mm × 30mm × 4mm size to see the effects of 0.55mm horizontal width of the ion source window and the halted trajectories of positive proton beam. The simulations show up to 7 turns of orbital trajectories, reaching about 1 MeV of beam energy. The distribution of accelerating electric fields and magnetic fields inside the cyclotron were calculated in 3 dimension using Opera3D code and Tosca modules for static magnetic and electric fields. The trajectory simulation was carried out using Scilab 5.3.3 code.

Gene end-like sequences within the 3' non-coding region of the Nipah virus genome attenuate viral gene transcription.

PubMed

Sugai, Akihiro; Sato, Hiroki; Yoneda, Misako; Kai, Chieko

2017-08-01

The regulation of transcription during Nipah virus (NiV) replication is poorly understood. Using a bicistronic minigenome system, we investigated the involvement of non-coding regions (NCRs) in the transcriptional re-initiation efficiency of NiV RNA polymerase. Reporter assays revealed that attenuation of NiV gene expression was not constant at each gene junction, and that the attenuating property was controlled by the 3' NCR. However, this regulation was independent of the gene-end, gene-start and intergenic regions. Northern blot analysis indicated that regulation of viral gene expression by the phosphoprotein (P) and large protein (L) 3' NCRs occurred at the transcription level. We identified uridine-rich tracts within the L 3' NCR that are similar to gene-end signals. These gene-end-like sequences were recognized as weak transcription termination signals by the viral RNA polymerase, thereby reducing downstream gene transcription. Thus, we suggest that NiV has a unique mechanism of transcriptional regulation. Copyright © 2017 Elsevier Inc. All rights reserved.

Secreted autoantibody repertoires in Sjögren's syndrome and systemic lupus erythematosus: A proteomic approach.

PubMed

Al Kindi, Mahmood A; Colella, Alex D; Chataway, Tim K; Jackson, Michael W; Wang, Jing J; Gordon, Tom P

2016-04-01

The structures of epitopes bound by autoantibodies against RNA-protein complexes have been well-defined over several decades, but little is known of the clonality, immunoglobulin (Ig) variable (V) gene usage and mutational status of the autoantibodies themselves at the level of the secreted (serum) proteome. A novel proteomic workflow is presented based on affinity purification of specific Igs from serum, high-resolution two-dimensional gel electrophoresis, and de novo and database-driven sequencing of V-region proteins by mass spectrometry. Analysis of anti-Ro52/Ro60/La proteomes in primary Sjögren's syndrome (SS) and anti-Sm and anti-ribosomal P proteomes in systemic lupus erythematosus (SLE) has revealed that these antibody responses are dominated by restricted sets of public (shared) clonotypes, consistent with common pathways of production across unrelated individuals. The discovery of shared sets of specific V-region peptides can be exploited for diagnostic biomarkers in targeted mass spectrometry platforms and for tracking and removal of pathogenic clones. Copyright © 2016 Elsevier B.V. All rights reserved.

Distinct roles of visual, parietal, and frontal motor cortices in memory-guided sensorimotor decisions

PubMed Central

Goard, Michael J; Pho, Gerald N; Woodson, Jonathan; Sur, Mriganka

2016-01-01

Mapping specific sensory features to future motor actions is a crucial capability of mammalian nervous systems. We investigated the role of visual (V1), posterior parietal (PPC), and frontal motor (fMC) cortices for sensorimotor mapping in mice during performance of a memory-guided visual discrimination task. Large-scale calcium imaging revealed that V1, PPC, and fMC neurons exhibited heterogeneous responses spanning all task epochs (stimulus, delay, response). Population analyses demonstrated unique encoding of stimulus identity and behavioral choice information across regions, with V1 encoding stimulus, fMC encoding choice even early in the trial, and PPC multiplexing the two variables. Optogenetic inhibition during behavior revealed that all regions were necessary during the stimulus epoch, but only fMC was required during the delay and response epochs. Stimulus identity can thus be rapidly transformed into behavioral choice, requiring V1, PPC, and fMC during the transformation period, but only fMC for maintaining the choice in memory prior to execution. DOI: http://dx.doi.org/10.7554/eLife.13764.001 PMID:27490481

Summation and Cancellation Effects on QRS and ST-Segment Changes Induced by Simultaneous Regional Myocardial Ischemia.

PubMed

Vives-Borrás, Miquel; Jorge, Esther; Amorós-Figueras, Gerard; Millán, Xavier; Arzamendi, Dabit; Cinca, Juan

2018-01-01

Simultaneous ischemia in two myocardial regions is a potentially lethal clinical condition often unrecognized whose corresponding electrocardiographic (ECG) patterns have not yet been characterized. Thus, this study aimed to determine the QRS complex and ST-segment changes induced by concurrent ischemia in different myocardial regions elicited by combined double occlusion of the three main coronary arteries. For this purpose, 12 swine were randomized to combination of 5-min single and double coronary artery occlusion: Group 1: left Circumflex (LCX) and right (RCA) coronary arteries ( n = 4); Group 2: left anterior descending artery (LAD) and LCX ( n = 4) and; Group 3: LAD and RCA ( n = 4). QRS duration and ST-segment displacement were measured in 15-lead ECG. As compared with single occlusion, double LCX+RCA blockade induced significant QRS widening of about 40 ms in nearly all ECG leads and magnification of the ST-segment depression in leads V1-V3 (maximal 228% in lead V3, p < 0.05). In contrast, LAD+LCX or LAD+RCA did not induce significant QRS widening and markedly attenuated the ST-segment elevation in precordial leads (maximal attenuation of 60% in lead V3 in LAD+LCX and 86% in lead V5 in LAD+RCA, p < 0.05). ST-segment elevation in leads V7-V9 was a specific sign of single LCX occlusion. In conclusion, concurrent infero-lateral ischemia was associated with a marked summation effect of the ECG changes previously elicited by each single ischemic region. By contrast, a cancellation effect on ST-segment changes with no QRS widening was observed when the left anterior descending artery was involved.

The utilization of Eschericia coli and Shewanella oneidensis for microbial fuel cell

NASA Astrophysics Data System (ADS)

Juliastuti, S. R.; Darmawan, R.; Ayuningtyas, A.; Ellyza, N.

2018-03-01

Microbial Fuel Cell (MFC) is a technology that convert chemical energy into electrical energy with catalytic reaction from microorganism. The research method using bacteria in organic waste on anode compartment and ferricyanide solution on cathode compartment. Wastewater from sugar factory was used as organic waste with bacterial concentration of 10%, 12.5%, 15%, 17.5% (v/v) and with bacteria mixture ratio 1:1, 1:2, 2:1. The result of the research showed that the best voltage of bacteria concentration was 12.5% for Eschericia coli and Shewanella oneidensis bacteria, which were 847 mV and 988 mV, and for the mixed bacteria variable was 1:2 ratio with the voltage was 1261 mV. For 12 days, the largest percentage of the decrease of BOD5 was 12.5% Eschericia coli bacteria concentration variable reached 84.531% and 17.5% Shewanella oneidensis was 73.779%. The best Fe3+ reduction was 53.52% for Escherichia coli at 10% concentration (v/v), and for Shewanella oneidensis bacteria reached out of 62.22% at 15% concentration (v/v). In the variable with mixed bacteria was obtained the best reduction result on the ratio of Eschericia coli : Shewanella oneidensis 1:2 was 77,44%.

Systematic development of design of experiments (DoE) optimised self-microemulsifying drug delivery system of Zotepine.

PubMed

Dalvadi, Hitesh; Patel, Nikita; Parmar, Komal

2017-05-01

The aim of present investigation is to improve dissolution rate of poor soluble drug Zotepine by a self-microemulsifying drug delivery system (SMEDDS). Ternary phase diagram with oil (Oleic acid), surfactant (Tween 80) and co-surfactant (PEG 400) at apex were used to identify the efficient self-microemulsifying region. Box-Behnken design was implemented to study the influence of independent variables. Principal Component Analysis was used for scrutinising critical variables. The liquid SMEDDS were characterised for macroscopic evaluation, % Transmission, emulsification time and in vitro drug release studies. Optimised formulation OL1 was converted in to S-SMEDDS by using Aerosil ® 200 as an adsorbent in the ratio of 3:1. The S-SMEDDS was characterised by SEM, DSC, globule size (152.1 nm), zeta-potential (-28.1 mV), % transmission study (98.75%), in vitro release (86.57%) at 30 min. The optimised solid SMEDDS formulation showed faster drug release properties as compared to conventional tablet of Zotepine.

Comparisons of estimates of annual exceedance-probability discharges for small drainage basins in Iowa, based on data through water year 2013

USGS Publications Warehouse

Eash, David A.

2015-01-01

An examination was conducted to understand why the 1987 single-variable RREs seem to provide better accuracy and less bias than either of the 2013 multi- or single-variable RREs. A comparison of 1-percent annual exceedance-probability regression lines for hydrologic regions 1-4 from the 1987 single-variable RREs and for flood regions 1-3 from the 2013 single-variable RREs indicates that the 1987 single-variable regional-regression lines generally have steeper slopes and lower discharges when compared to 2013 single-variable regional-regression lines for corresponding areas of Iowa. The combination of the definition of hydrologic regions, the lower discharges, and the steeper slopes of regression lines associated with the 1987 single-variable RREs seem to provide better accuracy and less bias when compared to the 2013 multi- or single-variable RREs; better accuracy and less bias was determined particularly for drainage areas less than 2 mi2, and also for some drainage areas between 2 and 20 mi2. The 2013 multi- and single-variable RREs are considered to provide better accuracy and less bias for larger drainage areas. Results of this study indicate that additional research is needed to address the curvilinear relation between drainage area and AEPDs for areas of Iowa.

Swift Observations of Mrk 421 in Selected Epochs. II. An Extreme Spectral Flux Variability in 2009–2012

NASA Astrophysics Data System (ADS)

Kapanadze, B.; Vercellone, S.; Romano, P.; Hughes, P.; Aller, M.; Aller, H.; Kharshiladze, O.; Tabagari, L.

2018-05-01

We present the results from a detailed spectral and timing study of Mrk 421 based on the rich archival Swift data obtained during 2009–2012. Best fits of the 0.3–10 keV spectra were mostly obtained using the log-parabolic model showing the relatively low spectral curvature that is expected in the case of efficient stochastic acceleration of particles. The position of the synchrotron spectral energy density peak E p of 173 spectra is found at energies higher than 2 keV. The photon index at 1 keV exhibited a very broad range of values a = 1.51–3.02, and very hard spectra with a < 1.7 were observed during the strong X-ray flares, hinting at a possible hadronic jet component. The spectral parameters varied on diverse timescales and showed a correlation in some periods, which is expected in the case of first- and second-order Fermi acceleration. The 0.3–10 keV flux showed strong X-ray flaring activity by a factor of 3–17 on timescales of a few days–weeks between the lowest historical state and that corresponding to a rate higher than 100 cts s‑1. Moreover, 113 instances of intraday variability were revealed, exhibiting shortest flux-doubling/halving times of about 1.2 hr, as well as brightenings by 7%–24% in 180–720 s and declines by 68%–22% in 180–900 s. The X-ray and very high-energy fluxes generally showed a correlated variability, although one incidence of a more complicated variability was also detected, indicating that the multifrequency emission of Mrk 421 could not be generated in a single zone.

Abnormal myocardial repolarisation in response to hypoxaemia and fenoterol.

PubMed Central

Kiely, D. G.; Cargill, R. I.; Grove, A.; Struthers, A. D.; Lipworth, B. J.

1995-01-01

BACKGROUND--Prolongation of the QTc interval has been associated with cardiac dysrhythmias and sudden death. QTc dispersion (interlead variability in QTc interval) has recently been proposed as being a more sensitive marker of repolarisation abnormalities and shown to be a more specific index of arrhythmia risk. Although hypoxaemia and fenoterol have previously been shown to prolong the QTc interval, this does not reflect regional myocardial repolarisation abnormalities. METHODS--Electrophysiological effects were measured at baseline and after 30 minutes steady state hypoxaemia at an arterial oxygen saturation (SaO2) of 75-80% (study 1) and at baseline then 30 minutes after inhaled fenoterol 2.4 mg (study 2). From the ECG, lead II corrected QT interval (QTc) and overall corrected QT dispersion were measured using a computer linked digitising tablet according to standard criteria. RESULTS--QTc dispersion was increased during hypoxia compared with baseline values (mean (SE) 69 (6) ms v 50 (5) ms) and after fenoterol compared with baseline (79 (13) v 46 (4) ms), respectively. There was also an increase in QTc interval and heart rate after fenoterol (493 (23) v 420 (6) ms and 98 (3) v 71 (6) bpm, respectively). The heart rate was increased during hypoxaemia compared with baseline (78 (3) v 64 (2) bpm), but no change occurred in the QTc interval. CONCLUSIONS--Both hypoxaemia and fenoterol cause myocardial repolarisation abnormalities in man in terms of increased QTc dispersion, but only fenoterol increased the QTc interval. This may be relevant in the aetiology of arrhythmias in patients with acute severe asthma where beta agonist therapy and hypoxaemia coexist. PMID:7491554

Sensitivity Analysis Tailored to Constrain 21st Century Terrestrial Carbon-Uptake

NASA Astrophysics Data System (ADS)

Muller, S. J.; Gerber, S.

2013-12-01

The long-term fate of terrestrial carbon (C) in response to climate change remains a dominant source of uncertainty in Earth-system model projections. Increasing atmospheric CO2 could be mitigated by long-term net uptake of C, through processes such as increased plant productivity due to "CO2-fertilization". Conversely, atmospheric conditions could be exacerbated by long-term net release of C, through processes such as increased decomposition due to higher temperatures. This balance is an important area of study, and a major source of uncertainty in long-term (>year 2050) projections of planetary response to climate change. We present results from an innovative application of sensitivity analysis to LM3V, a dynamic global vegetation model (DGVM), intended to identify observed/observable variables that are useful for constraining long-term projections of C-uptake. We analyzed the sensitivity of cumulative C-uptake by 2100, as modeled by LM3V in response to IPCC AR4 scenario climate data (1860-2100), to perturbations in over 50 model parameters. We concurrently analyzed the sensitivity of over 100 observable model variables, during the extant record period (1970-2010), to the same parameter changes. By correlating the sensitivities of observable variables with the sensitivity of long-term C-uptake we identified model calibration variables that would also constrain long-term C-uptake projections. LM3V employs a coupled carbon-nitrogen cycle to account for N-limitation, and we find that N-related variables have an important role to play in constraining long-term C-uptake. This work has implications for prioritizing field campaigns to collect global data that can help reduce uncertainties in the long-term land-atmosphere C-balance. Though results of this study are specific to LM3V, the processes that characterize this model are not completely divorced from other DGVMs (or reality), and our approach provides valuable insights into how data can be leveraged to be better constrain projections for the land carbon sink.