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Sample records for investigate strain variation

  1. Use of Restriction Fragment Length Polymorphisms to Investigate Strain Variation Within Neisseria Meningitidis.

    NASA Astrophysics Data System (ADS)

    Williams, Shelley Diane

    Similarity within bacterial populations is difficult to assess due to the limited number of characters available for evaluation and the heterogeneity of bacterial species. Currently, the preferred method used to evaluate the structure of bacterial populations is multilocus enzyme electrophoresis. However, this method is extremely cumbersome and only offers an indirect measure of genetic similarities. The development of a more direct and less cumbersome method for this purpose is warranted. Restriction fragment length polymorphism analysis was evaluated as a tool for use in the study of bacterial population structures and in the epidemiology and surveillance of infectious disease. A collection of Neisseria meningitidis was available for use in the investigation of this technique. Neisseria meningitidis is the causative agent of epidemic cerebrospinal meningitis and septicemia as well as a variety of other clinical manifestations. Each isolate in the collection was defined in terms of serogroup specificity, clinical history, geographic source, and date of isolation. Forty -six strains were chosen for this study. The DNA from each strain was restricted with Pst1 and EcoR1 and electrophoresed on agarose gels. The DNA was transferred to nylon filters and hybridized with P ^{32} labeled DNA probes. Two randomly generated probes and a gene-specific probe were used to estimate the genetic similarities between and among the strains in the study population. A total of 28 different restriction fragment migration types were detected by the probes used. Data obtained from the RFLP analysis was analysed by cluster analysis and multivariate statistical methods. A total of 7 clones groups were detected. Two of these appear to be major clones that comprise 35% of the population. This analysis demonstrates the lack of structure within Neisseria meningitidis due primarily to a heterogenous population and the lack of geographic segregation. The potential utility of this technique as a

  2. Strain variation in corrugated graphene

    NASA Astrophysics Data System (ADS)

    Wang, Xuanye; Tantiwanichapan, Khwanchai; Christopher, Jason; Paiella, Roberto; Swan, Anna

    2015-03-01

    Raman spectroscopy is a powerful non-destructive technique for analyzing strain in graphene. Recently there has been interest in making corrugated graphene devices with varying spatial wavelengths Λ for plasmonic and THz applications. Transferring graphene onto corrugated substrates introduces strain, which if there was perfect clamping (high fraction) would cause a periodic strain variation. However, the strain variation for pattern size smaller than the diffraction limit λ makes it hard to precisely model the strain distribution. Here we present a detailed study on how strain varies in corrugated graphene with sub-diffraction limit periodicity Λ < λ. Mechanically exfoliated graphene was deposited onto sinusoidal shape silicon dioxide gratings with Λ=400 nm period using the pick and place transfer technique. We observed that the graphene is not rigidly clamped, but partially slides to relieve the strain. We model the linewidth variation to extract the local strain variation as well as the sliding in the presence of charge puddling in graphene. The method gives us a better understanding on graphene slippage and strain distribution in graphene on a corrugated substrate with sub-diffraction limit spatial period.

  3. Strain Variation in Mycobacterium marinum Fish Isolates

    PubMed Central

    Ucko, M.; Colorni, A.; Kvitt, H.; Diamant, A.; Zlotkin, A.; Knibb, W. R.

    2002-01-01

    A molecular characterization of two Mycobacterium marinum genes, 16S rRNA and hsp65, was carried out with a total of 21 isolates from various species of fish from both marine and freshwater environments of Israel, Europe, and the Far East. The nucleotide sequences of both genes revealed that all M. marinum isolates from fish in Israel belonged to two different strains, one infecting marine (cultured and wild) fish and the other infecting freshwater (cultured) fish. A restriction enzyme map based on the nucleotide sequences of both genes confirmed the divergence of the Israeli marine isolates from the freshwater isolates and differentiated the Israeli isolates from the foreign isolates, with the exception of one of three Greek isolates from marine fish which was identical to the Israeli marine isolates. The second isolate from Greece exhibited a single base alteration in the 16S rRNA sequence, whereas the third isolate was most likely a new Mycobacterium species. Isolates from Denmark and Thailand shared high sequence homology to complete identity with reference strain ATCC 927. Combined analysis of the two gene sequences increased the detection of intraspecific variations and was thus of importance in studying the taxonomy and epidemiology of this aquatic pathogen. Whether the Israeli M. marinum strain infecting marine fish is endemic to the Red Sea and found extremely susceptible hosts in the exotic species imported for aquaculture or rather was accidentally introduced with occasional imports of fingerlings from the Mediterranean Sea could not be determined. PMID:12406715

  4. Proteome variation among Filifactor alocis strains

    PubMed Central

    Aruni, A. Wilson; Roy, Francis; Sandberg, Lawrence; Fletcher, Hansel M.

    2015-01-01

    Filifactor alocis, a Gram-positive anaerobic rod, is now considered one of the marker organisms associated with periodontal disease. Although there was heterogeneity in its virulence potential, this bacterium was shown to have virulence properties that may enhance its ability to survive and persist in the periodontal pocket. To gain further insight into a possible mechanism(s) of pathogenesis, the proteome of F. alocis strains was evaluated. Proteins including several proteases, neutrophil-activating protein A and calcium-binding acid repeat protein, were identified in F. alocis. During the invasion of HeLa cells, there was increased expression of several of the genes encoding these proteins in the potentially more virulent F. alocis D-62D compared to F. alocis ATCC 35896, the type strain. A comparative protein in silico analysis of the proteome revealed more cell wall anchoring proteins in the F. alocis D-62D compared to F. alocis ATCC 35896. Their expression was enhanced by coinfection with Porphyromonas gingivalis. Taken together, the variation in the pathogenic potential of the F. alocis strains may be related to the differential expression of several putative virulence factors. PMID:23008013

  5. Comparative Investigation of the Genomic Regions Involved in Antigenic Variation of the TprK Antigen among Treponemal Species, Subspecies, and Strains

    PubMed Central

    Brandt, Stephanie L.; Puray-Chavez, Maritza; Reid, Tara Brinck; Godornes, Charmie; Molini, Barbara J.; Benzler, Martin; Hartig, Jörg S.; Lukehart, Sheila A.; Centurion-Lara, Arturo

    2012-01-01

    Although the three Treponema pallidum subspecies (T. pallidum subsp. pallidum, T. pallidum subsp. pertenue, and T. pallidum subsp. endemicum), Treponema paraluiscuniculi, and the unclassified Fribourg-Blanc treponeme cause clinically distinct diseases, these pathogens are genetically and antigenically highly related and are able to cause persistent infection. Recent evidence suggests that the putative surface-exposed variable antigen TprK plays an important role in both treponemal immune evasion and persistence. tprK heterogeneity is generated by nonreciprocal gene conversion between the tprK expression site and donor sites. Although each of the above-mentioned species and subspecies has a functional tprK antigenic variation system, it is still unclear why the level of expression and the rate at which tprK diversifies during infection can differ significantly among isolates. To identify genomic differences that might affect the generation and expression of TprK variants among these pathogens, we performed comparative sequence analysis of the donor sites, as well as the tprK expression sites, among eight T. pallidum subsp. pallidum isolates (Nichols Gen, Nichols Sea, Chicago, Sea81-4, Dal-1, Street14, UW104, and UW126), three T. pallidum subsp. pertenue isolates (Gauthier, CDC2, and Samoa D), one T. pallidum subsp. endemicum isolate (Iraq B), the unclassified Fribourg-Blanc isolate, and the Cuniculi A strain of T. paraluiscuniculi. Synteny and sequence conservation, as well as deletions and insertions, were found in the regions harboring the donor sites. These data suggest that the tprK recombination system is harbored within dynamic genomic regions and that genomic differences might be an important key to explain discrepancies in generation and expression of tprK variants among these Treponema isolates. PMID:22661689

  6. Comparative investigation of the genomic regions involved in antigenic variation of the TprK antigen among treponemal species, subspecies, and strains.

    PubMed

    Giacani, Lorenzo; Brandt, Stephanie L; Puray-Chavez, Maritza; Reid, Tara Brinck; Godornes, Charmie; Molini, Barbara J; Benzler, Martin; Hartig, Jörg S; Lukehart, Sheila A; Centurion-Lara, Arturo

    2012-08-01

    Although the three Treponema pallidum subspecies (T. pallidum subsp. pallidum, T. pallidum subsp. pertenue, and T. pallidum subsp. endemicum), Treponema paraluiscuniculi, and the unclassified Fribourg-Blanc treponeme cause clinically distinct diseases, these pathogens are genetically and antigenically highly related and are able to cause persistent infection. Recent evidence suggests that the putative surface-exposed variable antigen TprK plays an important role in both treponemal immune evasion and persistence. tprK heterogeneity is generated by nonreciprocal gene conversion between the tprK expression site and donor sites. Although each of the above-mentioned species and subspecies has a functional tprK antigenic variation system, it is still unclear why the level of expression and the rate at which tprK diversifies during infection can differ significantly among isolates. To identify genomic differences that might affect the generation and expression of TprK variants among these pathogens, we performed comparative sequence analysis of the donor sites, as well as the tprK expression sites, among eight T. pallidum subsp. pallidum isolates (Nichols Gen, Nichols Sea, Chicago, Sea81-4, Dal-1, Street14, UW104, and UW126), three T. pallidum subsp. pertenue isolates (Gauthier, CDC2, and Samoa D), one T. pallidum subsp. endemicum isolate (Iraq B), the unclassified Fribourg-Blanc isolate, and the Cuniculi A strain of T. paraluiscuniculi. Synteny and sequence conservation, as well as deletions and insertions, were found in the regions harboring the donor sites. These data suggest that the tprK recombination system is harbored within dynamic genomic regions and that genomic differences might be an important key to explain discrepancies in generation and expression of tprK variants among these Treponema isolates. PMID:22661689

  7. Investigation of infectivity of neonates and adults from different rat strains to Toxoplasma gondii Prugniaud shows both variation which correlates with iNOS and Arginase-1 activity and increased susceptibility of neonates to infection.

    PubMed

    Gao, Jiang-Mei; Yi, Si-Qi; Wu, Ming-Shui; Geng, Guo-Qing; Shen, Ji-Long; Lu, Fang-Li; Hide, Geoff; Lai, De-Hua; Lun, Zhao-Rong

    2015-02-01

    Mouse models differ considerably from humans with regard to clinical symptoms of toxoplasmosis caused by Toxoplasma gondii and, by comparison, the rat model is more representative of this disease in humans. In the present study, we found that different strains of adult and newborn rats (Lewis, Wistar, Sprague Dawley, Brown Norway and Fischer 344) exhibited remarkable variation in the number of brain cysts following inoculation with the T.gondii Prugniaud strain. In adult rats, large numbers of cysts (1231 ± 165.6) were observed in Fischer 344, but none in the other four. This situation was different in newborn rats aged from 5 to 20 days old. All Fischer 344 and Brown Norway newborns were cyst-positive while cyst-positive infection in Sprague Dawley neonates ranged from 54.5% to 60% depending on their age at infection. In Wistar and Lewis rat neonates, however, cyst-positivity rates of 0-42.9% and 0-25% were found respectively. To investigate whether rat strain differences in infectivity could be related to inherent strain and genetic differences in the host immune response, we correlated our data with previously reported strain differences in iNOS/Arginase ratio in adult rats and found them to be linked. These results show that interactions between host genetic background and age of rat influence T.gondii infection. PMID:25541383

  8. Investigation of a noncontact strain measurement technique

    SciTech Connect

    Damiano, B.; Talarico, L.J.

    1996-05-01

    The goal of this project was to investigate the feasibility of a new noncontact technique for directly and continuously monitoring peak strain in rotating components. The technique utilizes the unique strain-sensitive magnetic material properties of transformation Induced Plasticity (TRIP) steel alloys to measure strain. These alloys are weakly magnetic when unstrained but become strongly ferromagnetic after mechanical deformation. A computer study was performed to determine whether the strain-induced change in the magnetic material properties of a TRIP steel gage bonded to a rotating component would cause significant perturbations in the magnetic flux of a stationary electromagnet. The effects of strain level, distance between the rotating component and the stationary electromagnet, and motion-induced eddy currents on flux perturbation magnitude were investigated. The calculated results indicate that a TRIP steel strain sensing element can cause a significant perturbation in the magnetic flux of a stationary electromagnet. The magnetic flux perturbation magnitude was found to be inversely proportional to the distance between the magnet face and the TRIP steel element and directly proportional to the TRIP steel strain level. The effect of motion-induced eddy currents on the magnetic flux was found to be negligible. It appears that the technique can be successfully applied to measure peak strain in rotating components; however, the sensitivity of the magnetic flux perturbation magnitude to the distance between the strain sensing element and the electromagnet may require making an independent proximity measurement.

  9. Morphological variation in pathogenic strains of Penicillium marneffei.

    PubMed

    Pracharktam, R; Sriurairatna, S; Jayanetra, P

    1992-01-01

    Penicillium marneffei is a dimorphic fungus known to be pathogenic to animals and man. The natural reservoir of this organism was known to be bamboo rats found in South Vietnam, Thailand and China. The first two human infections were reported in 1959 and 1973 from the United States. Up to 1984, five new cases of human penicillosis were reported from Thailand. Since then several more cases have been reported from different parts of the world mainly from the southern part of China. However, there are very limited mycological descriptions of this fungi. In this report, five Thai strains were studied for colonial morphology in comparison with Reference strain PLM 689. Variation in mycelial pigment was observed ranging from yellowish-green to orange with water soluble red pigment produced in every strain which can be seen early from the reverse side. Ultrastructural study by both scanning electron microscopy (SEM) and transmission electron microscopy (TEM) was compared with that of the reference strain PLM 689. PLM 689 strain had only biverticillate penicilli, but all five strains from Thailand had both monoverticillate and biverticillate penicilli which occasionally appeared on the same branch. The conidia of the Thai isolates were oval in shape and 1.3-2 x 0.7-1.6 microns in size smaller than those of PLM 689 which were 2.5-4 x 2-3 microns. Phialides were also smaller and a little shorter but the number of phialides was similar to those of PLM 689 ranging 4-10 except for one strain which had 3-16 phialides. All Thai strains have stipes smaller and somewhat longer than those of PLM 689.(ABSTRACT TRUNCATED AT 250 WORDS) PMID:1402460

  10. Strain-dependent variations in attachment of E. coli to soil particles of different sizes

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Attachment of E. coli to soil particles affects the bacteria transport in overland flow and in soil. The objective of this research was to investigate the existence of strain-dependent variations in attachment of manure-borne E. coli to soil particles of different sizes using rep PCR techniques. The...

  11. Strain variation and geographic endemism in Streptococcus iniae.

    PubMed

    Kvitt, H; Colorni, A

    2004-10-21

    Twenty-six Israeli isolates of Streptococcus iniae from both marine and fresh/brackish water sources were compared with each other and with 9 foreign isolates. All the isolates were tentatively identified according to their biochemical profile. Direct sequencing of approximately 600 bp PCR products of the 16S rDNA confirmed their identification as S. iniae at the molecular level and revealed a new (one-nucleotide) variant among Israeli isolates, in addition to 2 variants that had been previously reported. Strain variation was further examined by subjecting the isolates to randomly amplified polymorphic DNA (RAPD) and amplified fragment length polymorphism (AFLP) analyses. The RAPD method allowed separation of the isolates into only 2 groups, one including 5 Israeli fresh/brackish water isolates and one including all the other isolates. The AFLP method grouped the Israeli marine isolates into one homogeneous cluster, although they had been obtained in different years (1995 to 2001) from different species of fish, and from wild (Red Sea) as well as cultured (both Mediterranean and Red Sea) sources. The Israeli fresh/brackish water isolates and foreign isolates separated into distinct entities that clustered at generally high degrees of similarity. The distance between the clusters of the Israeli marine and fresh/brackish water isolates indicates that the S. iniae streptococcosis that has been afflicting the aquaculture industries in the 2 environments in recent years was caused by distinct strains. AFLP showed superior discriminative properties over RAPD in detecting intraspecific variation and proved to be an important tool for the characterization of S. iniae. A correlation between strain variation and geographic endemism was established. PMID:15584412

  12. Intragenic tandem repeat variation between Legionella pneumophila strains

    PubMed Central

    Coil, David A; Vandersmissen, Liesbeth; Ginevra, Christophe; Jarraud, Sophie; Lammertyn, Elke; Anné, Jozef

    2008-01-01

    Background Bacterial genomes harbour a large number of tandem repeats, yet the possible phenotypic effects of those found within the coding region of genes are only beginning to be examined. Evidence exists from other organisms that these repeats can be involved in the evolution of new genes, gene regulation, adaptation, resistance to environmental stresses, and avoidance of the immune system. Results In this study, we have investigated the presence and variability in copy number of intragenic tandemly repeated sequences in the genome of Legionella pneumophila, the etiological agent of a severe pneumonia known as Legionnaires' disease. Within the genome of the Philadelphia strain, we have identified 26 intragenic tandem repeat sequences using conservative selection criteria. Of these, seven were "polymorphic" in terms of repeat copy number between a large number of L. pneumophila serogroup 1 strains. These strains were collected from a wide variety of environments and patients in several geographical regions. Within this panel of strains, all but one of these seven genes exhibited statistically different patterns in repeat copy number between samples from different origins (environmental, clinical, and hot springs). Conclusion These results support the hypothesis that intragenic tandem repeats could play a role in virulence and adaptation to different environments. While tandem repeats are an increasingly popular focus of molecular typing studies in prokaryotes, including in L. pneumophila, this study is the first examining the difference in tandem repeat distribution as a function of clinical or environmental origin. PMID:19077205

  13. Molecular Basis for Strain Variation in the Saccharomyces cerevisiae Adhesin Flo11p.

    PubMed

    Barua, Subit; Li, Li; Lipke, Peter N; Dranginis, Anne M

    2016-01-01

    FLO11 encodes a yeast cell wall flocculin that mediates a variety of adhesive phenotypes in Saccharomyces cerevisiae. Flo11p is implicated in many developmental processes, including flocculation, formation of pseudohyphae, agar invasion, and formation of microbial mats and biofilms. However, Flo11p mediates different processes in different yeast strains. To investigate the mechanisms by which FLO11 determines these differences in colony morphology, flocculation, and invasion, we studied gene structure, function, and expression levels. Nonflocculent Saccharomyces cerevisiae Σ1278b cells exhibited significantly higher FLO11 mRNA expression, especially in the stationary phase, than highly flocculent S. cerevisiae var. diastaticus. The two strains varied in cell surface hydrophobicity, and Flo11p contributed significantly to surface hydrophobicity in S. cerevisiae var. diastaticus but not in strain Σ1278b. Sequencing of the FLO11 gene in S. cerevisiae var. diastaticus revealed strain-specific differences, including a 15-amino-acid insertion in the adhesion domain. Flo11p adhesion domains from strain Σ1278b and S. cerevisiae var. diastaticus were expressed and used to coat magnetic beads. The adhesion domain from each strain bound preferentially to homologous cells, and the preferences were independent of the cells in which the adhesion domains were produced. These results are consistent with the idea that strain-specific variations in the amino acid sequences in the adhesion domains cause different Flo11p flocculation activities. The results also imply that strain-specific differences in expression levels, posttranslational modifications, and allelic differences outside the adhesion domains have little effect on flocculation. IMPORTANCE As a nonmotile organism, Saccharomyces cerevisiae employs the cell surface flocculin Flo11/Muc1 as an important means of adapting to environmental change. However, there is a great deal of strain variation in the expression of

  14. Molecular Basis for Strain Variation in the Saccharomyces cerevisiae Adhesin Flo11p

    PubMed Central

    Li, Li; Lipke, Peter N.; Dranginis, Anne M.

    2016-01-01

    ABSTRACT FLO11 encodes a yeast cell wall flocculin that mediates a variety of adhesive phenotypes in Saccharomyces cerevisiae. Flo11p is implicated in many developmental processes, including flocculation, formation of pseudohyphae, agar invasion, and formation of microbial mats and biofilms. However, Flo11p mediates different processes in different yeast strains. To investigate the mechanisms by which FLO11 determines these differences in colony morphology, flocculation, and invasion, we studied gene structure, function, and expression levels. Nonflocculent Saccharomyces cerevisiae Σ1278b cells exhibited significantly higher FLO11 mRNA expression, especially in the stationary phase, than highly flocculent S. cerevisiae var. diastaticus. The two strains varied in cell surface hydrophobicity, and Flo11p contributed significantly to surface hydrophobicity in S. cerevisiae var. diastaticus but not in strain Σ1278b. Sequencing of the FLO11 gene in S. cerevisiae var. diastaticus revealed strain-specific differences, including a 15-amino-acid insertion in the adhesion domain. Flo11p adhesion domains from strain Σ1278b and S. cerevisiae var. diastaticus were expressed and used to coat magnetic beads. The adhesion domain from each strain bound preferentially to homologous cells, and the preferences were independent of the cells in which the adhesion domains were produced. These results are consistent with the idea that strain-specific variations in the amino acid sequences in the adhesion domains cause different Flo11p flocculation activities. The results also imply that strain-specific differences in expression levels, posttranslational modifications, and allelic differences outside the adhesion domains have little effect on flocculation. IMPORTANCE As a nonmotile organism, Saccharomyces cerevisiae employs the cell surface flocculin Flo11/Muc1 as an important means of adapting to environmental change. However, there is a great deal of strain variation in the

  15. Two-dimensional surface strain measurement based on a variation of Yamaguchi's laser-speckle strain gauge

    NASA Technical Reports Server (NTRS)

    Barranger, John P.

    1990-01-01

    A novel optical method of measuring 2-D surface strain is proposed. Two linear strains along orthogonal axes and the shear strain between those axes is determined by a variation of Yamaguchi's laser-speckle strain gage technique. It offers the advantages of shorter data acquisition times, less stringent alignment requirements, and reduced decorrelation effects when compared to a previously implemented optical strain rosette technique. The method automatically cancels the translational and rotational components of rigid body motion while simplifying the optical system and improving the speed of response.

  16. Investigation of a non-contact strain measurement technique

    SciTech Connect

    Talarico, L.J.; Damiano, B.

    1997-03-01

    The goal of this project was to investigate the feasibility of a new non-contact technique for directly and continuously monitoring peak strain in rotating components. The technique utilizes the unique strain-sensitive magnetic material properties of TRansformation Induced Plasticity (TRIP) steel alloys to measure strain. These alloys are weakly magnetic when unstrained but become strongly ferromagnetic after mechanical deformation. A computer study was performed to determine whether the strain-induced change in the magnetic material properties of a TRIP steel gage bonded to a rotating component would cause significant perturbations in the magnetic flux of a stationary electromagnet. The effects of strain level, distance between the rotating component and the stationary electromagnet, and motion-induced eddy currents on flux perturbation magnitude were investigated. The calculated results indicate that a TRIP steel strain sensing element can cause a significant perturbation in the magnetic flux of a stationary electromagnet. The magnetic flux perturbation magnitude was found to be inversely proportional to the distance between the magnet face and the TRIP steel element and directly proportional to the TRIP steel strain level. The effect of motion-induced eddy currents on the magnetic flux was found to be negligible. It appears that the technique can be successfully applied to measure peak strain in rotating components, however, the sensitivity of the magnetic flux perturbation magnitude to the distance between the strain sensing element and the electromagnet may require making an independent proximity measurement.

  17. Gene-related strain variation of Staphylococcus aureus for homologous resistance response to acid stress.

    PubMed

    Lee, Soomin; Ahn, Sooyeon; Lee, Heeyoung; Kim, Won-Il; Kim, Hwang-Yong; Ryu, Jae-Gee; Kim, Se-Ri; Choi, Kyoung-Hee; Yoon, Yohan

    2014-10-01

    This study investigated the effect of adaptation of Staphylococcus aureus strains to the acidic condition of tomato in response to environmental stresses, such as heat and acid. S. aureus ATCC 13565, ATCC 14458, ATCC 23235, ATCC 27664, and NCCP10826 habituated in tomato extract at 35°C for 24 h were inoculated in tryptic soy broth. The culture suspensions were then subjected to heat challenge or acid challenge at 60°C and pH 3.0, respectively, for 60 min. In addition, transcriptional analysis using quantitative real-time PCR was performed to evaluate the expression level of acid-shock genes, such as clpB, zwf, nuoF, and gnd, from five S. aureus strains after the acid habituation of strains in tomato at 35°C for 15 min and 60 min in comparison with that of the nonhabituated strains. In comparison with the nonhabituated strains, the five tomato-habituated S. aureus strains did not show cross protection to heat, but tomato-habituated S. aureus ATCC 23235 showed acid resistance. In quantitative real-time-PCR analysis, the relative expression levels of acid-shock genes (clpB, zwf, nuoF, and gnd) were increased the most in S. aureus ATCC 23235 after 60 min of tomato habituation, but there was little difference in the expression levels among the five S. aureus strains after 15 min of tomato habituation. These results indicate that the variation of acid resistance of S. aureus is related to the expression of acid-shock genes during acid habituation. PMID:25285500

  18. Investigation of high elastoplastic straining of shells of revolution under complex tensile and torque loading

    NASA Astrophysics Data System (ADS)

    Artem'eva, A. A.; Bazhenov, V. G.; Zhegalov, D. V.; Kazakov, D. A.; Nagornykh, E. V.

    2015-11-01

    A method of the numerical solution of nonlinear unsteady problems of axisymmetric elastoplastic straining of shells of revolution with allowance for torque loading at high strains is proposed. The method is based on the geometrically nonlinear theory of the Timoshenko shells and the plasticity theory with due allowance for combined isotropic and kinematic hardening. The problem is solved with the use of the variational difference method. Results of numerical and experimental investigations of elastoplastic straining of cylindrical shells under proportional and sequential kinematic tensile and torque loading are reported.

  19. Structural Variation among Wild and Industrial Strains of Penicillium chrysogenum

    PubMed Central

    Eisen, Michael B.; Pachter, Lior; Brem, Rachel B.

    2014-01-01

    Strain selection and strain improvement are the first, and arguably most important, steps in the industrial production of biological compounds by microorganisms. While traditional methods of mutagenesis and selection have been effective in improving production of compounds at a commercial scale, the genetic changes underpinning the altered phenotypes have remained largely unclear. We utilized high-throughput Illumina short read sequencing of a wild Penicillium chrysogenum strain in order to make whole genome comparisons to a sequenced improved strain (WIS 54–1255). We developed an assembly-free method of identifying chromosomal rearrangements and validated the in silico predictions with a PCR-based assay and Sanger sequencing. Despite many rounds of mutagen treatment and artificial selection, WIS 54–1255 differs from its wild progenitor at only one of the identified rearrangements. We suggest that natural variants predisposed for high penicillin production were instrumental in the success of WIS 54–1255 as an industrial strain. In addition to finding a previously published inversion in the penicillin biosynthesis cluster, we located several genes related to penicillin production associated with these rearrangements. By comparing the configuration of rearrangement events among several historically important strains known to be high penicillin producers to a collection of recently isolated wild strains, we suggest that wild strains with rearrangements similar to those in known high penicillin producers may be viable candidates for further improvement efforts. PMID:24824901

  20. Variation in hemolytic activity of Brachyspira hyodysenteriae strains from pigs.

    PubMed

    Mahu, Maxime; De Pauw, Nele; Vande Maele, Lien; Verlinden, Marc; Boyen, Filip; Ducatelle, Richard; Haesebrouck, Freddy; Martel, An; Pasmans, Frank

    2016-01-01

    Brachyspira hyodysenteriae is the primary cause of swine dysentery, which is responsible for major economic losses to the pig industry worldwide. The hemolytic activity of 10 B. hyodysenteriae strains isolated from stools of pigs with mild to mucohemorrhagic diarrhea was compared and seven hemolysis associated genes were sequenced. Hemolysis induced by these strains varied from strong to near absent. One weakly hemolytic B. hyodysenteriae strain showed sequence changes in five hemolysis associated genes (tlyA, tlyB, hemolysin III, hemolysin activation protein and hemolysin III channel protein) resulting in amino acid substitutions. The occurrence of weakly hemolytic strains identifiable as B. hyodysenteriae should be taken into account in swine dysentery diagnostics. The presence of these strains may affect herd dysentery status, with great impact on a farms trading opportunities. PMID:27338265

  1. Variation in Biofilm Formation among Strains of Listeria monocytogenes

    PubMed Central

    Borucki, Monica K.; Peppin, Jason D.; White, David; Loge, Frank; Call, Douglas R.

    2003-01-01

    Contamination of food by Listeria monocytogenes is thought to occur most frequently in food-processing environments where cells persist due to their ability to attach to stainless steel and other surfaces. Once attached these cells may produce multicellular biofilms that are resistant to disinfection and from which cells can become detached and contaminate food products. Because there is a correlation between virulence and serotype (and thus phylogenetic division) of L. monocytogenes, it is important to determine if there is a link between biofilm formation and disease incidence for L. monocytogenes. Eighty L. monocytogenes isolates were screened for biofilm formation to determine if there is a robust relationship between biofilm formation, phylogenic division, and persistence in the environment. Statistically significant differences were detected between phylogenetic divisions. Increased biofilm formation was observed in Division II strains (serotypes 1/2a and 1/2c), which are not normally associated with food-borne outbreaks. Differences in biofilm formation were also detected between persistent and nonpersistent strains isolated from bulk milk samples, with persistent strains showing increased biofilm formation relative to nonpersistent strains. There were no significant differences detected among serotypes. Exopolysaccharide production correlated with cell adherence for high-biofilm-producing strains. Scanning electron microscopy showed that a high-biofilm-forming strain produced a dense, three-dimensional structure, whereas a low-biofilm-forming strain produced a thin, patchy biofilm. These data are consistent with data on persistent strains forming biofilms but do not support a consistent relationship between enhanced biofilm formation and disease incidence. PMID:14660383

  2. A variational justification of the assumed natural strain formulation of finite elements

    NASA Technical Reports Server (NTRS)

    Militello, Carmelo; Felippa, Carlos A.

    1991-01-01

    The objective is to study the assumed natural strain (ANS) formulation of finite elements from a variational standpoint. The study is based on two hybrid extensions of the Reissner-type functional that uses strains and displacements as independent fields. One of the forms is a genuine variational principle that contains an independent boundary traction field, whereas the other one represents a restricted variational principle. Two procedures for element level elimination of the strain field are discussed, and one of them is shown to be equivalent to the inclusion of incompatible displacement modes. Also, the 4-node C(exp 0) plate bending quadrilateral element is used to illustrate applications of this theory.

  3. A damage detection model for unbonded post-tensioning tendons based on relative strain variation in multi-strand anchors

    NASA Astrophysics Data System (ADS)

    Abdullah, A. B. M.; Rice, Jennifer A.; Hamilton, H. R.

    2014-03-01

    Post-tensioned segmental bridges are common throughout the US; however, in recent years, the incidence of tendon failure in bonded post-tensioned bridges has raised questions regarding their design, construction, and maintenance. These failures have led to the investigation of the applicability of using replaceable unbonded tendons in segmental construction and new methods for monitoring their condition. This paper presents a damage detection algorithm to identify strand breakage in unbonded tendons based on the relative variation of strains in the anchorage. In unbonded construction, the anchorage assembly usually undergoes a severe stress-state condition as the entire prestressing force only passes through the deviator and end anchorage locations. The strain distribution in the anchorage mechanism, therefore, goes through significant changes in response to the breakage of an individual wire or an entire strand in a multi-strand arrangement. In this way, breakage of a post-tensioning strand can be identified by observing a non-uniform variation of the strain field over the anchorage region in contrast to a uniform variation of strains due to environmental or traffic loading. A reduced scale laboratory experiment is performed followed by an extensive finite element simulation to conduct a parametric study with wire/strand breakages at different locations on multi-strand anchorages commonly used in industry. Based on the observed strain variations from simulation, a damage detection model is proposed that enables the adoption of an automated monitoring strategy to characterize the breakage programmatically.

  4. (90377) SEDNA: INVESTIGATION OF SURFACE COMPOSITIONAL VARIATION

    SciTech Connect

    Barucci, M. A.; De Bergh, C.; Merlin, F.; Morea Dalle Ore, C.; Cruikshank, D.; Alvarez-Candal, A.; Dumas, C.

    2010-12-15

    The dwarf planet (90377) Sedna is one of the most remote solar system objects accessible to investigations. To better constrain its surface composition and to investigate the possible heterogeneity of the surface of Sedna, several observations have been carried out at ESO-VLT with the powerful spectrometer SINFONI observing simultaneously the H and K bands. The analyzed spectra (obtained in 2005, 2007, and 2008) show a non-uniform spectral signature, particularly in the K band. Spectral modeling using the Shkuratov radiative transfer code for surface scattering has been performed using the various sets of data, including previous observations at visible wavelengths and photometry at 3.6 and 4.5 {mu}m by the Spitzer Space Telescope. The visible and near-infrared spectra can be modeled with organic materials (triton and titan tholin), serpentine, and H{sub 2}O ice in fairly significant amounts, and CH{sub 4}, N{sub 2}, and C{sub 2}H{sub 6} in varying trace amounts. One of the spectra obtained in 2005 October shows a different signature in the K band and is best modeled with CH{sub 3}OH in place of CH{sub 4}, with reduced amounts of serpentine and with the addition of olivine. The compositional surface heterogeneity can give input on the past history as well clues to the origin of this peculiar, distant object.

  5. Utilization of Genomic Variations Among Xylella fastidiosa Strains for Improved Diagnostic Design

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The Gram-negative, xylem-limited phytopathogenic bacterium Xylella fastidiosa causes economically important diseases in grapevine, citrus and many other plant species. Our recent whole genome comparative analysis of the four sequenced strains has identified genomic variation among these strains. The...

  6. Mapping QTL Contributing to Variation in Posterior Lobe Morphology between Strains of Drosophila melanogaster.

    PubMed

    Hackett, Jennifer L; Wang, Xiaofei; Smith, Brittny R; Macdonald, Stuart J

    2016-01-01

    Closely-related, and otherwise morphologically similar insect species frequently show striking divergence in the shape and/or size of male genital structures, a phenomenon thought to be driven by sexual selection. Comparative interspecific studies can help elucidate the evolutionary forces acting on genital structures to drive this rapid differentiation. However, genetic dissection of sexual trait divergence between species is frequently hampered by the difficulty generating interspecific recombinants. Intraspecific variation can be leveraged to investigate the genetics of rapidly-evolving sexual traits, and here we carry out a genetic analysis of variation in the posterior lobe within D. melanogaster. The lobe is a male-specific process emerging from the genital arch of D. melanogaster and three closely-related species, is essential for copulation, and shows radical divergence in form across species. There is also abundant variation within species in the shape and size of the lobe, and while this variation is considerably more subtle than that seen among species, it nonetheless provides the raw material for QTL mapping. We created an advanced intercross population from a pair of phenotypically-different inbred strains, and after phenotyping and genotyping-by-sequencing the recombinants, mapped several QTL contributing to various measures of lobe morphology. The additional generations of crossing over in our mapping population led to QTL intervals that are smaller than is typical for an F2 mapping design. The intervals we map overlap with a pair of lobe QTL we previously identified in an independent mapping cross, potentially suggesting a level of shared genetic control of trait variation. Our QTL additionally implicate a suite of genes that have been shown to contribute to the development of the posterior lobe. These loci are strong candidates to harbor naturally-segregating sites contributing to phenotypic variation within D. melanogaster, and may also be those

  7. Genetic Variation among Staphylococcus aureus Strains from Norwegian Bulk Milk

    PubMed Central

    Jørgensen, H. J.; Mørk, T.; Caugant, D. A.; Kearns, A.; Rørvik, L. M.

    2005-01-01

    Strains of Staphylococcus aureus obtained from bovine (n = 117) and caprine (n = 114) bulk milk were characterized and compared with S. aureus strains from raw-milk products (n = 27), bovine mastitis specimens (n = 9), and human blood cultures (n = 39). All isolates were typed by pulsed-field gel electrophoresis (PFGE). In addition, subsets of isolates were characterized using multilocus sequence typing (MLST), multiplex PCR (m-PCR) for genes encoding nine of the staphylococcal enterotoxins (SE), and the cloverleaf method for penicillin resistance. A variety of genotypes were observed, and greater genetic diversity was found among bovine than caprine bulk milk isolates. Certain genotypes, with a wide geographic distribution, were common to bovine and caprine bulk milk and may represent ruminant-specialized S. aureus. Isolates with genotypes indistinguishable from those of strains from ruminant mastitis were frequently found in bulk milk, and strains with genotypes indistinguishable from those from bulk milk were observed in raw-milk products. This indicates that S. aureus from infected udders may contaminate bulk milk and, subsequently, raw-milk products. Human blood culture isolates were diverse and differed from isolates from other sources. Genotyping by PFGE, MLST, and m-PCR for SE genes largely corresponded. In general, isolates with indistinguishable PFGE banding patterns had the same SE gene profile and isolates with identical SE gene profiles were placed together in PFGE clusters. Phylogenetic analyses agreed with the division of MLST sequence types into clonal complexes, and isolates within the same clonal complex had the same SE gene profile. Furthermore, isolates within PFGE clusters generally belonged to the same clonal complex. PMID:16332822

  8. Plasticity in bulk metallic glasses investigated via the strain distribution

    SciTech Connect

    Das, Jayanta; Mattern, Norbert; Eckert, Juergen; Bostroem, Magnus; Kvick, Aake; Yavari, Alain Reza; Greer, Alan Lindsay

    2007-09-01

    We measured the atomic-scale elastic strain in order to investigate the yielding of Zr{sub 55}Cu{sub 20}Ni{sub 10}Al{sub 10}Ti{sub 5} and Cu{sub 47.5}Zr{sub 47.5}Al{sub 5} bulk metallic glasses (BMGs) by x-ray synchrotron radiation at room temperature. High resolution strain scanning reveals a deviation from the linear stress-strain relationship at the onset of macroplastic flow. Similar to polycrystalline metals, a saturation of the elastic strain components has been revealed in the case of the ''plastic'' Cu{sub 47.5}Zr{sub 47.5}Al{sub 5} BMG. The results show that the atomic-level elastic strains of the plastic Cu{sub 47.5}Zr{sub 47.5}Al{sub 5} BMG are more homogeneous compared to the 'brittle' Zr{sub 55}Cu{sub 20}Ni{sub 10}Al{sub 10}Ti{sub 5} glass.

  9. Genome-scale investigation of phenotypically distinct but nearly clonal Trichoderma strains

    PubMed Central

    Weld, Richard J.; Cox, Murray P.; Bradshaw, Rosie E.; McLean, Kirstin L.; Stewart, Alison; Steyaert, Johanna M.

    2016-01-01

    Biological control agents (BCA) are beneficial organisms that are applied to protect plants from pests. Many fungi of the genus Trichoderma are successful BCAs but the underlying mechanisms are not yet fully understood. Trichoderma cf. atroviride strain LU132 is a remarkably effective BCA compared to T. cf. atroviride strain LU140 but these strains were found to be highly similar at the DNA sequence level. This unusual combination of phenotypic variability and high DNA sequence similarity between separately isolated strains prompted us to undertake a genome comparison study in order to identify DNA polymorphisms. We further investigated if the polymorphisms had functional effects on the phenotypes. The two strains were clearly identified as individuals, exhibiting different growth rates, conidiation and metabolism. Superior pathogen control demonstrated by LU132 depended on its faster growth, which is a prerequisite for successful distribution and competition. Genome sequencing identified only one non-synonymous single nucleotide polymorphism (SNP) between the strains. Based on this SNP, we successfully designed and validated an RFLP protocol that can be used to differentiate LU132 from LU140 and other Trichoderma strains. This SNP changed the amino acid sequence of SERF, encoded by the previously undescribed single copy gene “small EDRK-rich factor” (serf). A deletion of serf in the two strains did not lead to identical phenotypes, suggesting that, in addition to the single functional SNP between the nearly clonal Trichoderma cf. atroviride strains, other non-genomic factors contribute to their phenotypic variation. This finding is significant as it shows that genomics is an extremely useful but not exhaustive tool for the study of biocontrol complexity and for strain typing. PMID:27190719

  10. Genome-scale investigation of phenotypically distinct but nearly clonal Trichoderma strains.

    PubMed

    Lange, Claudia; Weld, Richard J; Cox, Murray P; Bradshaw, Rosie E; McLean, Kirstin L; Stewart, Alison; Steyaert, Johanna M

    2016-01-01

    Biological control agents (BCA) are beneficial organisms that are applied to protect plants from pests. Many fungi of the genus Trichoderma are successful BCAs but the underlying mechanisms are not yet fully understood. Trichoderma cf. atroviride strain LU132 is a remarkably effective BCA compared to T. cf. atroviride strain LU140 but these strains were found to be highly similar at the DNA sequence level. This unusual combination of phenotypic variability and high DNA sequence similarity between separately isolated strains prompted us to undertake a genome comparison study in order to identify DNA polymorphisms. We further investigated if the polymorphisms had functional effects on the phenotypes. The two strains were clearly identified as individuals, exhibiting different growth rates, conidiation and metabolism. Superior pathogen control demonstrated by LU132 depended on its faster growth, which is a prerequisite for successful distribution and competition. Genome sequencing identified only one non-synonymous single nucleotide polymorphism (SNP) between the strains. Based on this SNP, we successfully designed and validated an RFLP protocol that can be used to differentiate LU132 from LU140 and other Trichoderma strains. This SNP changed the amino acid sequence of SERF, encoded by the previously undescribed single copy gene "small EDRK-rich factor" (serf). A deletion of serf in the two strains did not lead to identical phenotypes, suggesting that, in addition to the single functional SNP between the nearly clonal Trichoderma cf. atroviride strains, other non-genomic factors contribute to their phenotypic variation. This finding is significant as it shows that genomics is an extremely useful but not exhaustive tool for the study of biocontrol complexity and for strain typing. PMID:27190719

  11. Whole Genome Analysis of 132 Clinical Saccharomyces cerevisiae Strains Reveals Extensive Ploidy Variation

    PubMed Central

    Zhu, Yuan O.; Sherlock, Gavin; Petrov, Dmitri A.

    2016-01-01

    Budding yeast has undergone several independent transitions from commercial to clinical lifestyles. The frequency of such transitions suggests that clinical yeast strains are derived from environmentally available yeast populations, including commercial sources. However, despite their important role in adaptive evolution, the prevalence of polyploidy and aneuploidy has not been extensively analyzed in clinical strains. In this study, we have looked for patterns governing the transition to clinical invasion in the largest screen of clinical yeast isolates to date. In particular, we have focused on the hypothesis that ploidy changes have influenced adaptive processes. We sequenced 144 yeast strains, 132 of which are clinical isolates. We found pervasive large-scale genomic variation in both overall ploidy (34% of strains identified as 3n/4n) and individual chromosomal copy numbers (36% of strains identified as aneuploid). We also found evidence for the highly dynamic nature of yeast genomes, with 35 strains showing partial chromosomal copy number changes and eight strains showing multiple independent chromosomal events. Intriguingly, a lineage identified to be baker’s/commercial derived with a unique damaging mutation in NDC80 was particularly prone to polyploidy, with 83% of its members being triploid or tetraploid. Polyploidy was in turn associated with a >2× increase in aneuploidy rates as compared to other lineages. This dataset provides a rich source of information on the genomics of clinical yeast strains and highlights the potential importance of large-scale genomic copy variation in yeast adaptation. PMID:27317778

  12. Whole Genome Analysis of 132 Clinical Saccharomyces cerevisiae Strains Reveals Extensive Ploidy Variation.

    PubMed

    Zhu, Yuan O; Sherlock, Gavin; Petrov, Dmitri A

    2016-01-01

    Budding yeast has undergone several independent transitions from commercial to clinical lifestyles. The frequency of such transitions suggests that clinical yeast strains are derived from environmentally available yeast populations, including commercial sources. However, despite their important role in adaptive evolution, the prevalence of polyploidy and aneuploidy has not been extensively analyzed in clinical strains. In this study, we have looked for patterns governing the transition to clinical invasion in the largest screen of clinical yeast isolates to date. In particular, we have focused on the hypothesis that ploidy changes have influenced adaptive processes. We sequenced 144 yeast strains, 132 of which are clinical isolates. We found pervasive large-scale genomic variation in both overall ploidy (34% of strains identified as 3n/4n) and individual chromosomal copy numbers (36% of strains identified as aneuploid). We also found evidence for the highly dynamic nature of yeast genomes, with 35 strains showing partial chromosomal copy number changes and eight strains showing multiple independent chromosomal events. Intriguingly, a lineage identified to be baker's/commercial derived with a unique damaging mutation in NDC80 was particularly prone to polyploidy, with 83% of its members being triploid or tetraploid. Polyploidy was in turn associated with a >2× increase in aneuploidy rates as compared to other lineages. This dataset provides a rich source of information on the genomics of clinical yeast strains and highlights the potential importance of large-scale genomic copy variation in yeast adaptation. PMID:27317778

  13. Chromosomal Copy Number Variation in Saccharomyces pastorianus Is Evidence for Extensive Genome Dynamics in Industrial Lager Brewing Strains

    PubMed Central

    van den Broek, M.; Bolat, I.; Nijkamp, J. F.; Ramos, E.; Luttik, M. A. H.; Koopman, F.; Geertman, J. M.; de Ridder, D.; Pronk, J. T.

    2015-01-01

    Lager brewing strains of Saccharomyces pastorianus are natural interspecific hybrids originating from the spontaneous hybridization of Saccharomyces cerevisiae and Saccharomyces eubayanus. Over the past 500 years, S. pastorianus has been domesticated to become one of the most important industrial microorganisms. Production of lager-type beers requires a set of essential phenotypes, including the ability to ferment maltose and maltotriose at low temperature, the production of flavors and aromas, and the ability to flocculate. Understanding of the molecular basis of complex brewing-related phenotypic traits is a prerequisite for rational strain improvement. While genome sequences have been reported, the variability and dynamics of S. pastorianus genomes have not been investigated in detail. Here, using deep sequencing and chromosome copy number analysis, we showed that S. pastorianus strain CBS1483 exhibited extensive aneuploidy. This was confirmed by quantitative PCR and by flow cytometry. As a direct consequence of this aneuploidy, a massive number of sequence variants was identified, leading to at least 1,800 additional protein variants in S. pastorianus CBS1483. Analysis of eight additional S. pastorianus strains revealed that the previously defined group I strains showed comparable karyotypes, while group II strains showed large interstrain karyotypic variability. Comparison of three strains with nearly identical genome sequences revealed substantial chromosome copy number variation, which may contribute to strain-specific phenotypic traits. The observed variability of lager yeast genomes demonstrates that systematic linking of genotype to phenotype requires a three-dimensional genome analysis encompassing physical chromosomal structures, the copy number of individual chromosomes or chromosomal regions, and the allelic variation of copies of individual genes. PMID:26150454

  14. Chromosomal Copy Number Variation in Saccharomyces pastorianus Is Evidence for Extensive Genome Dynamics in Industrial Lager Brewing Strains.

    PubMed

    van den Broek, M; Bolat, I; Nijkamp, J F; Ramos, E; Luttik, M A H; Koopman, F; Geertman, J M; de Ridder, D; Pronk, J T; Daran, J-M

    2015-09-01

    Lager brewing strains of Saccharomyces pastorianus are natural interspecific hybrids originating from the spontaneous hybridization of Saccharomyces cerevisiae and Saccharomyces eubayanus. Over the past 500 years, S. pastorianus has been domesticated to become one of the most important industrial microorganisms. Production of lager-type beers requires a set of essential phenotypes, including the ability to ferment maltose and maltotriose at low temperature, the production of flavors and aromas, and the ability to flocculate. Understanding of the molecular basis of complex brewing-related phenotypic traits is a prerequisite for rational strain improvement. While genome sequences have been reported, the variability and dynamics of S. pastorianus genomes have not been investigated in detail. Here, using deep sequencing and chromosome copy number analysis, we showed that S. pastorianus strain CBS1483 exhibited extensive aneuploidy. This was confirmed by quantitative PCR and by flow cytometry. As a direct consequence of this aneuploidy, a massive number of sequence variants was identified, leading to at least 1,800 additional protein variants in S. pastorianus CBS1483. Analysis of eight additional S. pastorianus strains revealed that the previously defined group I strains showed comparable karyotypes, while group II strains showed large interstrain karyotypic variability. Comparison of three strains with nearly identical genome sequences revealed substantial chromosome copy number variation, which may contribute to strain-specific phenotypic traits. The observed variability of lager yeast genomes demonstrates that systematic linking of genotype to phenotype requires a three-dimensional genome analysis encompassing physical chromosomal structures, the copy number of individual chromosomes or chromosomal regions, and the allelic variation of copies of individual genes. PMID:26150454

  15. Peculiar Features of Microstructure Formation and Microhardness Variations During Torsional Straining of Tantalum Specimens in Bridgman Anvils

    NASA Astrophysics Data System (ADS)

    Ditenberg, I. A.; Tymentsev, A. N.; Korznikov, A. V.

    2015-04-01

    Using the method of transmission electron microscopy, peculiar features of evolution of microstructure and variations in microhardness of Та are investigated under torsional loading in the Bridgman anvil as a function of plastic deformation at room temperature. A quantitative examination of grain and defect's structure of the material under study and the values of local internal stresses is performed in different loading stages. The mechanisms of formation of submicrocrystalline and nanostructured states are analyzed and so is the microstructure variation as a function of the defect-structure characteristics, strain level, and spacing from the axis of torsion.

  16. Stress Tolerance Variations in Saccharomyces cerevisiae Strains from Diverse Ecological Sources and Geographical Locations

    PubMed Central

    Zheng, Yan-Lin; Wang, Shi-An

    2015-01-01

    The budding yeast Saccharomyces cerevisiae is a platform organism for bioethanol production from various feedstocks and robust strains are desirable for efficient fermentation because yeast cells inevitably encounter stressors during the process. Recently, diverse S. cerevisiae lineages were identified, which provided novel resources for understanding stress tolerance variations and related shaping factors in the yeast. This study characterized the tolerance of diverse S. cerevisiae strains to the stressors of high ethanol concentrations, temperature shocks, and osmotic stress. The results showed that the isolates from human-associated environments overall presented a higher level of stress tolerance compared with those from forests spared anthropogenic influences. Statistical analyses indicated that the variations of stress tolerance were significantly correlated with both ecological sources and geographical locations of the strains. This study provides guidelines for selection of robust S. cerevisiae strains for bioethanol production from nature. PMID:26244846

  17. Stress Tolerance Variations in Saccharomyces cerevisiae Strains from Diverse Ecological Sources and Geographical Locations.

    PubMed

    Zheng, Yan-Lin; Wang, Shi-An

    2015-01-01

    The budding yeast Saccharomyces cerevisiae is a platform organism for bioethanol production from various feedstocks and robust strains are desirable for efficient fermentation because yeast cells inevitably encounter stressors during the process. Recently, diverse S. cerevisiae lineages were identified, which provided novel resources for understanding stress tolerance variations and related shaping factors in the yeast. This study characterized the tolerance of diverse S. cerevisiae strains to the stressors of high ethanol concentrations, temperature shocks, and osmotic stress. The results showed that the isolates from human-associated environments overall presented a higher level of stress tolerance compared with those from forests spared anthropogenic influences. Statistical analyses indicated that the variations of stress tolerance were significantly correlated with both ecological sources and geographical locations of the strains. This study provides guidelines for selection of robust S. cerevisiae strains for bioethanol production from nature. PMID:26244846

  18. Investigation of spatial variations in collection efficiency of solar cells

    NASA Astrophysics Data System (ADS)

    Hiltner, Jason Fredrick

    2001-11-01

    In an effort to investigate spatial variations in solar cells, an apparatus which is capable of mapping collection efficiency with micron resolution and near- solar intensity has been developed. Local reductions in collection are observed in CdTe- and Cu(In1- xGax)Se2- based devices, and are characterized by measuring the response as a function of cell bias and incident laser intensity. By modeling this data with an equivalent circuit, it is clear that the majority of local variations in the response are due to series resistance variations. Further, direct evidence is given for bandgap variations in CdTe solar cells, which are correlated with high resistance regions in some devices. The bandgap variation is attributed to diffusion of S into CdTe, forming the lower bandgap CdTe1- xSx, during the post-deposition CdCl2 treatment commonly used to improve performance. Investigation of the impact of CdCl2 on a CdTe solar cell indicates that the treatment reduces the number of variations seen with above-bandgap photon energies, but also increases local variations in bandgap. The latter effect has been attributed to non-uniform penetration of CdCl2 to the device interface. Finally, elevated-temperature stress on CdTe devices is shown to preferentially degrade regions which exhibit decreases in bandgap, and hence increased S alloying.

  19. Expression and strain variation of the novel “small open reading frame” (smorf) multigene family in Babesia bovis

    PubMed Central

    Ferreri, Lucas M.; Brayton, Kelly A.; Sondgeroth, Kerry S.; Lau, Audrey O.T.; Suarez, Carlos E.; McElwain, Terry F.

    2012-01-01

    Small open reading frame (smorf) genes comprise the second largest Babesia bovis multigene family. All known 44 variant smorf genes are located in close chromosomal proximity to ves1 genes, which encode proteins that mediate cytoadhesion and contribute to immune evasion. In this study, we characterised the general topology of smorf genes and investigated the gene repertoire, transcriptional profile and SMORF expression in two distinct strains, T2Bo and Mo7. Sequence analysis using degenerate primers identified additional smorf genes in each strain and demonstrated that the smorf gene repertoire varies between strains, with conserved and unique genes in both. Smorf genes have multiple semi-conserved and variable blocks, and a large hypervariable insertion in 20 of the 44 genes defines two major branches of the family, termed smorf A and smorf B. A total of 32 smorf genes are simultaneously transcribed in T2Bo strain B. bovis merozoites obtained from deep brain tissue of an acutely infected animal. SMORF peptide-specific antiserum bound in immunoblots to multiple proteins with a range of sizes predicted by smorf genes, confirming translation of smorf gene products from these transcripts. These results indicate that the smorf multigene family is larger than previously described and demonstrate that smorf genes are expressed and are undergoing variation, both within strains and in a lineage-specific pattern independent of strain specificity. The function of these novel proteins is unknown. PMID:22138017

  20. The generation gap: Proteome changes and strain variation during encystation in Giardia duodenalis.

    PubMed

    Emery, Samantha J; Pascovi, Dana; Lacey, Ernest; Haynes, Paul A

    2015-05-01

    The prevalence of Giardia duodenalis in humans is partly owed to its direct and simple life cycle, as well as the formation of the environmentally resistant and infective cysts. Proteomic and transcriptomic studies have previously analysed the encystation process using the well-characterised laboratory genomic strain, WB C6. This study presents the first quantitative study of encystation using pathogenically relevant and alternative assemblage A strains: the human-derived BRIS/82/HEPU/106 (H-106)and avian-derived BRIS/95/HEPU/2041 (B-2041). We utilised tandem MS/MS with a label-free quantitative approach to compare cysts and trophozoite life stages for strain variation, as well as confirm universal encystation markers of assemblage A. A total of 1061 non-redundant proteins were identified from both strains, including trophozoite- and cyst-specific proteomes and life-stage differentially expressed proteins. Additionally, 24 proteins previously classified in the literature as encystation-specific were confirmed as strain-independent markers of encystation. Functional cluster analysis of differentially expressed proteins saw significant overlap between strains, including protein trafficking and localisation in cysts, NEK kinase function, and carbohydrate metabolism in trophozoites. Two significant points of strain specific adaptations in cysts were also identified. B-2041 possessed major up-regulation of the ankyrin repeat protein 21.1 family compared to H-106. Furthermore, cysts of B-2041 retained near-complete VSP variant diversity between cysts and trophozoites, while H-106 lost 45% of its VSP variant diversity between life cycle stages, a constriction previously observed in studies of WB C6. This is the first report of strain variation in the cyst stage in G. duodenalis, and highlights cyst variation and its impacts on reinfection and life cycle success. PMID:26045354

  1. Investigation into the strain tolerance of BSCCO composite tapes

    SciTech Connect

    Gherardi, L.; Caracino, P.; Metra, P.; Vellego, G.

    1994-12-31

    Intense research activity carried out worldwide has led to the development of high {Tc} superconducting tapes with electrical performances closer and closer to those required for power cables applications. In this perspective, the mechanical behavior of these tapes, which is known to be intrinsically rather poor, can turn out to be a critical factor. Mono and multifilamentary composite (silver sheathed) BSCCO tapes have been tested using a specially designed apparatus. The dependence of critical current on stress and strain has been investigated for different configurations, and possible models have been considered taking into account the structural parameters as well as the thermal history of the composite tapes. In particular, the effect of the pre-compression which is assumed to be imposed to the superconductor by the silver sheath during cool down has been analyzed. The comparison between experimentally determined maximum tolerable stress and strain of present tapes, and values typically required during cable manufacturing, handling and service conditions, is discussed. Possible ways to improve the strain tolerance of superconducting tapes are analyzed.

  2. Kinetic Monte Carlo investigation of tetragonal strain on Onsager matrices

    NASA Astrophysics Data System (ADS)

    Li, Zebo; Trinkle, Dallas R.

    2016-05-01

    We use three different methods to compute the derivatives of Onsager matrices with respect to strain for vacancy-mediated multicomponent diffusion from kinetic Monte Carlo simulations. We consider a finite difference method, a correlated finite difference method to reduce the relative statistical errors, and a perturbation theory approach to compute the derivatives. We investigate the statistical error behavior of the three methods for uncorrelated single vacancy diffusion in fcc Ni and for correlated vacancy-mediated diffusion of Si in Ni. While perturbation theory performs best for uncorrelated systems, the correlated finite difference method performs best for the vacancy-mediated Si diffusion in Ni, where longer trajectories are required.

  3. GENETIC VARIATION MEASURED BY MICROSATELLITES AMONG THREE STRAINS OF DOMESTICATED RAINBOW TROUT

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Genetic variation fuels selective change in natural and captive populations. In establishing a broodstock for selective improvement the degree of genetic diversity is an important consideration because it provides an indication of the scope for selective progress. Here three strains of rainbow tro...

  4. Measurements of Local Strain Variation in Si(1-x)Ge(x)/Si Heterostructures

    NASA Technical Reports Server (NTRS)

    Bell, L. D.; Kaiser, W. J.; Manion, S. J.; Milliken, S. J.; Pike, W. T.; Fathauer, R. W.

    1995-01-01

    The energy splitting of the conduction-band minimum of Si(1-x), Ge(x), due to strain has been directly measured by the application of ballistic-electron-emission microscope (BEEM) spectroscopy to Ag/Si(1-x), Ge(x) structures. Experimental values for this conduction-band splitting agree well with calculations. For Au/Si(1-x), Ge(x), however, heterogeneity in the strain of the Si(1-x), Ge(x) layer is introduced by deposition of the Au. This variation is attributed to species interdiffusion, which produces a rough Si(1-x)Ge(x) surface. Preliminary modeling indicates that the observed roughness is consistent with the strain variation measured by BEEM.

  5. Investigation on strain sensing properties of carbon-based nanocomposites for structural aircraft applications

    NASA Astrophysics Data System (ADS)

    Lamberti, Patrizia; Spinelli, Giovanni; Tucci, Vincenzo; Guadagno, Liberata; Vertuccio, Luigi; Russo, Salvatore

    2016-05-01

    The mechanical and electrical properties of a thermosetting epoxy resin particularly indicated for the realization of structural aeronautic components and reinforced with multiwalled carbon nanotubes (MWCNTs, at 0.3 wt%) are investigated for specimens subjected to cycles and different levels of applied strain (i.e. ɛ) loaded both in axial tension and flexural mode. It is found that the piezoresistive behavior of the resulting nanocomposite evaluated in terms of variation of the electrical resistance is strongly affected by the applied mechanical stress mainly due to the high sensibility and consequent rearrangement of the electrical percolating network formed by MWCNTs in the composite at rest or even under a small strain. In fact, the variations in electrical resistance that occur during the mechanical stress are correlated to the deformation exhibited by the nanocomposites. In particular, the overall response of electrical resistance of the composite is characterized by a linear increase with the strain at least in the region of elastic deformation of the material in which the gauge factor (i.e. G.F.) of the sensor is usually evaluated. Therefore, the present study aims at investigating the possible use of the nanotechnology for application of embedded sensor systems in composite structures thus having capability of self-sensing and of responding to the surrounding environmental changes, which are some fundamental requirements especially for structural aircraft monitoring applications.

  6. A Quantitative Investigation of Stakeholder Variation in Training Program Evaluation.

    ERIC Educational Resources Information Center

    Michalski, Greg V.

    A survey was conducted to investigate variation in stakeholder perceptions of training results and evaluation within the context of a high-technology product development firm (the case organization). A scannable questionnaire survey booklet was developed and scanned data were exported and analyzed. Based on an achieved sample of 280 (70% response…

  7. Genetic architecture of ethanol-responsive transcriptome variation in Saccharomyces cerevisiae strains.

    PubMed

    Lewis, Jeffrey A; Broman, Aimee T; Will, Jessica; Gasch, Audrey P

    2014-09-01

    Natural variation in gene expression is pervasive within and between species, and it likely explains a significant fraction of phenotypic variation between individuals. Phenotypic variation in acute systemic responses can also be leveraged to reveal physiological differences in how individuals perceive and respond to environmental perturbations. We previously found extensive variation in the transcriptomic response to acute ethanol exposure in two wild isolates and a common laboratory strain of Saccharomyces cerevisiae. Many expression differences persisted across several modules of coregulated genes, implicating trans-acting systemic differences in ethanol sensing and/or response. Here, we conducted expression QTL mapping of the ethanol response in two strain crosses to identify the genetic basis for these differences. To understand systemic differences, we focused on "hotspot" loci that affect many transcripts in trans. Candidate causal regulators contained within hotspots implicate upstream regulators as well as downstream effectors of the ethanol response. Overlap in hotspot targets revealed additive genetic effects of trans-acting loci as well as "epi-hotspots," in which epistatic interactions between two loci affected the same suites of downstream targets. One epi-hotspot implicated interactions between Mkt1p and proteins linked to translational regulation, prompting us to show that Mkt1p localizes to P bodies upon ethanol stress in a strain-specific manner. Our results provide a glimpse into the genetic architecture underlying natural variation in a stress response and present new details on how yeast respond to ethanol stress. PMID:24970865

  8. The variation of the yield stress of Ti alloys with strain rate at high temperatures

    SciTech Connect

    Rosen, R.S.; Paddon, S.P.; Kassner, M.E.

    1999-06-01

    This study extended investigation on the elevated-temperature yield-strength dependence of beta-phase titanium alloys on strain rate and temperature. Yield stresses were found to increase substantially with increasing strain rate at elevated temperatures due to the high strain-rate sensitivity of titanium at high temperatures. Above 1000 C, the strain-rate sensitivities were found to increase substantially with increasing temperature and/or decreasing strain rate. The six alloys examined were TIMETAL 21S, Ti-15-3-, Ti-6-4, Ti-13-11-3, Beta C, and Beta III. There was particular interest in determining the strain-rate sensitivity of these alloys through strain-rate change tests above 1000 C. The yield stresses of all the titanium alloys at temperatures above 1093 C were less than 1% of their ambient temperature values. strain hardening was negligible in the alloys tested at these high temperatures. Extended tensile ductilities of 100 to 200% were observed due to the pronounced strain-rare sensitivity. The rate controlling mechanism for plasticity, based on activation energy and the strain-rate sensitivity measurements, is discussed.

  9. Strain variation in microalgal lipid production during mixotrophic growth with glycerol.

    PubMed

    Paranjape, Kiran; Leite, Gustavo B; Hallenbeck, Patrick C

    2016-03-01

    Algal cultivation at high latitudes is challenged by the relatively low annual solar flux. One possible scenario to overcome this limitation is the use of mixotrophic growth to potentially boost biomass and lipid production. Here the effect of glycerol addition on the growth and lipid production by twelve indigenous microalgae was examined. The results show that there is considerable strain dependent variation in the maximum growth rate under mixotrophic conditions with the addition of glycerol causing in some cases up to a 2.4-fold increase in growth rate and a up to a 1.9-fold increase in biomass. In addition, glycerol increased total lipid production 40-60% in some strains. These results also show the value in screening culture collections for desired traits independent of strain identification since here one (PCH02) of the five Chlorella strains showed a large increase in lipid with glycerol. PMID:26773947

  10. Genomic variations associated with attenuation in Mycobacterium avium subsp. paratuberculosis vaccine strains

    PubMed Central

    2013-01-01

    Background Mycobacterium avium subspecies paratuberculosis (MAP) whole cell vaccines have been widely used tools in the control of Johne’s disease in animals despite being unable to provide complete protection. Current vaccine strains derive from stocks created many decades ago; however their genotypes, underlying mechanisms and relative degree of their attenuation are largely unknown. Results Using mouse virulence studies we confirm that MAP vaccine strains 316 F, II and 2e have diverse but clearly attenuated survival and persistence characteristics compared with wild type strains. Using a pan genomic microarray we characterise the genomic variations in a panel of vaccine strains sourced from stocks spanning over 40 years of maintenance. We describe multiple genomic variations specific for individual vaccine stocks in both deletion (26–32 Kbp) and tandem duplicated (11–40 Kbp) large variable genomic islands and insertion sequence copy numbers. We show individual differences suitable for diagnostic differentiation between vaccine and wild type genotypes and provide evidence for functionality of some of the deleted MAP-specific genes and their possible relation to attenuation. Conclusions This study shows how culture environments have influenced MAP genome diversity resulting in large tandem genomic duplications, deletions and transposable element activity. In combination with classical selective systematic subculture this has led to fixation of specific MAP genomic alterations in some vaccine strain lineages which link the resulting attenuated phenotypes with deficiencies in high reactive oxygen species handling. PMID:23339684

  11. Durability investigation of a group of strain gage pressure transducers

    NASA Technical Reports Server (NTRS)

    Lederer, P. S.; Hilten, J. S.

    1972-01-01

    A durability investigation was conducted on a group of eighteen bonded-wire strain gage pressure transducers with ranges of 0 to 15 psig and 0 to 100 psig using an improved version of a previously developed technique. Some of the transducers were subjected to 40 million pressure cycles at a 5-Hz rate at laboratory ambient conditions, others were cycled at a temperature of 150 F (65.6 C). The largest change in sensitivity observed was 0.22% for a 100-psig transducer subjected to 40 million pressure cycles at 150 F. The largest change in zero pressure output observed was 0.91% FS for the same transducer. None of the transducers failed completely as a result of cycling at or below full scale pressure.

  12. Variation and genetic control of gene expression in primary immunocytes across inbred mouse strains.

    PubMed

    Mostafavi, Sara; Ortiz-Lopez, Adriana; Bogue, Molly A; Hattori, Kimie; Pop, Cristina; Koller, Daphne; Mathis, Diane; Benoist, Christophe

    2014-11-01

    To determine the breadth and underpinning of changes in immunocyte gene expression due to genetic variation in mice, we performed, as part of the Immunological Genome Project, gene expression profiling for CD4(+) T cells and neutrophils purified from 39 inbred strains of the Mouse Phenome Database. Considering both cell types, a large number of transcripts showed significant variation across the inbred strains, with 22% of the transcriptome varying by 2-fold or more. These included 119 loci with apparent complete loss of function, where the corresponding transcript was not expressed in some of the strains, representing a useful resource of "natural knockouts." We identified 1222 cis-expression quantitative trait loci (cis-eQTL) that control some of this variation. Most (60%) cis-eQTLs were shared between T cells and neutrophils, but a significant portion uniquely impacted one of the cell types, suggesting cell type-specific regulatory mechanisms. Using a conditional regression algorithm, we predicted regulatory interactions between transcription factors and potential targets, and we demonstrated that these predictions overlap with regulatory interactions inferred from transcriptional changes during immunocyte differentiation. Finally, comparison of these and parallel data from CD4(+) T cells of healthy humans demonstrated intriguing similarities in variability of a gene's expression: the most variable genes tended to be the same in both species, and there was an overlap in genes subject to strong cis-acting genetic variants. We speculate that this "conservation of variation" reflects a differential constraint on intraspecies variation in expression levels of different genes, either through lower pressure for some genes, or by favoring variability for others. PMID:25267973

  13. Vertical AMS variation within basalt flow profiles from the Xitle volcano (Mexico) as indicator of heterogeneous strain in lava flows

    NASA Astrophysics Data System (ADS)

    Caballero-Miranda, C. I.; Alva-Valdivia, L. M.; González-Rangel, J. A.; Gogitchaishvili, A.; Urrutia-Fucugauchi, J.; Kontny, A.

    2016-02-01

    The within-flow vertical variation of anisotropy of the magnetic susceptibility (AMS) of three basaltic flow profiles from the Xitle volcano were investigated in relation to the lava flow-induced shear strain. Rock magnetic properties and opaque microscopy studies have shown that the magnetic mineralogy is dominated by Ti-poor magnetite with subtle vertical variations in grain size distribution: PSD grains dominate in a thin bottommost zone, and from base to top from PSD-MD to PSD-SD grains are found. The vertical variation of AMS principal direction patterns permitted identification of two to three main lava zones, some subdivided into subzones. The lower zone is very similar in all profiles with the magnetic foliation dipping toward the flow source, whereas the upper zone has magnetic foliation dipping toward the flow direction or alternates between dipping against and toward the flow direction. The K1 (maximum AMS axis) directions tend to be mostly parallel to the flow direction in both zones. The middle zone shows AMS axes diverging among profiles. We present heterogeneous strain ellipse distribution models for different flow velocities assuming similar viscosity to explain the AMS directions and related parameters of each zone. Irregular vertical foliations and transverse to flow lineation of a few samples at the bottommost and topmost part of profiles suggest SD inverse fabric, levels of intense friction, or degassing effects in AMS orientations.

  14. Gene Expression Variation Resolves Species and Individual Strains among Coral-Associated Dinoflagellates within the Genus Symbiodinium

    PubMed Central

    Parkinson, John E.; Baumgarten, Sebastian; Michell, Craig T.; Baums, Iliana B.; LaJeunesse, Todd C.; Voolstra, Christian R.

    2016-01-01

    Reef-building corals depend on symbiotic mutualisms with photosynthetic dinoflagellates in the genus Symbiodinium. This large microalgal group comprises many highly divergent lineages (“Clades A–I”) and hundreds of undescribed species. Given their ecological importance, efforts have turned to genomic approaches to characterize the functional ecology of Symbiodinium. To date, investigators have only compared gene expression between representatives from separate clades—the equivalent of contrasting genera or families in other dinoflagellate groups—making it impossible to distinguish between clade-level and species-level functional differences. Here, we examined the transcriptomes of four species within one Symbiodinium clade (Clade B) at ∼20,000 orthologous genes, as well as multiple isoclonal cell lines within species (i.e., cultured strains). These species span two major adaptive radiations within Clade B, each encompassing both host-specialized and ecologically cryptic taxa. Species-specific expression differences were consistently enriched for photosynthesis-related genes, likely reflecting selection pressures driving niche diversification. Transcriptional variation among strains involved fatty acid metabolism and biosynthesis pathways. Such differences among individuals are potentially a major source of physiological variation, contributing to the functional diversity of coral holobionts composed of unique host–symbiont genotype pairings. Our findings expand the genomic resources available for this important symbiont group and emphasize the power of comparative transcriptomics as a method for studying speciation processes and interindividual variation in nonmodel organisms. PMID:26868597

  15. Gene Expression Variation Resolves Species and Individual Strains among Coral-Associated Dinoflagellates within the Genus Symbiodinium.

    PubMed

    Parkinson, John E; Baumgarten, Sebastian; Michell, Craig T; Baums, Iliana B; LaJeunesse, Todd C; Voolstra, Christian R

    2016-03-01

    Reef-building corals depend on symbiotic mutualisms with photosynthetic dinoflagellates in the genus Symbiodinium. This large microalgal group comprises many highly divergent lineages ("Clades A-I") and hundreds of undescribed species. Given their ecological importance, efforts have turned to genomic approaches to characterize the functional ecology of Symbiodinium. To date, investigators have only compared gene expression between representatives from separate clades-the equivalent of contrasting genera or families in other dinoflagellate groups-making it impossible to distinguish between clade-level and species-level functional differences. Here, we examined the transcriptomes of four species within one Symbiodinium clade (Clade B) at ∼20,000 orthologous genes, as well as multiple isoclonal cell lines within species (i.e., cultured strains). These species span two major adaptive radiations within Clade B, each encompassing both host-specialized and ecologically cryptic taxa. Species-specific expression differences were consistently enriched for photosynthesis-related genes, likely reflecting selection pressures driving niche diversification. Transcriptional variation among strains involved fatty acid metabolism and biosynthesis pathways. Such differences among individuals are potentially a major source of physiological variation, contributing to the functional diversity of coral holobionts composed of unique host-symbiont genotype pairings. Our findings expand the genomic resources available for this important symbiont group and emphasize the power of comparative transcriptomics as a method for studying speciation processes and interindividual variation in nonmodel organisms. PMID:26868597

  16. Analysis of transverse shear strains in pre-twisted thick beams using variational asymptotic method

    SciTech Connect

    Ameen, Maqsood M.; Harursampath, Dineshkumar E-mail: dinesh@aero.iisc.ernet.in

    2015-03-10

    The cross-sectional stiffness matrix is derived for a pre-twisted, moderately thick beam made of transversely isotropic materials and having rectangular cross sections. An asymptotically-exact methodology is used to model the anisotropic beam from 3-D elasticity, without any further assumptions. The beam is allowed to have large displacements and rotations, but small strain is assumed. The strain energy is computed making use of the beam constitutive law and kinematical relations derived with the inclusion of geometrical nonlinearities and an initial twist. The energy functional is minimized making use of the Variational Asymptotic Method (VAM), thereby reducing the cross section to a point on the beam reference line with appropriate properties, forming a 1-D constitutive law. VAM is a mathematical technique employed in the current problem to rigorously split the 3-D analysis of beams into two: a 2-D analysis over the beam cross-sectional domain, which provides a compact semi-analytical form of the properties of the cross sections, and a nonlinear 1-D analysis of the beam ref-erence curve. In this method, as applied herein, the cross-sectional analysis is performed asymptotically by taking advantage of a material small parameter and two geometric small parameters. 3-D strain components are derived using kinematics and arranged in orders of the small parameters. Closed-form expressions are derived for the 3-D non-linear warping and stress fields. Warping functions are obtained by the minimization of strain energy subject to certain set of constraints that render the 1-D strain measures well-defined. The zeroth-order 3-D warping field thus yielded is then used to integrate the 3-D strain energy density over the cross section, resulting in the 1-D strain energy density, which in turn helps identify the corresponding cross-sectional stiffness matrix. The model is capable of predicting interlaminar and transverse shear stresses accurately up to first order.

  17. End-point disease investigation for virus strains of intermediate virulence as illustrated by flavivirus infections.

    PubMed

    Suen, Willy W; Prow, Natalie A; Setoh, Yin X; Hall, Roy A; Bielefeldt-Ohmann, Helle

    2016-02-01

    Viruses of intermediate virulence are defined as isolates causing an intermediate morbidity/mortality rate in a specific animal model system, involving specific host and inoculation parameters (e.g. dose and route). Therefore, variable disease phenotype may exist between animals that develop severe disease or die and those that are asymptomatic or survive after infection with these isolates. There may also be variability amongst animals within each of these subsets. Such potential variability may confound the use of time-point sacrifice experiments to investigate pathogenesis of this subset of virus strains, as uniformity in disease outcome is a fundamental assumption for time-course sacrifice experiments. In the current study, we examined the disease phenotype, neuropathology, neural infection and glial cell activity in moribund/dead and surviving Swiss white (CD-1) mice after intraperitoneal infection with various Australian flaviviruses, including West Nile virus (WNV) strains of intermediate virulence (WNVNSW2011 and WNVNSW2012), and highly virulent Murray Valley encephalitis virus (MVEV) isolates. We identified notable intragroup variation in the end-point disease in mice infected with either WNVNSW strain, but to a lesser extent in mice infected with MVEV strains. The variable outcomes associated with WNVNSW infection suggest that pathogenesis investigations using time-point sacrifice of WNVNSW-infected mice may not be the best approach, as the assumption of uniformity in outcomes is violated. Our study has therefore highlighted a previously unacknowledged challenge to investigating pathogenesis of virus isolates of intermediate virulence. We have also set a precedent for routine examination of the disease phenotype in moribund/dead and surviving mice during survival challenge experiments. PMID:26614392

  18. A variational justification of the assumed natural strain formulation of finite elements. I - Variational principles. II - The C(0) four-node plate element

    NASA Technical Reports Server (NTRS)

    Militello, Carmelo; Felippa, Carlos A.

    1990-01-01

    The assumed natural strain formulation of finite elements is interpreted from a variational standpoint. The approach is based on hybrid extensions of the Reissner-type functional which uses the strains and displacements as independent fields. Consideration is restricted to linear elasticity. The four-node C(0) plate-bending quadrilateral is used as a specific example to illustrate the application of the present interpretation. A key finding is that any change in the strain-displacement interpolation from the variationally consistent interpolation must be associated in some way to the addition of incompatible displacement modes.

  19. Additional Investigations of Ice Shape Sensitivity to Parameter Variations

    NASA Technical Reports Server (NTRS)

    Miller, Dean R.; Potapczuk, Mark G.; Langhals, Tammy J.

    2006-01-01

    A second parameter sensitivity study was conducted at the NASA Glenn Research Center's Icing Research Tunnel (IRT) using a 36 in. chord (0.91 m) NACA-0012 airfoil. The objective of this work was to further investigate the feasibility of using ice shape feature changes to define requirements for the simulation and measurement of SLD and appendix C icing conditions. A previous study concluded that it was feasible to use changes in ice shape features (e.g., ice horn angle, ice horn thickness, and ice shape mass) to detect relatively small variations in icing spray condition parameters (LWC, MVD, and temperature). The subject of this current investigation extends the scope of this previous work, by also examining the effect of icing tunnel spray-bar parameter variations (water pressure, air pressure) on ice shape feature changes. The approach was to vary spray-bar water pressure and air pressure, and then evaluate the effects of these parameter changes on the resulting ice shapes. This paper will provide a description of the experimental method, present selected experimental results, and conclude with an evaluation of these results.

  20. The Use of High-Throughput DNA Sequencing in the Investigation of Antigenic Variation: Application to Neisseria Species

    PubMed Central

    Davies, John K.; Harrison, Paul F.; Lin, Ya-Hsun; Bartley, Stephanie; Khoo, Chen Ai; Seemann, Torsten; Ryan, Catherine S.; Kahler, Charlene M.; Hill, Stuart A.

    2014-01-01

    Antigenic variation occurs in a broad range of species. This process resembles gene conversion in that variant DNA is unidirectionally transferred from partial gene copies (or silent loci) into an expression locus. Previous studies of antigenic variation have involved the amplification and sequencing of individual genes from hundreds of colonies. Using the pilE gene from Neisseria gonorrhoeae we have demonstrated that it is possible to use PCR amplification, followed by high-throughput DNA sequencing and a novel assembly process, to detect individual antigenic variation events. The ability to detect these events was much greater than has previously been possible. In N. gonorrhoeae most silent loci contain multiple partial gene copies. Here we show that there is a bias towards using the copy at the 3′ end of the silent loci (copy 1) as the donor sequence. The pilE gene of N. gonorrhoeae and some strains of Neisseria meningitidis encode class I pilin, but strains of N. meningitidis from clonal complexes 8 and 11 encode a class II pilin. We have confirmed that the class II pili of meningococcal strain FAM18 (clonal complex 11) are non-variable, and this is also true for the class II pili of strain NMB from clonal complex 8. In addition when a gene encoding class I pilin was moved into the meningococcal strain NMB background there was no evidence of antigenic variation. Finally we investigated several members of the opa gene family of N. gonorrhoeae, where it has been suggested that limited variation occurs. Variation was detected in the opaK gene that is located close to pilE, but not at the opaJ gene located elsewhere on the genome. The approach described here promises to dramatically improve studies of the extent and nature of antigenic variation systems in a variety of species. PMID:24466206

  1. Strain-dependent variations in visceral sensitivity: relationship to stress, anxiety and spinal glutamate transporter expression.

    PubMed

    Moloney, R D; Dinan, T G; Cryan, J F

    2015-04-01

    Responses to painful stimuli differ between populations, ethnic groups, sexes and even among individuals of a family. However, data regarding visceral pain are still lacking. Thus, we investigated differences in visceral nociception across inbred and outbred mouse strains using colorectal distension. Anxiety and depression-like behaviour were assessed using the open field and forced swim test as well as the corticosterone stress response. Possible mechanistic targets [excitatory amino acid transporter (EAAT-1), brain-derived neurotrophic factor (BDNF) and 5HT1A receptor] were also assessed using quantitative real-time polymerase chain reaction. Adult, male, inbred and outbred mouse strains were used in all assays (inbred strains; CBA/J Hsd, C3H/HeNHsd, BALB/c OlaHsd, C57 BL/6JOlaHsd, DBA/2J RccHsd, CAST/EiJ, SM/J, A/J OlaHsd, 129P2/OlaHsd, FVB/NHan Hsd and outbred strains: Swiss Webster, CD-1). mRNA expression levels of EAAT-1, BDNF and 5HT1A receptor (HTR1A) were quantified in the lumbosacral spinal cord, amygdala and hippocampus. A significant effect of strain was found in visceral sensitivity, anxiety and depressive-like behaviours. Strain differences were also seen in both baseline and stress-induced corticosterone levels. CBA/J mice consistently exhibited heightened visceral sensitivity, anxiety behaviour and depression-like behaviour which were associated with decreased spinal EAAT-1 and hippocampal BDNF and HTR1A. Our results show the CBA/J mouse strain as a novel mouse model to unravel the complex mechanisms of brain-gut axis disorders such as irritable bowel syndrome, in particular the underlying mechanisms of visceral hypersensitivity, for which there is great need. Furthermore, this study highlights the importance of genotype and the consequences for future development of transgenic strains in pain research. PMID:25851919

  2. Spatial and Temporal Variations in Strain Rates in the Western Transverse Ranges, California

    NASA Astrophysics Data System (ADS)

    Marshall, S. T.; Funning, G. J.; Owen, S. E.

    2012-12-01

    We determine the spatial and temporal variations in strain rates in the Transverse Ranges of southern California by combing data from 52 continuous GPS sites in the Plate Boundary Observatory network with InSAR time series. To characterize periodic seasonal motions in the GPS time series, phases and amplitudes of annual and semiannual motions are estimated for each GPS station. We remove these seasonal terms, and then perform Principal Component Analysis on the residual time series to remove common-mode errors. We find that seasonal GPS motions are not strongly dependent on local substrate geology. To quantify the spatial patterns of deformation in greater detail than GPS can provide, we use a persistent scatterer InSAR (PSI) data set comprised of 23 ENVISAT ASAR scenes. The PSI data were derived using the software package, StaMPS [Hooper et al. 2004]. The PSI data show potential anthropogenic subsidence in the Oxnard/Ventura area as well as at a location just south of the Oak Ridge. A highly localized zone of subsidence is also present along the Ventura Avenue anticline, where ongoing petroleum extraction is occurring. Comparison of the InSAR and the GPS projected into the InSAR line of sight, shows general agreement. The relative lack of significant non-tectonic motions in the western Transverse Ranges is in stark contrast to the nearby Los Angeles basin where anthropogenic motions dominate many InSAR scenes. To determine the local tectonic deformation rates, we remove strain associated with the nearby San Andreas fault using a rectangular dislocation model. Direct inversion of the GPS velocities into a triangulated network with variable strain/rotation rates produces a generalized map of variations in tectonic strain rates. The strain rate map shows the largest strain rates to be near the central Ventura basin with rates generally decreasing westward towards the Santa Barbara Channel. To determine compatible regional fault slip rates, we use a forward mechanical

  3. Characterizing Strain Variation in Engineered E. coli Using a Multi-Omics-Based Workflow.

    PubMed

    Brunk, Elizabeth; George, Kevin W; Alonso-Gutierrez, Jorge; Thompson, Mitchell; Baidoo, Edward; Wang, George; Petzold, Christopher J; McCloskey, Douglas; Monk, Jonathan; Yang, Laurence; O'Brien, Edward J; Batth, Tanveer S; Martin, Hector Garcia; Feist, Adam; Adams, Paul D; Keasling, Jay D; Palsson, Bernhard O; Lee, Taek Soon

    2016-05-25

    Understanding the complex interactions that occur between heterologous and native biochemical pathways represents a major challenge in metabolic engineering and synthetic biology. We present a workflow that integrates metabolomics, proteomics, and genome-scale models of Escherichia coli metabolism to study the effects of introducing a heterologous pathway into a microbial host. This workflow incorporates complementary approaches from computational systems biology, metabolic engineering, and synthetic biology; provides molecular insight into how the host organism microenvironment changes due to pathway engineering; and demonstrates how biological mechanisms underlying strain variation can be exploited as an engineering strategy to increase product yield. As a proof of concept, we present the analysis of eight engineered strains producing three biofuels: isopentenol, limonene, and bisabolene. Application of this workflow identified the roles of candidate genes, pathways, and biochemical reactions in observed experimental phenomena and facilitated the construction of a mutant strain with improved productivity. The contributed workflow is available as an open-source tool in the form of iPython notebooks. PMID:27211860

  4. Phenotypic variation amongst genotypically homogeneous Legionella pneumophila serogroup 1 isolates: implications for the investigation of outbreaks of Legionnaires' disease.

    PubMed Central

    Harrison, T. G.; Saunders, N. A.; Haththotuwa, A.; Hallas, G.; Birtles, R. J.; Taylor, A. G.

    1990-01-01

    One hundred and seventy-nine isolates of Legionella pneumophila serogroup 1, obtained from a site associated with an outbreak of Legionnaires' disease, were examined by monoclonal antibody subgrouping, restriction fragment length polymorphism typing, restriction endonuclease analysis and plasmid content. Nine distinct phenotypes were detected but at the genotypic level all strains were closely related. The data presented indicate that phenotypic variation of a single parent strain can occur within an environmental site. The implications of these findings are discussed in relation to the investigation of outbreaks of Legionnaires' disease. Images Fig. 1 Fig. 2 Fig. 3 Fig. 4 PMID:1969803

  5. The influence of climatically-driven surface loading variations on continental strain and seismicity

    NASA Astrophysics Data System (ADS)

    Craig, Tim; Calais, Eric; Fleitout, Luce; Bollinger, Laurent; Scotti, Oona

    2016-04-01

    In slowly deforming regions of plate interiors, secondary sources of stress and strain can result in transient deformation rates comparable to, or greater than, the background tectonic rates. Highly variable in space and time, these transients have the potential to influence the spatio-temporal distribution of seismicity, interfering with any background tectonic effects to either promote or inhibit the failure of pre-existing faults, and potentially leading to a clustered, or 'pulse-like', seismic history. Here, we investigate the ways in which the large-scale deformation field resulting from climatically-controlled changes in surface ice mass over the Pleistocene and Holocene may have influenced not only the seismicity of glaciated regions, but also the wider seismicity around the ice periphery. We first use a set of geodynamic models to demonstrate that a major pulse of seismic activity occurring in Fennoscandia, coincident with the time of end-glaciation, occurred in a setting where the contemporaneous horizontal strain-rate resulting from the changing ice mass, was extensional - opposite to the reverse sense of coseismic displacement accommodated on these faults. Therefore, faulting did not release extensional elastic strain that was building up at the time of failure, but compressional elastic strain that had accumulated in the lithosphere on timescales longer than the glacial cycle, illustrating the potential for a non-tectonic trigger to tap in to the background tectonic stress-state. We then move on to investigate the more distal influence that changing ice (and ocean) volumes may have had on the evolving strain field across intraplate Europe, how this is reflected in the seismicity across intraplate Europe, and what impact this might have on the paleoseismic record.

  6. Investigations on color variations of Morpho rhetenor butterfly wing scales

    NASA Astrophysics Data System (ADS)

    Liao, Guanglan; Zuo, Haibo; Jiang, Xuan; Yang, Xuefeng; Shi, Tielin

    2012-12-01

    Experiments and simulations are carried out to investigate the optical properties of Morpho rhetenor butterfly wing scales. The upper surface of a male Morpho rhetenor butterfly wing presents a single-layer of scales, the microstructures of which are responsible for the brilliant blue color. The color varies from cyan blue to yellow green and soon afterwards returns back to cyan blue when some ethanol is dropped on the upper surface. At the start of the ethanol volatilization process, the reflection spectrum remains stable. As the ethanol further volatilizes, the peak reflectance decreases slightly, then increases dramatically. Meanwhile, the peak wavelength keeps approximately constant, then decreases, and keeps almost stable at the end of the process. Therefore, the optical properties depend strongly on the varying ambient conditions, including the refractive index and the thickness of the packing medium. Moreover, the possible causes for the scales in dark green region after several dropping ethanol experiments are clarified. This research benefits our understanding of the color variation mechanisms of the wing scales, and provides inspiration for further studies and applications.

  7. Age- and Strain- Dependent Influences of Morphine on Mouse Social Investigation Behavior

    PubMed Central

    Kennedy, Bruce C.; Panksepp, Jules B.; Wong, Jenny C.; Krause, Emily J.; Lahvis, Garet P.

    2011-01-01

    Opioid-coded neural circuits play a substantial role in how individuals respond to drugs of abuse, and most individuals begin using such drugs during adolescence and within a social context. Several studies indicate that adolescent mice exhibit a heightened sensitivity to the effects of morphine, the prototypical opiate drug, when compared with adults, but it is unclear whether these developmental differences are related to aspects of motivated behavior. Moreover, exposure to opioids within the rodent brain can alter the expression of social behavior, yet little is known about whether this relationship changes as a function of development or genetic variation. In this study, we conducted a series of experiments to characterize the relationship between genetic background, adolescent development and morphine-induced changes in mouse social investigation (SI). At two time-points during adolescent development (postnatal day [PD] 25 and 45), social interactions of test mice of the gregarious C57BL/6J (B6) strain were more tolerant to the suppressive effects of morphine (ED50 = 0.97 and 2.17 mg/kg morphine, respectively) than test mice from the less social BALB/cJ (BALB) strain (ED50 = 0.61 and 0.91 mg/kg morphine, respectively). By contrast, this strain-dependent difference was not evident among adult mice on PD 90 (ED50 = 1.07 and 1.41 mg/kg morphine for BALB and B6 mice, respectively). An additional experiment demonstrated that the ability of morphine to alter social responsiveness was not directly related to drug-induced changes in locomotor behavior. Finally, administration of morphine to stimulus mice on PD 25 reduced social interaction of test mice only when individuals were from the B6 genetic background. Overall, these results indicate that alterations in endogenous opioid systems are related to changes in SI that occur during adolescence and that morphine administration may mimic the rewarding nature of SI. PMID:21358324

  8. Strain in Hydrogen-Implanted Si Investigated Using Dark-Field Electron Holography

    NASA Astrophysics Data System (ADS)

    Cherkashin, Nikolay; Reboh, Shay; Lubk, Axel; Hÿtch, Martin J.; Claverie, Alain

    2013-09-01

    The microstructure of ion-implanted crystals is profoundly dictated by mechanical strain developing in interplay with structural defects. Understanding the origin of strain during the early stages of development is challenging and requires accurate measurements and modeling. Here, we investigate the mechanical strain in H-implanted Si. X-ray diffraction analysis is performed to measure the mesoscopic out-of-plane strain and dark-field electron holography to map strain in two-dimensions (2D) with nanometer spatial resolution. Supported by finite element method modeling, we propose that the mean strain field is explained by overlapping and averaging discrete strain fields generated by sub-nanoscopic defects that are intimately related to the H depth concentration.

  9. Experimental Investigations of Woven Textile Tape as Strain Sensor

    NASA Astrophysics Data System (ADS)

    Kannaian, T.; Naveen, V. S.; Muthukumar, N.; Thilagavathi, G.

    2015-10-01

    In this article, a strain sensitive textile based elastomeric tape sensor has been developed and process parameters for sensor development are optimized. Polyester yarns are used as base threads and rubber threads are used as elastomer for the sensor development. The sensor has been developed with the help of narrow width tape loom by introducing the silver coated nylon yarn in the middle of the tape structure. The influence of weave structure, number of conductive threads and rubber thread tension on sensor development has been optimized by using the Box-Behnken method and the results are analyzed using the Design expert software. From the results, it is found that six numbers of conductive threads in a plain weave structure with rubber thread tension of 750 g is suitable for the sensor to give high gauge factor of 1.626.

  10. The response of polymethyl methacrylate (PMMA) subjected to large strains, high strain rates, high pressures, a range in temperatures, and variations in the intermediate principal stress

    NASA Astrophysics Data System (ADS)

    Holmquist, T. J.; Bradley, J.; Dwivedi, A.; Casem, D.

    2016-05-01

    This article presents the response of polymethyl methacrylate (PMMA) subjected to large strains, high strain rates, high pressures, a range in temperatures, and variations in the intermediate principal stress. Laboratory data from the literature, and new test data provided here, are used in the evaluation. The new data include uniaxial stress compression tests (at various strain rates and temperatures) and uniaxial stress tension tests (at low strain rates and ambient temperatures). The compression tests include experiments at ˙ɛ = 13,000 s-1, significantly extending the range of known strain rate data. The observed behavior of PMMA includes the following: it is brittle in compression at high rates, and brittle in tension at all rates; strength is dependent on the pressure, strain, strain rate, temperature, and the intermediate principal stress; the shear modulus increases as the pressure increases; and it is highly compressible. Also presented are novel, high velocity impact tests (using high-speed imaging) that provide insight into the initiation and evolution of damage. Lastly, computational constitutive models for pressure, strength, and failure are presented that provide responses that are in good agreement with the laboratory data. The models are used to compute several ballistic impact events for which experimental data are available.

  11. Cellular basis of morphological variation and temperature-related plasticity in Drosophila melanogaster strains with divergent wing shapes.

    PubMed

    Torquato, Libéria Souza; Mattos, Daniel; Matta, Bruna Palma; Bitner-Mathé, Blanche Christine

    2014-12-01

    Organ shape evolves through cross-generational changes in developmental patterns at cellular and/or tissue levels that ultimately alter tissue dimensions and final adult proportions. Here, we investigated the cellular basis of an artificially selected divergence in the outline shape of Drosophila melanogaster wings, by comparing flies with elongated or rounded wing shapes but with remarkably similar wing sizes. We also tested whether cellular plasticity in response to developmental temperature was altered by such selection. Results show that variation in cellular traits is associated with wing shape differences, and that cell number may play an important role in wing shape response to selection. Regarding the effects of developmental temperature, a size-related plastic response was observed, in that flies reared at 16 °C developed larger wings with larger and more numerous cells across all intervein regions relative to flies reared at 25 °C. Nevertheless, no conclusive indication of altered phenotypic plasticity was found between selection strains for any wing or cellular trait. We also described how cell area is distributed across different intervein regions. It follows that cell area tends to decrease along the anterior wing compartment and increase along the posterior one. Remarkably, such pattern was observed not only in the selected strains but also in the natural baseline population, suggesting that it might be canalized during development and was not altered by the intense program of artificial selection for divergent wing shapes. PMID:25326715

  12. In vitro investigation of Debaryomyces hansenii strains for potential probiotic properties.

    PubMed

    Ochangco, Honeylet Sabas; Gamero, Amparo; Smith, Ida M; Christensen, Jeffrey E; Jespersen, Lene; Arneborg, Nils

    2016-09-01

    In this study, 23 Debaryomyces hansenii strains, isolated from cheese and fish gut, were investigated in vitro for potential probiotic properties i.e. (1) survival under in vitro GI (gastrointestinal) conditions with different oxygen levels, (2) adhesion to Caco-2 intestinal epithelial cells and mucin, and (3) modulation of pro- and anti-inflammatory cytokine secretion by human monocyte-derived dendritic cells. As references two commercially available probiotic Saccharomyces cerevisiae var. boulardii (S. boulardii) strains were included in the study. Our results demonstrate that the different D. hansenii yeast strains had very diverse properties which could potentially lead to different probiotic effects. One strain of D. hansenii (DI 09) was capable of surviving GI stress conditions, although not to the same degree as the S. boulardii strains. This DI 09 strain, however, adhered more strongly to Caco-2 cells and mucin than the S. boulardii strains. Additionally, two D. hansenii strains (DI 10 and DI 15) elicited a higher IL-10/IL-12 ratio than the S. boulardii strains, indicating a higher anti-inflammatory effects on human dendritic cells. Finally, one strain of D. hansenii (DI 02) was evaluated as the best probiotic candidate because of its outstanding ability to survive the GI stresses, to adhere to Caco-2 cells and mucin and to induce a high IL-10/IL-12 ratio. In conclusion, this study shows that strains of D. hansenii may offer promising probiotic traits relevant for further study. PMID:27430508

  13. Deformation Along the Rio Grande Rift: Investigating the Spatial and Temporal Distribution of Strain Using GPS

    NASA Astrophysics Data System (ADS)

    Murray, K. D.; Murray, M. H.; Sheehan, A. F.; Nerem, R. S.

    2014-12-01

    Low velocity (<1 mm/yr) extensional environments, such as the Rio Grande rift (RGR) in Colorado and New Mexico, are complex but can provide insights into continental dynamics, tectonic processes, and seismic hazards. We use eight years of measurements from 26 continuous GPS stations across the RGR installed as part of a collaborative EarthScope experiment. We combine this data with regional Plate Boundary Observatory (PBO) and National Geodetic Survey (NGS) CORS GPS stations, and survey-mode data collected on NGS benchmarks to investigate how deformation is distributed across a broad area from the Great Plains to the Colorado Plateau. The data from over 150 stations are processed using GAMIT/GLOBK, and time series, velocities, strain rates are estimated with respect to realizations of a stable North America reference frame, such as NA12. This study extends our previous analysis, based on 4 years of data, which found an approximately uniform 1.2 nanostrain/yr east-west extensional strain rate across the entire region that was not concentrated on the narrow surface expression of the rift. We expand on this previous work by using a denser network of GPS stations and analyzing longer time series, which reduce horizontal velocity uncertainties to approximately 0.15 mm/yr. We also improve the accuracy of the estimated velocity uncertainties by robustly characterizing time-correlated noise. The noise models indicate that both power-law and flicker noise are present in the time series along with white noise. On average, power law noise constitutes about 90% of the total noise in the vertical component and 60% in the horizontal components for the RGR sites. We use the time series, and velocity and strain-rate estimates to constrain spatial and temporal variations in the deformation field in order to locate possible regions of strain localization and detect transient deformation signals, and to address some of the kinematic and dynamic issues raised by the observation that a

  14. Intraspecific Phenotypic Variation and Morphological Divergence of Strains of Folsomia candida (Willem) (Collembola: Isotomidae), the "Standard" Test Springtaill

    PubMed Central

    Tully, Thomas; Potapov, Mikhail

    2015-01-01

    We describe and compare the external morphology of eleven clonal strains and one sexual lineage of the globally distributed Folsomia candida, known as “standard” test Collembola. Of the 18 morphological characters studied, we measured 14 to have significant between-strains genetic variations, 9 of these had high heritabilities (>78%). The quantified morphological polymorphism was used to analyse the within-species relationships between strains by using both a parsimony analysis and a distance tree. These two detailed morphological phylogenies have revealed that the parthenogenetic strains grouped themselves into two major clades. However the exact position of the sexual strain remains unclear and further analysis is needed to confirm its exact relationship with the parthenogenetic ones. The two morphologically based clades were found to be the same as the ones previously described using molecular analysis. This shows that despite large within-strain variations, morphological characters can be used to differentiate some strains that have diverged within a single morphospecies. We discuss the potential evolutionary interpretations and consequences of these different levels of phenotypic variability. PMID:26355293

  15. Investigation of the mechanical behavior of kangaroo humeral head cartilage tissue by a porohyperelastic model based on the strain-rate-dependent permeability.

    PubMed

    Thibbotuwawa, Namal; Oloyede, Adekunle; Senadeera, Wijitha; Li, Tong; Gu, YuanTong

    2015-11-01

    Solid-interstitial fluid interaction, which depends on tissue permeability, is significant to the strain-rate-dependent mechanical behavior of humeral head (shoulder) cartilage. Due to anatomical and biomechanical similarities to that of the human shoulder, kangaroos present a suitable animal model. Therefore, indentation experiments were conducted on kangaroo shoulder cartilage tissues from low (10(-4)/s) to moderately high (10(-2)/s) strain-rates. A porohyperelastic model was developed based on the experimental characterization; and a permeability function that takes into account the effect of strain-rate on permeability (strain-rate-dependent permeability) was introduced into the model to investigate the effect of rate-dependent fluid flow on tissue response. The prediction of the model with the strain-rate-dependent permeability was compared with those of the models using constant permeability and strain-dependent permeability. Compared to the model with constant permeability, the models with strain-dependent and strain-rate-dependent permeability were able to better capture the experimental variation at all strain-rates (p < 0.05). Significant differences were not identified between models with strain-dependent and strain-rate-dependent permeability at strain-rate of 5 × 10(-3)/s (p = 0.179). However, at strain-rate of 10(-2)/s, the model with strain-rate-dependent permeability was significantly better at capturing the experimental results (p < 0.005). The findings thus revealed the significance of rate-dependent fluid flow on tissue behavior at large strain-rates, which provides insights into the mechanical deformation mechanisms of cartilage tissues. PMID:26275487

  16. Investigating causes of regional variations in atmospheric carbon dioxide concentrations

    NASA Astrophysics Data System (ADS)

    Corbin, Katherine D.

    Atmospheric CO2 concentrations are rapidly increasing due to anthropogenic activities; however, only about half of the emissions have accumulated in the atmosphere, and the fate of the remaining half remains uncertain. Since atmospheric CO2 concentrations contain information regarding carbon sources and sinks, it is important to understand CO 2 variability. This study investigated causes of atmospheric CO 2 variability, focusing on the relationship between CO2 concentrations and clouds, the impact of heterogeneous land cover and agricultural production, and the effect of redistributing fossil fuel emissions. Due to global coverage and sheer data volume, satellite CO2 concentrations will be used in inverse models to improve carbon source and sink estimates. Satellite concentrations will only retrieve CO2 measurements in clear conditions, and it is important to understand how CO 2 concentrations vary with cloud cover in order to optimally utilize these data. This study evaluated differences between clear-sky and mean concentrations on local, regional, and global scales. Analyses of in situ data, regional model simulations, and global model output all revealed clear-sky differences that were regionally coherent on sub-continental scales and that varied both with time and location. In the mid-latitudes, clear-sky CO2 concentrations were systematically lower than on average, and these differences were not due to biology, but rather to frontal convergence of large-scale gradients that were covered by clouds. Instead of using satellite data to represent temporal averages, inverse models and data assimilation systems that use satellite data to calculate carbon sources and sinks must be sampled consistently with the observations, including precise modeling of winds, clouds, fronts, and frontal timing. Just as CO2 concentrations vary with cloud cover, variability in atmospheric CO2 concentrations is also caused by heterogeneity in land cover and surface fluxes. This study

  17. CHARACTERIZATION OF AN AXENIC STRAIN OF HARTMANNELLA VERIFORMIS OBTAINED FROM AN INVESTIGATION OF NOSOCOMIAL LEGIONELLOSIS

    EPA Science Inventory

    A free living amoeba identified as Hartmannella vermiformis was isolated from a water sample obtained during an investigation of nosocomial legionellosis. artmannella vermiformis are known to support the intracellular multiplication of Legionella pneumonhila. This strain of H.ver...

  18. Tracing genomic variations in two highly virulent Yersinia enterocolitica strains with unequal ability to compete for host colonization

    PubMed Central

    2012-01-01

    . Conclusions Our study emphasizes that the virulence of pathogens can be increased, by acquiring new genes and/or improving the function of essential virulence proteins, resulting in permanently hyper-virulent strains. This work also highlights the importance of addressing genetic and phenotypic variations among closely related bacterial strains, even those belonging to the same bioserotype. PMID:22963272

  19. Investigation of the Dynamic Strain Aging and Mechanical Properties in Alloy-625 with Different Microstructures

    NASA Astrophysics Data System (ADS)

    Chatterjee, Arnomitra; Sharma, Garima; Tewari, R.; Chakravartty, J. K.

    2015-03-01

    Tensile tests were carried out on service exposed Alloy 625 ammonia cracker tube used at heavy water production plant to study the effect of microstructure on the serrated yielding and mechanical properties of the material. Owing to temperature gradient during service exposure, the microstructure was different in top, middle, and bottom sections of the tube. Variation of flow stress, ductility, and average work hardening were monitored with temperature. In the present work, emphasis was given on the study of serrated yielding in the service exposed Alloy 625. Detail investigations were made to study the effect of microstructure on the underlying mechanism of dynamic strain aging of the material. The study revealed that both the normal and the inverse Portevin-Le Chatelier effect (PLC) occured in the material at lower and higher temperature regime, respectively. While the normal PLC dynamics was associated with locking of dislocations by interstitial carbon atoms, the inverse one was accomplished by the dislocation pinning by substitutional Mo atoms. Further analyses identified that the basic deformation mechanism was different in middle and bottom samples as that in the top samples which was reflected in the difference in their respective activation energy and stress drop magnitude.

  20. Bovine herpesvirus-1: comparison and differentiation of vaccine and field strains based on genomic sequence variation.

    PubMed

    Fulton, R W; d'Offay, J M; Eberle, R

    2013-03-01

    Bovine herpesvirus-1 (BoHV-1) causes significant disease in cattle including respiratory, fetal diseases, and reproductive tract infections. Control programs usually include vaccination with a modified live viral (MLV) vaccine. On occasion BoHV-1 strains are isolated from diseased animals or fetuses postvaccination. Currently there are no markers for differentiating MLV strains from field strains of BoHV-1. In this study several BoHV-1 strains were sequenced using whole-genome sequencing technologies and the data analyzed to identify single nucleotide polymorphisms (SNPs). Strains sequenced included the reference BoHV-1 Cooper strain (GenBank Accession JX898220), eight commercial MLV vaccine strains, and 14 field strains from cases presented for diagnosis. Based on SNP analyses, the viruses could be classified into groups having similar SNP patterns. The eight MLV strains could be differentiated from one another although some were closely related to each other. A number of field strains isolated from animals with a history of prior vaccination had SNP patterns similar to specific MLV viruses, while other field isolates were very distinct from all vaccine strains. The results indicate that some BoHV-1 isolates from clinically ill cattle/fetuses can be associated with a prior MLV vaccination history, but more information is needed on the rate of BoHV-1 genome sequence change before irrefutable associations can be drawn. PMID:23333211

  1. [Investigation of variation of the production of biological and chemical compounds of Hyssopus officinalis L].

    PubMed

    Varga, E; Hajdú, Z; Veres, K; Máthé, I; Németh, E; Pluhár, Z; Bernáth, J

    1998-05-01

    Hyssopus officinalis L. (Lamiaceae family) has been cultivated in Central Europe for a long time. This essential oil containing species serves not only as spice but in many countries including Hungary, it is used as a folk medicine against certain respiratory diseases. Despite this fact, little is known about the variation of its productivity under Central European climatic conditions. The cultivated populations of hyssop can be characterised by a significant heterogenity. In the course of its breeding the uniformity of flower colour (e.g. blue form), and increase in the oil content are the main achievable purposes. The purpose of this work was to investigate both the variability of strains of different crigin and the time-dependent variations of its production parameters. The optimum of phytomass was obtained at the beginning of July. The essential oil content as well as compounds of the non volatile fractions were also investigated. The non volatile fractions for rosmarinic, caffeic acids were analysed mainly by TLC and densitometry. Both compounds were present in all samples and they are suitable for the characterisation of the plant. The essential oils were gained with Water Steam Distillation (WSD) and Supercritical Fluid Extraction (SFE) with CO2. The oils were analysed by GC, GC-MS techniques. In the essential oil composition of the populations studied significant heterogenity could be observed. In the case of applying SFE extraction the oil composition is more uniform, similarly to the obtained by WSD adding hexane. The heterogenity can be experienced in the offsprings, too. If only the main four components (beta-pinene, limonene, pinocamphone, isopinocamphone) are regarded, among the offsprings clear and mixed lines alike can be found. Results of these experiments justify the necessity and usefulness of selection which is going on. PMID:9703705

  2. Widespread, focal copy number variations (CNV) and whole chromosome aneuploidies in Trypanosoma cruzi strains revealed by array comparative genomic hybridization

    PubMed Central

    2011-01-01

    Background Trypanosoma cruzi is a protozoan parasite and the etiologic agent of Chagas disease, an important public health problem in Latin America. T. cruzi is diploid, almost exclusively asexual, and displays an extraordinarily diverse population structure both genetically and phenotypically. Yet, to date the genotypic diversity of T. cruzi and its relationship, if any, to biological diversity have not been studied at the whole genome level. Results In this study, we used whole genome oligonucleotide tiling arrays to compare gene content in biologically disparate T. cruzi strains by comparative genomic hybridization (CGH). We observed that T. cruzi strains display widespread and focal copy number variations (CNV) and a substantially greater level of diversity than can be adequately defined by the current genetic typing methods. As expected, CNV were particularly frequent in gene family-rich regions containing mucins and trans-sialidases but were also evident in core genes. Gene groups that showed little variation in copy numbers among the strains tested included those encoding protein kinases and ribosomal proteins, suggesting these loci were less permissive to CNV. Moreover, frequent variation in chromosome copy numbers were observed, and chromosome-specific CNV signatures were shared by genetically divergent T. cruzi strains. Conclusions The large number of CNV, over 4,000, reported here uphold at a whole genome level the long held paradigm of extraordinary genome plasticity among T. cruzi strains. Moreover, the fact that these heritable markers do not parse T. cruzi strains along the same lines as traditional typing methods is strongly suggestive of genetic exchange playing a major role in T. cruzi population structure and biology. PMID:21385342

  3. Variation in M protein production among Streptococcus pyogenes strains according to emm genotype.

    PubMed

    Matsumoto, Masakado; Suzuki, Masahiro; Hirose, Kaoru; Hiramatsu, Reiji; Minagawa, Hiroko; Minami, Masaaki; Tatsuno, Ichiro; Okamoto, Akira; Ohta, Michio; Hasegawa, Tadao

    2011-06-01

    M protein is an important virulence determinant in Streptococcus pyogenes, but the amounts of M protein in various strains of the species remain to be elucidated. To assess the amount of M protein in strains of each emm genotype, dot blot analysis was performed on 141 clinically isolated strains. Among the cell membrane-associated proteins, M protein was present in greater quantities in the emm1, 3, and 6 strains than in the other emm strains. In addition three strains, one each of the emm1, 3, and 6 types, showed prolific M protein production (M protein-high producers). These three emm genotypes are frequently isolated in clinical practice. Sequencing of the csrRS gene, one of the two-component signal transduction systems implicated in virulence, was performed on 25 strains bearing different amounts of M protein. CsrS mutations, in contrast to CsrR protein, were detected in 11 strains. The M protein-high producer strain of emm1 type carried two amino acid substitutions, whereas the other three emm1 strains carried only one substitution each. The M protein-high producer expressed its emm gene more strongly than the corresponding M protein-low producer did according to TaqMan RT-PCR. These observations suggest that the accumulation of amino acid substitutions in CsrS protein may contribute, at least in part, to the large amount of M protein production seen in several emm genotypes. PMID:21371090

  4. Investigation of Metallo Beta Lactamases and Oxacilinases in Carbapenem Resistant Acinetobacter baumannii Strains Isolated from Inpatients

    PubMed Central

    Aksoy, M. Duygu; Çavuşlu, Şaban; Tuğrul, H. Murat

    2015-01-01

    Background: Resistance to beta-lactam antibiotics is widespread among Acinetobacter strains. Plasmid-mediated metallo beta lactamases (MBL) are responsible for carbapenem resistance, as are oxacillinases (OXA). In recent years, MBL producing carbapenem-resistant strains have been reported in the world and in Turkey in increasing rates. In our country, besides the OXA 51-like enzyme which is inherent in A. baumannii strains, OXA 58-like and OXA 23-like carbapenemases producing strains have also been widely detected. In addition, Verona Imipenemase (VIM) and (IMP)-type MBL have been reported in some centers. Aims: The aim of our study was to investigate the presence of carbapenemases in Acinetobacter strains isolated from hospitalized patients in Edirne. Study Design: Cross-sectional study. Methods: A total of 52 imipenem-resistant A. baumannii strains isolated between January and March 2013 were investigated. The presence of MBL was described phenotypically by the combined disk diffusion test (CDDT), double disk synergy test (DDST), MBL E-test (only performed in 28 strains) and modified Hodge test. blaIMP, blaVIM, blaGIM, blaSIM, blaSPM genes and blaOXA-23, blaOXA-51, blaOXA-40, blaOXA-58 genes were investigated by multiplex polymerase chain reaction (PCR). The blaNDM-1 gene was determined by PCR. Results: By modified Hodge test, 50 strains (96%) were found to be MBL positive. Positivity of MBL was 21% by both CDDT (0.1 M EDTA) and DDST. Twenty-four of 28 strains (85.7%) were positive by MBL E-test. OXA 23-like and OXA 51-like carbapenemases were detected in all strains, but OXA 58-like and OXA 40-like carbapenemases-producing A. baumannii were not detected. Also, MBL genes were not detected by genotypic methods. Conclusion: Only OXA 23-like carbapenemase was responsible for carbapenem resistance in carbapenem-resistant Acinetobacter strains in Edirne. The MBL-producing Acinetobacter strain is not yet a problem in our hospital. MBL resistance was found by

  5. DNA variation and brain region-specific expression profiles exhibit different relationships between inbred mouse strains: implications for eQTL mapping studies

    PubMed Central

    Hovatta, Iiris; Zapala, Matthew A; Broide, Ron S; Schadt, Eric E; Libiger, Ondrej; Schork, Nicholas J; Lockhart, David J; Barlow, Carrolee

    2007-01-01

    Background Expression quantitative trait locus (eQTL) mapping is used to find loci that are responsible for the transcriptional activity of a particular gene. In recent eQTL studies, expression profiles were derived from either homogenized whole brain or collections of large brain regions. However, the brain is a very heterogeneous organ, and expression profiles of different brain regions vary significantly. Because of the importance and potential power of eQTL studies in identifying regulatory networks, we analyzed gene expression patterns in different brain regions from multiple inbred mouse strains and investigated the implications for the design and analysis of eQTL studies. Results Gene expression profiles of five brain regions in six inbred mouse strains were studied. Few genes exhibited a significant strain-specific expression pattern, whereas a large number of genes exhibited brain region-specific patterns. We constructed phylogenetic trees based on the expression relationships between the strains and compared them with a DNA-level relationship tree. The trees based on the expression of strain-specific genes were constant across brain regions and mirrored DNA-level variation. However, the trees based on region-specific genes exhibited a different set of strain relationships, depending on the brain region. An eQTL analysis showed enrichment of cis-acting regulators among strain-specific genes, whereas brain region-specific genes appear to be mainly regulated by trans-acting elements. Conclusion Our results suggest that many regulatory networks are highly brain region specific and indicate the importance of conducting eQTL mapping studies using data from brain regions or tissues that are physiologically and phenotypically relevant to the trait of interest. PMID:17324278

  6. Investigation of Genetic Variation Underlying Central Obesity amongst South Asians

    PubMed Central

    Scott, William R.; Zhang, Weihua; Loh, Marie; Tan, Sian-Tsung; Lehne, Benjamin; Afzal, Uzma; Peralta, Juan; Saxena, Richa; Ralhan, Sarju; Wander, Gurpreet S.; Bozaoglu, Kiymet; Sanghera, Dharambir K.; Elliott, Paul; Scott, James; Chambers, John C.; Kooner, Jaspal S.

    2016-01-01

    South Asians are 1/4 of the world’s population and have increased susceptibility to central obesity and related cardiometabolic disease. Knowledge of genetic variants affecting risk of central obesity is largely based on genome-wide association studies of common SNPs in Europeans. To evaluate the contribution of DNA sequence variation to the higher levels of central obesity (defined as waist hip ratio adjusted for body mass index, WHR) among South Asians compared to Europeans we carried out: i) a genome-wide association analysis of >6M genetic variants in 10,318 South Asians with focused analysis of population-specific SNPs; ii) an exome-wide association analysis of ~250K SNPs in protein-coding regions in 2,637 South Asians; iii) a comparison of risk allele frequencies and effect sizes of 48 known WHR SNPs in 12,240 South Asians compared to Europeans. In genome-wide analyses, we found no novel associations between common genetic variants and WHR in South Asians at P<5x10-8; variants showing equivocal association with WHR (P<1x10-5) did not replicate at P<0.05 in an independent cohort of South Asians (N = 1,922) or in published, predominantly European meta-analysis data. In the targeted analyses of 122,391 population-specific SNPs we also found no associations with WHR in South Asians at P<0.05 after multiple testing correction. Exome-wide analyses showed no new associations between genetic variants and WHR in South Asians, either individually at P<1.5x10-6 or grouped by gene locus at P<2.5x10−6. At known WHR loci, risk allele frequencies were not higher in South Asians compared to Europeans (P = 0.77), while effect sizes were unexpectedly smaller in South Asians than Europeans (P<5.0x10-8). Our findings argue against an important contribution for population-specific or cosmopolitan genetic variants underlying the increased risk of central obesity in South Asians compared to Europeans. PMID:27195708

  7. Variations of whole genome sequences of Xylella fastidiosa strains within the same pathotype

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Xylella fastidiosa is a Gram negative and nutritionally fastidious plant pathogenic bacterium that causes almond leaf scorch disease (ALSD) and Pierce's disease (PD) of grapevine. X. fastidiosa strains from almond can be divided into two pathotypes: ALSD-PD, represented by strain M23, and ALSD-only,...

  8. VARIATION OF PSPB (PD1208) LOCUS AMONG CLOSELY RELATED XYLELLA FASTIDIOSA STRAINS

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Xylella fastidiosa is a Gram negative plant pathogenic bacterium causing grape Pierce’s disease (PD) and almond leaf scorch disease (ALSD). Two distinct genotypes are associated with ALSD. A-genotype strains cause ALSD but not PD. G-genotype strains cause both ALSD and PD. However, little is known a...

  9. Strain variations in behavioral traits under heat stress in laying hens

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Heat stress is a problem for welfare of animals including laying hens. This study examined whether hens’ responses and adaptation to heat stress are affected by their genetic strain. Ninety 28-week-old White Leghorns from two strains were used: DeKalb XL (DXL), a line of hens individually selected ...

  10. Genetic variations alter production and behavioral responses following heat stress in two strains of laying hens

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Heat stress is a problem for both egg production and hen well-being. Given a stressor, genetic differences alter the type and degree of hens’ responses and their adaptation. This study examined heat stress responses of two strains of White Leghorns: Dekalb XL (DXL), a commercial strain individually ...

  11. Investigations of paleoclimate variations using accelerator mass spectrometry

    SciTech Connect

    Southon, J R; Kashgarian, M; Brown, T A

    2000-08-24

    This project has used Accelerator Mass Spectrometry (AMS) {sup 14}C measurements to study climate and carbon cycle variations on time scales from decades to millennia over the past 30,000 years, primarily in the western US and the North Pacific. {sup 14}C dates provide a temporal framework for records of climate change, and natural radiocarbon acts as a carbon cycle tracer in independently dated records. The overall basis for the study is the observation that attempts to model future climate and carbon cycle changes cannot be taken seriously if the models have not been adequately tested. Paleoclimate studies are unique because they provide realistic test data under climate conditions significantly different from those of the present, whereas instrumental results can only sample the system as it is today. The aim of this project has been to better establish the extent, timing, and causes of past climate perturbations, and the carbon cycle changes with which they are linked. This provides real-world data for model testing, both for the development of individual models and also for inter-model diagnosis and comparison activities such as those of LLNL's PCMDI program; it helps us achieve a better basic understanding of how the climate system works so that models can be improved; and it gives an indication of the natural variability in the climate system underlying any anthropogenically-driven changes. The research has involved four projects which test hypotheses concerning the overall behavior of the North Pacific climate system. All are aspects of an overall theme that climate linkages are strong and direct, so that regional climate records are correlated, details of fine structure are important, and accurate and precise dating is critical for establishing correlations and even causality. An important requirement for such studies is the requirement for an accurate and precise radiocarbon calibration, to allow better correlation of radiocarbon-dated records with

  12. Variations in rupture site and surface strains at failure in the maturing rabbit medial collateral ligament.

    PubMed

    Lam, T C; Shrive, N G; Frank, C B

    1995-11-01

    The relationship between the pattern of surface strain and the site of failure in maturing rabbit ligaments was studied in vitro. Bone-medial collateral ligament (MCL)-bone complexes of 24 female New Zealand White rabbits at 3, 6, 9 and 12 months of age (n = 6 rabbits, 12 MCLs per group) were tested in tension to failure. A video dimension analysis (VDA) system was used to map the surface strain at failure across the width and along the length of the medial side of each MCL during testing. Results showed that the highest strains were consistently located at the femoral insertion decreasing towards the midsubstance, with the highest strain occurring in the anterior portion of the MCL immediately adjacent to the femoral insertion. Strains of the complex at failure increased with rabbit maturation. The strain distribution however, did not change dramatically, even though the locations of MCL failure changed from exclusively tibial avulsion in the three month old rabbits to predominantly midsubstance failures in the 12 month old rabbits. In the six month old rabbits, there was a particular dissociation with all MCLs failing near the tibial insertion while femoral strains were apparently the highest. These results suggest two possibilities beyond that of some unknown artifacts of optical strain measurement. First, since failure sites rarely correlated with areas of maximum surface strain in this study, it seems possible that higher strains could exist deeper in the tissue, particularly at the bone-ligament interface of the tibial insertion in immature animals and somewhere within the midsubstance of the MCL in the adult. Secondly, it is possible that the ligament material may be heterogeneous. PMID:8748528

  13. Strain-specific variations in Toxoplasma gondii GRA1, GRA5, GRA6, GRA8, and GRA14

    NASA Astrophysics Data System (ADS)

    Haryati, S.; Sari, Y.; Prasetyo, A. A.; Sariyatun, R.

    2016-02-01

    Diagnosis and identification of the genetic group of T. gondii (Toxoplasma gondii) are important to control better the T. gondii infection, particularly in immunocompromised people as HIV patients. This study aimed to identify strain-specific variations in T. gondii GRA1, GRA5, GRA6, GRA8, and GRA14 in order to help design such diagnostic tool to detect and characterize the parasite. Forty-three T. gondii GRA1, GRA5, GRA6, GRA8, and GRA14 sequences deposited in GenBank were aligned. A number of positions in the gene sequences were highly conserved. All GRA sequences had strain-specific positions, however, only GRA1, GRA5, and GRA6, which contained specific variations for each T. gondii lineage. In conclusion, T. gondii GRA1, GRA5, GRA6, GRA8, and GRA14 are predicted to contain highly conserved regions and positions with strain-specific variation, which might be useful for the design of diagnostic tools detecting and distinguishing T. gondiistrains.

  14. Latitudinal and Seasonal Investigations of Storm-Time TEC Variation

    NASA Astrophysics Data System (ADS)

    Adimula, I. A.; Oladipo, O. A.; Adebiyi, S. J.

    2016-07-01

    The ionosphere responds markedly and unpredictably to varying magnetospheric energy inputs caused by solar disturbances on the geospace. Knowledge of the impact of the space weather events on the ionosphere is important to assess the environmental effect on the operations of ground- and space-based technologies. Thus, global positioning system (GPS) measurements from the international GNSS service (IGS) database were used to investigate the ionospheric response to 56 geomagnetic storm events at six different latitudes comprising the northern and southern hemispheres in the Afro-European sector. Statistical distributions of total electron content (TEC) response show that during the main phase of the storms, enhancement of TEC is more pronounced in most of the seasons, regardless of the latitude and hemisphere. However, a strong seasonal dependence appears in the TEC response during the recovery phase. Depletion of TEC is majorly observed at the high latitude stations, and its appearance at lower latitudes is seasonally dependent. In summer hemisphere, the depletion of TEC is more pronounced in nearly all the latitudinal bands. In winter hemisphere, enhancement as well as depletion of TEC is observed over the high latitude, while enhancement is majorly observed over the mid and low latitudes. In equinoxes, the storm-time TEC distribution shows a fairly consistent characteristic with the summer distribution, particularly in the northern hemisphere.

  15. Preliminary Investigation of Ice Shape Sensitivity to Parameter Variations

    NASA Technical Reports Server (NTRS)

    Miller, Dean R.; Potapczuk, Mark G.; Langhals, Tammy J.

    2005-01-01

    A parameter sensitivity study was conducted at the NASA Glenn Research Center's Icing Research Tunnel (IRT) using a 36 in. chord (0.91 m) NACA-0012 airfoil. The objective of this preliminary work was to investigate the feasibility of using ice shape feature changes to define requirements for the simulation and measurement of SLD icing conditions. It was desired to identify the minimum change (threshold) in a parameter value, which yielded an observable change in the ice shape. Liquid Water Content (LWC), drop size distribution (MVD), and tunnel static temperature were varied about a nominal value, and the effects of these parameter changes on the resulting ice shapes were documented. The resulting differences in ice shapes were compared on the basis of qualitative and quantitative criteria (e.g., mass, ice horn thickness, ice horn angle, icing limits, and iced area). This paper will provide a description of the experimental method, present selected experimental results, and conclude with an evaluation of these results, followed by a discussion of recommendations for future research.

  16. Latitudinal and Seasonal Investigations of Storm-Time TEC Variation

    NASA Astrophysics Data System (ADS)

    Adimula, I. A.; Oladipo, O. A.; Adebiyi, S. J.

    2016-04-01

    The ionosphere responds markedly and unpredictably to varying magnetospheric energy inputs caused by solar disturbances on the geospace. Knowledge of the impact of the space weather events on the ionosphere is important to assess the environmental effect on the operations of ground- and space-based technologies. Thus, global positioning system (GPS) measurements from the international GNSS service (IGS) database were used to investigate the ionospheric response to 56 geomagnetic storm events at six different latitudes comprising the northern and southern hemispheres in the Afro-European sector. Statistical distributions of total electron content (TEC) response show that during the main phase of the storms, enhancement of TEC is more pronounced in most of the seasons, regardless of the latitude and hemisphere. However, a strong seasonal dependence appears in the TEC response during the recovery phase. Depletion of TEC is majorly observed at the high latitude stations, and its appearance at lower latitudes is seasonally dependent. In summer hemisphere, the depletion of TEC is more pronounced in nearly all the latitudinal bands. In winter hemisphere, enhancement as well as depletion of TEC is observed over the high latitude, while enhancement is majorly observed over the mid and low latitudes. In equinoxes, the storm-time TEC distribution shows a fairly consistent characteristic with the summer distribution, particularly in the northern hemisphere.

  17. Experimental investigation of crustacean swimming with variation of limb structures

    NASA Astrophysics Data System (ADS)

    Lai, Hong Kuan; Samaee, Milad; Donnell, Geoffrey; Santhanakrishnan, Arvind; Guy, Robert; Lewis, Timothy

    2015-11-01

    Crustaceans such as crayfish and krill swim by rhythmically paddling a set of four to five limbs (known as swimmerets or pleopods) originating from their abdomen. The limb motion in these animals has been observed to follow tail-to-head metachronal wave pattern with an approximate quarter-period inter-limb phase difference. The goal of this study is to investigate the hydrodynamics of this swimming mechanism as a function of inter-limb phase difference, inclusion of hinges in the limbs, and Reynolds number (Re). 2D PIV measurements were conducted on a scaled robotic model of metachronal paddling, consisting of a rectangular tank fitted with stepper motors coupled to a four-bar linkage that actuated four paddles immersed in water-glycerin fluid medium. The inter-limb phase difference was varied from 0% (synchronous paddling) through 50% across Re range of O(10-1000). Two types of limb models were used, including a simple flat plate and a `split-paddle' structure with two flat plates connected halfway with hinges. The results of the study show that limb models with hinges generated increased horizontal (thrust-producing direction) fluid velocity compared to the simple flat plate paddles, suggesting that asymmetry between power and return strokes is important to augment thrust.

  18. Investigation of the dominance behavior of Saccharomyces cerevisiae strains during wine fermentation.

    PubMed

    Perrone, Benedetta; Giacosa, Simone; Rolle, Luca; Cocolin, Luca; Rantsiou, Kalliopi

    2013-07-15

    During wine fermentation, different strains of Saccharomyces cerevisiae compete in the same fermenting must and dominance takes place when one strain overcomes all the others. The purpose of this study was to investigate this phenomenon by identifying S. cerevisiae strains endowed with this feature and to test them in laboratory fermentations. First, autochthonous S. cerevisiae from Nebbiolo fermentations were isolated, molecularly identified and characterized. Genetically diverse S. cerevisiae strains were subsequently subjected to physiological characterization and to micro-scale fermentation, the weight loss kinetics was measured and HPLC analysis was performed at the end of the fermentation. Then, the strains that presented good fermentation characteristics were chosen for further analysis and to determine the dominance feature. For this purpose, couples of strains were co-inoculated in Nebbiolo must and the fermentations were monitored by microbiological and chemical analysis. Two different inoculation approaches were used: co-fermentations in flasks with mixed cells and reactor co-fermentations, in which the cells from the two different strains were kept separate by means of a 0.45 μm filter membrane, which allowed the fermenting must to move freely between the two compartments. During the flask co-fermentations, a minisatellite PCR protocol was applied, in order to differentiate the two strains and determine which one was able to dominate. The protocol included a culture-dependent approach and an independent one. In the first case, DNA extraction was performed on all the colonies scraped off the plates after sampling. In the second case, DNA extraction was performed directly on the fermenting must. The strains that were able to dominate were tested against several S. cerevisiae in order to confirm this dominance behavior. Dominance was observed in the early stages of fermentation, as early as 3days. Combinations of dominant and not-dominant strains were

  19. Inter-Individual and Inter-Strain Variations in Zebrafish Locomotor Ontogeny

    PubMed Central

    Lange, Merlin; Neuzeret, Frederic; Fabreges, Benoit; Froc, Cynthia; Bedu, Sebastien; Bally-Cuif, Laure; Norton, William H. J.

    2013-01-01

    Zebrafish exhibit remarkable alterations in behaviour and morphology as they develop from early larval stages to mature adults. In this study we compare the locomotion parameters of six common zebrafish strains from two different laboratories to determine the stability and repeatability of these behaviours. Our results demonstrate large variability in locomotion and fast swim events between strains and between laboratories across time. These data highlight the necessity for careful, strain-specific controls when analysing locomotor phenotypes and open up the possibility of standardising the quantification of zebrafish behaviour at multiple life stages. PMID:23950910

  20. Preliminary investigation of cycle-to-cycle variations in a nonair-breathing diesel engine

    SciTech Connect

    Zheng, M.; Reader, G.T.

    1995-03-01

    The effect of nonair mixtures on cycle-to-cycle variations of cylinder pressure characteristics was investigated experimentally with an indirect-injected (IDI) diesel engine. The engine intake temperature and pressure were maintained at normal air-breathing conditions when operated with nonair mixtures. Preliminary results indicate that increases in carbon dioxide concentration can cause significant cyclic variations. Moreover, the extent of such cyclic variations is notably influenced by the oxygen concentration and inert gas constitutents of the working fluids.

  1. Mitochondrial DNA and Functional Investigations into the Radiosensitivity of Four Mouse Strains

    PubMed Central

    Zhang, Steven B.; Maguire, David; Zhang, Mei; Tian, Yeping; Yang, Shanmin; Zhang, Amy; Casey-Sawicki, Katherine; Han, Deping; Ma, Jun; Yin, Liangjie; Guo, Yongson; Wang, Xiaohui; Chen, Chun; Litvinchuk, Alexandra; Zhang, Zhenhuan; Swarts, Steven; Vidyasagar, Sadasivan; Zhang, Lurong; Okunieff, Paul

    2014-01-01

    We investigated whether genetic radiosensitivity-related changes in mtDNA/nDNA ratios are significant to mitochondrial function and if a material effect on mtDNA content and function exists. BALB/c (radiosensitive), C57BL/6 (radioresistant), and F1 hybrid mouse strains were exposed to total body irradiation. Hepatic genomic DNA was extracted, and mitochondria were isolated. Mitochondrial oxygen consumption, ROS, and calcium-induced mitochondrial swelling were measured. Radiation influenced strain-specific survival in vivo. F1 hybrid survival was influenced by maternal input. Changes in mitochondrial content corresponded to survival in vivo among the 4 strains. Calcium-induced mitochondrial swelling was strain dependent. Isolated mitochondria from BALB/c mice were significantly more sensitive to calcium overload than mitochondria from C57BL/6 mice. Maternal input partially influenced the recovery effect of radiation on calcium-induced mitochondrial swelling in F1 hybrids; the hybrid with a radiosensitive maternal lineage exhibited a lower rate of recovery. Hybrids had a survival rate that was biased toward maternal input. mtDNA content and mitochondrial permeability transition pores (MPTP) measured in these strains before irradiation reflected a dominant input from the parent. After irradiation, the MPTP opened sooner in radiosensitive and hybrid strains, likely triggering intrinsic apoptotic pathways. These findings have important implications for translation into predictors of radiation sensitivity/resistance. PMID:24688546

  2. Variation of spontaneous and induced mitotic recombination in different Drosophila populations: a pilot study on the effects of polyaromatic hydrocarbons in six newly constructed tester strains.

    PubMed

    Vogel, E W; Nivard, M J; Zijlstra, J A

    1991-01-01

    A set of six Drosophila strains was developed, by inducing by chemical treatment with N-ethyl-N-nitrosourea (ENU) new white and, in some strains, yellow mutations in 3 wild-type (WT) and 3 insecticide-resistant (IR) populations. These strains were previously shown to vary with regard to contents and inducibility of microsomal oxidative enzymes (Zijlstra et al., 1984). In this pilot study results from a first evaluation of these strains in somatic mutation experiments are reported, using as genotoxins an aromatic amine (2-naphthylamine, 2-NA), one substituted (9,10-dimethylanthracene, DA) and one non-substituted (benzo[a]pyrene, BP) polycyclic aromatic hydrocarbon. Developing larvae heterozygous for white were chronically exposed to three different exposure doses of each carcinogen. Adult females were inspected for the occurrence of mosaic light clones in their eyes, using the somatic mutation and recombination test (SMART). Evidence is presented indicating strong genotype-dependent variation in both spontaneous and chemically induced mutational and recombinational events in somatic cells of Drosophila. The spontaneous frequencies varied from 3.5% (Hikone-R), 4.3% (Berlin-K), 6.3% (Oregon-K), 9.1% (91-C), 20.5% (Haag-79) to 49.1% (91-R), corresponding to a 14-fold difference in spot frequencies between the two extremes. BP, DA and 2-NA were readily detectable in both Hikone-R (IR) and Oregon-K (WT), less so in 91-C (WT) and Haag-79 (IR), whereas the performance of strain Berlin-K (WT) was rather poor. The special problem with strain 91-R was the high frequency with which mosaic light spots occur not only in female genotypes heterozygous for white, but also in homozygous condition in the original stock. The up to 20-fold variation in induced spot frequencies between different genotypes poses questions for further investigations with respect to the genetic constitution of the various strains and the role of enzyme induction on somatic cell mutagenicity, which in this

  3. Intraspecies Variation in the Emergence of Hyperinfectious Bacterial Strains in Nature

    PubMed Central

    House, John K.; Xie, Yi; Weimer, Bart C.; Sinsheimer, Robert L.; Mahan, Michael J.

    2012-01-01

    Salmonella is a principal health concern because of its endemic prevalence in food and water supplies, the rise in incidence of multi-drug resistant strains, and the emergence of new strains associated with increased disease severity. Insights into pathogen emergence have come from animal-passage studies wherein virulence is often increased during infection. However, these studies did not address the prospect that a select subset of strains undergo a pronounced increase in virulence during the infective process- a prospect that has significant implications for human and animal health. Our findings indicate that the capacity to become hypervirulent (100-fold decreased LD50) was much more evident in certain S. enterica strains than others. Hyperinfectious salmonellae were among the most virulent of this species; restricted to certain serotypes; and more capable of killing vaccinated animals. Such strains exhibited rapid (and rapidly reversible) switching to a less-virulent state accompanied by more competitive growth ex vivo that may contribute to maintenance in nature. The hypervirulent phenotype was associated with increased microbial pathogenicity (colonization; cytotoxin production; cytocidal activity), coupled with an altered innate immune cytokine response within infected cells (IFN-β; IL-1β; IL-6; IL-10). Gene expression analysis revealed that hyperinfectious strains display altered transcription of genes within the PhoP/PhoQ, PhoR/PhoB and ArgR regulons, conferring changes in the expression of classical virulence functions (e.g., SPI-1; SPI-2 effectors) and those involved in cellular physiology/metabolism (nutrient/acid stress). As hyperinfectious strains pose a potential risk to human and animal health, efforts toward mitigation of these potential food-borne contaminants may avert negative public health impacts and industry-associated losses. PMID:22511871

  4. Investigation of Strain-Induced Martensitic Transformation in Metastable Austenite using Nanoindentation

    SciTech Connect

    Ahn, T.-H.; Oh, C.-S.; Kim, D. H.; Oh, K. H.; Bei, Hongbin; George, Easo P; Han, H. N.

    2010-01-01

    Strain-induced martensitic transformation of metastable austenite was investigated by nanoindentation of individual austenite grains in multi-phase steel. A cross-section prepared through one of these indented regions using focused ion beam milling was examined by transmission electron microscopy. The presence of martensite underneath the indent indicates that the pop-ins observed on the load-displacement curve during nanoindentation correspond to the onset of strain-induced martensitic transformation. The pop-ins can be understood as resulting from the selection of a favorable martensite variant during nanoindentation.

  5. The time variations in the parameters of the volumetric strain response to the tidal and baric impacts

    NASA Astrophysics Data System (ADS)

    Cherepantsev, A. S.

    2016-07-01

    The parameters describing the state of the geological medium include its response to the continuous external impacts, which characterizes the structure of the medium and the stresses accumulated in it. In the present paper, through analyzing the long time series of the volumetric strain monitoring data in the nearsurface crustal layer, which were obtained by the American geophysicists under the Plate Boundary Observatory (PBO) project within the Parkfield segment of the San Andreas fault, the time behavior of the volumetric strain response to the separate components of the tides and the air pressure impacts is considered. The analysis of the response regime at the different observational stations suggests a significant influence of the local structural features and tectonic processes at the considered sites of the volumetric strain observations. The estimate of the variations in the partial information from the individual observations (values) is used for improving the reliability of identifying the amplitude peculiarities of the response when synchronizing the variations of the set of the tidal components. It is established that at the PKDLT observation point, a synchronous increase in the transfer coefficient of the tidal impact of the M 2, O 1, and L 2 components two years before the Parkfield earthquake of 2004 took place.

  6. Variation along ITS markers across strains of Fibrocapsa japonica (Raphidophyceae) suggests hybridisation events and recent range expansion

    NASA Astrophysics Data System (ADS)

    Kooistra, Wiebe H. C. F.; de Boer, M. Karin; Vrieling, Engel G.; Connell, Laurie B.; Gieskes, Winfried W. C.

    2001-12-01

    The flagellate micro-alga Fibrocapsa japonica can form harmful algal blooms along all temperate coastal regions of the world. The species was first observed in coastal waters of Japan and the western US in the 1970s; it has been reported regularly worldwide since. To unravel whether this apparent range expansion can be tracked, we assessed genetic variation among nuclear ribosomal DNA ITS sequences, obtained from sixteen global strains collected over the course of three decades. Ten sequence positions showed polymorphism across the strains. Nine out of these revealed ambiguities in several or most sequences sampled. The oldest strain collected (LB-2161) was the only one without such intra-individual polymorphism. In the others, the proportion of ambiguities at variable sites increased with more recent collection date. The pattern does not result from loss of variation due to sexual reproduction and random drift in culture because sister cultures CS-332 and NIES-136 showed virtually the same ITS-pattern after seven years of separation. Neither are the patterns explained by recent range expansion of a single genotype, because in that case one would expect lowest genetic diversity in the recently invaded North Sea; instead, polymorphism is highest there. Recent ballast-water-mediated mixing of formerly isolated populations and subsequent ongoing sexual reproduction among them can explain the increase in ambiguities. The species' capacity to form harmful blooms may well have been enhanced through increased genetic diversity of regional populations.

  7. Variations in SXT elements in epidemic Vibrio cholerae O1 El Tor strains in China

    PubMed Central

    Wang, Ruibai; Yu, Dong; Yue, Junjie; Kan, Biao

    2016-01-01

    Vibrio cholerae O1 El Tor biotype strains are responsible for three multiyear epidemics of cholera in China during the seventh ongoing pandemic. The presence of the integrative conjugative element SXT is strongly correlated with resistance to nalidixic acid, tetracycline, and trimethoprim-sulfamethoxazole in these strains. Here, we sequenced the conserved genes of the SXT element, including eex, setR, and int, from 59 V. cholerae O1 El Tor strains and extracted and assembled the intact SXT sequences from the 11 genome sequenced strains. These elements had characteristics distinct from those of previously reported integrative conjugative elements (ICEs). They could be clearly divided into two types based on the clustering of conserved genes and gene structures of the elements, showing their possibly independent derivation and evolution. These two types were present before and after 2005, respectively, demonstrating the type substitution that occurred in 2005. Four to six antibiotic-resistant genes were found on the SXT elements, including genes resistant to tetracycline, trimethoprim-sulfamethoxazole, and multiple drugs. In summary, our findings demonstrated the roles of the SXT element in the emergence of multidrug resistance in epidemic O1 El Tor V. cholerae strains in China. PMID:26956038

  8. Cuticular hydrocarbon discrimination/variation among strains of the mosquito, Anopheles (Cellia) stephensi Liston.

    PubMed

    Anyanwu, G I; Davies, D H; Molyneux, D H; Phillips, A; Milligan, P J

    1993-06-01

    Cuticular lipids were removed from adult female Anopheles stephensi Liston and the hydrocarbons present were separated and quantified by gas chromatography. Comparison was made between the hydrocarbons of four An. stephensi strains: Russ, sensitive to DDT and malathion and originally isolated in the former U.S.S.R.; Beech, a DDT-resistant Indian strain with high sensitivity to Plasmodium species; St Mal, a strain from Pakistan shown to be resistant to malathion; and Iraq, a DDT-susceptible strain from Iraq. Discriminant analysis indicated that the four groups were distinct and that, on average, 78% of the population could be separated on the basis of the quantities of some of the cuticular hydrocarbons. The profiles of Beech and Russ or Russ and St Mal could be separated in 98% of the cases. There was reduced segregation between the profiles of St. Mal and Iraq, suggesting greater similarity in the hydrocarbons of these two strains. The usefulness of cuticular hydrocarbon in determining species relationships is discussed. PMID:8257238

  9. Investigating the Conformational Stability of Prion Strains through a Kinetic Replication Model

    PubMed Central

    Zampieri, Mattia; Legname, Giuseppe; Altafini, Claudio

    2009-01-01

    Prion proteins are known to misfold into a range of different aggregated forms, showing different phenotypic and pathological states. Understanding strain specificities is an important problem in the field of prion disease. Little is known about which PrPSc structural properties and molecular mechanisms determine prion replication, disease progression and strain phenotype. The aim of this work is to investigate, through a mathematical model, how the structural stability of different aggregated forms can influence the kinetics of prion replication. The model-based results suggest that prion strains with different conformational stability undergoing in vivo replication are characterizable in primis by means of different rates of breakage. A further role seems to be played by the aggregation rate (i.e. the rate at which a prion fibril grows). The kinetic variability introduced in the model by these two parameters allows us to reproduce the different characteristic features of the various strains (e.g., fibrils' mean length) and is coherent with all experimental observations concerning strain-specific behavior. PMID:19578427

  10. Bonding dynamics of compliant microbump during ultrasonic bonding investigated by using Si strain gauge

    NASA Astrophysics Data System (ADS)

    Iwanabe, Keiichiro; Nakadozono, Kenichi; Senda, Yousuke; Asano, Tanemasa

    2016-06-01

    The bonding dynamics of a cone-shaped microbump during ultrasonic bonding are investigated by in situ measurements of the strain generated in a substrate using a piezoresistance strain sensor. The strain sensor is composed of a pair of p- and n-type piezoresistance gauges to extract strain components in the ultrasonic vibration along the plane parallel to the substrate surface and along the direction perpendicular to the surface. Flip-chip bonding is performed at room-temperature. The time evolution of the strain generated in the substrate according to the load-up of pressing force and application of ultrasonic vibration is clearly detected. The softening of the bump metal during the application of ultrasonic vibration is clearly observed. Results of a comparative study between the bonding of a cone-shaped microbump and that of a flat-top microbump suggest mechanical stress concentration near the top end of the cone-shaped microbump, which results in the transformation of the crystal texture of the bump from grains to fine crystallites.

  11. Sporadic Distribution and Distinctive Variations of Cylindrospermopsin Genes in Cyanobacterial Strains and Environmental Samples from Chinese Freshwater Bodies

    PubMed Central

    Jiang, Yongguang; Xiao, Peng; Yu, Gongliang; Shao, Jihai; Liu, Deming; Azevedo, Sandra M. F. O.

    2014-01-01

    Increasing reports of cylindrospermopsins (CYNs) in freshwater ecosystems have promoted the demand for identifying all of the potential CYN-producing cyanobacterial species. The present study explored the phylogenetic distribution and evolution of cyr genes in cyanobacterial strains and water samples from China. Four Cylindrospermopsis strains and two Raphidiopsis strains were confirmed to produce CYNs. Mutant cyrI and cyrK genes were observed in these strains. Cloned cyr gene sequences from eight water bodies were clustered with cyr genes from Cylindrospermopsis and Raphidiopsis (C/R group) in the phylogenetic trees with high similarities (99%). Four cyrI sequence types and three cyrJ sequence types were observed to have different sequence insertions and repeats. Phylogenetic analysis of the rpoC1 sequences of the C/R group revealed four conserved clades, namely, clade I, clade II, clade III, and clade V. High sequence similarities (>97%) in each clade and a divergent clade IV were observed. Therefore, CYN producers were sporadically distributed in congeneric and paraphyletic C/R group species in Chinese freshwater ecosystems. In the evolution of cyr genes, intragenomic translocations and intergenomic transfer between local Cylindrospermopsis and Raphidiopsis were emphasized and probably mediated by transposases. This research confirms the existence of CYN-producing Cylindrospermopsis in China and reveals the distinctive variations of cyr genes. PMID:24928879

  12. Experimental insight into the proximate causes of male persistence variation among two strains of the androdioecious Caenorhabditis elegans (Nematoda)

    PubMed Central

    Wegewitz, Viktoria; Schulenburg, Hinrich; Streit, Adrian

    2008-01-01

    Background In the androdioecious nematode Caenorhabditis elegans virtually all progeny produced by hermaphrodite self-fertilization is hermaphrodite while 50% of the progeny that results from cross-fertilization by a male is male. In the standard laboratory wild type strain N2 males disappear rapidly from populations. This is not the case in some other wild type isolates of C. elegans, among them the Hawaiian strain CB4856. Results We determined the kinetics of the loss of males over time for multiple population sizes and wild isolates and found significant differences. We performed systematic inter- and intra-strain crosses with N2 and CB4856 and show that the males and the hermaphrodites contribute to the difference in male maintenance between these two strains. In particular, CB4856 males obtained a higher number of successful copulations than N2 males and sired correspondingly more cross-progeny. On the other hand, N2 hermaphrodites produced a higher number of self-progeny, both when singly mated and when not mated. Conclusion These two differences have the potential to explain the observed variation in male persistence, since they should lead to a predominance of self-progeny (and thus hermaphrodites) in N2 and, at the same time, a high proportion of cross-progeny (and thus the presence of males as well as hermaphrodites) in CB4856. PMID:18620600

  13. Variation in hormone autonomy and regenerative potential of cells transformed by strain A66 of Agrobacterium tumefaciens

    SciTech Connect

    Binns, A.N.; Sciaky, D.; Wood, H.N.

    1982-12-01

    Mutant Agrobacterium tumefaciens strain A66 is shown to differ from its wild-type progenitor (strain A6) by a spontaneous 2.7 kb DNA insert into the T-DNA region of its Ti plasmid. Tobacco stems transformed by A66 exhibit an attenuated response characterized by slow growth and shoot proliferation. Clonal analysis demonstrates that this response is due to an alteration in the growth and regenerative potential of transformed cells, rather than to variation in the frequency of fully autonomous cells within the primary tumor. Cloned A66 transformed tobacco cells exhibit an auxin requirement for growth that can be overcome by shoot proliferation. Other host species, however, may complement the A66 mutation yielding fully auxin-independent tumors when transformed by this bacterium.

  14. Metabolic and genomic analysis elucidates strain-level variation in Microbacterium spp. isolated from chromate contaminated sediment

    PubMed Central

    Henson, Michael W.; Santo Domingo, Jorge W.; Kourtev, Peter S.; Jensen, Roderick V.; Dunn, James A.

    2015-01-01

    Hexavalent chromium [Cr(VI)] is a soluble carcinogen that has caused widespread contamination of soil and water in many industrial nations. Bacteria have the potential to aid remediation as certain strains can catalyze the reduction of Cr(VI) to insoluble and less toxic Cr(III). Here, we examine Cr(VI) reducing Microbacterium spp. (Cr-K1W, Cr-K20, Cr-K29, and Cr-K32) isolated from contaminated sediment (Seymore, Indiana) and show varying chromate responses despite the isolates’ phylogenetic similarity (i.e., identical 16S rRNA gene sequences). Detailed analysis identified differences based on genomic metabolic potential, growth and general metabolic capabilities, and capacity to resist and reduce Cr(VI). Taken together, the discrepancies between the isolates demonstrate the complexity inter-strain variation can have on microbial physiology and related biogeochemical processes. PMID:26587353

  15. Geographic variation in sexual attraction of Spodoptera frugiperda corn- and rice-strain males to pheromone lures

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The corn- and rice-strains of Spodoptera frugiperda exhibit several genetic and behavioral differences and appear to be undergoing ecological speciation in sympatry. Previous studies reported conflicting results when investigating male attraction to pheromone lures in different regions, but this cou...

  16. Impact of Strain Variation on the Ability of Biosensor Technology to Detect Salmonella enterica

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Introduction: It is important to develop methods that can quickly and accurately detect the presence of bacteria in the food supply that cause disease. Salmonella enterica is a bacteria that is often associated with contamination of food. Strains vary in their ability to cause illness and to spread...

  17. Kinetics and strain variation of phagosome proteins of Entamoeba histolytica by proteomic analysis.

    PubMed

    Okada, Mami; Huston, Christopher D; Oue, Miho; Mann, Barbara J; Petri, William A; Kita, Kiyoshi; Nozaki, Tomoyoshi

    2006-02-01

    The protozoan parasite Entamoeba histolytica ingests and feeds on microorganisms and mammalian cells. Phagocytosis is essential for cell growth and implicated in pathogenesis of E. histolytica. We report here the dynamic changes of phagosome proteins during phagosome maturation by proteomic analysis using reversed-phase capillary liquid chromatography and ion trap tandem mass spectrometry. Phagosomes were isolated at various intervals after internalization of latex beads. Immunoblot analysis and electron microscopy verified successful isolation of phagosomes. A total of 159 proteins were identified from the reference strain HM1 at different stages of phagosome maturation. Approximately 70% of them were detected in a time-dependent fashion, suggesting dynamism of phagosome biogenesis. The kinetics of representative proteins were verified by immunoblots and also by video microscopy of live transgenic amebae expressing green fluorescent protein-fused EhRab7A. Furthermore, we observed significant differences in phagosome profiles between HM1 and two recent clinical isolates. Approximately 60% of 229 proteins detected in at least one of these three strains were identified only in one strain, while approximately 20% of these proteins were detected in all three strains. These data should provide significant insights into molecular characterization of phagosome biogenesis, and help to elucidate the pathogenesis of this important infection. PMID:16290089

  18. [Genomic variation of laboratory strains and natural populations of Drosophila melanogaster exposed to X-irradiation].

    PubMed

    Shokhanov, S O; Shcherbata, G R; Chernik, Ia I

    1997-01-01

    The spontaneous and X-ray-induced mutation rates and spectrums were estimated in laboratory strains and natural populations of Drosophila melanogaster from the Chernobyl meltdown area. Laboratory strains Oregon R and y2w alpha 4 were stable. In all natural populations, the spontaneous mutation rate was an order of magnitude higher (10(-3)) than in laboratory strains. Irradiation at a total dose of 3000 R was shown to induce genetic instability in the stable laboratory strain y2w alpha 4 and to increase the mutation rate and spectrum range in the unstable natural population P1. A high level of genetic instability was observed both in the first and second generations. Genetic analysis by means of classical genetic and molecular methods was performed; in crosses, a collection of spontaneous and induced mutants was used. The molecular genetic nature of mutations at the white and cut loci was analyzed by Southern blot-hybridization. Mutations at the white locus were shown to result both from transposition and recombination events; cut mutations were caused by deletions. PMID:9162688

  19. Investigation of thermomechanical couplings, strain localization and shape memory properties in a shape memory polymer subjected to loading at various strain rates

    NASA Astrophysics Data System (ADS)

    Pieczyska, E. A.; Staszczak, M.; Maj, M.; Kowalczyk-Gajewska, K.; Golasiński, K.; Cristea, M.; Tobushi, H.; Hayashi, S.

    2016-08-01

    This paper presents experimental and modeling results of the effects of thermomechanical couplings occurring in a polyurethane shape memory polymer (SMP) subjected to tension at various strain rates within large strains. The SMP mechanical curves, recorded using a testing machine, and the related temperature changes, measured in a contactless manner using an IR camera, were used to investigate the polymer deformation process at various loading stages. The effects of thermomechanical couplings allowed the determination of the material yield point in the initial loading stage, the investigation of nucleation and development of the strain localization at larger strains and the estimation of the effects of thermoelastic behavior during the unloading process. The obtained stress–strain and thermal characteristics, the results of the dynamic mechanical analysis and estimated values of the shape fixity and shape recovery parameters confirmed that the shape memory polymer (T g = 45 °C) is characterized by good mechanical and shape memory properties, as well as high sensitivity to the strain rate. The mechanical response of the SMP subjected to tension was simulated using the finite element method and applying the large strain, two-phase model. Strain localization observed in the experiment was well reproduced in simulations and the temperature spots were correlated with the accumulated viscoplastic deformation of the SMP glassy phase.

  20. Strain variation in the adaptation of C57Bl6 and BALBc mice to chronic hypobaric hypoxia.

    PubMed

    Cramer, Nathan P; Xu, Xiufen; Christensen, Christine; Bierman, Alexis; Tankersley, Clarke G; Galdzicki, Zygmunt

    2015-05-01

    The interplay of environmental and genetic factors may lead to a spectrum of physiological and behavioral outcomes. How environmental stress factors interact with the diverse mouse genomes is still poorly understood and elucidating the underlying interactions requires specific stress models that can target integrated physiological systems. Here, we employ behavioral tests and whole-body plethysmography to examine the effects of 12 weeks of simulated high altitude (HA) exposure on two inbred mouse strains, BALBc and C57Bl6. We find that HA induced- weight loss recovers at significantly different rates in these two strains. Even at 12 weeks, however, both strains fail to reach body weight levels of controls. Performance on two motor tasks, rotarod and treadmill, improve with HA exposure but more prominently in BALBc mice. Whole-body plethysmography outcomes indicate that compensation to chronic HA includes increased respiratory frequencies and tidal volumes in both strains. However, the effects on tidal volume are significantly greater in BALBc mice and showed a biphasic course. Whole- body metabolic rates are also increased in both strains with prolonged HA exposure, but were more pronounced in BALBc mice suggestive of less successful adaptation in this strain. These adaptations occur in the absence of gross pathological changes in all major organs. Together these results indicate that chronic HA exposure results in environmental stressors that impact the specific physiological responses of BALBc more than C57Bl6 mice. Thus, these strains provide a promising platform for investigating how genetic backgrounds can differentially reinforce the effects of long-lasting environmental stressors and their potential to interact with psychological stressors. PMID:25647362

  1. Investigation of a relationship between dielectric peak diffuseness and elastic modulus variations in a ferroelectric relaxor

    NASA Astrophysics Data System (ADS)

    Sarasúa, L. G.; Moreno, A.; Favre, S.; Eiras, J. A.

    2014-03-01

    The dependence with temperature of elastic modulus of relaxor ferroelectric ceramics is modeled with a Landau-Devonshire-type cluster theory. The effective elastic modulus obtained from experimental data of ultrasonic longitudinal velocity in PCT and PLZT ferroelectric ceramics are compared with the proposed model. This comparison shows that the model is able to reproduce the dependence with temperature of elastic modulus c very well. We obtained that as impurity concentration increases in both families, the diffuseness of the transition shows important variations, but the strengths of the couplings between the polarization and the strain remain almost unchanged. In contrast, other models assigned a change in the strengths of the couplings between the polarization and the strain to explain the diffuse transition in these compounds.

  2. Morphometric structural diversity of a natural armor assembly investigated by 2D continuum strain analysis.

    PubMed

    Varshney, Swati; Song, Juha; Li, Yaning; Boyce, Mary C; Ortiz, Christine

    2015-12-01

    Many armored fish scale assemblies use geometric heterogeneity of subunits as a design parameter to provide tailored biomechanical flexibility while maintaining protection from external penetrative threats. This study analyzes the spatially varying shape of individual ganoid scales as a structural element in a biological system, the exoskeleton of the armored fish Polypterus senegalus (bichir). X-ray microcomputed tomography is used to generate digital 3D reconstructions of the mineralized scales. Landmark-based geometric morphometrics is used to measure the geometric variation among scales and to define a set of geometric parameters to describe shape variation. A formalism using continuum mechanical strain analysis is developed to quantify the spatial geometry change of the scales and illustrate the mechanisms of shape morphing between scales. Five scale geometry variants are defined (average, anterior, tail, ventral, and pectoral fin) and their functional implications are discussed in terms of the interscale mobility mechanisms that enable flexibility within the exoskeleton. The results suggest that shape variation in materials design, inspired by structural biological materials, can allow for tunable behavior in flexible composites made of segmented scale assemblies to achieve enhanced user mobility, custom fit, and flexibility around joints for a variety of protective applications. PMID:26481418

  3. Systematic investigation on topological properties of layered GaS and GaSe under strain

    NASA Astrophysics Data System (ADS)

    An, Wei; Wu, Feng; Jiang, Hong; Tian, Guang-Shan; Li, Xin-Zheng

    2014-08-01

    The topological properties of layered β-GaS and ɛ-GaSe under strain are systematically investigated by ab initio calculations with the electronic exchange-correlation interactions treated beyond the generalized gradient approximation (GGA). Based on the GW method and the Tran-Blaha modified Becke-Johnson potential approach, we find that while ɛ-GaSe can be strain-engineered to become a topological insulator, β-GaS remains a trivial one even under strong strain, which is different from the prediction based on GGA. The reliability of the fixed volume assumption rooted in nearly all the previous calculations is discussed. By comparing to strain calculations with optimized inter-layer distance, we find that the fixed volume assumption is qualitatively valid for β-GaS and ɛ-GaSe, but there are quantitative differences between the results from the fixed volume treatment and those from more realistic treatments. This work indicates that it is risky to use theoretical approaches like GGA that suffer from the band gap problem to address physical properties, including, in particular, the topological nature of band structures, for which the band gap plays a crucial role. In the latter case, careful calibration against more reliable methods like the GW approach is strongly recommended.

  4. Systematic investigation on topological properties of layered GaS and GaSe under strain

    SciTech Connect

    An, Wei; Tian, Guang-Shan; Wu, Feng; Jiang, Hong; Li, Xin-Zheng

    2014-08-28

    The topological properties of layered β-GaS and ε-GaSe under strain are systematically investigated by ab initio calculations with the electronic exchange-correlation interactions treated beyond the generalized gradient approximation (GGA). Based on the GW method and the Tran-Blaha modified Becke-Johnson potential approach, we find that while ε-GaSe can be strain-engineered to become a topological insulator, β-GaS remains a trivial one even under strong strain, which is different from the prediction based on GGA. The reliability of the fixed volume assumption rooted in nearly all the previous calculations is discussed. By comparing to strain calculations with optimized inter-layer distance, we find that the fixed volume assumption is qualitatively valid for β-GaS and ε-GaSe, but there are quantitative differences between the results from the fixed volume treatment and those from more realistic treatments. This work indicates that it is risky to use theoretical approaches like GGA that suffer from the band gap problem to address physical properties, including, in particular, the topological nature of band structures, for which the band gap plays a crucial role. In the latter case, careful calibration against more reliable methods like the GW approach is strongly recommended.

  5. Sequence Variation and Immunologic Cross-Reactivity among Babesia bovis Merozoite Surface Antigen 1 Proteins from Vaccine Strains and Vaccine Breakthrough Isolates

    PubMed Central

    LeRoith, Tanya; Brayton, Kelly A.; Molloy, John B.; Bock, Russell E.; Hines, Stephen A.; Lew, Ala E.; McElwain, Terry F.

    2005-01-01

    The Babesia bovis merozoite surface antigen 1 (MSA-1) is an immunodominant membrane glycoprotein that is the target of invasion-blocking antibodies. While antigenic variation has been demonstrated in MSA-1 among strains from distinct geographical areas, the extent of sequence variation within a region where it is endemic and the effect of variation on immunologic cross-reactivity have not been assessed. In this study, sequencing of MSA-1 from two Australian B. bovis vaccine strains and 14 breakthrough isolates from vaccinated animals demonstrated low sequence identity in the extracellular region of the molecule, ranging from 19.8 to 46.7% between the T vaccine strain and eight T vaccine breakthrough isolates, and from 18.7 to 99% between the K vaccine strain and six K vaccine breakthrough isolates. Although MSA-1 amino acid sequence varied substantially among strains, overall predicted regions of hydrophilicity and hydrophobicity in the extracellular domain were conserved in all strains examined, suggesting a conserved functional role for MSA-1 despite sequence polymorphism. Importantly, the antigenic variation created by sequence differences resulted in a lack of immunologic cross-reactivity among outbreak strains using sera from animals infected with the B. bovis vaccine strains. Additionally, sera from cattle hyperinfected with the Mexico strain of B. bovis and shown to be clinically immune did not cross-react with MSA-1 from any other isolate tested. The results indicate that isolates of B. bovis capable of evading vaccine-induced immunity contain an msa-1 gene that is significantly different from the msa-1 of the vaccine strain, and that the difference can result in a complete lack of cross-reactivity between MSA-1 from vaccine and breakthrough strains in immunized animals. PMID:16113254

  6. Variation Between Strains of Hamsters in the Lethality of Pichinde Virus Infections

    PubMed Central

    Buchmeier, Michael J.; Rawls, William E.

    1977-01-01

    Infection by Pichinde virus, a member of the arenavirus group, was studied in Golden Syrian hamsters (Mesocricetus auratus) with regard to possible mechanisms of resistance to virus infection in adult hamsters. Two hamster strains were found to differ in their susceptibility to lethal Pichinde virus infection. LVG/Lak randomly bred hamsters were found to be 100% susceptible to low doses of Pichinde virus during the first 6 days of life, but after 8 days of life, mortality was uncommon. Peak virus titers in the serum of animals infected at 3 days of life were 4 logs greater than in animals infected at 12 days. MHA/Lak inbred hamsters, in contrast, were found to be susceptible to lethal virus infection both as newborns and as adults. Peak virus titers of greater than 108 plaque-forming units/ml were observed in serum 8 days after infection of adult MHA hamsters as compared with less than 103 plaque-forming units/ml in the serum of adult LVG hamsters. Cultured primary kidney cells and peritoneal macrophages from either hamster strain supported Pichinde virus replication equally well in vitro. Antibodies to the complement-fixing antigens and to antigens at the surface of virus-infected cells were produced by both strains of hamsters. Cyclophosphamide immunosuppression rendered adult LVG animals susceptible to lethal infections, and virus grew to high titers in the treated animals. These findings suggest that immunological factors that appear early in life in LVG hamsters and are deficient in MHA hamsters limit Pichinde virus infection. Unlike previously reported arenavirus diseases, the observations suggest that death is produced by a direct viral effect and not through immunopathological mechanisms. PMID:193786

  7. Impact of dislocation cell elastic strain variations on line profiles from deformed copper.

    SciTech Connect

    Levine, L. E.; Larson, B. C.; Tischler, J. Z.; Geantil, P.; Kassner, M. E.; Liu, W.; Stoudt, M. R.; NIST; ORNL; Univ. of Southern California

    2008-01-01

    Energy scanned, sub-micrometer X-ray beams were used to obtain diffraction line profiles from individual dislocation cells in copper single crystals deformed in compression. Sub-micrometer depth resolution was provided by translating a wire through the diffracted beams and using triangulation to determine the depths of the diffracting volumes. Connection to classic volume-averaged results was made by adding the line profiles from 52 spatially resolved dislocation cell measurements. The resulting sub profile is smooth and symmetric, in agreement with early assumptions; the mean strain and full width half maximum are consistent with the average of the parameters extracted from the more exact individual dislocation cell measurements.

  8. Lifetime Dependent Variation of Stress Hormone Metabolites in Feces of Two Laboratory Mouse Strains

    PubMed Central

    Kolbe, Thomas; Palme, Rupert; Tichy, Alexander; Rülicke, Thomas

    2015-01-01

    Non-invasive measurement of stress hormone metabolites in feces has become routine practice for the evaluation of distress and pain in animal experiments. Since metabolism and excretion of glucocorticoids may be variable, awareness and adequate consideration of influencing factors are essential for accurate monitoring of adrenocortical activity. Reference values are usually provided by baselines compiled prior to the experiment and by age matched controls. The comparison of stress hormone levels between animals of different ages or between studies looking at hormone levels at the beginning and at the end of a long term study might be biased by age-related effects. In this study we analyzed fecal corticosterone metabolites (FCM) during the lifetime of untreated female mice of the strains C57BL/6NCrl and Crl:CD1. For this purpose feces for each individual mouse were collected every two months over a period of 24 hours, at intervals of four hours, until the age of 26 months. Results of the study revealed that age of the animals had a significant impact on the level and circadian rhythm of stress hormone metabolites. Furthermore, long-term observation of mice revealed a strain specific excretion profile of FCM influenced by strong seasonal variability. PMID:26284365

  9. Chemotactic Preferences and Strain Variation in the Response of Phytophthora sojae Zoospores to Host Isoflavones

    PubMed Central

    Tyler, B. M.; Wu, M.; Wang, J.; Cheung, W.; Morris, P. F.

    1996-01-01

    The zoospores of Phytophthora sojae are chemotactically attracted to the isoflavones genistein and daidzein that are released by soybean roots. In this study we have examined the response of P. sojae zoospores to a wide range of compounds having some structural similarity to genistein and daidzein, including isoflavones, flavones, chalcones, stilbenes, benzoins, benzoates, benzophenones, acetophenones, and coumarins. Of 59 compounds examined, 43 elicited some response. A comparison of the chemotactic responses elicited by the various compounds revealed a primary role for the phenolic 4(prm1)- and 7-hydroxyl groups on the isoflavone structure. A few compounds acted as repellents, notably methylated flavones with a hydrophobic B ring. The chemotactic response to many of the analogs was markedly different among different strains of P. sojae. PMID:16535375

  10. When confidence comes and goes: How variation in self-efficacy moderates stressor-strain relationships.

    PubMed

    Peng, Ann C; Schaubroeck, John M; Xie, Jia Lin

    2015-07-01

    Inconsistent published findings regarding a proposed buffering role of self-efficacy in stress coping led us to develop a model in which within-person variability in self-efficacy over time affects how individuals' mean levels of self-efficacy moderate the relationship between demands and psychological symptoms. Results from two independent samples (manufacturing workers and college students) supported the hypothesized interaction between demands, self-efficacy mean level, and self-efficacy variability. Demands were more positively associated with psychological strain among those with high and stable self-efficacy than those with high and variable self-efficacy. We discuss the implications of intrapersonal variability in self-efficacy for research on stress coping. PMID:25602277

  11. Composition, Variation, and Dynamics of Major Osmotic Solutes in Methanohalophilus Strain FDF1

    PubMed Central

    Robertson, Diane E.; Lai, Mei-Chin; Gunsalus, Robert P.; Roberts, Mary F.

    1992-01-01

    Methanohalophilus strain FDF1, a member of the halophilic genus of methanogens, can grow over a range of external NaCl concentrations from 1.2 to 2.9 M and utilize methanol, trimethylamine, and dimethyl sulfide as substrates for methanogenesis. It produces the osmolytes glycine betaine, β-glutamine, and Nε-acetyl-β-lysine with increasing external NaCl, but the relative ratio of these zwitterions depends primarily on the methanogenic substrate and less on the external osmolarity. When the cells are grown on methanol in defined medium, accumulation of glycine betaine predominates over the other zwitterionic solutes. The cells also synthesized a carbohydrate which was not detected in cells grown on trimethylamine. This negatively charged compound, identified as α-glucosylglycerate from the 13C and 1H chemical shifts, does not act as an osmoregulatory solute in the salt range 1.4 to 2.7 M in this methanogen as evidenced by its invariant intracellular concentration. 13CH3OH-pulse/12CH3OH-chase experiments were used to determine half-lifes for these organic solute pools in the cells. l-α-Glutamate showed a rapid loss of heavy isotope, indicating that l-α-glutamate functions as a biosynthetic intermediate in these cells. Measurable turnover rates for both β-glutamine, which acts as an osmolyte, and α-glucosylglycerate suggest that they function as metabolic intermediates as well. Molecules which function solely as osmolytes (glycine betaine and Nε-acetyl-β-lysine) showed a slower turnover consistent with their roles as osmotic solutes in Methanohalophilus strain FDF1. PMID:16348748

  12. Feasibility Study of Ex Ovo Chick Chorioallantoic Artery Model for Investigating Pulsatile Variation of Arterial Geometry

    PubMed Central

    Nam, Kweon-Ho; Kim, Juho; Ra, Gicheol; Lee, Chong Hyun; Paeng, Dong-Guk

    2015-01-01

    Despite considerable research efforts on the relationship between arterial geometry and cardiovascular pathology, information is lacking on the pulsatile geometrical variation caused by arterial distensibility and cardiomotility because of the lack of suitable in vivo experimental models and the methodological difficulties in examining the arterial dynamics. We aimed to investigate the feasibility of using a chick embryo system as an experimental model for basic research on the pulsatile variation of arterial geometry. Optical microscope video images of various arterial shapes in chick chorioallantoic circulation were recorded from different locations and different embryo samples. The high optical transparency of the chorioallantoic membrane (CAM) allowed clear observation of tiny vessels and their movements. Systolic and diastolic changes in arterial geometry were visualized by detecting the wall boundaries from binary images. Several to hundreds of microns of wall displacement variations were recognized during a pulsatile cycle. The spatial maps of the wall motion harmonics and magnitude ratio of harmonic components were obtained by analyzing the temporal brightness variation at each pixel in sequential grayscale images using spectral analysis techniques. The local variations in the spectral characteristics of the arterial wall motion were reflected well in the analysis results. In addition, mapping the phase angle of the fundamental frequency identified the regional variations in the wall motion directivity and phase shift. Regional variations in wall motion phase angle and fundamental-to-second harmonic ratio were remarkable near the bifurcation area. In summary, wall motion in various arterial geometry including straight, curved and bifurcated shapes was well observed in the CAM artery model, and their local and cyclic variations could be characterized by Fourier and wavelet transforms of the acquired video images. The CAM artery model with the spectral

  13. Feasibility Study of Ex Ovo Chick Chorioallantoic Artery Model for Investigating Pulsatile Variation of Arterial Geometry.

    PubMed

    Nam, Kweon-Ho; Kim, Juho; Ra, Gicheol; Lee, Chong Hyun; Paeng, Dong-Guk

    2015-01-01

    Despite considerable research efforts on the relationship between arterial geometry and cardiovascular pathology, information is lacking on the pulsatile geometrical variation caused by arterial distensibility and cardiomotility because of the lack of suitable in vivo experimental models and the methodological difficulties in examining the arterial dynamics. We aimed to investigate the feasibility of using a chick embryo system as an experimental model for basic research on the pulsatile variation of arterial geometry. Optical microscope video images of various arterial shapes in chick chorioallantoic circulation were recorded from different locations and different embryo samples. The high optical transparency of the chorioallantoic membrane (CAM) allowed clear observation of tiny vessels and their movements. Systolic and diastolic changes in arterial geometry were visualized by detecting the wall boundaries from binary images. Several to hundreds of microns of wall displacement variations were recognized during a pulsatile cycle. The spatial maps of the wall motion harmonics and magnitude ratio of harmonic components were obtained by analyzing the temporal brightness variation at each pixel in sequential grayscale images using spectral analysis techniques. The local variations in the spectral characteristics of the arterial wall motion were reflected well in the analysis results. In addition, mapping the phase angle of the fundamental frequency identified the regional variations in the wall motion directivity and phase shift. Regional variations in wall motion phase angle and fundamental-to-second harmonic ratio were remarkable near the bifurcation area. In summary, wall motion in various arterial geometry including straight, curved and bifurcated shapes was well observed in the CAM artery model, and their local and cyclic variations could be characterized by Fourier and wavelet transforms of the acquired video images. The CAM artery model with the spectral

  14. Strain induced variations in band offsets and built-in electric fields in InGaN/GaN multiple quantum wells

    NASA Astrophysics Data System (ADS)

    Dong, L.; Mantese, J. V.; Avrutin, V.; Özgür, Ü.; Morkoç, H.; Alpay, S. P.

    2013-07-01

    The band structure, quantum confinement of charge carriers, and their localization affect the optoelectronic properties of compound semiconductor heterostructures and multiple quantum wells (MQWs). We present here the results of a systematic first-principles based density functional theory (DFT) investigation of the dependence of the valence band offsets and band bending in polar and non-polar strain-free and in-plane strained heteroepitaxial InxGa1-xN(InGaN)/GaN multilayers on the In composition and misfit strain. The results indicate that for non-polar m-plane configurations with [12¯10]InGaN//[12¯10]GaN and [0001]InGaN//[0001]GaN epitaxial alignments, the valence band offset changes linearly from 0 to 0.57 eV as the In composition is varied from 0 (GaN) to 1 (InN). These offsets are relatively insensitive to the misfit strain between InGaN and GaN. On the other hand, for polar c-plane strain-free heterostructures with [101¯0]InGaN//[101¯0]GaN and [12¯10]InGaN//[12¯10]GaN epitaxial alignments, the valence band offset increases nonlinearly from 0 eV (GaN) to 0.90 eV (InN). This is significantly reduced beyond x ≥ 0.5 by the effect of the equi-biaxial misfit strain. Thus, our results affirm that a combination of mechanical boundary conditions, epitaxial orientation, and variation in In concentration can be used as design parameters to rapidly tailor the band offsets in InGaN/GaN MQWs. Typically, calculations of the built-in electric field in complex semiconductor structures often must rely upon sequential optimization via repeated ab initio simulations. Here, we develop a formalism that augments such first-principles computations by including an electrostatic analysis (ESA) using Maxwell and Poisson's relations, thereby converting laborious DFT calculations into finite difference equations that can be rapidly solved. We use these tools to determine the bound sheet charges and built-in electric fields in polar epitaxial InGaN/GaN MQWs on c-plane Ga

  15. Metabonomic investigations of age- and batch-related variations in female NMRI mice using proton nuclear magnetic resonance spectroscopy.

    PubMed

    Li, Jia V; Saric, Jasmina; Yap, Ivan K S; Utzinger, Jürg; Holmes, Elaine

    2013-12-01

    The NMRI outbred mouse model is widely used for studying metabolic disease, toxicity, and infection, yet information regarding baseline metabolism of this murine strain is relatively sparse. Using different batches of female NMRI mice, we assessed the stability of the metabolic phenotype with increasing age and weight, and determined the influence of acclimatization on the metabolic profile of biofluids (urine, plasma, and faecal water). Differences in urinary concentrations of 3-ureidopropionate, 2-oxoisocaproate, trimethylamine, and glycine were detected between three batches of 9-week-old female NMRI mice using proton nuclear magnetic resonance ((1)H NMR) spectroscopy coupled with multivariate statistical analysis. An acclimatization period of 2 weeks was imposed after the mice entered the laboratory environment. Strong differences in the faecal metabolome pre- and post-acclimatization were found (reduction in amino acid concentrations), whilst the urine metabolome showed increased levels of trimethylamine-N-oxide, phenylacetyl glycine, and hippurate with decreased excretion of formate and betaine post-acclimatization. Temporal variation in the metabolite profiles over a 16-week study stabilized around 7-week-old animals. The results from this study strongly argue for inclusion of an acclimatization period prior to starting an investigative procedure, and suggest that the metabolic phenotypes of female NMRI mice are more stable at around 7 weeks of age. We have also identified a set of metabolites that are more susceptible to variation in concentration. This information can serve as a benchmark in order to establish confidence in systematic variation attributable to pathology or therapeutic intervention above the background metabolic variation in the NMRI mouse. PMID:24121299

  16. Computational classification of different wild-type zebrafish strains based on their variation in light-induced locomotor response.

    PubMed

    Gao, Yuan; Zhang, Gaonan; Jelfs, Beth; Carmer, Robert; Venkatraman, Prahatha; Ghadami, Mohammad; Brown, Skye A; Pang, Chi Pui; Leung, Yuk Fai; Chan, Rosa H M; Zhang, Mingzhi

    2016-02-01

    Zebrafish larvae display a rapid and characteristic swimming behaviour after abrupt light onset or offset. This light-induced locomotor response (LLR) has been widely used for behavioural research and drug screening. However, the locomotor responses have long been shown to be different between different wild-type (WT) strains. Thus, it is critical to define the differences in the WT LLR to facilitate accurate interpretation of behavioural data. In this investigation, we used support vector machine (SVM) models to classify LLR data collected from three WT strains: AB, TL and TLAB (a hybrid of AB and TL), during early embryogenesis, from 3 to 9 days post-fertilisation (dpf). We analysed both the complete dataset and a subset of the data during the first 30after light change. This initial period of activity is substantially driven by vision, and is also known as the visual motor response (VMR). The analyses have resulted in three major conclusions: First, the LLR is different between the three WT strains, and at different developmental stages. Second, the distinguishable information in the VMR is comparable to, if not better than, the full dataset for classification purposes. Third, the distinguishable information of WT strains in the light-onset response differs from that in the light-offset response. While the classification accuracies were higher for the light-offset than light-onset response when using the complete LLR dataset, a reverse trend was observed when using a shorter VMR dataset. Together, our results indicate that one should use caution when extrapolating interpretations of LLR/VMR obtained from one WT strain to another. PMID:26688204

  17. Local Strain Evaluation of Strained-SOI Structures

    NASA Astrophysics Data System (ADS)

    Usuda, Koji; Mizuno, Tomohisa; Numata, Toshinori; Tezuka, Tsutomu; Sugiyama, Naoharu; Moriyama, Yoshihiko; Nakaharai, Shu; Takagi, Shin-Ichi

    The strain relaxation within a strained-Si on SiGe on insulator (SGOI) structure might be one of the key issues in development of strained-Si MOSFET devices for high-performance ULSIs. In order to investigate the strain relaxation within the thin strained-Si layers, a new characterization technique to directly evaluate a local strain variation in the layers is required. Hence, we have developed the nano-beam electron diffraction (NBD) method which has a lateral resolution of 10 nm and a strain resolution of 0.1%. In this paper, we discuss a detailed investigation of whether the NBD method could be utilized to clarify a strain in a strained-Si layer on the SGOI structures.

  18. Biochemical analysis of bovine viral diarrhea virus polypeptides and studies of strain variation

    SciTech Connect

    Raisch, K.P.

    1989-01-01

    Intracellular viral-specific polypeptides from the National Animal Disease Laboratory (NADL) strain of bovine viral diarrhea virus were studied by biosynthesis labelling, radioimmunoprecipitation (RIP), hypertonic initiation block (HIB) and polyacrylamide gel electrophoresis (PAGE). Eighteen virus-specific proteins were identified; thirteen were glycosylated (gp170, p135, p130, gp118, gp82, p80, gp74, gp63, gp60, p59, gp53, gp50, gp45, gp42, p37, gp32, gp25 and p22). When glycosylation was inhibited by tunicamycin, five {sup 35}S-methionine labelled proteins displayed increased electrophoretic mobility (gp170 to p165, gp74 to p66, gp53 to p45, gp50 to p42 and gp25 to p20) and four could not be identified. Similar shifts in mobility were observed following in vitro deglycosylation with endoglycosidases H and F indicating that the nine glycoproteins contained N-linked simple or high mannose containing moieties. Biosynthetic labelling in the presence of the ionophore, monensin, or in vitro deglycosylation with the endoglycosidase, O-glycanase, had no effect, which is consistent with the absence of O-linked carbohydrates in BVDV-specific proteins. N-linked glycosylation of BVDV proteins is critical for infectivity, because the virus from cells treated with tunicamycin was devoid of infectivity, whereas the virus from monensin-treated cells was fully infective. Partitioning of p130, p59, gp53-50, and p37 into solutions of Triton X-114 tentatively identified these molecules as partially hydrophobic transmembrane proteins. Biosynthesis in the presence of {sup 3}H-myristate and {sup 3}H-palmitate did not result in specifically labelled viral proteins indicating predominantly noncovalent nature of putative interactions of these proteins with membranes. Partial proteolytic peptide mapping revealed similarities among gp170, p130 and p80 and between gp53 and gp50.

  19. Chlorine inactivation of Salmonella Kentucky isolated from chicken carcasses: Evaluation of strain variation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The inactivation behavior of antibiotic resistant and non-resistant Salmonella Kentucky recovered from pre- and post-chill whole broiler carcasses in a large poultry plant was investigated by the exposure to 30 ppm chlorine for selected time intervals. The antibiotic resistance profiles were non-res...

  20. Investigation of toxin gene diversity and antimicrobial resistance of Clostridium difficile strains

    PubMed Central

    ZHU, SHANSHAN; ZHANG, HUAPING; ZHANG, XINSHENG; WANG, CHAO; FAN, GUANGMING; ZHANG, WEIFENG; SUN, GANG; CHEN, HUIHONG; ZHANG, LIMING; LI, ZHAOYUN

    2014-01-01

    The incidence of Clostridium difficile infection (CDI) has been previously reported in a number of studies. However, data collected from the Chinese population is limited. In the present study, the diversity of the toxin genes, tcdA and tcdB, of 57 Clostridium difficile (C. difficile) isolates from a Chinese population were investigated by polymerase chain reaction (PCR) (38 A+B+, 14 A-B+ and 5 A-B−). Quantitative PCR was used to check the expression of these two genes and it was found that the genes were not expressed by all the strains. The absence of tcdA or tcdB expression in certain strains could be due to the lower expression of tcdD and the higher expression of tcdC, which are positive and negative regulators for these two toxin genes, respectively. In addition, the antimicrobial susceptibilities of 57 isolates were investigated. Therefore, these data would aid in the future prevention of CDI outbreaks and improve the understanding of the infection. PMID:25054021

  1. Investigation of toxin gene diversity and antimicrobial resistance of Clostridium difficile strains.

    PubMed

    Zhu, Shanshan; Zhang, Huaping; Zhang, Xinsheng; Wang, Chao; Fan, Guangming; Zhang, Weifeng; Sun, Gang; Chen, Huihong; Zhang, Liming; Li, Zhaoyun

    2014-09-01

    The incidence of Clostridium difficile infection (CDI) has been previously reported in a number of studies. However, data collected from the Chinese population is limited. In the present study, the diversity of the toxin genes, tcdA and tcdB, of 57 Clostridium difficile (C. difficile) isolates from a Chinese population were investigated by polymerase chain reaction (PCR) (38 A(+)B(+), 14 A(-)B(+) and 5 A(-)B(-)). Quantitative PCR was used to check the expression of these two genes and it was found that the genes were not expressed by all the strains. The absence of tcdA or tcdB expression in certain strains could be due to the lower expression of tcdD and the higher expression of tcdC, which are positive and negative regulators for these two toxin genes, respectively. In addition, the antimicrobial susceptibilities of 57 isolates were investigated. Therefore, these data would aid in the future prevention of CDI outbreaks and improve the understanding of the infection. PMID:25054021

  2. Prediction of variation in d-orbital occupancy in strain induced tetragonal phase of BiFeO3 thin film

    NASA Astrophysics Data System (ADS)

    Verma, Manish; Ram, Kanik

    2016-05-01

    A theoretical study of the possible variation of d-orbital occupancy while going from the rhombohedral bulk phase to the strain induced tetragonal phase of BiFeO3 thin film has been carried out. A possible existence of an intermediate spin (IS) state, S=3/2 and a low spin (LS) state, S=1/2 in the tetragonal phase has been predicted, thereby clearly establishing the role of strain behind the d-orbital occupancy.

  3. Investigation of mid-infrared second harmonic generation in strained germanium waveguides.

    PubMed

    De Leonardis, Francesco; Troia, Benedetto; Soref, Richard A; Passaro, Vittorio M N

    2016-05-16

    In this paper we present a detailed theoretical investigation of second harmonic generation in strained germanium waveguides operating at the mid infrared pump wavelength of 4 μm. The effective second order susceptibility has been estimated through a multiphysics approach considering the residual stress of the SiNx cladding film. Furthermore, general physical features have been investigated by means of a comparative analysis of SHG performance as a function of input pump power, linear and nonlinear phase mismatching, effective recombination carrier lifetime, and temperature, taking into account both continuous and pulsed regimes. Finally, periodically poled germanium devices have been explored with the aim to improve the SHG efficiency. In the same operative conditions, efficiencies of 0.6% and 0.0018% have been obtained in poled and not-poled waveguides, respectively. PMID:27409935

  4. Topographical variations of the strain-dependent zonal properties of tibial articular cartilage by microscopic MRI.

    PubMed

    Lee, Ji Hyun; Badar, Farid; Kahn, David; Matyas, John; Qu, Xianggui; Chen, Christopher T; Xia, Yang

    2014-06-01

    The topographical variations of the zonal properties of canine articular cartilage over the medial tibia were evaluated as the function of external loading by microscopic magnetic resonance imaging (µMRI). T2 and T1 relaxation maps and GAG (glycosaminoglycan) images from a total of 70 specimens were obtained with and without the mechanical loading at 17.6 µm depth resolution. In addition, mechanical modulus and water content were measured from the tissue. For the bulk without loading, the means of T2 at magic angle (43.6 ± 8.1 ms), absolute thickness (907.6 ± 187.9 µm) and water content (63.3 ± 9.3%) on the meniscus-covered area were significantly lower than the means of T2 at magic angle (51.1 ± 8.5 ms), absolute thickness (1251.6 ± 218.4 µm) and water content (73.2 ± 5.6%) on the meniscus-uncovered area. However GAG (86.0 ± 15.3 mg/ml) on the covered area was significantly higher than GAG (70.0 ± 8.8 mg/ml) on the uncovered area. Complex relationships were found in the tissue properties as the function of external loading. The tissue parameters in the superficial zone changed more profoundly than the same properties in the radial zone. The tissue parameters in the meniscus-covered areas changed differently when comparing with the same parameters in the uncovered areas. This project confirms that the load-induced changes in the molecular distribution and structure of cartilage are both depth-dependent and topographically distributed. Such detailed knowledge of the tibial layer could improve the early detection of the subtle softening of the cartilage that will eventually lead to the clinical diseases such as osteoarthritis. PMID:24559385

  5. Investigating the variation of terrestrial water storage under changing climate and land cover

    NASA Astrophysics Data System (ADS)

    Fang, Y.; Niu, G. Y.; Zhang, X.; Troch, P. A. A.

    2015-12-01

    Terrestrial water storage (TWS) consists of groundwater, soil moisture, snow and ice, lakes and rivers and water contained in biomass. The water storage, especially the subsurface storage, is an essential property of the catchment, which controls climate, hydrological and biogeochemical processes at different scales. During the past decades, climate and land cover change has been proved to exert significant influences on hydrological processes which in turn alters the TWS variation. In order to better understand the interaction and feedback mechanism between TWS and earth system, it is necessary to quantify the effects of climate and land cover change on TWS variation. Direct estimation of total TWS has been made possible by the Gravity Recovery And Climate Experiment (GRACE) satellites that measures the earth gravity field. At present, few efforts were made to explicitly investigate the TWS variation under changing climate and land cover. GRACE data has its own limitations. One is its temporal coverage is short, it's only available since 2002, which is not sufficient to reflect the trend due to climate and land cover change. The other reason is that it cannot distinguish different components contributing to TWS. The limitation of TWS observation data can be overcame by numerical models developed to reproduce or to predict different earth system processes. After calibration and validation, with limited observations, these models can be trusted to extend our knowledge to where observations are not available both in time and space. In this study, based on Noah-MP LSM and satellite and ground data, we aim to: (1) Investigate the variation of total TWS as well as its components over Upper Colorado River Basin from 1990 to 2014. (2) Identify the major factors that control the TWS variation. (3) Quantify how the changing climate and land cover affect TWS variation in the same period.

  6. Six low-strain zinc-blende half metals: An ab initio investigation

    NASA Astrophysics Data System (ADS)

    Pask, J. E.; Yang, L. H.; Fong, C. Y.; Pickett, W. E.; Dag, S.

    2003-06-01

    A class of spintronic materials, the zinc-blende (ZB) half metals, has recently been synthesized in thin-film form. We apply all-electron and pseudopotential ab initio methods to investigate the electronic and structural properties of ZB Mn and Cr pnictides and carbides, and find six compounds to be half metallic at or near their respective equilibrium lattice constants, making them excellent candidates for growth at low strain. Based on these findings, we further propose substrates on which the growth may be accomplished with minimum strain. Our findings are supported by the recent successful synthesis of ZB CrAs on GaAs and ZB CrSb on GaSb, where our predicted equilibrium lattice constants are within 0.5% of the lattice constants of the substrates on which the growth was accomplished. We confirm previous theoretical results for ZB MnAs, but find ZB MnSb to be half metallic at its equilibrium lattice constant, whereas previous work has found it to be only nearly so. We report here two low-strain half metallic ZB compounds, CrP and MnC, and suggest appropriate substrates for each. Unlike the other five compounds, we predict ZB MnC to become/remain half metallic with compression rather than expansion, and to exhibit metallicity in the minority- rather than majority-spin channel. These fundamentally different properties of MnC can be connected to substantially greater p-d hybridization and d-d overlap, and correspondingly larger bonding-antibonding splitting and smaller exchange splitting. We examine the relative stability of each of the six ZB compounds against NiAs and MnP structures, and find stabilities for the compounds not yet grown comparable to those already grown.

  7. Occurrence of 20S RNA and 23S RNA replicons in industrial yeast strains and their variation under nutritional stress conditions.

    PubMed

    López, Victoria; Gil, Rosario; Vicente Carbonell, José; Navarro, Alfonso

    2002-04-01

    We have characterized industrial yeast strains used in the brewing, baking, and winemaking industries for the presence or absence of cytoplasmic single-stranded 20S and 23S RNAs. Furthermore, the variation of intracellular concentrations of these replicons in brewing and laboratory strains under nutritional stress conditions was determined. Our results show a correlation between the relative abundance of these replicons and exposure of yeast to nutritionally stressful conditions, indicating that these RNAs could be employed as molecular probes to evaluate the exposure of 20S(+) and/or 23S(+) yeast strains to stress situations during industrial manipulation. During this study, several 20S(-)23S(+) Saccharomyces cerevisiae strains were isolated and identified. This is the first time that a yeast strain containing only 23S RNA has been reported, demonstrating that 20S RNA is not required for 23S RNA replication. PMID:11921103

  8. Uranium dioxide fuel cladding strain investigation with the use of CYGRO-2 computer program

    NASA Technical Reports Server (NTRS)

    Smith, J. R.

    1973-01-01

    Previously irradiated UO2 thermionic fuel pins in which gross fuel-cladding strain occurred were modeled with the use of a computer program to define controlling parameters which may contribute to cladding strain. The computed strain was compared with measured strain, and the computer input data were studied in an attempt to get agreement with measured strain. Because of the limitations of the program and uncertainties in input data, good agreement with measured cladding strain was not attained. A discussion of these limitations is presented.

  9. Investigation of geometric uncertainty introduced dosimetric variation in intensity modulated proton therapy (IMPT) and its intervention

    NASA Astrophysics Data System (ADS)

    Zhang, Miao

    The intensity modulated proton therapy (IMPT) can generate plans with reduced normal tissue toxicity and increased target dose conformity. However, geometric uncertainty associated with the treatment process could introduce large dose variations between the delivered dose distribution and the planned. There are three common types of geometric uncertainty: setup uncertainty, inter-, and intra-fractional organ motion. This thesis work will investigate setup uncertainty and inter-fractional organ motion introduced dose variation and find solutions to minimize such variations. A proton treatment planning system was developed by using Geant4 Monte Carlo toolbox as the dose calculation engine. The setup uncertainty was studied on the head and neck cancer site. Plan delivery simulation shown large dose variation occurred even with small amount of setup uncertainty. Two intervention strategies were investigated: (i) different proton pencil beam sizes, and (ii) the energy margin. By varying proton pencil beam size, we found the larger the beam size the less the dose variation, nevertheless the higher normal tissue dose. The energy margin is a planning strategy incorporating the possible motion effect into the planning stage by assigning proton pencil beams an energy value large enough to guarantee protons will travel to where they are planned. The energy margin solution was tested to be effective to minimize the dose variation in the distal edge tracking (DET) based IMPT. The inter-fractional motion was studied by looking at the daily prostate shift in the prostate cancer treatment. Delivery simulation for prostate cancer IMPT shown large dose variation would result even if the image guidance (IG) technique was used to realign the prostate back to its original location on the planning CT. A novel on-line adaptive image guided IMPT (A-IG-IMPT) technique was proposed to minimize the dose variation. By updating the energy value for individual proton pencil beam from the on

  10. Experimental investigation of stress and strain fields in a ductile matrix surrounding an elastic inclusion

    SciTech Connect

    Nugent, E.E.; Calhoun, R.B.; Mortensen, A.

    2000-04-19

    A method for measuring stress and strain distributions within a ductile material deforming by dislocational slip is developed. The method exploits the transparency and room-temperature ductility of silver chloride, and combines the techniques of photoelasticity and marker tracking. This method is used to investigate the deformation of an elasto-plastic ductile matrix surrounding an isolated stiff fiber, the grain size of the material being slightly smaller than the fiber length. The data are compared to predictions of finite element calculations which take the matrix to be an isotropic elasto-plastic von Mises continuum. It is found that this model does not fully capture all of the features of the experimental data. Data suggest that the cause for observed discrepancies is the strong influence exerted by grain boundaries and grain orientation on the distribution of stress and strain within the matrix. A comparison is also made between the data and predictions of the Eshelby equivalent inclusion calculation, to show that a far higher level of discrepancy results than with the finite element calculations; this is caused by the fact that the Eshelby equivalent inclusion calculation is essentially elastic and thus allows significant stress concentrations.

  11. Quantitative investigation of ligament strains during physical tests for sacroiliac joint pain using finite element analysis.

    PubMed

    Kim, Yoon Hyuk; Yao, Zhidong; Kim, Kyungsoo; Park, Won Man

    2014-06-01

    It may be assumed that the stability is affected when some ligaments are injured or loosened, and this joint instability causes sacroiliac joint pain. Several physical examinations have been used to diagnose sacroiliac pain and to isolate the source of the pain. However, more quantitative and objective information may be necessary to identify unstable or injured ligaments during these tests due to the lack of understanding of the quantitative relationship between the physical tests and the biomechanical parameters that may be related to pains in the sacroiliac joint and the surrounding ligaments. In this study, a three-dimensional finite element model of the sacroiliac joint was developed and the biomechanical conditions for six typical physical tests such as the compression test, distraction test, sacral apex pressure test, thigh thrust test, Patrick's test, and Gaenslen's test were modelled. The sacroiliac joint contact pressure and ligament strain were investigated for each test. The values of contact pressure and the combination of most highly strained ligaments differed markedly among the tests. Therefore, these findings in combination with the physical tests would be helpful to identify the pain source and to understand the pain mechanism. Moreover, the technology provided in this study might be a useful tool to evaluate the physical tests, to improve the present test protocols, or to develop a new physical test protocol. PMID:24378472

  12. Investigation of the Enteric Pathogenic Potential of Oral Campylobacter concisus Strains Isolated from Patients with Inflammatory Bowel Disease

    PubMed Central

    Octavia, Sophie; Day, Andrew S.; Riordan, Stephen M.; Grimm, Michael C.; Lan, Ruiting; Lemberg, Daniel; Tran, Thi Anh Tuyet; Zhang, Li

    2012-01-01

    Background Campylobacter concisus, a bacterium colonizing the human oral cavity, has been shown to be associated with inflammatory bowel disease (IBD). This study investigated if patients with IBD are colonized with specific oral C. concisus strains that have potential to cause enteric diseases. Methodology Seventy oral and enteric C. concisus isolates obtained from eight patients with IBD and six controls were examined for housekeeping genes by multilocus sequence typing (MLST), Caco2 cell invasion by gentamicin-protection-assay, protein analysis by mass spectrometry and SDS-PAGE, and morphology by scanning electron microscopy. The whole genome sequenced C. concisus strain 13826 which was isolated from an individual with bloody diarrhea was included in MLST analysis. Principal Findings MLST analysis showed that 87.5% of individuals whose C. concisus belonged to Cluster I had inflammatory enteric diseases (six IBD and one with bloody diarrhea), which was significantly higher than that in the remaining individuals (28.6%) (P<0.05). Enteric invasive C. concisus (EICC) oral strain was detected in 50% of patients with IBD and none of the controls. All EICC strains were in Cluster 1. The C. concisus strain colonizing intestinal tissues of patient No. 1 was closely related to the oral C. concisus strain from patient No. 6 and had gene recombination with the patient’s own oral C. concisus. The oral and intestinal C. concisus strains of patient No. 3 were the same strain. Some individuals were colonized with multiple oral C. concisus strains that have undergone natural recombination. Conclusions This study provides the first evidence that patients with IBD are colonized with specific oral C. concisus strains, with some being EICC strains. C. concisus colonizing intestinal tissues of patients with IBD at least in some instances results from an endogenous colonization of the patient’s oral C. concisus and that C. concisus strains undergo natural recombination. PMID

  13. Investigation of Variation in Gene Expression Profiling of Human Blood by Extended Principle Component Analysis

    PubMed Central

    Wu, Fei; Liu, Fang; Ye, Xun; Mougin, Bruno; Meng, Xia; Du, Xiang

    2011-01-01

    Background Human peripheral blood is a promising material for biomedical research. However, various kinds of biological and technological factors result in a large degree of variation in blood gene expression profiles. Methodology/Principal Findings Human peripheral blood samples were drawn from healthy volunteers and analysed using the Human Genome U133Plus2 Microarray. We applied a novel approach using the Principle Component Analysis and Eigen-R2 methods to dissect the overall variation of blood gene expression profiles with respect to the interested biological and technological factors. The results indicated that the predominating sources of the variation could be traced to the individual heterogeneity of the relative proportions of different blood cell types (leukocyte subsets and erythrocytes). The physiological factors like age, gender and BMI were demonstrated to be associated with 5.3% to 9.2% of the total variation in the blood gene expression profiles. We investigated the gene expression profiles of samples from the same donors but with different levels of RNA quality. Although the proportion of variation associated to the RNA Integrity Number was mild (2.1%), the significant impact of RNA quality on the expression of individual genes was observed. Conclusions By characterizing the major sources of variation in blood gene expression profiles, such variability can be minimized by modifications to study designs. Increasing sample size, balancing confounding factors between study groups, using rigorous selection criteria for sample quality, and well controlled experimental processes will significantly improve the accuracy and reproducibility of blood transcriptome study. PMID:22046403

  14. Investigation of flaw geometry and loading effects on plane strain fracture in metallic structures

    NASA Technical Reports Server (NTRS)

    Hall, L. R.; Finger, R. W.

    1971-01-01

    The effects on fracture and flaw growth of weld-induced residual stresses, combined bending and tension stresses, and stress fields adjacent to circular holes in 2219-T87 aluminum and 5AI-2.5Sn(ELI) titanium alloys were evaluated. Static fracture tests were conducted in liquid nitrogen; fatigue tests were performed in room air, liquid nitrogen, and liquid hydrogen. Evaluation of results was based on linear elastic fracture mechanics concepts and was directed to improving existing methods of estimating minimum fracture strength and fatigue lives for pressurized structure in spacecraft and booster systems. Effects of specimen design in plane-strain fracture toughness testing were investigated. Four different specimen types were tested in room air, liquid nitrogen and liquid hydrogen environments using the aluminum and titanium alloys. Interferometry and holograph were used to measure crack-opening displacements in surface-flawed plexiglass test specimens. Comparisons were made between stress intensities calculated using displacement measurements, and approximate analytical solutions.

  15. An Evaluation of Constitutive Laws and their Ability to Predict Flow Stress over Large Variations in Temperature, Strain, and Strain Rate Characteristic of Friction Stir Welding

    NASA Astrophysics Data System (ADS)

    Kuykendall, Katherine

    2011-07-01

    Constitutive laws commonly used to model friction stir welding have been evaluated, both qualitatively and quantitatively, and a new application of a constitutive law which can be extended to materials commonly used in FSW is presented. Existing constitutive laws have been classified as path-dependent or path-independent. Path-independent laws have been further classified according to the physical phenomena they capture: strain hardening, strain rate hardening, and/or thermal softening. Path-dependent laws can track gradients in temperature and strain rate characteristic to friction stir welding; however, path-independent laws cannot. None of the path-independent constitutive laws evaluated has been validated over the full range of strain, strain rate, and temperature in friction stir welding. Holding all parameters other than constitutive law constant in a friction stir weld model resulted in temperature differences of up to 21%. Varying locations for maximum temperature difference indicate that the constitutive laws resulted in different temperature profiles. The Sheppard and Wright law is capable of capturing saturation but incapable of capturing strain hardening with errors as large as 57% near yield. The Johnson-Cook law is capable of capturing strain hardening; however, its inability to capture saturation causes over-predictions of stress at large strains with errors as large as 37% near saturation. The Kocks and Mecking model is capable of capturing strain hardening and saturation with errors less than 5% over the entire range of plastic strain. The Sheppard and Wright and Johnson-Cook laws are incapable of capturing transients characteristic of material behavior under interrupted temperature or strain rate. The use of a state variable in the Kocks and Mecking law allows it to predict such transients. Constants for the Kocks and Mecking model for AA 5083, AA 3004, and Inconel 600 were determined from Atlas of Formability data. Constants for AA 5083 and AA

  16. Investigation of Strain Aging in the Ordered Intermetallic Compound beta-NiAl. Ph.D. Thesis Final Contractor Report

    NASA Technical Reports Server (NTRS)

    Weaver, Mark Lovell

    1995-01-01

    The phenomenon of strain aging has been investigated in polycrystalline and single crystal NiAl alloys at temperatures between 300 and 1200 K. Static strain aging studies revealed that after annealing at 1100 K for 7200 s (i.e., 2h) followed by furnace cooling, high purity, nitrogen-doped and titanium-doped polycrystalline alloys exhibited continuous yielding, while conventional-purity and carbon-doped alloys exhibited distinct yield points and Luders strains. Prestraining by hydrostatic pressurization removed the yield points, but they could be reintroduced by further annealing treatments. Yield points could be reintroduced more rapidly if the specimens were prestrained uniaxially rather than hydrostatically, owing to the arrangement of dislocations into cell structures during uniaxial deformation. The time dependence of the strain aging events followed at t(exp 2/3) relationship suggesting that the yield points observed in polycrystalline NiAl were the result of the pinning of mobile dislocations by interstitials, specifically carbon. Between 700 and 800 K, yield stress plateaus, yield stress transients upon a ten-fold increase in strain rate, work hardening peaks, and dips in the strain rate sensitivity (SRS) have been observed in conventional-purity and carbon-doped polycrystals. In single crystals, similar behavior was observed; in conventional-purity single crystals, however, the strain rate sensitivity became negative resulting in serrated yielding, whereas, the strain rate sensitivity stayed positive in high purity and in molybdenum-doped NiAl. These observations are indicative of dynamic strain aging (DSA) and are discussed in terms of conventional strain aging theories. The impact of these phenomena on the composition-structure-property relations are discerned. Finally, a good correlation has been demonstrated between the properties of NiAl alloys and a recently developed model for strain aging in metals and alloys developed by Reed-Hill et al.

  17. Investigation of TEC Variations over Mid-Latitude during Quit and Disturbed Days of March 2015

    NASA Astrophysics Data System (ADS)

    Atıcı, Ramazan; Saǧır, Selçuk; Güzel, Esat

    2016-07-01

    The variations during 09-14-March-2015 quit days and 15-20 March 2015 disturbed days of Total Electron Content (TEC) values (provided by IONOLAB group) obtained by analysis the data from Ankara Global Position System (GPS) station of Turkey located at mid-latitude, IRI -2012 model the and IRI-PLUS model are investigated. Also, the variations of the geomagnetic, interplanetary and solar wind parameters are examined. As a result of investigations, TEC values from all three models are not change too much at quit days. Unlike, at the disturbed days, although IRI-2012 and IRI-PLUS TEC values are not change too much, a noticeable change in GPS-TEC values is occurred. GPS-TEC values are rapidly increased on 17-March 2015 to be severe magnetic storm (Dst = -124 nT). Then, on following days it was observed to significantly decrease. Thus, it is said that GPS-TEC values are more sensitive than IRI-2012 and IRI-PLUS models to variations occurred on disturbed days.

  18. Strain variations in the murine cellular immune response to the phenolic glycolipid I antigen of Mycobacterium leprae.

    PubMed Central

    Koster, F T; Teuscher, C; Matzner, P; Umland, E; Yanagihara, D; Brennan, P J; Tung, K S

    1986-01-01

    The cellular immune response to the Mycobacterium leprae-specific phenolic glycolipid I was examined in inbred mice immunized with M. leprae by in vivo delayed cutaneous hypersensitivity and in vitro lymphocyte proliferation. Whereas all mouse strains responded to M.leprae-induced delayed-type hypersensitivity and lymphocyte proliferation, only BALB.K was responsive in both assays to the glycolipid. Responsiveness was determined in part by non-H-2 genes, while the influence of H-2 genes was not apparent. Among congenic BALB/c mice differing only at Igh-C allotype loci, variations in responsiveness were found in both delayed-type hypersensitivity and lymphocytes proliferation assays, indicating a possible role for Igh-C loci-linked genes. Unresponsiveness in the lymphocyte proliferation assay to the glycolipid was inherited as a dominant trait in one set of responder X nonresponder F1 progeny. We conclude that after immunization with M. leprae organisms, the cell-mediated responses to the glycolipid, endowed with a single carbohydrate epitope, are under polygenic control, predominantly non-H-2-linked genes. PMID:3510979

  19. Investigation of TEC variations over the magnetic equatorial and equatorial anomaly regions of the African sector

    NASA Astrophysics Data System (ADS)

    Oryema, B.; Jurua, E.; D'ujanga, F. M.; Ssebiyonga, N.

    2015-11-01

    This paper presents the annual, seasonal and diurnal variations in ionospheric TEC along the African equatorial region. The study also investigated the effects of a geomagnetic storm on ionospheric TEC values. Dual-frequency GPS derived TEC data obtained from four stations within the African equatorial region for the high solar activity year 2012 were used in this study. Annual variations showed TEC having two peaks in the equinoctial months, while minima values were observed in the summer and winter solstices. The diurnal pattern showed a pre-dawn minimum, a steady increase from about sunrise to an afternoon maximum and then a gradual fall after sunset to attain a minimum just before sunrise. Nighttime enhancements of TEC were observed mostly in the equinoctial months. There was comparably higher percentage TEC variability during nighttime than daytime and highest during equinoxes, moderate in winter and least during summer solstice. TEC was observed to exhibit a good correlation with geomagnetic storm indices.

  20. Investigation of photospheric temperature gradient variations using limb darkening measurements and simulations

    NASA Astrophysics Data System (ADS)

    Criscuoli, Serena; Foukal, Peter V.

    2016-05-01

    The temperature stratifications of magnetic elements and unmagnetized plasma are different, so that changes of the facular and network filling factor over the cycle modify the average temperature gradient in the photosphere.Such variations have been suggested to explain irradiance measurements obtained by the SIM spectrometers in he visible and infrared spectral ranges. On the other hand, limb darkening measurements show no dependence upon activity level. We investigate the sensitivity of limb darkening to changes in network area filling factor using a 3-D MHD model of the magnetized photosphere. We find that the expected limb darkening change due to the measured 11- yr variation in filling factor lies outside the formal 99% confidence limit of the limb darkening measurements. This poses important constraints for observational validation of 3D-MHD simulations.

  1. [Investigation of plasmid-mediated quinolone resistance in Escherichia coli strains].

    PubMed

    Aktepe, Orhan Cem; Aşık, Gülşah; Cetinkol, Yeliz; Biçmen, Meral; Gülay, Zeynep

    2012-01-01

    Quinolones are widely used antimicrobial agents, particularly for the treatment of infections caused by gram-negative bacilli such as E.coli. As a consequence, quinolone resistance has been increasing among this species in recent years. Bacterial resistance to quinolones usually results from mutations in the chromosomal genes which encode topoisomerases and also the expression of efflux pumps and loss of porines contributed to development of quinolone resistance. However, recent studies have shown that the spread and increase of quinolone resistance may be due to the transfer of plasmid-mediated genes. To date, three groups of plasmid-mediated quinolone resistance genes, namely qnr, aac(6')-Ib-cr, and qepA, have been described. The aim of this study was to investigate the presence of plasmid-mediated quinolone resistance genes in E.coli clinical isolates. A total of 112 quinolone-resistant E.coli strains isolated from different clinical specimens (84 urine, 16 blood, 10 wound, 2 bronchoalveolar lavage) of which 78 (69.6%) were extended-spectrum beta-lactamase (ESBL) positive, in Afyon Kocatepe University Hospital, Microbiology Laboratory were included in the study. In the isolates, qnrA, qnrB, qnrS, qnrC, qepA, and aac(6')-1b-cr plasmid genes were analysed by polymerase chain reaction (PCR). After aac(6')- 1b determinant was amplified by PCR, all aac(6')-1b positive amplicons were analyzed by digestion with BseGI restriction enzyme to identify aac(6')-1b-cr variant. It was found that, none of the strains horboured qnrA, qnrB, qnrS, qnrC and qepA genes, however, plasmid-mediated quinolone resistance gene aac(6')-1b-cr was found positive in 59.8% (67/112) of the strains. It was notable that 86.6% (58/67) of those isolates were ESBL producers. The rates of quinolone resistance among E.coli isolates infections were high in our region and an increasing trend has been observed in recent years. Our data indicated that the presence of plasmid- mediated resistance genes

  2. Full-Field Strain Methods for Investigating Failure Mechanisms in Triaxial Braided Composites

    NASA Technical Reports Server (NTRS)

    Littell, Justin D.; Binienda, Wieslaw K.; Goldberg, Robert K.; Roberts, Gary D.

    2008-01-01

    Recent advancements in braiding technology have led to commercially viable manufacturing approaches for making large structures with complex shape out of triaxial braided composite materials. In some cases, the static load capability of structures made using these materials has been higher than expected based on material strength properties measured using standard coupon tests. A more detailed investigation of deformation and failure processes in large-unit-cell-size triaxial braid composites is needed to evaluate the applicability of standard test methods for these materials and to develop alternative testing approaches. This report presents some new techniques that have been developed to investigate local deformation and failure using digital image correlation techniques. The methods were used to measure both local and global strains during standard straight-sided coupon tensile tests on composite materials made with 12- and 24-k yarns and a 0 /+60 /-60 triaxial braid architecture. Local deformation and failure within fiber bundles was observed and correlations were made between these local failures and global composite deformation and strength.

  3. Investigation on vibration of single-walled carbon nanotubes by variational iteration method

    NASA Astrophysics Data System (ADS)

    Ahmadi Asoor, A. A.; Valipour, P.; Ghasemi, S. E.

    2016-02-01

    In this paper, the variational iteration method (VIM) has been used to investigate the non-linear vibration of single-walled carbon nanotubes (SWCNTs) based on the nonlocal Timoshenko beam theory. The accuracy of results is examined by the fourth-order Runge-Kutta numerical method. Comparison between VIM solutions with numerical results leads to highly accurate solutions. Also, the behavior of deflection and frequency in vibrations of SWCNTs are studied. The results show that frequency of single walled carbon nanotube versus amplitude increases by increasing the values of B.

  4. Photomechanical investigations on the stress-strain relationship in dentine macrostructure.

    PubMed

    Kishen, A; Asundi, A

    2005-01-01

    In this study photomechanical experiments were carried out to examine the relationship between macroscopic mechanical stress and strain gradients within the root dentine structure. Three-dimensional digital photoelasticity was used to study the stress distribution patterns in tooth models, while digital moire interferometry was used to study the strain gradients within the natural teeth. The stress analysis showed a distinct bending stress distribution, along faciolingual plane in the coronal and cervical regions of the tooth. There was a reduction in bending towards the apical third of the tooth model. The strain analysis displayed strain gradients in the axial (along the long axis of the tooth) and lateral (perpendicular to the long axis of the tooth) directions in dentine. There was a conspicuous reduction in strains from the cervical to the apical third of the root dentine. The root dentine displayed uniform distribution of normal strains. Although there was a steep increase in stresses from the inner core region to the outer surface of an isotropic tooth model, there were more uniform strain gradients in the natural dentine structure. It is apparent from these observations that complex organization of material properties facilitated distinct strain gradients in dentine structure during mechanical functions. PMID:16229654

  5. Genomic Investigation into Strain Heterogeneity and Pathogenic Potential of the Emerging Gastrointestinal Pathogen Campylobacter ureolyticus

    PubMed Central

    Bullman, Susan; Lucid, Alan; Corcoran, Daniel; Sleator, Roy D.; Lucey, Brigid

    2013-01-01

    The recent detection and isolation of C. ureolyticus from patients with diarrhoeal illness and inflammatory bowel diseases warrants further investigation into its role as an emerging pathogen of the human gastrointestinal tract. Regarding the pathogenic mechanisms employed by this species we provide the first whole genome analysis of two C. ureolyticus isolates including the type strain. Comparative analysis, subtractive hybridisation and gene ontology searches against other Campylobacter species identifies the high degree of heterogenicity between C. ureolyticus isolates, in addition to the identification of 106 putative virulence associated factors, 52 of which are predicted to be secreted. Such factors encompass each of the known virulence tactics of pathogenic Campylobacter spp. including adhesion and colonisation (CadF, PEB1, IcmF and FlpA), invasion (ciaB and 16 virB-virD4 genes) and toxin production (S-layer RTX and ZOT). Herein, we provide the first virulence catalogue for C. ureolyticus, the components of which theoretically provide this emerging species with sufficient arsenal to establish pathology. PMID:24023611

  6. Investigation of mycoviruses in endophytic and phytopathogenic strains of Colletotrichum from different hosts.

    PubMed

    Rosseto, P; Costa, A T; Polonio, J C; da Silva, A A; Pamphile, J A; Azevedo, J L

    2016-01-01

    Fungi belonging to the Colletotrichum genus can be categorized as endophytic or phytopathogenic. These fungi can be infected by viruses, termed mycoviruses, which are know to promote hypovirulence in infected fungi. However, there are few studies that have described mycoviral infections of endophytes. The production of secondary metabolites by endophytes with antimicrobial potential in inhibiting numerous pathogens has gained increasing attention. The aim of the current study was to investigate the presence of mycoviruses in endophytic and phytopathogenic fungi of the Colletotrichum genus, as well as to analyze the antimicrobial activity of crude extracts obtained from these samples. To detect the presence of mycoviruses in the samples, dsRNA was extracted, treated with enzymes, and analyzed following electrophoresis in agarose gel. Furthermore, isometric mycoviral particles were observed by transmission electron microscopy. Serial microdilution methodology was used to test crude extracts of Colletotrichum spp for antibacterial activity against Escherichia coli and Staphylococcus aureus, and antifungal activity against Fusarium solani. The results of the molecular and microscopic analyses indicated that a phytopathogenic strain presented infection by mycovirus. The antibacterial activity analysis revealed that the minimum inhibitory concentrations and minimum bactericidal concentrations were low for the fungal extracts of the two endophytes, indicating that these extracts were effective antibacterial agents. However, their antifungal activity against F. solani was not statistically different compared to that of the negative control. PMID:26985921

  7. Study of µm-scale spatial variations in strain of a compositionally step-graded InxGa1 - xAs/GaAs(001) heterostructure

    NASA Astrophysics Data System (ADS)

    Rammohan, K.; Rich, D. H.; Goldman, R. S.; Chen, J.; Wieder, H. H.; Kavanagh, K. L.

    1995-02-01

    The relaxation of strain in compositionally step-graded InxGa1-xAs layers grown on GaAs(001) has been examined with cathodoluminescence (CL) wavelength and linearly polarized imaging approaches. A polarization anisotropy in CL is found, and this correlates with spectral shifts in the peak positions of excitonic luminescence. Varying asymmetries in misfit dislocation densities from transmission electron microscopy are found to be consistent with the μm-scale spatial variations in strain that is deduced from the CL.

  8. Variation in Indole-3-Acetic Acid Production by Wild Saccharomyces cerevisiae and S. paradoxus Strains from Diverse Ecological Sources and Its Effect on Growth

    PubMed Central

    Liu, Yen-Yu; Chen, Hung-Wei; Chou, Jui-Yu

    2016-01-01

    Phytohormone indole-3-acetic acid (IAA) is the most common naturally occurring and most thoroughly studied plant growth regulator. Microbial synthesis of IAA has long been known. Microbial IAA biosynthesis has been proposed as possibly occurring through multiple pathways, as has been proven in plants. However, the biosynthetic pathways of IAA and the ecological roles of IAA in yeast have not been widely studied. In this study, we investigated the variation in IAA production and its effect on the growth of Saccharomyces cerevisiae and its closest relative Saccharomyces paradoxus yeasts from diverse ecological sources. We found that almost all Saccharomyces yeasts produced IAA when cultured in medium supplemented with the primary precursor of IAA, L-tryptophan (L-Trp). However, when cultured in medium without L-Trp, IAA production was only detected in three strains. Furthermore, exogenous added IAA exerted stimulatory and inhibitory effects on yeast growth. Interestingly, a negative correlation was observed between the amount of IAA production in the yeast cultures and the IAA inhibition ratio of their growth. PMID:27483373

  9. Full-field Strain Methods for Investigating Failure Mechanisms in Triaxial Braided Composites

    NASA Technical Reports Server (NTRS)

    Littell, Justin D.; Binienda, Wieslaw K.; Goldberg, Robert K.; Roberts, Gary D.

    2008-01-01

    Composite materials made with triaxial braid architecture and large tow size carbon fibers are beginning to be used in many applications, including composite aircraft and engine structures. Recent advancements in braiding technology have led to commercially viable manufacturing approaches for making large structures with complex shape. Although the large unit cell size of these materials is an advantage for manufacturing efficiency, the fiber architecture presents some challenges for materials characterization, design, and analysis. In some cases, the static load capability of structures made using these materials has been higher than expected based on material strength properties measured using standard coupon tests. A potential problem with using standard tests methods for these materials is that the unit cell size can be an unacceptably large fraction of the specimen dimensions. More detailed investigation of deformation and failure processes in large unit cell size triaxial braid composites is needed to evaluate the applicability of standard test methods for these materials and to develop alternative testing approaches. In recent years, commercial equipment has become available that enables digital image correlation to be used on a more routine basis for investigation of full field 3D deformation in materials and structures. In this paper, some new techniques that have been developed to investigate local deformation and failure using digital image correlation techniques are presented. The methods were used to measure both local and global strains during standard straight-sided coupon tensile tests on composite materials made with 12 and 24 k yarns and a 0/+60/-60 triaxial braid architecture. Local deformation and failure within fiber bundles was observed, and this local failure had a significant effect on global stiffness and strength. The matrix material had a large effect on local damage initiation for the two matrix materials used in this investigation

  10. Investigating strength of materials at very high strain rates using magnetically driven expanding cylinders

    NASA Astrophysics Data System (ADS)

    Lovinger, Zev; Nemirovsky, Ron; Avriel, Eyal; Dorogoy, Avraham; Ashuach, Yehezkel; Rittel, Daniel

    2015-09-01

    Dynamic characterization of strength properties is done, in common practice by the means of a Split-Hopkinson Pressure Bar (also named Kolsky-Bar) apparatus. In such systems, strain rates are limited up to ˜ 5 ṡ 103 sec-1. For higher strain rates, the strain rate hardening is assumed to be the same as that measured at lower rates, with no direct measurement to validate the assumptions used for this extrapolation. In this work we are using a pulsed current generator (PCG) to create electro-magnetic (EM) driving forces on expanding cylinders. Most standard techniques for creating EM driving forces on cylinders or rings, as reported in the literature, reach strain rates of 1e3-1e4. Using our PCG, characterized by a fast rise time, we reach strain rates of ˜1e5, thus paving the way to a standard technique to measure strength at very high strain rates. To establish the experimental technique, we conducted a numerical study of the expanding cylinder set up using 2D hydrodynamic simulations to reach the desired high strain rates.

  11. Evaluation of mosquito densoviruses for controlling Aedes aegypti (Diptera: Culicidae): variation in efficiency due to virus strain and geographic origin of mosquitoes.

    PubMed

    Hirunkanokpun, Supanee; Carlson, Jonathan O; Kittayapong, Pattamaporn

    2008-05-01

    Four mosquito densovirus strains were assayed for mortality and infectivity against Aedes aegypti larvae from different geographic regions. The viral titers were quantified by real-time PCR using TaqMan technology. Firstinstar larvae were exposed to the same titer of each densovirus strain for 48 hours. All strains of densoviruses exhibited larvicidal activity and caused more than 80% mortality and infectivity in the three mosquito strains. AalDNV-exposed larvae had the highest mortality rate. The mean time to death of AalDNV-exposed larvae was shorter than other DNVs-exposed larvae. We can conclude that different densovirus strains exhibit some variations in their pathogenicity to different populations of Ae. aegypti mosquitoes. A few mosquitoes from Chachoengsao and Bangkok exposed to AeDNV and AThDNV survived to the adult stage to lay eggs and showed 22% to 50% vertical transmission in the F1 generation. Phylogenetic analysis of four densovirus strains indicated that mosquito densoviruses are separated into two distinct clades. PMID:18458314

  12. Strain Effects on Enhanced Hydrogen Sulphide Detection Capability of Ag-DECORATED Defective Graphene: a First-Principles Investigation

    NASA Astrophysics Data System (ADS)

    Qin, Xian; Meng, Qingyuan; Feng, Yuan Ping

    2012-10-01

    Strain effects on hydrogen sulphide (H2S) adsorption on Ag-decorated Stone-Wales (SW) defect in graphene were investigated by density functional theory calculations. The results indicate that an Ag adatom is easily pinned chemically on the top of the most stretched C-C bond at the SW defect in graphene without mechanical strains. A modest uniform tensile strain (8%) applied in defective graphene greatly increases the binding energy of Ag by 44%, indicating the strain enhanced stabilization of Ag on SW defect. Using the resulting Ag-decorated defective graphene (Ag-SW-g) composite as a model for H2S molecule detection, we found that the tensile strain has little effects on the interaction between the molecule and the composite, and the adsorption energies of H2S around 1.6 eV which is six times larger than that on pristine graphene are produced. The enhanced H2S adsorption on Ag-SW-g is attributed to charge transfer from the molecule to the graphene through the bridge-like Ag adatom. In addition, the electronic property of the Ag-SW-g under different strains changes from a metallic state to a semiconductor state upon H2S adsorption, which should lead to an observable change in its conductivity. These findings pave the way for future development of graphene-based gas sensor.

  13. The Photoelastic Investigation of Three-dimensional Stress and Strain Conditions

    NASA Technical Reports Server (NTRS)

    Oppel, G

    1937-01-01

    The present report contains the description and typical application of two photoelastic methods which are suitable for the study of stress and strain conditions in three dimensions, namely: the fixation method and the immersion method.

  14. A novel platform for in situ investigation of cells and tissues under mechanical strain.

    PubMed

    Ahmed, W W; Kural, M H; Saif, T A

    2010-08-01

    The mechanical micro-environment influences cellular responses such as migration, proliferation, differentiation and apoptosis. Cells are subjected to mechanical stretching in vivo, e.g., epithelial cells during embryogenesis. Current methodologies do not allow high-resolution in situ observation of cells and tissues under applied strain, which may reveal intracellular dynamics and the origin of cell mechanosensitivity. A novel polydimethylsiloxane substrate was developed, capable of applying tensile and compressive strain (up to 45%) to cells and tissues while allowing in situ observation with high-resolution optics. The strain field of the substrate was characterized experimentally using digital image correlation, and the deformation was modeled by the finite element method, using a Mooney-Rivlin hyperelastic constitutive relation. The substrate strain was found to be uniform for >95% of the substrate area. As a demonstration of the system, mechanical strain was applied to single fibroblasts transfected with GFP-actin and whole transgenic Drosophila embryos expressing GFP in all neurons during live imaging. Three observations of biological responses due to applied strain are reported: (1) dynamic rotation of intact actin stress fibers in fibroblasts; (2) lamellipodia activity and actin polymerization in fibroblasts; (3) active axonal contraction in Drosophila embryo motor neurons. The novel platform may serve as an important tool in studying the mechanoresponse of cells and tissues, including whole embryos. PMID:20188869

  15. Investigation of genes involved in nisin production in Enterococcus spp. strains isolated from raw goat milk.

    PubMed

    Perin, Luana Martins; Todorov, Svetoslav Dimitrov; Nero, Luís Augusto

    2016-09-01

    Different strains of Lactococcus lactis are capable of producing the bacteriocin nisin. However, genetic transfer mechanisms allow the natural occurrence of genes involved in nisin production in members of other bacterial genera, such as Enterococcus spp. In a previous study, nisA was identified in eight enterococci capable of producing antimicrobial substances. The aim of this study was to verify the presence of genes involved in nisin production in Enterococcus spp. strains, as well as nisin expression. The nisA genes from eight Enterococcus spp. strains were sequenced and the translated amino acid sequences were compared to nisin amino-acid sequences previously described in databases. Although containing nisin structural and maturation related genes, the enterococci strains tested in the present study did not present the immunity related genes (nisFEG and nisI). The translated sequences of nisA showed some point mutations, identical to those presented by Lactococcus strains isolated from goat milk. All enterococci were inhibited by nisin, indicating the absence of immunity and thus that nisin cannot be expressed. This study demonstrated for the first time the natural occurrence of nisin structural genes in Enterococcus strains and highlights the importance of providing evidence of a link between the presence of bacteriocin genes and their expression. PMID:27255139

  16. XRD investigation of the strain/stress state of ion-irradiated crystals

    NASA Astrophysics Data System (ADS)

    Debelle, Aurélien; Declémy, Alain

    2010-05-01

    In this work, it is demonstrated that XRD is a powerful technique for the study of ion-irradiated materials. For this purpose, XRD experiments have been performed under different configurations on a <1 0 0>-oriented yttria-stabilized zirconia single crystal implanted with 300 keV caesium-ions at 3 × 10 14 cm -2. Initially, it is demonstrated that the depth strain profile can be determined from the refinement of a symmetric θ-2 θ scan. Moreover, in order to explore the whole XRD data, a model that describes the strain/stress state of the damaged layer is proposed. This model takes into account the elastic response of the bulk material (substrate) underneath the irradiated layer. The measured elastic strain is then the sum of a free strain due to the formation of radiation-induced defects and of an additional strain arising from the substrate elastic reaction. Application of this model allowed the calculation of the different strain contributions and the stress experienced by the irradiated layer. It is shown that these parameters may reach large values (respectively 0.7% and -1.9 GPa) despite the low radiation damage level.

  17. Investigation of dielectric pocket induced variations in tunnel field effect transistor

    NASA Astrophysics Data System (ADS)

    Upasana; Narang, Rakhi; Saxena, Manoj; Gupta, Mridula

    2016-04-01

    The performance of conventional Tunnel FETs struggling from ambipolar issues, insufficient on-current, lower transconductance value, higher delay and lower cut off frequency has been improved by introducing several material and device engineering concepts in past few years. Keeping this in view, another interesting and reliable option i.e. Dielectric Pocket TFET (featuring a dielectric pocket placement near tunneling junction) has been comprehensively and qualitatively demonstrated using ATLAS device simulator. The architecture has been explored in terms of various device electrostatic parameters such as potential, energy band profile, electron and hole concentration, electric field variation and band to band generation rate (GBTB) near the tunneling junction where the Dielectric Pocket (DP) has been introduced. Subsequently, a detailed investigation by changing the position and dielectric constant of pocket at respective junctions has been made where DP induced variations in drain current, transconductance and parasitic capacitance have been examined. The work highlights major improvements over conventional TFET in terms of lower subthreshold swing and threshold voltage, higher drain current and transconductance, improved on-to-off current ratio, suppressed ambipolar conduction and improved dynamic power dissipation issues for low voltage analog and digital applications.

  18. A preliminary investigation into the genetic variation and population structure of Taenia hydatigena from Sardinia, Italy.

    PubMed

    Boufana, Belgees; Scala, Antonio; Lahmar, Samia; Pointing, Steve; Craig, Philip S; Dessì, Giorgia; Zidda, Antonella; Pipia, Anna Paola; Varcasia, Antonio

    2015-11-30

    Cysticercosis caused by the metacestode stage of Taenia hydatigena is endemic in Sardinia. Information on the genetic variation of this parasite is important for epidemiological studies and implementation of control programs. Using two mitochondrial genes, the cytochrome c oxidase subunit 1 (cox1) and the NADH dehydrogenase subunit 1 (ND1) we investigated the genetic variation and population structure of Cysticercus tenuicollis from Sardinian intermediate hosts and compared it to that from other hosts from various geographical regions. The parsimony cox1 network analysis indicated the existence of a common lineage for T. hydatigena and the overall diversity and neutrality indices indicated demographic expansion. Using the cox1 sequences, low pairwise fixation index (Fst) values were recorded for Sardinian, Iranian and Palestinian sheep C. tenuicollis which suggested the absence of genetic differentiation. Using the ND1 sequences, C. tenuicollis from Sardinian sheep appeared to be differentiated from those of goat and pig origin. In addition, goat C. tenuicollis were genetically different from adult T. hydatigena as indicated by the statistically significant Fst value. Our results are consistent with biochemical and morphological studies that suggest the existence of variants of T. hydatigena. PMID:26296591

  19. Impact of variation in acute virulence of BVDV1 strains on design of better vaccine efficacy challenge models

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Due to antigenic differences between BVDV1 and BVDV2 strains both pestivirus species are included in U.S. vaccines. The efficacy of these vaccines in preventing acute infections is evaluated based on reduction of clinical disease. While high virulence BVDV2 strains are used in U.S. vaccine efficac...

  20. Quantitative Differences in Salivary Pathogen Load during Tick Transmission Underlie Strain-Specific Variation in Transmission Efficiency of Anaplasma marginale

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The relative fitness of arthropod-borne pathogens within the vector can be a major determinant of pathogen prevalence within the mammalian host population. Strains of the tick-borne rickettsia Anaplasma marginale differ markedly in transmission efficiency with consequent impact on pathogen strain st...

  1. CagA C-terminal variations in Helicobacter pylori strains from Colombian patients with gastric precancerous lesions

    PubMed Central

    Sicinschi, L. A.; Correa, P.; Peek, R. M.; Camargo, M. C.; Piazuelo, M. B.; Romero-Gallo, J.; Hobbs, S. S.; Krishna, U.; Delgado, A.; Mera, R.; Bravo, L. E.; Schneider, B. G.

    2010-01-01

    The C-terminus of the Helicobacter pylori CagA protein is polymorphic, bearing different EPIYA sequences (EPIYA-A, B, C or D), and one or more CagA multimerization (CM) motifs. The number of EPIYA-C motifs is associated with precancerous lesions and gastric cancer (GC). The relationship between EPIYA, CM motifs and gastric lesions was examined in H. pylori-infected Colombian patients from areas of high and low risk for GC. Genomic DNA was extracted from H. pylori strains cultured from gastric biopsies from 80 adults with dyspeptic symptoms. Sixty-seven (83.8%) of 80 strains were cagA positive. The 3′ region of cagA was sequenced, and EPIYA and CM motifs were identified. CagA proteins contained one (64.2%), two (34.3%) or three EPIYA-C motifs (1.5%), all with Western type CagA-specific sequences. Strains with one EPIYA-C motif were associated with less severe gastric lesions (non-atrophic and multifocal atrophic gastritis), whereas strains with multiple EPIYA-C motifs were associated with more severe lesions (intestinal metaplasia and dysplasia) (p <0.001). In 54 strains, the CM motifs were identical to those common in Western strains. Thirteen strains from the low-risk area contained two different CM motifs: one of Western type located within the EPIYA-C segment and another following the EPIYA-C segment and resembling the CM motif found in East Asian strains. These strains induced significantly shorter projections in AGS cells and an attenuated reduction in levels of CagA upon immunodepletion of SHP-2 than strains possessing Western/Western motifs. This novel finding may partially explain the difference in GC incidence in these populations. PMID:19456839

  2. Influences of vowel and tone variation on emergent word knowledge: a cross-linguistic investigation.

    PubMed

    Singh, Leher; Hui, Tam Jun; Chan, Calista; Golinkoff, Roberta Michnick

    2014-01-01

    To learn words, infants must be sensitive to native phonological contrast. While lexical tone predominates as a source of phonemic contrast in human languages, there has been little investigation of the influences of lexical tone on word learning. The present study investigates infants' sensitivity to tone mispronunciations in two groups of infants. For one group (Chinese learners), tone is phonemic in their native language, and for the second group (English learners), tone is non-phonemic and constituted suprasegmental variation. In Experiment 1, English learners were trained on novel word-object pairings and tested on their recognition of correct pronunciations, tone and vowel mispronunciations of these words at 18 and 24 months. In Experiment 2a, bilingual English-Chinese learners were tested on a similar task translated into Chinese at the same age intervals. Results demonstrate that non-tonal learners treated tonal and vowel substitutions alike as mispronunciations at 18 months but only treated vowel substitutions as mispronunciations at 24 months. Tonal learners treated both tonal and vowel substitutions as mispronunciations at both ages. In Experiment 2b, bilingual non-tone language learners were tested on the same set of tasks replicating a similar set of results as monolingual non-tone language learners (Experiment 1). Findings point to an early predisposition to treat tone as a defining characteristic of words regardless of its lexical relevance at 18 months. Between 18 and 24 months, learners appear to ascribe lexical relevance to tone in a language-specific manner. The current study identifies the influences of tone variation on memories for newly learned words and the time period during which lexical tone - a highly frequent constituent of human languages - actually becomes lexical for early learners. Findings are contextualized with prevailing models of the developing lexicon. PMID:24118787

  3. Investigation of the Susceptibility of Various Strains of Mice to Methyllycaconitine Toxicosis

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Although the mechanism of action for larkspur alkaloids has been described, there is little information on the variation of the physiological response of individual animals to larkspur alkaloids. Anecdotal observations and pilot studies in cattle indicate that there is animal-to-animal variation in...

  4. Can low-level ethanol exposure during pregnancy influence maternal care? An investigation using two strains of rat across two generations.

    PubMed

    Popoola, Daniel O; Borrow, Amanda P; Sanders, Julia E; Nizhnikov, Michael E; Cameron, Nicole M

    2015-09-01

    Gestational alcohol use is well documented as detrimental to both maternal and fetal health, producing an increase in offspring's tendency for alcoholism, as well as in behavioral and neuropsychological disorders. In both rodents and in humans, parental care can influence the development of offspring physiology and behavior. Animal studies that have investigated gestational alcohol use on parental care and/or their interaction mostly employ heavy alcohol use and single strains. This study aimed at investigating the effects of low gestational ethanol dose on parental behavior and its transgenerational transmission, with comparison between two rat strains. Pregnant Sprague Dawley (SD) and Long Evans (LE) progenitor dams (F0) received 1g/kg ethanol or water through gestational days 17-20 via gavage, or remained untreated in their home cages. At maturity, F1 female offspring were mated with males of the same strain and treatment and were left undisturbed through gestation. Maternal behavior was scored in both generations during the first six postnatal days. Arch-back nursing (ABN) was categorized as: 1, when the dam demonstrated minimal kyphosis; 2, when the dam demonstrated moderate kyphosis; and 3, when the dam displayed maximal kyphosis. Overall, SD showed greater amounts of ABN than LE dams and spent more time in contact with their pups. In the F0 generation, water and ethanol gavage increased ABN1 and contact with pups in SD, behaviors which decreased in treated LE. For ABN2, ethanol-treated SD dams showed more ABN2 than water-treated dams, with no effect of treatment on LE animals. In the F1 generation, prenatal exposure affected retrieval. Transgenerational transmission of LG was observed only in the untreated LE group. Strain-specific differences in maternal behavior were also observed. This study provides evidence that gestational gavage can influence maternal behavior in a strain-specific manner. Our results also suggest that the experimental procedure during

  5. Strain and micromotion in intact and resurfaced composite femurs: experimental and numerical investigations.

    PubMed

    Pal, Bidyut; Gupta, Sanjay; New, Andrew M R; Browne, Martin

    2010-07-20

    Understanding the load transfer within a resurfaced femur is necessary to determine the influence of mechanical factors on potential failure mechanisms such as early femoral neck fractures and stress shielding. In this study, an attempt has been made to measure the stem-bone micromotion and implant cup-bone relative displacements (along medial-lateral and anterior-posterior direction), in addition to surface strains at different locations and orientations on the proximal femur and to compare these measurements with those predicted by equivalent FE models. The loading and the support conditions of the experiment were closely replicated in the FE models. A new experimental set-up has been developed, with specially designed fixtures and load application mechanism, which can effectively impose bending and deflection of the tested femurs, almost in any direction. High correlation coefficient (0.92-0.95), low standard error of the estimate (170-379 muepsilon) and low percentage error in regression slope (12.8-17.5%), suggested good agreement between the numerical and measured strains. The effect of strain shielding was observed in two (out of eight) strain gauges located on the posterior side. A pronounced strain increase occurred in strain gauges located on the anterior head and neck regions after implantation. Experimentally measured stem-bone micromotion and implant cup-bone relative displacements (0-13.7 microm) were small and similar in trends predicted by the FE models (0-25 microm). Despite quantitative deviations in the measured and numerical results, it appears that the FE model can be used as a valid predictor of the actual strain and stem-bone micromotion. PMID:20392448

  6. Investigations of segregation phenomena in highly strained Mn-doped Ge wetting layers and Ge quantum dots embedded in silicon

    SciTech Connect

    Prestat, E. Porret, C.; Favre-Nicolin, V.; Tainoff, D.; Boukhari, M.; Bayle-Guillemaud, P.; Jamet, M.; Barski, A.

    2014-03-10

    In this Letter, we investigate manganese diffusion and the formation of Mn precipitates in highly strained, few monolayer thick, Mn-doped Ge wetting layers and nanometric size Ge quantum dot heterostructures embedded in silicon. We show that in this Ge(Mn)/Si system manganese always precipitates and that the size and the position of Mn clusters (precipitates) depend on the growth temperature. At high growth temperature, manganese strongly diffuses from germanium to silicon, whereas decreasing the growth temperature reduces the manganese diffusion. In the germanium quantum dots layers, Mn precipitates are detected, not only in partially relaxed quantum dots but also in fully strained germanium wetting layers between the dots.

  7. Metabonomic Investigation of Single and Multiple Strain Trypanosoma brucei brucei Infections

    PubMed Central

    Li, Jia V.; Saric, Jasmina; Wang, Yulan; Utzinger, Jürg; Holmes, Elaine; Balmer, Oliver

    2011-01-01

    Although co-infections are common and can have important epidemiologic and evolutionary consequences, studies exploring biochemical effects of multiple-strain infections remain scarce. We studied metabolic responses of NMRI mice to Trypanosoma brucei brucei single (STIB777AE-Green1 or STIB246BA-Red1) and co-infections using a 1H nuclear magnetic resonance (NMR) spectroscopy-based metabolic profiling strategy. All T. b. brucei infections caused an alteration in urinary biochemical composition by day 4 postinfection, characterized by increased concentrations of 2-oxoisocaproate, D-3-hydroxybutyrate, lactate, 4-hydroxyphenylacetate, phenylpyruvate, and 4-hydroxyphenylpyruvate, and decreased levels of hippurate. Although there were no marked differences in metabolic signatures observed in the mouse infected with a single or dual strain of T. b. brucei, there was a slower metabolic response in mice infected with T. b. brucei green strain compared with mice infected with either the red strain or both strains concurrently. Pyruvate, phenylpyruvate, and hippurate were correlated with parasitemia, which might be useful in monitoring responses to therapeutic interventions. PMID:21212208

  8. [Investigation of the presence of panton-valentin leucocidin (PVL) in Staphylococcus aureus strains isolated from clinical samples].

    PubMed

    Ozkul, Hilal; Oktem, I M Ali; Gülay, Zeynep

    2007-07-01

    Panton-Valentin leucocidin (PVL) is a cytotoxin which causes tissue necrosis by degradating leucocytes and other cell types. PVL has recently become very up to date as it has been shown to be the major virulance factor of community acquired methicillin resistant Staphylococcus aureus strains. In this study, the presence of PVL was investigated in methicillin sensitive and resistant S. aureus (MSSA and MRSA, respectively) strains which were isolated from clinical samples between January 2005-May 2006 at Dokuz Eylul University Hospital, Izmir. Fifty five MRSA and 79 MSSA strains which were isolated from blood, wound and respiratory tract samples were randomly included to the study. The presence of PVL was evaluated by multiplex polymerase chain reaction (PCR) which detects pvl and S. aureus-specific nuc genes. As a result, PVL positivities were detected in two (5%) of 40 MSSA and four (10.3%) of 39 MSSA strains isolated in the years 2005 and 2006, respectively. None of the MRSA isolates had pvl gene. Although this cytotoxin was rarely detected among MSSA isolates, it was interesting to note that the prevalence of PVL was twice more in the year 2006 compared to 2005. It was also worth to notify that four of six (66.7%) PVL positive strains had been isolated from the patients of general surgery inpatient or outpatient clinics. PMID:17933245

  9. Investigation of composition-induced strain effect in FexPt1-x films grown on different substrates

    NASA Astrophysics Data System (ADS)

    Dong, K. F.; Li, H. H.; Chen, J. S.

    2013-12-01

    Different composition FexPt1-x films were fabricated on three typical single crystal substrates (MgO, KTaO3, and SrTiO3), and the composition-induced strain evolution of FexPt1-x films was systematically investigated. The study showed that different Fe compositions in Fe-Pt films resulted in different strain status and crystallographic textures, and thus influenced the magnetic properties. Under the tensile strain between the Fe-Pt and (MgO, KTaO3, and SrTiO3) substrates, Fe-Pt films preferred to form ordered Fe-Pt (001) texture. Decrease of the Fe atom concentration caused the Fe-Pt films to be further relaxed, and an obvious increase of lattice constant c. Moreover, with reducing the mismatch between Fe-Pt and substrate from MgO to KTaO3 and SrTiO3, the strain status of Fe-Pt films changed from completely strained to partially relaxed. The perpendicular anisotropy of Fe55Pt45 films grown on STO was larger than that grown on MgO and KTO, which was attributed to better epitaxial quality of the FePt (001) texture induced by less lattice mismatch.

  10. Investigation of optimization-based reconstruction with an image-total-variation constraint in PET

    NASA Astrophysics Data System (ADS)

    Zhang, Zheng; Ye, Jinghan; Chen, Buxin; Perkins, Amy E.; Rose, Sean; Sidky, Emil Y.; Kao, Chien-Min; Xia, Dan; Tung, Chi-Hua; Pan, Xiaochuan

    2016-08-01

    Interest remains in reconstruction-algorithm research and development for possible improvement of image quality in current PET imaging and for enabling innovative PET systems to enhance existing, and facilitate new, preclinical and clinical applications. Optimization-based image reconstruction has been demonstrated in recent years of potential utility for CT imaging applications. In this work, we investigate tailoring the optimization-based techniques to image reconstruction for PET systems with standard and non-standard scan configurations. Specifically, given an image-total-variation (TV) constraint, we investigated how the selection of different data divergences and associated parameters impacts the optimization-based reconstruction of PET images. The reconstruction robustness was explored also with respect to different data conditions and activity up-takes of practical relevance. A study was conducted particularly for image reconstruction from data collected by use of a PET configuration with sparsely populated detectors. Overall, the study demonstrates the robustness of the TV-constrained, optimization-based reconstruction for considerably different data conditions in PET imaging, as well as its potential to enable PET configurations with reduced numbers of detectors. Insights gained in the study may be exploited for developing algorithms for PET-image reconstruction and for enabling PET-configuration design of practical usefulness in preclinical and clinical applications.

  11. Investigation of optimization-based reconstruction with an image-total-variation constraint in PET.

    PubMed

    Zhang, Zheng; Ye, Jinghan; Chen, Buxin; Perkins, Amy E; Rose, Sean; Sidky, Emil Y; Kao, Chien-Min; Xia, Dan; Tung, Chi-Hua; Pan, Xiaochuan

    2016-08-21

    Interest remains in reconstruction-algorithm research and development for possible improvement of image quality in current PET imaging and for enabling innovative PET systems to enhance existing, and facilitate new, preclinical and clinical applications. Optimization-based image reconstruction has been demonstrated in recent years of potential utility for CT imaging applications. In this work, we investigate tailoring the optimization-based techniques to image reconstruction for PET systems with standard and non-standard scan configurations. Specifically, given an image-total-variation (TV) constraint, we investigated how the selection of different data divergences and associated parameters impacts the optimization-based reconstruction of PET images. The reconstruction robustness was explored also with respect to different data conditions and activity up-takes of practical relevance. A study was conducted particularly for image reconstruction from data collected by use of a PET configuration with sparsely populated detectors. Overall, the study demonstrates the robustness of the TV-constrained, optimization-based reconstruction for considerably different data conditions in PET imaging, as well as its potential to enable PET configurations with reduced numbers of detectors. Insights gained in the study may be exploited for developing algorithms for PET-image reconstruction and for enabling PET-configuration design of practical usefulness in preclinical and clinical applications. PMID:27452653

  12. Comparative phenomics and targeted use of genomics reveals variation in carbon and nitrogen assimilation among different Brettanomyces bruxellensis strains.

    PubMed

    Crauwels, S; Van Assche, A; de Jonge, R; Borneman, A R; Verreth, C; Troels, P; De Samblanx, G; Marchal, K; Van de Peer, Y; Willems, K A; Verstrepen, K J; Curtin, C D; Lievens, B

    2015-11-01

    Recent studies have suggested a correlation between genotype groups of Brettanomyces bruxellensis and their source of isolation. To further explore this relationship, the objective of this study was to assess metabolic differences in carbon and nitrogen assimilation between different B. bruxellensis strains from three beverages, including beer, wine, and soft drink, using Biolog Phenotype Microarrays. While some similarities of physiology were noted, many traits were variable among strains. Interestingly, some phenotypes were found that could be linked to strain origin, especially for the assimilation of particular α- and β-glycosides as well as α- and β-substituted monosaccharides. Based upon gene presence or absence, an α-glucosidase and β-glucosidase were found explaining the observed phenotypes. Further, using a PCR screen on a large number of isolates, we have been able to specifically link a genomic deletion to the beer strains, suggesting that this region may have a fitness cost for B. bruxellensis in certain fermentation systems such as brewing. More specifically, none of the beer strains were found to contain a β-glucosidase, which may have direct impacts on the ability for these strains to compete with other microbes or on flavor production. PMID:26135985

  13. Investigating Cepheid ℓ Carinae's cycle-to-cycle variations via contemporaneous velocimetry and interferometry★

    NASA Astrophysics Data System (ADS)

    Anderson, R. I.; Mérand, A.; Kervella, P.; Breitfelder, J.; LeBouquin, J.-B.; Eyer, L.; Gallenne, A.; Palaversa, L.; Semaan, T.; Saesen, S.; Mowlavi, N.

    2016-02-01

    Baade-Wesselink-type (BW) techniques enable geometric distance measurements of Cepheid variable stars in the Galaxy and the Magellanic clouds. The leading uncertainties involved concern projection factors required to translate observed radial velocities (RVs) to pulsational velocities and recently discovered modulated variability. We carried out an unprecedented observational campaign involving long-baseline interferometry (VLTI/PIONIER) and spectroscopy (Euler/Coralie) to search for modulated variability in the long-period (P ˜ 35.5 d) Cepheid ℓ Carinae. We determine highly precise angular diameters from squared visibilities and investigate possible differences between two consecutive maximal diameters, ΔmaxΘ. We characterize the modulated variability along the line of sight using 360 high-precision RVs. Here we report tentative evidence for modulated angular variability and confirm cycle-to-cycle differences of ℓ Carinae's RV variability. Two successive maxima yield ΔmaxΘ = 13.1 ± 0.7(stat.) μas for uniform disc models and 22.5 ± 1.4(stat.) μas (4 per cent of the total angular variation) for limb-darkened models. By comparing new RVs with 2014 RVs, we show modulation to vary in strength. Barring confirmation, our results suggest the optical continuum (traced by interferometry) to be differently affected by modulation than gas motions (traced by spectroscopy). This implies a previously unknown time dependence of projection factors, which can vary by 5 per cent between consecutive cycles of expansion and contraction. Additional interferometric data are required to confirm modulated angular diameter variations. By understanding the origin of modulated variability and monitoring its long-term behaviour, we aim to improve the accuracy of BW distances and further the understanding of stellar pulsations.

  14. Investigation of passive blade cyclic pitch variation using an automatic yaw control system. Final report

    SciTech Connect

    Hohenemser, K.H.; Swift, A.H.P.

    1982-08-01

    The investigation of passive cyclic pitch variation using an automatic yaw control system made use of the test equipment and of the results of an earlier study. The atmospheric test equipment consisted of a horizontal axis wind turbine with vane controlled upwind two-bladed rotor of 7.6 m (25 ft) diameter having passive cyclic pitch variation. An automatically triggered electric furl actuator prevented over-speeds and over-torques by furling the rotor which means yawing the rotor out of the winds. The atmospheric test equipment was modified to accept two alternative fully automatic yaw or furl control systems. The first system was of the active type and included a hydraulic single acting constant speed governor as it is used for aircraft propeller controls. Upon reaching the rotor speed limit, the governor delivered pressurized oil to a hydraulic furl actuator which then overcame the unfurling spring force and furled the rotor. When the rotor speed fell below the set value, the governor admitted oil flow from the hydraulic actuator into the oil reservoir and the rotor was unfurled by the spring. The second automatic control system was of a purely mechanical passive type. The rotor thrust, which was laterally off-set from the yaw axis, in combination with a yawing component of the rotor torque due to uptilt of the rotor axis overcame at rated power the unfurling spring and furled the rotor. The analytically predicted and experimentally substantiated negative rotor yaw damping would cause excessive furling rates unless alleviated by a furl damper. The tests were supported by a specially developed dynamic yawing analysis. Both analysis and tests indicated that the two-bladed passive cyclic pitch wind rotor can be effectively torque or speed limited by rotor yaw control systems which are less costly and more reliable than the conventional blade feathering control systems.

  15. Experimental investigation of the behaviour of tungsten and molybdenum alloys at high strain-rate and temperature

    NASA Astrophysics Data System (ADS)

    Scapin, Martina; Fichera, Claudio; Carra, Federico; Peroni, Lorenzo

    2015-09-01

    The introduction in recent years of new, extremely energetic particle accelerators such as the Large Hadron Collider (LHC) gives impulse to the development and testing of refractory metals and alloys based on molybdenum and tungsten to be used as structural materials. In this perspective, in this work the experimental results of a tests campaign on Inermet® IT180 and pure Molybdenum (sintered by two different producers) are presented. The investigation of the mechanical behaviour was performed in tension varying the strain-rates, the temperatures and both of them. Overall six orders of magnitude in strain-rate (between 10-3 and 103 s-1) were covered, starting from quasi-static up to high dynamic loading conditions. The high strain-rate tests were performed using a direct Hopkinson Bar setup. Both in quasi-static and high strain-rate conditions, the heating of the specimens was obtained with an induction coil system, controlled in feedback loop, based on measurements from thermocouples directly welded on the specimen. The temperature range varied between 25 and 1000°C. The experimental data were, finally, used to extract the parameters of the Zerilli-Armstrong model used to reproduce the mechanical behaviour of the investigated materials.

  16. Investigation of carbon metabolism in "Dehalococcoides ethenogenes" strain 195 by use of isotopomer and transcriptomic analyses.

    PubMed

    Tang, Yinjie J; Yi, Shan; Zhuang, Wei-Qin; Zinder, Stephen H; Keasling, Jay D; Alvarez-Cohen, Lisa

    2009-08-01

    Members of the genus "Dehalococcoides" are the only known microorganisms that can completely dechlorinate tetrachloroethene and trichloroethene to the innocuous end product, ethene. This study examines the central metabolism in "Dehalococcoides ethenogenes" strain 195 via (13)C-labeled tracer experiments. Supported by the genome annotation and the transcript profile, isotopomer analysis of key metabolites clarifies ambiguities in the genome annotation and identifies an unusual biosynthetic pathway in strain 195. First, the (13)C-labeling studies revealed that strain 195 contains complete amino acid biosynthesis pathways, even though current genome annotation suggests that several of these pathways are incomplete. Second, the tricarboxylic acid cycle of strain 195 is confirmed to be branched, and the Wood-Ljungdahl carbon fixation pathway is shown to not be functionally active under our experimental conditions; rather, CO(2) is assimilated via two reactions, conversion of acetyl-coenzyme A (acetyl coenzyme A [acetyl-CoA]) to pyruvate catalyzed by pyruvate synthase (DET0724-0727) and pyruvate conversion to oxaloacetate via pyruvate carboxylase (DET0119-0120). Third, the (13)C-labeling studies also suggested that isoleucine is synthesized from acetyl-CoA and pyruvate via citramalate synthase (CimA, EC 2.3.1.182), rather than from the common pathway via threonine ammonia-lyase (EC 4.3.1.19). Finally, evidence is presented that strain 195 may contain an undocumented citrate synthase (>95% Re-type stereospecific), i.e., a novel Re-citrate synthase that is apparently different from the one recently reported in Clostridium kluyveri. PMID:19525347

  17. Use of genome sequencing to assess nucleotide structure variation of Staphylococcus aureus strains cultured in spaceflight on Shenzhou-X, under simulated microgravity and on the ground.

    PubMed

    Guo, Jun; Han, Na; Zhang, Yuanyuan; Wang, Haiyin; Zhang, Xuelin; Su, Longxiang; Liu, Chao; Li, Jia; Chen, Chen; Liu, Changting

    2015-01-01

    nucleotide structure variation of S. aureus strains in a spaceflight environment and also provide a valuable insight for understanding the mutation strategies of MRSA on earth. PMID:25304992

  18. Investigation variation of carbon dioxide based on GOSAT data in peninsular Malaysia

    NASA Astrophysics Data System (ADS)

    Sim, C. K.; Lim, H. S.; MatJafri, M. Z.

    2015-10-01

    Carbon dioxide (CO2) is an inodorous and transparent gas, and naturally originates in our atmosphere. Due to its optical characteristics, CO2 is the most important greenhouse gas and play a key role in climate change due to an effective thermal infrared (IR) radiation absorber. Satellite observations of atmospheric carbon dioxide (CO2) can significantly improve our knowledge about the sources and sinks of CO2. The remote sensing satellite, namely Greenhouse Gases Observing Satellite (GOSAT) was employed to investigate the spatial and variations of CO2 column-averaged dry airmole fractions, denoted XCO2 over Peninsular Malaysia from January 2013 to December 2013. The analysis of CO2 in the study area shows the significant differences between northeast monsoon (NEM) and the southwest monsoon (SWM). During NEM season, cold air outbreaks from Siberia spreads to equatorial region in the form of north-easterly cold surge winds and associated with a low-level anticyclone over Southeast Asia. Inversely, air masses from the southwest contribute to long-range air pollution due to transportation of atmospheric CO2 by wind is associated with biomass burning in Sumatra, Indonesia. The GOSAT data and the Satellite measurements are able to measure the increase of the atmosphere CO2 values over different regions.

  19. Analysis of copy-number variation, insertional polymorphism, and methylation status of the tiniest class I (TRIM) and class II (MITE) transposable element families in various rice strains.

    PubMed

    Baruch, Omer; Kashkush, Khalil

    2012-05-01

    Transposable elements (TEs) dominate the genetic capacity of most eukaryotes, especially plants, where they may compose up to 90% of the genome. Many studies, both in plants and animals reported that in fact non-autonomous elements that have lost their protein-coding sequences and became miniature elements were highly associated with genes, and showed a high level of transpositional activity such as mPing family in rice. In this study, we have investigated in detail the copy number, insertional polymorphism and the methylation status of the tiniest LTR retrotransposon family, termed TRIM, in nine rice strains, in comparison with mPing. While TRIM showed similar copy numbers (average of 79 insertions) in all the nine rice strains, the copy number of mPing varied dramatically (ranging from 6 to 203 insertions) in the same strains. Site-specific PCR analysis revealed that ~58% of the TRIM elements have identical insertion sites among the nine rice strains, while none of the mPing elements (100% polymorphism) have identical insertion sites in the same strains. Finally, over 65% of the TRIM insertion sites were cytosine methylated in all nine rice strains, while the level of the methylated mPing insertion sites ranged between 43 and 81.5%. The findings of this study indicate that unlike mPing, TRIM is most probably a fossil TE family in rice. In addition, the data shows that there might be a strong correlation between TE methylation and copy number. PMID:22183295

  20. Spatial variation of crustal strain in the Kachchh region, India: Implication on the Bhuj earthquake of 2001

    NASA Astrophysics Data System (ADS)

    Sinha, Sushmita; Mohanty, S.

    2012-10-01

    The Kachchh province of Western India is a major seismic domain in an intraplate set-up. This seismic zone is located in a rift basin, which was developed during the early Jurassic break-up of the Gondwanaland. The crustal strain determined from the GPS velocity data of post-seismic time period following the 2001 Bhuj earthquake indicates a maximum strain rate of ˜266 × 10-9 per year along N013°. Focal mechanism solutions of the main event of 26 January 2001 and the aftershocks show that the maximum principal stress axis is close to this high strain direction. Maximum shear strain rate determined from the GPS data of the area has similar orientation. The unusually high strain rate is comparable in magnitude to the continental rift systems. The partitioning of the regional NE-SW horizontal stress (SHmax) by the pre-existing EW-striking boundary fault developed the strike-slip components parallel to the regional faults, the normal components perpendicular to the faults, NE-striking conjugate Riedel shear fractures and tension fractures. The partitioned normal component of the stress is considered to be the major cause for compression across the regional EW faults and development of the second-order conjugate shear fractures striking NE-SW and NW-SE. The NE-striking transverse faults parallel to the anti-Riedel shear planes have become critical under these conditions. These anti-Riedel planes are interpreted to be critical for the seismicity of the Kachchh region. The high strain rate in this area of low to moderate surface heat flow is responsible for deeper position of the brittle-ductile transition and development of deep seated seismic events in this intraplate region.

  1. A Modeling Investigation of Thermal and Strain Induced Recovery and Nonlinear Hardening in Potential Based Viscoplasticity

    NASA Technical Reports Server (NTRS)

    Arnold, S. M.; Saleeb, A. F.; Wilt, T. E.

    1993-01-01

    Specific forms for both the Gibb's and the complementary dissipation potentials were chosen such that a complete potential based multiaxial, isothermal, viscoplastic model was obtained. This model in general possesses three internal state variables (two scalars associated with dislocation density and one tensor associated with dislocation motion) both thermal and dynamic recovery mechanisms, and nonlinear kinematic hardening. This general model, although possessing associated flow and evolutionary laws, is shown to emulate three distinct classes of theories found in the literature, by modification of the driving threshold function F. A parametric study was performed on a specialized nondimensional multiaxial form containing only a single tensorial internal state variable (i.e., internal stress). The study was conducted with the idea of examining the impact of including a strain-induced recovery mechanism and the compliance operator, derived from the Gibb's potential, on the uniaxial and multiaxial response. One important finding was that inclusion of strain recovery provided the needed flexibility in modeling stress-strain and creep response of metals at low homologous temperatures, without adversely affecting the high temperature response. Furthermore, for nonproportional loading paths, the inclusion of the compliance operator had a significant influence on the multiaxial response, but had no influence on either uniaxial or proportional load histories.

  2. The Influence of Strain Rate Variations on the Appearance of Serrated Yielding in 2024-T3 Al-Clad Aluminium Alloy

    SciTech Connect

    Leacock, Alan G.; McMurray, Robert J.; Brown, D.; Poston, Ken

    2007-04-07

    To avoid failure during the stretch forming process using manual control, machine operators tend to achieve the final form using a stop-start approach. It was observed that when approaching full form, stretcher-strain marks appeared on the surface of the part if the operator stopped and restarted the forming operation. In order to investigate this phenomenon, a series of tensile tests was conducted using two batches of 2024-T3 aluminium alloy. The specimens were tested using several different strain rates, representative of those used on the shop floor. Additional tests were conducted involving a series of pauses under displacement control at differing levels of strain and strain rate. In the uninterrupted tests for the two batches of 2024-T3 material tested, serrated yielding was observed just prior to failure. However for the tests in which there was a pause in displacement, the material consistently exhibited serrated yielding when the crosshead began to move again. These results indicate that the pause provides an opportunity for strain ageing and pinning of the dislocations resulting in serrated yielding of this alloy. In order to avoid serrated yielding, stretch forming operations using 2024-T3 aluminium should be conducted at a constant strain rate without interruption. This also has far reaching implications for those involved in the production and testing of these alloys. The test programme described represents an initial attempt to investigate a phenomenon noted during an industrial forming process and should be extended to analyse the affect of strain path changes on the occurrence of serrated yielding.

  3. Analysis of Bulk and Thin Film Model Samples Intended for Investigating the Strain Sensitivity of Niobium-Tin

    SciTech Connect

    Mentink, M. G. T.; Anders, A.; Dhalle, M. M. J.; Dietderich, D. R.; Godeke, A.; Goldacker, W.; Hellman, F.; Kate, H. H. J. ten; Putnam, D.; Slack, J. L.; Sumption, M. D.; Susner, M. A.

    2010-08-01

    Bulk samples and thin films were fabricated and characterized to determine their suitability for studying the effect of composition and morphology on strain sensitivity. Heat capacity and resistivity data are used to determine the critical temperature distribution. It is found that all bulk samples contain stoichiometric Nb{sub 3}Sn regardless of their nominal Nb to Sn ratio. Furthermore, in bulk samples with Cu additions, a bi-modal distribution of stoichiometric and off-stoichiometric Nb-Sn is found. Thus the nominally off-stoichiometric bulk samples require additional homogenization steps to yield homogeneous off-stoichiometric samples. A binary magnetron-sputtered thin film has the intended off-stoichiometric Nb-Sn phase with a mid-point critical temperature of 16.3 K. This type of sample is a suitable candidate for investigating the strain sensitivity of A15 Nb{sub 1-{beta}}Sn{sub {beta}}, with 0.18 < {beta} < 0.25. The strain sensitivity of Nb-Sn as a function of composition and morphology is important for an in-depth understanding of the strain sensitivity of composite Nb{sub 3}Sn wires.

  4. Variation in the TonB-dependent Outer-Membrane Proteins in Plant-Associated Strains of Pseudomonas fluorescens

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Nutrient acquisition is key to the ecological fitness of environmental bacteria such as Pseudomonas fluorescens and TonB-dependent outer-membrane proteins are important components of the cellular machinery for the uptake of substrates from the environment. Genomic sequences of ten strains of plant-a...

  5. A Review of the Properties of Nb3Sn and Their Variation with A15Composition, Morphology and Strain State

    SciTech Connect

    Godeke, Arno

    2006-03-27

    Significant efforts can be found throughout the literature to optimize the current carrying capacity of Nb{sub 3}Sn superconducting wires. The achievable transport current density in wires depends on the A15 composition, morphology and strain state. The A15 sections in wires contain, due to compositional inhomogeneities resulting from solid state diffusion A15 formation reactions, a distribution of superconducting properties. The A15 grain size can be different from wire to wire and is also not necessarily homogeneous across the A15 regions. Strain is always present in composite wires, and the strain state changes as a result of thermal contraction differences and Lorentz forces in magnet systems. To optimize the transport properties it is thus required to identify how composition, grain size and strain state influence the superconducting properties. This is not accurately possible in inhomogeneous and spatially complex systems such as wires. This article therefore gives an overview of the available literature on simplified, well defined(quasi--)homogeneous laboratory samples. After more than 50 years of research on superconductivity in Nb{sub 3}Sn, a significant amount of results are available, but these are scattered over a multitude of publications. Two reviews exist on the basic properties of A15 materials in general, but no specific review for Nb{sub 3}Sn is available. This article is intended to provide such an overview. It starts with a basic description of the Niobium--Tin intermetallic. After this it maps the influence of Sn content on the electron--phonon interaction strength and on the field-temperature phase boundary. The literature on the influence of Cu, Ti and Ta additions will then be briefly summarized.This is followed by a review on the effects of grain size and strain. The article is concluded with a summary of the main results.

  6. Variation in Taxonomic Composition of the Fecal Microbiota in an Inbred Mouse Strain across Individuals and Time

    PubMed Central

    Hoy, Yana Emmy; Bik, Elisabeth M.; Lawley, Trevor D.; Holmes, Susan P.; Monack, Denise M.

    2015-01-01

    Genetics, diet, and other environmental exposures are thought to be major factors in the development and composition of the intestinal microbiota of animals. However, the relative contributions of these factors in adult animals, as well as variation with time in a variety of important settings, are still not fully understood. We studied a population of inbred, female mice fed the same diet and housed under the same conditions. We collected fecal samples from 46 individual mice over two weeks, sampling four of these mice for periods as long as 236 days for a total of 190 samples, and determined the phylogenetic composition of their microbial communities after analyzing 1,849,990 high-quality pyrosequencing reads of the 16S rRNA gene V3 region. Even under these controlled conditions, we found significant inter-individual variation in community composition, as well as variation within an individual over time, including increases in alpha diversity during the first 2 months of co-habitation. Some variation was explained by mouse membership in different cage and vendor shipment groups. The differences among individual mice from the same shipment group and cage were still significant. Overall, we found that 23% of the variation in intestinal microbiota composition was explained by changes within the fecal microbiota of a mouse over time, 12% was explained by persistent differences among individual mice, 14% by cage, and 18% by shipment group. Our findings suggest that the microbiota of controlled populations of inbred laboratory animals may not be as uniform as previously thought, that animal rearing and handling may account for some variation, and that as yet unidentified factors may explain additional components of variation in the composition of the microbiota within populations and individuals over time. These findings have implications for the design and interpretation of experiments involving laboratory animals. PMID:26565698

  7. Metabolomic investigation into variation of endogenous metabolites in professional athletes subject to strength-endurance training.

    PubMed

    Yan, Bei; A, Jiye; Wang, Guangji; Lu, Huali; Huang, Xiaoping; Liu, Yi; Zha, Weibin; Hao, Haiping; Zhang, Ying; Liu, Linsheng; Gu, Shenghua; Huang, Qing; Zheng, Yuanting; Sun, Jianguo

    2009-02-01

    Strength-endurance type of sport can lead to modification of human beings' physiological status. The present study aimed to investigate the alteration of metabolic phenotype or biochemical compositions in professional athletes induced by long-term training by means of a novel systematic tool, metabolomics. Resting venous blood samples of junior and senior male rowers were obtained before and after 1-wk and 2-wk training. Venous blood from healthy male volunteers as control was also sampled at rest. Endogenous metabolites in serum were profiled by GC/TOF-MS and multivariate statistical technique, i.e., principal component analysis (PCA), and partial least squares projection to latent structures and discriminant analysis (PLS-DA) were used to process the data. Significant metabolomic difference was observed between the professional athletes and control subjects. Long-term strength and endurance training induced distinct separation between athletes of different exercise seniority, and training stage-related trajectory of the two groups of athletes was clearly shown along with training time. However, most of these variations were not observed by common biochemical parameters, such as hemoglobin, testosterone, and creatine kinase. The identified metabolites contributing to the classification included alanine, lactate, beta-d-methylglucopyranoside, pyroglutamic acid, cysteine, glutamic acid, citric acid, free fatty acids, valine, glutamine, phenylalanine, tyrosine, and so on, which were involved in glucose metabolism, oxidative stress, energy metabolism, lipid metabolism, amino acid metabolism. These findings suggest that metabolomics is a promising and potential tool to profile serum of professional athletes, make a deep insight into physiological states, and clarify the disorders induced by strength-endurance physical exercise. PMID:19036890

  8. Investigating the impact of oxygen concentration and blood flow variation on photodynamic therapy

    NASA Astrophysics Data System (ADS)

    Penjweini, Rozhin; Kim, Michele M.; Finlay, Jarod C.; Zhu, Timothy C.

    2016-03-01

    Type II photodynamic therapy (PDT) is used for cancer treatment based on the combined action of a photosensitizer, a special wavelength of light, oxygen (3O2) and generation of singlet oxygen (1O2). Intra-patient and inter-patient variability of oxygen concentration ([3O2]) before and after the treatment as well as photosensitizer concentration and hemodynamic parameters such as blood flow during PDT has been reported. Simulation of these variations is valuable, as it would be a means for the rapid assessment of treatment effect. A mathematical model has been previously developed to incorporate the diffusion equation for light transport in tissue and the macroscopic kinetic equations for simulation of [3O2], photosensitizers in ground and triplet states and concentration of the reacted singlet oxygen ([1O₂]rx) during PDT. In this study, the finite-element based calculation of the macroscopic kinetic equations is done for 2-(1- Hexyloxyethyl)-2-devinyl pyropheophorbide (HPPH)-mediated PDT by incorporating the information of the photosensitizer photochemical parameters as well as the tissue optical properties, photosensitizer concentration, initial oxygen concentration ([3O2]0), blood flow changes and Φ that have been measured in mice bearing radiation-induced fibrosarcoma (RIF) tumors. Then, [1O2]rx calculated by using the measured [3O2] during the PDT is compared with [1O2]rx calculated based on the simulated [3O₂]; both calculations showed a reasonably good agreement. Moreover, the impacts of the blood flow changes and [3O2]0 on [1O2]rx have been investigated, which showed no pronounced effect of the blood flow changes on the long-term 1O2 generation. When [3O2]0 becomes limiting, small changes in [3O₂] have large effects on [1O2]rx.

  9. Investigating the impact of oxygen concentration and blood flow variation on photodynamic therapy

    PubMed Central

    Penjweini, Rozhin; Kim, Michele M.; Finlay, Jarod C.; Zhu, Timothy C.

    2016-01-01

    Type II photodynamic therapy (PDT) is used for cancer treatment based on the combined action of a photosensitizer, a special wavelength of light, oxygen (3O2) and generation of singlet oxygen (1O2). Intra-patient and inter-patient variability of oxygen concentration ([3O2]) before and after the treatment as well as photosensitizer concentration and hemodynamic parameters such as blood flow during PDT has been reported. Simulation of these variations is valuable, as it would be a means for the rapid assessment of treatment effect. A mathematical model has been previously developed to incorporate the diffusion equation for light transport in tissue and the macroscopic kinetic equations for simulation of [3O2], photosensitizers in ground and triplet states and concentration of the reacted singlet oxygen ([1O2]rx) during PDT. In this study, the finite-element based calculation of the macroscopic kinetic equations is done for 2-(1-Hexyloxyethyl)-2-devinyl pyropheophorbide (HPPH)-mediated PDT by incorporating the information of the photosensitizer photochemical parameters as well as the tissue optical properties, photosensitizer concentration, initial oxygen concentration ([3O2]0), blood flow changes and ϕ that have been measured in mice bearing radiation-induced fibrosarcoma (RIF) tumors. Then, [1O2]rx calculated by using the measured [3O2] during the PDT is compared with [1O2]rx calculated based on the simulated [3O2]; both calculations showed a reasonably good agreement. Moreover, the impacts of the blood flow changes and [3O2]0 on [1O2]rx have been investigated, which showed no pronounced effect of the blood flow changes on the long-term 1O2 generation. When [3O2]0 becomes limiting, small changes in [3O2] have large effects on [1O2]rx. PMID:27453622

  10. Investigations on residual strains and the cathodoluminescence and electron beam induced current signal of grain boundaries in silicon

    SciTech Connect

    Nacke, M.; Allardt, M.; Hieckmann, E.; Weber, J.; Chekhonin, P.; Skrotzki, W.

    2014-04-28

    Cathodoluminescence (CL) and electron beam induced current (EBIC) measurements were used to investigate the optical behavior and electrical activity of grain boundaries (GBs) in coarsely grained silicon. Electron backscatter diffraction (EBSD) was applied for a comprehensive characterization of the structural properties of the high angle and low angle GBs (HAGBs and LAGBs) in the sample. It was found that not only the EBIC but also the panchromatic (pan) CL contrast of Σ3 HAGBs strongly depends on the hkl-type of the boundary plane. At room temperature coherent Σ3 GBs exhibit no significant contrast in the CL or EBIC images, whereas at low temperatures the pan-CL contrast is strong. For incoherent Σ3 GBs, a strong pan-CL and EBIC contrast was observed in the entire temperature range. Only on a LAGB (misorientation angle 4.5°) CL investigations at low temperatures revealed a line with peak position at about (0.82 ± 0.01) eV, usually related to the dislocation associated D1 transition. Cross-correlation EBSD was applied to analyze the strain fields of Σ3 HAGBs as well as of the LAGB. All the components of the local strain tensors were quantitatively determined. The relationship between the extension of the strain field at the LAGB and the spatial D1 intensity distribution is discussed.

  11. Mycoplasma agassizii strain variation and distinct host antibody responses explain differences between enzyme-linked immunosorbent assays and Western blot assays.

    PubMed

    Wendland, Lori D; Klein, Paul A; Jacobson, Elliott R; Brown, Mary B

    2010-11-01

    The precarious status of desert (Gopherus agassizii) and gopher (G. polyphemus) tortoises has resulted in conservation efforts that now include health assessment as an important component of management decision-making. Mycoplasmal upper respiratory tract disease (URTD) is one of very few diseases in chelonians for which comprehensive and rigorously validated diagnostic tests exist. In this study, serum samples obtained from eight Gopherus tortoises documented at necropsy to (i) be enzyme-linked immunosorbent assay (ELISA) seropositive using the PS6 antigen, (ii) be infected with Mycoplasma agassizii as indicated by direct isolation of the pathogen from the respiratory surfaces, and (iii) have histological lesions of mycoplasmal URTD were used to evaluate four distinct clinical isolates of M. agassizii as antigens for ELISA and Western blot analyses. Each animal sample reacted in the Western blot with its homologous M. agassizii strain, but recognition of heterologous M. agassizii strains was variable. Further, individual animals varied significantly with respect to the specific proteins recognized by the humoral immune response. An additional 114 Gopherus serum samples were evaluated using ELISA antigens prepared from the four distinct M. agassizii strains; A₄₀₅ values were significantly correlated (r² goodness of fit range, 0.708 to 0.771; P < 0.0001) for all antigens tested. The results confirm that strain variation is responsible for the observed differences between Western blot binding patterns. Thus, reliance on a single M. agassizii strain as an antigen in Western blot assays may provide false-negative results. This could have adverse consequences for the well-being of these environmentally sensitive hosts if false-negative animals were relocated to sites consisting of true-negative populations. PMID:20810678

  12. Mycoplasma agassizii Strain Variation and Distinct Host Antibody Responses Explain Differences between Enzyme-Linked Immunosorbent Assays and Western Blot Assays ▿

    PubMed Central

    Wendland, Lori D.; Klein, Paul A.; Jacobson, Elliott R.; Brown, Mary B.

    2010-01-01

    The precarious status of desert (Gopherus agassizii) and gopher (G. polyphemus) tortoises has resulted in conservation efforts that now include health assessment as an important component of management decision-making. Mycoplasmal upper respiratory tract disease (URTD) is one of very few diseases in chelonians for which comprehensive and rigorously validated diagnostic tests exist. In this study, serum samples obtained from eight Gopherus tortoises documented at necropsy to (i) be enzyme-linked immunosorbent assay (ELISA) seropositive using the PS6 antigen, (ii) be infected with Mycoplasma agassizii as indicated by direct isolation of the pathogen from the respiratory surfaces, and (iii) have histological lesions of mycoplasmal URTD were used to evaluate four distinct clinical isolates of M. agassizii as antigens for ELISA and Western blot analyses. Each animal sample reacted in the Western blot with its homologous M. agassizii strain, but recognition of heterologous M. agassizii strains was variable. Further, individual animals varied significantly with respect to the specific proteins recognized by the humoral immune response. An additional 114 Gopherus serum samples were evaluated using ELISA antigens prepared from the four distinct M. agassizii strains; A405 values were significantly correlated (r2 goodness of fit range, 0.708 to 0.771; P < 0.0001) for all antigens tested. The results confirm that strain variation is responsible for the observed differences between Western blot binding patterns. Thus, reliance on a single M. agassizii strain as an antigen in Western blot assays may provide false-negative results. This could have adverse consequences for the well-being of these environmentally sensitive hosts if false-negative animals were relocated to sites consisting of true-negative populations. PMID:20810678

  13. Variation in Direct Access to Tests to Investigate Cancer: A Survey of English General Practitioners

    PubMed Central

    Nicholson, Brian D.; Oke, Jason L.; Rose, Peter W.; Mant, David

    2016-01-01

    Background The 2015 NICE guidelines for suspected cancer recommend that English General Practitioners have direct access to diagnostic tests to investigate symptoms of cancer that do not meet the criteria for urgent referral. We aimed to identify the proportion of GPs in England with direct access to these tests. Methods We recruited 533 English GPs through a national clinical research network to complete an online survey about direct access to laboratory, radiology, and endoscopy tests in the three months leading up to the release of the 2015 NICE guidance. If they had direct access to a diagnostic test, GPs were asked about the time necessary to arrange a test and receive a report. Results are reported by NHS sub-region and, adjusting for sampling, for England as a whole. Results Almost all GPs reported direct access to x-ray and laboratory investigations except faecal occult blood testing (54%, 95% CI 49–59%) and urine protein electrophoresis (89%, 95% CI 84–92%). Fewer GPs had direct access to CT scans (54%, 95% CI 49–59%) or endoscopy (colonoscopy 32%, 95% CI 28–37%; gastroscopy 72%, 95% CI 67–77%). There was significant variation in direct access between NHS regions for the majority of imaging tests—for example, from 20 to 85% to MRI. Apart from x-ray, very few GPs (1–22%) could access radiology and endoscopy within the timescales recommended by NICE. The modal request to test time was 2–4 weeks for routine radiology and 4–6 weeks for routine endoscopy with results taking another 1–2 weeks. Conclusion At the time that the 2015 NICE guideline was released, local investment was required to not only provide direct access but also reduce the interval between request and test and speed up reporting. Further research using our data as a benchmark is now required to identify whether local improvements in direct access have been achieved in response to the NICE targets. If alternative approaches to test access are to be proposed they must be

  14. Sequence variation in CYP51A from the Y strain of Trypanosoma cruzi alters its sensitivity to inhibition

    PubMed Central

    Cherkesova, Tatiana S.; Hargrove, Tatiana Y.; Vanrell, M. Cristina; Ges, Igor; Usanov, Sergey A.; Romano, Patricia S.; Lepesheva, Galina I.

    2014-01-01

    CYP51 (sterol 14α-demethylase) is an efficient target for clinical and agricultural antifungals and an emerging target for treatment of Chagas disease, the infection that is caused by multiple strains of a protozoan pathogen Trypanosoma cruzi. Here, we analyze CYP51A from the Y strain T. cruzi. In this protein, proline 355, a residue highly conserved across the CYP51 family, is replaced with serine. The purified enzyme retains its catalytic activity, yet has been found less susceptible to inhibition. These biochemical data are consistent with cellular experiments, both in insect and human stages of the pathogen. Comparative structural analysis of CYP51 complexes with VNI and two derivatives suggests that broad-spectrum CYP51 inhibitors are likely to be preferable as antichagasic drug candidates. PMID:25217832

  15. Sequence variation in CYP51A from the Y strain of Trypanosoma cruzi alters its sensitivity to inhibition.

    PubMed

    Cherkesova, Tatiana S; Hargrove, Tatiana Y; Vanrell, M Cristina; Ges, Igor; Usanov, Sergey A; Romano, Patricia S; Lepesheva, Galina I

    2014-11-01

    CYP51 (sterol 14α-demethylase) is an efficient target for clinical and agricultural antifungals and an emerging target for treatment of Chagas disease, the infection that is caused by multiple strains of a protozoan pathogen Trypanosoma cruzi. Here, we analyze CYP51A from the Y strain T. cruzi. In this protein, proline 355, a residue highly conserved across the CYP51 family, is replaced with serine. The purified enzyme retains its catalytic activity, yet has been found less susceptible to inhibition. These biochemical data are consistent with cellular experiments, both in insect and human stages of the pathogen. Comparative structural analysis of CYP51 complexes with VNI and two derivatives suggests that broad-spectrum CYP51 inhibitors are likely to be preferable as antichagasic drug candidates. PMID:25217832

  16. Strain controlled systematic variation of metal-insulator transition in epitaxial NdNiO{sub 3} thin films

    SciTech Connect

    Kumar, Yogesh; Choudhary, R. J.; Kumar, Ravi

    2012-10-01

    We report here the strain dependent structural and electrical transport properties of epitaxial NdNiO{sub 3} thin films. Pulsed laser deposition technique was used to grow the NdNiO{sub 3} thin films on c-axis oriented SrTiO{sub 3} single crystals. Deposited films were irradiated using 200 MeV Ag{sup 15+} ion beam at the varying fluence (1 Multiplication-Sign 10{sup 11}, 5 Multiplication-Sign 10{sup 11}, and 1 Multiplication-Sign 10{sup 12} ions/cm{sup 2}). X-ray diffraction studies confirm the epitaxial growth of the deposited films, which is maintained even up to the highest fluence. Rise in the in-plane compressive strain has been observed after the irradiation. All the films exhibit metal-insulator transition, however, a systematic decrease in the transition temperature (T{sub MI}) has been observed after irradiation, which may be attributed to the increase in the in-plane compression. Raman spectroscopy data reveal that this reduction in T{sub MI}, with the irradiation, is related to the decrease in band gap due to the stress generated by the in-plane compressive strain.

  17. Genetic Variation among Staphylococcus aureus Strains from Bovine Milk and Their Relevance to Methicillin-Resistant Isolates from Humans ▿

    PubMed Central

    Hata, Eiji; Katsuda, Ken; Kobayashi, Hideki; Uchida, Ikuo; Tanaka, Kiyoshi; Eguchi, Masashi

    2010-01-01

    In genetic analysis of bovine Staphylococcus aureus isolates that are recognized as an important pathogenic bacterium in bovine mastitis, multilocus sequence typing (MLST) showed strong correlation to the results of pulsed-field gel electrophoresis, coa PCR-restriction fragment length polymorphism (RFLP), spa typing, and the coagulase serotyping method. According to MLST results, strains derived from sequence type 97 (ST97) and ST705 were suggested as not only dominant bovine S. aureus lineages in Japan but also pandemic bovine S. aureus lineages. Although both lineages seem to be distantly related to each other by phylogenetic analysis, both had common characteristics, i.e., lukM/lukF′-PV and coagulase serotype VI. These characteristics were very rare among minor bovine strains and human strains and may contribute to the host specificity of these lineages. Four methicillin-resistant S. aureus (MRSA) isolates were first confirmed from bovine milk in Japan; these isolates showed geno- and serotypes that were identical or similar to those of human MRSA isolates in Japan (ST5, staphylococcal cassette chromosome mec type II [SCCmec II], Spa type t002 or t375, and coagulase serotype II, and ST89, SCCmec IIIa, Spa type t5266, and coagulase serotype I). ST5 and ST89 are uncommon among bovine isolates in the world, whereas these STs are common among human MRSA isolates in Japan. PMID:20392913

  18. Variability among Rhizobium Strains Originating from Nodules of Vicia faba.

    PubMed

    van Berkum, P; Beyene, D; Vera, F T; Keyser, H H

    1995-07-01

    Rhizobium strains from nodules of Vicia faba were diverse in plasmid content and serology. Results of multilocus gel electrophoresis and restriction fragment length polymorphism indicated several deep chromosomal lineages among the strains. Linkage disequilibrium among the chromosomal types was detected and may have reflected variation of Rhizobium strains in the different geographical locations from which the strains originated. An investigation of pea strains with antibodies prepared against fava bean strains and restriction fragment length polymorphism analyses, targeting DNA regions coding for rRNA and nodulation, indicated that Rhizobium strains from V. faba nodules were distinguishable from those from Pisum sativum, V. villosa, and Trifolium spp. PMID:16535075

  19. Defect investigations in InAs/GaSb type-II strained layer superlattice

    NASA Astrophysics Data System (ADS)

    Klein, Brianna

    InAs/GaSb type-II strained layer superlattices are a material used for infrared detection. By adjusting the thickness of the InAs and GaSb layers, the material bandgap can be tuned to absorb photons from 3-30 mum. Compared to competing materials such as HgCdTe and InSb, InAs/GaSb superlattices are more mechanically robust, have reduced tunneling currents, and can use strain to suppress Auger recombination. In spite of these advantages, this material still faces several challenges, including low minority carrier lifetime, resulting from trap levels that cause Schockley-Read-Hall recombination. These low lifetimes lead to reduced signal-to-noise ratio and higher dark current. Therefore, increasing the lifetime is important for improving this material's performance. However, to increase the carrier lifetimes, the origin of the traps must first be understood. In this work, several key suspect causes of the "killer" defect were evaluated. A commonly explored suspect in literature, the interfaces, was studied using time-resolved photoluminescence for three different samples. This characterization method was also used to determine if the doping atom and its layer placement significantly impacted the minority carrier lifetime. There is a substantial amount of evidence that the presence of gallium, or the GaSb layer itself harbors the defect. Thus, the rest of the study focused on aspects of GaSb. Layer intermixing of the In and As atoms into the GaSb layer was studied by intentionally incorporating In and As in bulk GaSb and using photocapacitance characterization to observe any possible defect level formation. In addition, trap level formation for different GaSb growth temperatures was also explored with this characterization technique. Finally, in an attempt to reduce trap densities, GaSb was grown with an increased level of Sb monomers rather than dimers. This material was characterized using dark current density measurements and photoluminescence.

  20. Investigation of a Cross-Correlation Based Optical Strain Measurement Technique for Detecting radial Growth on a Rotating Disk

    NASA Technical Reports Server (NTRS)

    Clem, Michelle M.; Woike, Mark R.

    2013-01-01

    The Aeronautical Sciences Project under NASA`s Fundamental Aeronautics Program is extremely interested in the development of novel measurement technologies, such as optical surface measurements in the internal parts of a flow path, for in situ health monitoring of gas turbine engines. In situ health monitoring has the potential to detect flaws, i.e. cracks in key components, such as engine turbine disks, before the flaws lead to catastrophic failure. In the present study, a cross-correlation imaging technique is investigated in a proof-of-concept study as a possible optical technique to measure the radial growth and strain field on an already cracked sub-scale turbine engine disk under loaded conditions in the NASA Glenn Research Center`s High Precision Rotordynamics Laboratory. The optical strain measurement technique under investigation offers potential fault detection using an applied high-contrast random speckle pattern and imaging the pattern under unloaded and loaded conditions with a CCD camera. Spinning the cracked disk at high speeds induces an external load, resulting in a radial growth of the disk of approximately 50.0-im in the flawed region and hence, a localized strain field. When imaging the cracked disk under static conditions, the disk will be undistorted; however, during rotation the cracked region will grow radially, thus causing the applied particle pattern to be .shifted`. The resulting particle displacements between the two images will then be measured using the two-dimensional cross-correlation algorithms implemented in standard Particle Image Velocimetry (PIV) software to track the disk growth, which facilitates calculation of the localized strain field. In order to develop and validate this optical strain measurement technique an initial proof-of-concept experiment is carried out in a controlled environment. Using PIV optimization principles and guidelines, three potential speckle patterns, for future use on the rotating disk, are developed

  1. Variations in polyoma virus genotype in relation to tumor induction in mice. Characterization of wild type strains with widely differing tumor profiles.

    PubMed Central

    Dawe, C. J.; Freund, R.; Mandel, G.; Ballmer-Hofer, K.; Talmage, D. A.; Benjamin, T. L.

    1987-01-01

    The authors have explored the effects of variations in mouse polyoma virus genotype on patterns of tumor formation in the mouse. Four "wild type" virus strains were surveyed. Two were highly oncogenic, inducing multiple tumors of epithelial and mesenchymal origin, at high frequency and with short latency. The other two strains were weakly oncogenic, inducing fewer tumors, solely of mesenchymal origin, and after a long latency. These sharply contrasting tumor profiles were reproduced with virus stocks derived from molecularly cloned viral genomes. Though vastly different in their oncogenic properties, these cloned viruses proved equally effective in transforming established rat fibroblasts in culture and showed the same patterns of tumor antigen expression in cultured mouse cells. Complexes of polyoma middle T antigen and pp60c-src were demonstrated in extracts of epithelial tumors induced by a highly oncogenic virus strain. It is concluded that polyoma viral genetic determinants for tumor induction in the mouse are more complex than those previously defined by the use of cell transformation systems. Images Figure 1 Figure 2 Figure 3 Figure 4 Figure 5 Figure 6 Figure 7 Figure 8 Figure 9 Figure 10 Figure 11 Figure 12 Figure 13 Figure 14 Figure 15 Figure 16 PMID:2437801

  2. Investigating Charge Transport Mechanisms and Spatially Localized Photocurrent Variation in Organic Photovoltaic Devices

    NASA Astrophysics Data System (ADS)

    Leever, Benjamin Jay

    Although the performance of bulk heterojunction (BHJ) organic photovoltaic (OPV) devices is known to be closely related to the interpenetrating phase-separated network of the photoactive layer nanostructure, much initial work focused on improving relatively simplistic metrics such as efficiency and spectral response. Electron microscopy and tomography have yielded important insights into the nature of device morphology, but these methods are often expensive, time-consuming, and most significantly, do not allow for in situ analysis of operating devices. This dissertation focuses on better understanding the role of interfaces and active layer morphology through approaches that enable the analysis of operating devices. The basic device architecture analyzed here is a glass substrate coated with an indium tin oxide (ITO) anode, a poly(3,4-ethylenedioxythiophene):poly(styrene sulfonate) (PEDOT:PSS) interfacial layer, a poly(3-hexylthiophene):[6,6]-phenyl-C 61-butyric acid methyl ester (P3HT:PCBM) photoactive layer, and an aluminum cathode. The primary analysis techniques include atomic force photovoltaic microscopy (AFPM), developed as part of this work, and impedance spectroscopy with equivalent circuit modeling. Conductive atomic force microscopy and photoelectron spectroscopy techniques are also extensively employed, particularly in the investigation of anode surface properties. AFPM analysis demonstrates spatially localized photocurrent variations in operating micron-scale devices, which are too large to be related to P3HT and PCBM segregation alone. By varying anode surface treatments we show a correlation between the conductive uniformity of the anode surface and the variability observed in the photocurrent, suggesting that electrical inhomogeneities in the anode surface are passed through the active layer film. In situ impedance analysis of P3HT:PCBM devices provides an indirect measure of active layer morphology. We acquire and analyze the impedance response of

  3. Investigation of coastal wave field variations with TerraSAR-X

    NASA Astrophysics Data System (ADS)

    Jacobsen, Sven; Lehner, Susanne; Bruck, Miguel; Gies, Tobias; Pleskachevsky, Andrey; Rosenthal, Wolfgang; Bruns, Thomas

    2014-05-01

    Spaceborne Synthetic Aperture Radar (SAR) is a uniquely powerful sensor providing two-dimensional information of the ocean surface like a broad spectrum of meteo-marine parameters such as windfields, significant wave height, peak wavelength and other seastate characteristics. SAR is particularly suitable for many oceanographic observations due to its high resolution in combination with global coverage and the independence of daylight and cloud conditions. The data has been amongst others used to investigate geophysical processes and for numerical model validation. It has also so been found to be a valuable contribution regarding data assimilation into meteorological, marine and coupled models. The X-band radar of the TerraSAR-X (TS-X) satellite acquires images of the sea surface with a high resolution up to 1m. Due to a lower platform altitude and a higher signal frequency, nonlinear imaging effects of the moving ocean surface are reduced when compared to previous C-band sensors and thus individual ocean waves with wavelengths below 30m are detectable. Minor importance of nonlinear effects in the wave imaging process also gives rise to new empirical model functions to derive sea state parameters directly from the SAR image spectrum properties and thus minimizing data processing time. This is of special interest with regard to the development of near-real-time (NRT) data products often favorable for maritime safety and security applications particularly . The latest generation of the empirical algorithm for TS-X seastate analysis XWAVE has been tuned with hundreds of collocated buoy measurements over the open ocean and subsequent validation exhibits a very good agreement with in-situ data. However, in contrast to the open ocean where seastate parameters do not change significantly on the scale of kilometers, coastal waters exhibit a large spacial variablility owing to ,inter alia, subsurface topography influence. The lateral variation complicates the extraction of

  4. CFD investigation of the influence of volute geometrical variations on hydrodynamic characteristics of circulator pump

    NASA Astrophysics Data System (ADS)

    Wu, Denghao; Yuan, Shouqi; Ren, Yun; Mu, Jiegang; Yang, Youdong; Liu, Jian

    2016-03-01

    Improper design of volute geometry can be the main cause that leads to unsteady pressure pulsation and radial force in pumps. Therefore, it is important to understand the influence of volute geometrical parameters on hydrodynamic characteristics of pump and the mechanism. However, the existing studies are limited to investigate the influence of only one or two volute geometrical parameters each time, and a systematic study of the influence of the combinations of different volute geometrical parameters on the pump's hydrodynamic characteristics is missing. In this paper, a study on the understanding of the influence of volute geometrical variations on hydrodynamic characteristics of a high speed circulator pump by using computational fluid dynamics(CFD) technology is presented. Five main volute geometrical parameters D 3, A 8, α 0, φ 0 and R t are selected and 25 different volute configurations are generated by using design of experiments(DOE) method. The 3D unsteady flow numerical simulations, which are based on the SST k- w turbulence model and sliding mesh technique provided by CFX, are executed on the 25 different volute configurations. The hydraulic performance, pressure pulsation and unsteady radial force inside the pump at design condition are obtained and analyzed. It has been found that volute geometrical parameters D 3 and A 8 are major influence factors on hydrodynamic characteristics of the pump, while α 0, φ 0 and R t are minor influence factors. The minimum contribution from both D 3 and A 8 is 58% on head, and maximum contribution from both D 3 and A 8 is 90% on pressure pulsation. Regarding the pressure pulsation intensity, two peaks can be found. One is in the tongue area and the other is in the diffusor area. The contributions are around 60% from tongue and 25% from diffusor, respectively. The amplitude of pressure pulsation has a quadratic polynomial functional relationship with respect to D 3/ D 2 and A 8/ A 10, and fluctuating level of

  5. Strain-level genomic variation in natural populations of Lebetimonas from an erupting deep-sea volcano

    PubMed Central

    Meyer, Julie L; Huber, Julie A

    2014-01-01

    Chemolithoautotrophic Epsilonproteobacteria are ubiquitous in sulfidic, oxygen-poor habitats, including hydrothermal vents, marine oxygen minimum zones, marine sediments and sulfidic caves and have a significant role in cycling carbon, hydrogen, nitrogen and sulfur in these environments. The isolation of diverse strains of Epsilonproteobacteria and the sequencing of their genomes have revealed that this group has the metabolic potential to occupy a wide range of niches, particularly at dynamic deep-sea hydrothermal vents. We expand on this body of work by examining the population genomics of six strains of Lebetimonas, a vent-endemic, thermophilic, hydrogen-oxidizing Epsilonproteobacterium, from a single seamount in the Mariana Arc. Using Lebetimonas as a model for anaerobic, moderately thermophilic organisms in the warm, anoxic subseafloor environment, we show that genomic content is highly conserved and that recombination is limited between closely related strains. The Lebetimonas genomes are shaped by mobile genetic elements and gene loss as well as the acquisition of novel functional genes by horizontal gene transfer, which provide the potential for adaptation and microbial speciation in the deep sea. In addition, these Lebetimonas genomes contain two operons of nitrogenase genes with different evolutionary origins. Lebetimonas expressed nifH during growth with nitrogen gas as the sole nitrogen source, thus providing the first evidence of nitrogen fixation in any Epsilonproteobacteria from deep-sea hydrothermal vents. In this study, we provide a comparative overview of the genomic potential within the Nautiliaceae as well as among more distantly related hydrothermal vent Epsilonproteobacteria to broaden our understanding of microbial adaptation and diversity in the deep sea. PMID:24257443

  6. Variation in Growth, Colonization of Maize, and Metabolic Parameters of GFP- and DsRed-Labeled Fusarium verticillioides Strains.

    PubMed

    Wu, Lei; Conner, R L; Wang, Xiaoming; Xu, Rongqi; Li, Hongjie

    2016-08-01

    Autofluorescent proteins are frequently applied as visual markers in the labeling of filamentous fungi. Genes gfp and DsRed were transformed into the genome of Fusarium verticillioides via the Agrobacterium tumefaciens-mediated transformation method. The selected transformants displayed a bright green or red fluorescence in all the organelles of the growing fungal mycelia and spores (except for the vacuoles) both in cultures and in the maize (Zea mays) roots they colonized. The results of gene-specific polymerase chain reaction (PCR) analysis and the thermal asymmetrical interlaced (TAIL)-PCR analysis demonstrated that gfp and DsRed were integrated on different chromosomes of the fungus. Reductions in the colony growth on the plates at pH 4.0 and 5.5 was observed for the green fluorescent protein (GFP)-transformant G3 and the DsRed-transformant R4, but transformants G4 and R1 grew as well as the wild-type strain at pH 4.0. The speed of growth of all the transformants was similar to the wild-type strain at pH ≥ 7. The insertion of gfp and DsRed did not alter the production of extracellular enzymes and fumonisin B by F. verticillioides. The transformants expressing GFP and DsRed proteins were able to colonize maize roots. However, the four transformants examined produced fewer CFU in the root samples than the wild-type strain during a sampling period of 7 to 28 days after inoculation. PMID:27088391

  7. Strain variation, based on the hemagglutinin gene, in Norwegian ISA virus isolates collected from 1987 to 2001: indications of recombination.

    PubMed

    Devold, M; Falk, K; Dale, B; Krossøy, B; Biering, E; Aspehaug, V; Nilsen, F; Nylund, A

    2001-11-01

    Infectious salmon anemia (ISA) is caused by a virus that probably belongs to the Orthomyxoviridae and was first recorded in Norway in 1984. The disease has since spread along the Norwegian coast and has later been found in Canada, Scotland, the Faroe Islands, Chile, and the USA. This study presents sequence variation of the hemagglutinin gene from 37 ISA virus isolates, viz. one isolate from Scotland, one from Canada and 35 from Norway. The hemagglutinin gene contains a highly polymorphic region (HPR), which together with the rest of the gene sequence provides a good tool for studies of epizootics. The gene shows temporal and geographical sequence variation, where certain areas are dominated by distinct groups of isolates. Evidence of transmission of ISA virus isolates within and between regions is given. It is suggested that the hemagglutinin gene from different isolates may recombine. Possible recombination sites are found within the HPR and in the 5'-end flanking region close to the HPR. PMID:11775793

  8. Genetic variation responsible for mouse strain differences in integrin {alpha}{sub 2} expression is associated with altered platelet responses to collagen

    SciTech Connect

    Li, Tong-Tong; Larrucea, Susana; Souza, Shiloe; Leal, Suzanne M.; Lopez, Jose A.; Rubin, Edward M.; Nieswandt, Bernhard; Bray, Paul F.

    2003-11-01

    exert quantitative and qualitative alterations in human platelet adhesive receptors. Polymorphisms of both integrin {alpha}{sub 2} and GPIb have been associated with quantitative differences in receptor levels in healthy individuals. The variation of integrin {alpha}{sub 2} in the normal population is 5-fold, and some portion of this variability has been associated with a C/T polymorphism at nucleotide 807. Individuals homozygous for the 807C or 807T alleles have an average 2-fold difference in platelet {alpha}{sub 2} {beta}{sub 1} levels, and this difference has been linked to increased adhesion to collagen and clinical thrombotic events. Comparable alterations in platelet adhesion receptor expression have not been assessed in different mouse strains. Assessing the functional consequences of subtle genetic variations in humans is challenged by numerous gene-gene and gene environment interactions, and studies in mice can greatly minimize these confounding variables. In addition, comparative sequence analyses between species and between nonhuman primates have proved useful for identifying sequences that affect function and expression. Thus, in the case of platelet adhesion receptors, knowing mouse strain differences in expression levels might be valuable for defining the responsible quantitative trait loci as well as affecting strain choice for particular functional experiments.

  9. Investigation of Genetic and Morphological Variation in the Sago Palm (Metroxylon sagu; Arecaceae) in Papua New Guinea

    PubMed Central

    KJÆR, ANDERS; BARFOD, ANDERS S.; ASMUSSEN, CONNY B.; SEBERG, OLE

    2004-01-01

    • Background and Aims The genetic and morphological variation in the sago palm (Metroxylon sagu, Arecaceae) in Papua New Guinea (PNG) was investigated. • Methods Amplified fragment length polymorphism (AFLP) was used to investigate the genetic structure of 76 accessions of M. sagu, collected in seven wild and semi‐wild stands in PNG. • Key Results An analysis of ten quantitative morphological variables revealed that most of these were mutually correlated. Principal component analyses of the same morphological variables showed that neither armature (presence or absence of spines) nor geographical separation was reflected clearly in the quantitative morphological variation. Similarity matrices of genetic, quantitative morphological, geographical and armature data were tested for pair‐wise correlations, using Mantel’s test. The results only showed a significant correlation between genetic and geographical distances. Visual inspection of principal component analyses plots and a neighbour‐joining dendrogram based on genetic distances supported this trend, whereas armature showed no relation with genetic distances. • Conclusions Geographical distribution defines some weak patterns in the genetic variation, whereas the genetic variation does not reflect any patterns in the morphological variation, including armature. The present study supports the accepted taxonomy of M. sagu, recognizing only one species of M. sagu in PNG. PMID:15155379

  10. Development and Characterization of a Reverse Genetic System for Studying Dengue Virus Serotype 3 Strain Variation and Neutralization

    PubMed Central

    Messer, William B.; Yount, Boyd; Hacker, Kari E.; Donaldson, Eric F.; Huynh, Jeremy P.; de Silva, Aravinda M.; Baric, Ralph S.

    2012-01-01

    Dengue viruses (DENV) are enveloped single-stranded positive-sense RNA viruses transmitted by Aedes spp. mosquitoes. There are four genetically distinct serotypes designated DENV-1 through DENV-4, each further subdivided into distinct genotypes. The dengue scientific community has long contended that infection with one serotype confers lifelong protection against subsequent infection with the same serotype, irrespective of virus genotype. However this hypothesis is under increased scrutiny and the role of DENV genotypic variation in protection from repeated infection is less certain. As dengue vaccine trials move increasingly into field-testing, there is an urgent need to develop tools to better define the role of genotypic variation in DENV infection and immunity. To better understand genotypic variation in DENV-3 neutralization and protection, we designed and constructed a panel of isogenic, recombinant DENV-3 infectious clones, each expressing an envelope glycoprotein from a different DENV-3 genotype; Philippines 1982 (genotype I), Thailand 1995 (genotype II), Sri Lanka 1989 and Cuba 2002 (genotype III) and Puerto Rico 1977 (genotype IV). We used the panel to explore how natural envelope variation influences DENV-polyclonal serum interactions. When the recombinant viruses were tested in neutralization assays using immune sera from primary DENV infections, neutralization titers varied by as much as ∼19-fold, depending on the expressed envelope glycoprotein. The observed variability in neutralization titers suggests that relatively few residue changes in the E glycoprotein may have significant effects on DENV specific humoral immunity and influence antibody mediated protection or disease enhancement in the setting of both natural infection and vaccination. These genotypic differences are also likely to be important in temporal and spatial microevolution of DENV-3 in the background of heterotypic neutralization. The recombinant and synthetic tools described here

  11. Extensive Variation and Rapid Shift of the MG192 Sequence in Mycoplasma genitalium Strains from Patients with Chronic Infection

    PubMed Central

    Mancuso, Miriam; Williams, James A.; Van Der Pol, Barbara; Fortenberry, J. Dennis; Jia, Qiuyao; Myers, Leann; Martin, David H.

    2014-01-01

    Mycoplasma genitalium causes persistent urogenital tract infection in humans. Antigenic variation of the protein encoded by the MG192 gene has been proposed as one of the mechanisms for persistence. The aims of this study were to determine MG192 sequence variation in patients with chronic M. genitalium infection and to analyze the sequence structural features of the MG192 gene and its encoded protein. Urogenital specimens were obtained from 13 patients who were followed for 10 days to 14 months. The variable region of the MG192 gene was PCR amplified, subcloned into plasmids, and sequenced. Sequence analysis of 220 plasmid clones yielded 97 unique MG192 variant sequences. MG192 sequence shift was identified between sequential specimens from all but one patient. Despite great variation of the MG192 gene among and within clinical specimens from different patients, MG192 sequences were more related within M. genitalium specimens from an individual patient than between patients. The MG192 variable region consisted of 11 discrete subvariable regions with different degrees of variability. Analysis of the two most variable regions (V4 and V6) in five sequential specimens from one patient showed that sequence changes increased over time and that most sequences were present at only one time point, suggesting immune selection. Topology analysis of the deduced MG192 protein predicted a surface-exposed membrane protein. Extensive variation of the MG192 sequence may not only change the antigenicity of the protein to allow immune evasion but also alter the mobility and adhesion ability of the organism to adapt to diverse host microenvironments, thus facilitating persistent infection. PMID:24396043

  12. Development and characterization of a reverse genetic system for studying dengue virus serotype 3 strain variation and neutralization.

    PubMed

    Messer, William B; Yount, Boyd; Hacker, Kari E; Donaldson, Eric F; Huynh, Jeremy P; de Silva, Aravinda M; Baric, Ralph S

    2012-01-01

    Dengue viruses (DENV) are enveloped single-stranded positive-sense RNA viruses transmitted by Aedes spp. mosquitoes. There are four genetically distinct serotypes designated DENV-1 through DENV-4, each further subdivided into distinct genotypes. The dengue scientific community has long contended that infection with one serotype confers lifelong protection against subsequent infection with the same serotype, irrespective of virus genotype. However this hypothesis is under increased scrutiny and the role of DENV genotypic variation in protection from repeated infection is less certain. As dengue vaccine trials move increasingly into field-testing, there is an urgent need to develop tools to better define the role of genotypic variation in DENV infection and immunity. To better understand genotypic variation in DENV-3 neutralization and protection, we designed and constructed a panel of isogenic, recombinant DENV-3 infectious clones, each expressing an envelope glycoprotein from a different DENV-3 genotype; Philippines 1982 (genotype I), Thailand 1995 (genotype II), Sri Lanka 1989 and Cuba 2002 (genotype III) and Puerto Rico 1977 (genotype IV). We used the panel to explore how natural envelope variation influences DENV-polyclonal serum interactions. When the recombinant viruses were tested in neutralization assays using immune sera from primary DENV infections, neutralization titers varied by as much as ∼19-fold, depending on the expressed envelope glycoprotein. The observed variability in neutralization titers suggests that relatively few residue changes in the E glycoprotein may have significant effects on DENV specific humoral immunity and influence antibody mediated protection or disease enhancement in the setting of both natural infection and vaccination. These genotypic differences are also likely to be important in temporal and spatial microevolution of DENV-3 in the background of heterotypic neutralization. The recombinant and synthetic tools described here

  13. Biochemical analysis and investigation on the prospective applications of alkaline protease from a Bacillus cereus strain.

    PubMed

    Saleem, Mahjabeen; Rehman, Atiqa; Yasmin, Riffat; Munir, Bushra

    2012-06-01

    Proteases have prospective financial and environment-friendly applications; hence attention is focused currently on the finding of new protease producing microorganism so as to meet the requirements of industry. A thermophilic bacterial strain producing extracellular protease activity was isolated from soil and identified as Bacillus cereus by analysis of 16S rRNA. Protease production by the microorganism was improved by studying the impact of the type of nitrogen and carbon source, fermentation period, growth temperature and initial pH of the culture medium in cultivation optimization experiments. The enzyme was purified to homogeneity in two step procedure involving Sephadex G-75 and Q-Sepharose chromatography. The molecular weight of purified enzyme was found to be 58 kDa by SDS-PAGE. Protease exhibited a pH and temperature optima of 7.5 and 60°, respectively. The enzyme was active in the pH range of 6.0-9.0 and stable up to 70°C. Histological analysis of protease treated goat and cow skin pelts showed complete removal of non leather forming structures such as hair shaft, hair follicles and glandular structures. The protease showed the stain removing property from blood stained cotton cloth and found to be compatible with six commercially available detergents. The protease could release peptides from natural proteins after digestion of coagulated egg albumin and blood clot. PMID:22528469

  14. Investigation of Spatial Variation of Sea States Offshore of Humboldt Bay CA Using a Hindcast Model.

    SciTech Connect

    Dallman, Ann Renee; Neary, Vincent Sinclair

    2014-10-01

    Spatial variability of sea states is an important consideration when performing wave resource assessments and wave resource characterization studies for wave energy converter (WEC) test sites and commercial WEC deployments. This report examines the spatial variation of sea states offshore of Humboldt Bay, CA, using the wave model SWAN . The effect of depth and shoaling on bulk wave parameters is well resolved using the model SWAN with a 200 m grid. At this site, the degree of spatial variation of these bulk wave parameters, with shoaling generally perpendicular to the depth contours, is found to depend on the season. The variation in wave height , for example, was higher in the summer due to the wind and wave sheltering from the protruding land on the coastline north of the model domain. Ho wever, the spatial variation within an area of a potential Tier 1 WEC test site at 45 m depth and 1 square nautical mile is almost negligible; at most about 0.1 m in both winter and summer. The six wave characterization parameters recommended by the IEC 6 2600 - 101 TS were compared at several points along a line perpendicular to shore from the WEC test site . As expected, these parameters varied based on depth , but showed very similar seasonal trends.

  15. The role of dissipation and defect energy in variational formulations of problems in strain-gradient plasticity. Part 2: single-crystal plasticity

    NASA Astrophysics Data System (ADS)

    Reddy, B. D.

    2011-11-01

    Variational formulations are constructed for rate-independent problems in small-deformation single-crystal strain-gradient plasticity. The framework, based on that of Gurtin (J Mech Phys Solids 50: 5-32, 2002), makes use of the flow rule expressed in terms of the dissipation function. Provision is made for energetic and dissipative microstresses. Both recoverable and non-recoverable defect energies are incorporated into the variational framework. The recoverable energies include those that depend smoothly on the slip gradients, the Burgers tensor, or on the dislocation densities (Gurtin et al. J Mech Phys Solids 55:1853-1878, 2007), as well as an energy proposed by Ohno and Okumura (J Mech Phys Solids 55:1879-1898, 2007), which leads to excellent agreement with experimental results, and which is positively homogeneous and therefore not differentiable at zero slip gradient. Furthermore, the variational formulation accommodates a non-recoverable energy due to Ohno et al. (Int J Mod Phys B 22:5937-5942, 2008), which is also positively homogeneous, and a function of the accumulated dislocation density. Conditions for the existence and uniqueness of solutions are established for the various examples of defect energy, with or without the presence of hardening or slip resistance.

  16. Phase variation of a Type IIG restriction-modification enzyme alters site-specific methylation patterns and gene expression in Campylobacter jejuni strain NCTC11168.

    PubMed

    Anjum, Awais; Brathwaite, Kelly J; Aidley, Jack; Connerton, Phillippa L; Cummings, Nicola J; Parkhill, Julian; Connerton, Ian; Bayliss, Christopher D

    2016-06-01

    Phase-variable restriction-modification systems are a feature of a diverse range of bacterial species. Stochastic, reversible switches in expression of the methyltransferase produces variation in methylation of specific sequences. Phase-variable methylation by both Type I and Type III methyltransferases is associated with altered gene expression and phenotypic variation. One phase-variable gene of Campylobacter jejuni encodes a homologue of an unusual Type IIG restriction-modification system in which the endonuclease and methyltransferase are encoded by a single gene. Using both inhibition of restriction and PacBio-derived methylome analyses of mutants and phase-variants, the cj0031c allele in C. jejuni strain NCTC11168 was demonstrated to specifically methylate adenine in 5'CCCGA and 5'CCTGA sequences. Alterations in the levels of specific transcripts were detected using RNA-Seq in phase-variants and mutants of cj0031c but these changes did not correlate with observed differences in phenotypic behaviour. Alterations in restriction of phage growth were also associated with phase variation (PV) of cj0031c and correlated with presence of sites in the genomes of these phages. We conclude that PV of a Type IIG restriction-modification system causes changes in site-specific methylation patterns and gene expression patterns that may indirectly change adaptive traits. PMID:26786317

  17. Phase variation of a Type IIG restriction-modification enzyme alters site-specific methylation patterns and gene expression in Campylobacter jejuni strain NCTC11168

    PubMed Central

    Anjum, Awais; Brathwaite, Kelly J.; Aidley, Jack; Connerton, Phillippa L.; Cummings, Nicola J.; Parkhill, Julian; Connerton, Ian; Bayliss, Christopher D.

    2016-01-01

    Phase-variable restriction-modification systems are a feature of a diverse range of bacterial species. Stochastic, reversible switches in expression of the methyltransferase produces variation in methylation of specific sequences. Phase-variable methylation by both Type I and Type III methyltransferases is associated with altered gene expression and phenotypic variation. One phase-variable gene of Campylobacter jejuni encodes a homologue of an unusual Type IIG restriction-modification system in which the endonuclease and methyltransferase are encoded by a single gene. Using both inhibition of restriction and PacBio-derived methylome analyses of mutants and phase-variants, the cj0031c allele in C. jejuni strain NCTC11168 was demonstrated to specifically methylate adenine in 5′CCCGA and 5′CCTGA sequences. Alterations in the levels of specific transcripts were detected using RNA-Seq in phase-variants and mutants of cj0031c but these changes did not correlate with observed differences in phenotypic behaviour. Alterations in restriction of phage growth were also associated with phase variation (PV) of cj0031c and correlated with presence of sites in the genomes of these phages. We conclude that PV of a Type IIG restriction-modification system causes changes in site-specific methylation patterns and gene expression patterns that may indirectly change adaptive traits. PMID:26786317

  18. GNSS strain rate patterns and their application to investigate geodynamical credibility of the GNSS velocities

    NASA Astrophysics Data System (ADS)

    Araszkiewicz, Andrzej; Figurski, Mariusz

    2015-04-01

    The potential that lies in the use of GNSS measurements for crustal deformation studies have already noticed in the beginning of the first of such a system (GPS). Today thanks to the development of satellite positioning techniques it is possible to detect displacement on the Earth surface with an accuracy less than 1 cm. With long-term observations we can determine the velocities even more accurately. Growing demand in the last years for GNSS applications, both for scientific and civil use, meant that new networks of the reference stations were created. Such a dense GNSS networks allow to conduct research in the field of crust deformation at a higher spatial resolution than before. In Europe most of the research focuses on Mediterranean regions, where we can monitor events resulting from the tectonic plates collision. But even in Central Europe we can see effect of Africa push. In our research we focused on Polish territory, where in the past 5 years a nearly 300 reference stations were established. With minimal movements that have been observed in Poland, a key issue in this type of research is to determine the geodynamic reliability of the estimated stations velocities. While the long-term observations enable us to determine the very accurate velocities, it hard to indicate how reliably they reflect actual tectonic movements is. In this paper we proposed a method for testing the reliability of stations velocities based on the strain rate field analysis. The method is based on the analysis of the distribution of the rate of deformation tensor components obtained for triangular elements built on the basis of assessed station. The paper presents the results of numerical simulations and initial use of the method for the Polish network of reference stations: ASG-EUPOS

  19. The non-obese diabetic mouse sequence, annotation and variation resource: an aid for investigating type 1 diabetes

    PubMed Central

    Steward, Charles A.; Gonzalez, Jose M.; Trevanion, Steve; Sheppard, Dan; Kerry, Giselle; Gilbert, James G. R.; Wicker, Linda S.; Rogers, Jane; Harrow, Jennifer L.

    2013-01-01

    Model organisms are becoming increasingly important for the study of complex diseases such as type 1 diabetes (T1D). The non-obese diabetic (NOD) mouse is an experimental model for T1D having been bred to develop the disease spontaneously in a process that is similar to humans. Genetic analysis of the NOD mouse has identified around 50 disease loci, which have the nomenclature Idd for insulin-dependent diabetes, distributed across at least 11 different chromosomes. In total, 21 Idd regions across 6 chromosomes, that are major contributors to T1D susceptibility or resistance, were selected for finished sequencing and annotation at the Wellcome Trust Sanger Institute. Here we describe the generation of 40.4 mega base-pairs of finished sequence from 289 bacterial artificial chromosomes for the NOD mouse. Manual annotation has identified 738 genes in the diabetes sensitive NOD mouse and 765 genes in homologous regions of the diabetes resistant C57BL/6J reference mouse across 19 candidate Idd regions. This has allowed us to call variation consequences between homologous exonic sequences for all annotated regions in the two mouse strains. We demonstrate the importance of this resource further by illustrating the technical difficulties that regions of inter-strain structural variation between the NOD mouse and the C57BL/6J reference mouse can cause for current next generation sequencing and assembly techniques. Furthermore, we have established that the variation rate in the Idd regions is 2.3 times higher than the mean found for the whole genome assembly for the NOD/ShiLtJ genome, which we suggest reflects the fact that positive selection for functional variation in immune genes is beneficial in regard to host defence. In summary, we provide an important resource, which aids the analysis of potential causative genes involved in T1D susceptibility. Database URLs: http://www.sanger.ac.uk/resources/mouse/nod/; http://vega

  20. Use of multiple molecular subtyping techniques to investigate a Legionnaires' disease outbreak due to identical strains at two tourist lodges.

    PubMed Central

    Mamolen, M; Breiman, R F; Barbaree, J M; Gunn, R A; Stone, K M; Spika, J S; Dennis, D T; Mao, S H; Vogt, R L

    1993-01-01

    A multistate outbreak of Legionnaires' disease occurred among nine tour groups of senior citizens returning from stays at one of two lodges in a Vermont resort in October 1987. Interviews and serologic studies of 383 (85%) of the tour members revealed 17 individuals (attack rate, 4.4%) with radiologically documented pneumonia and laboratory evidence of legionellosis. A survey of tour groups staying at four nearby lodges and of Vermont-area medical facilities revealed no additional cases. Environmental investigation of common tour stops revealed no likely aerosol source of Legionella infection outside the lodges. Legionella pneumophila serogroup 1 was isolated from water sources at both implicated lodges, and the monoclonal antibody subtype matched those of the isolates from six patients from whom clinical isolates were obtained. The cultures reacted with monoclonal antibodies MAB1, MAB2, 33G2, and 144C2 to yield a 1,2,5,7 or a Benidorm 030E pattern. The strains were also identical by alloenzyme electrophoresis and DNA ribotyping techniques. The epidemiologic and laboratory data suggest that concurrent outbreaks occurred following exposures to the same L. pneumophila serogroup 1 strain at two separate lodges. Multiple molecular subtyping techniques can provide essential information for epidemiologic investigations of Legionnaires' disease. PMID:8253953

  1. Peripheral temperature variation in the wall of a noncircular duct - An experimental investigation

    NASA Astrophysics Data System (ADS)

    Barrow, H.; Hassan, A. K. A.; Avgerinos, C.

    1984-07-01

    This paper is concerned with the peripheral variation of the temperature in the wall of a straight noncircular duct, with special reference to the prediction of the temperature in the cladding of the fuel rods of a pressurized water reactor, in the event of a loss of coolant. A simple model of the conjugate heat transfers in the wall and the fluid is used to predict the temperature variation around the wall. To test the theory, experiments have been made to determine wall temperatures in a cusped duct using air as the working fluid for a range of fluid flow rates. Overall pressure drop and heat transfer measurements for friction factor and average heat transfer coefficient indicate the inadequacy of the hydraulic radius concept in the case of the very noncircular geometry used in the experiments, and the effect of asymmetry in heat transfer. It is thought that these heat transfer experiments are the first for this particular geometry.

  2. SU-E-T-636: Investigation of Dose Variation in High Dose Radiation Brachytherapy

    SciTech Connect

    Hyvarinen, M; Leventouri, T; Casey, C; Long, S; Pella, S; Dumitru, N; Herrera, R

    2014-06-15

    Purpose: The purpose of this study is to revise most of the HDR types of treatments with their applicators and their localization challenges. Since every millimeter of misplacement counts the study will look into the necessity of increasing the immobilization for several types of applicators Methods: The study took over 136 plans generated by the treatment planning system (TPS) looking into the applicator's placement in regard to the organs at risk (OR) and simulated the three possible displacements at the hottest dose point on the critical organ for several accessories to evaluate the variation of the delivered dose at the point due to the displacement. Results: Significant dose variation was obtained for the Contura, Savi, MLM and Prostate applicators. Conclusion: This study data indicates that an improvement of the immobilization devices for HDR is absolutely necessary. Better applicator fixation devices are required too. Developing new immobilization devices for all the applicators is recommended. Florida Atlantic University may provide Travel reimbursements.

  3. An investigation of the solar zenith angle variation of D-region ionization

    NASA Technical Reports Server (NTRS)

    Ratnasiri, P. A. J.; Sechrist, C. F., Jr.

    1975-01-01

    Model calculations are carried out with a view to interpreting the solar zenith angle variation of D-region ionization. A model is developed for the neutral chemistry including the transport terms relating to molecular and eddy diffusion. The diurnal behavior is described of the minor neutral constituents formed in an oxygen-hydrogen-nitrogen atmosphere, in the height interval between 30 and 120 km. Computations carried out for two cases of the eddy diffusion coefficients models indicate that the constituents which are important for the D-region positive-ion chemistry do not show a significant variation with zenith angle for values up to 75 deg over the D-region heights. In the ion chemistry model, ion-pair production rates are calculated for solar X-rays between 1 A and 100 A, EUV radiations from 100 A up to the Lyman-alpha line, precipitating electrons, and galactic cosmic rays. The solar zenith angle variation of the positive-ion composition, negative-ion composition, and the electron densities are described up to 75 deg zenith angle, in the height interval between 60 and 100 km.

  4. Investigation of capacitance voltage characteristics of strained Si/SiGe n-channel MODFET varactor

    NASA Astrophysics Data System (ADS)

    Elogail, Y.; Kasper, E.; Gunzer, F.; Shaker, A.; Schulze, J.

    2016-06-01

    This work is concerned with the investigation of Capacitance-Voltage (CV) behavior of n-channel Si/SiGe MODFET varactors. This investigation provides a valuable insight into the high frequency response of the device under test and its dependence on design parameters; especially regarding the modulation layer doping concentration. The heterostructure under consideration is much more complicated than conventional MOS varactor with respect to non-uniform doping, energy band offsets and the pn-junction in series. Subsequently, CV characterization has never been applied to such MODFET varactor structure. Experimental CV measurements have shown a non-monotonic behavior with a transition point minimum and higher saturation levels on both sides, in contradiction to the conventional high frequency MOS characteristics. This behavior was confirmed qualitatively using simulations. Moreover, we explain some fundamental capacitance properties of the structure, which provide already very interesting perceptions of the MODFET varactor operation, modeling and possible applications using the obtained stimulating results.

  5. The investigation of short-term variations of Jupiter's Synchrotron Radiation with the large radio interferometer GMRT

    NASA Astrophysics Data System (ADS)

    Imai, Kota; Misawa, Hiroaki; Bhardwaj, Anil; Tsuchiya, Fuminori; Doi, Akihiro; Kondo, Tetsuro; Morioka, Akira

    The goal of this research is to investigate physical processes of short term variations of Jupiter's Synchrotron Radiation (JSR) which is important for revealing the origin of relativistic electrons at Jupiter's Radiation Belt (JRB). JSR has been frequently observed by radio interferometers and single dish radio telescopes to understand characteristics of the spatial distribution and variations inferring dynamics and energetics of the relativistic electrons. Observations with radio interferometers have showed JSR source structure (Dunn et al., 2003, etc), and contributed to modeling of JRB (Garrett et al., 2005, etc). On the other hand, observations of total intensity of JSR with a single dish radio telescope have revealed characteristics of time variable phenomena. The time variations are indispensable parameters giving clues to understand particle source and/or loss processes which characterize the formation of JRB. Recently, Miyoshi et al. (1999) and Bolton et al. (2002) confirmed the existence of short term (days to weeks) variations in JSR. The detection of short term variations makes a great impact on the study on JRB because it has been believed for a long time that the strong internal magnetic field and rapidly rotating magnetosphere of Jupiter protect the JRB region from solar wind variations and magnetospheric disturbances as theoretically suggested by de Pater and Goertz (1994). So far we have made the JSR observations to investigate the short term variations of mainly several hundreds MHz JSR which is emitted by low energy particles (< 10MeV) and has been observed systematically only few times (Miyoshi et al., 1999, Misawa et al., 2005, etc). The latter observation suggested that the short term variation is a general feature at low frequencies. Therefore, it is essential to study its detailed characteristics and the causalities. Theoretically expected physical processes which are responsible for the short term variation are enhanced radial diffusion

  6. Cellular and Molecular Investigations of the Adhesion and Mechanics of Listeria monocytogenes Lineages’ I and II Environmental and Epidemic Strains

    PubMed Central

    Eskhan, Asma O.; Abu-Lail, Nehal I.

    2013-01-01

    Atomic force microscopy (AFM) was used to probe the mechanical and adherence properties of eight L. monocytogenes’ strains representative of the species’ two phylogenetic lineages I and II. From a functional perspective, lineage’ I strains were characterized by lower overall adhesion forces and higher specific and nonspecific forces compared to lineage’ II strains. From a structural perspective, lineage’ II strains were characterized by higher Young’s moduli and longer and stiffer biopolymers compared to lineage’ I strains. Both lineages’ I and II strains were similar in their grafting densities. Finally, our results indicated that epidemic and environmental strains of L. monocytogenes and irrespective of their lineage group were characterized by similar Young’s moduli of elasticties and adhesion forces at the cellular level. However, at the molecular level, epidemic strains were characterized by higher specific and nonspecific forces, shorter, denser and more flexible biopolymers compared to environmental strains. PMID:23261349

  7. Cellular and molecular investigations of the adhesion and mechanics of Listeria monocytogenes lineages' I and II environmental and epidemic strains.

    PubMed

    Eskhan, Asma O; Abu-Lail, Nehal I

    2013-03-15

    Atomic force microscopy (AFM) was used to probe the mechanical and adherence properties of eight Listeria monocytogenes' strains representative of the species' two phylogenetic lineages I and II. From a functional perspective, lineage' I strains were characterized by lower overall adhesion forces and higher specific and nonspecific forces compared to lineage' II strains. From a structural perspective, lineage' II strains were characterized by higher Young's moduli and longer and stiffer biopolymers compared to lineage' I strains. Both lineages' I and II strains were similar in their grafting densities. Finally, our results indicated that epidemic and environmental strains of L. monocytogenes and irrespective of their lineage group were characterized by similar Young's moduli of elasticities and adhesion forces at the cellular level. However, at the molecular level, epidemic strains were characterized by higher specific and nonspecific forces, shorter, denser, and more flexible biopolymers compared to environmental strains. PMID:23261349

  8. Genetic variation of southern hemisphere fur seals (Arctocephalus spp.): investigation of population structure and species identity.

    PubMed

    Lento, G M; Haddon, M; Chambers, G K; Baker, C S

    1997-01-01

    We have examined phylogenetic and geographic patterns of variation in the mitochondrial cytochrome b gene of Southern Hemisphere fur seals (Arctocephalus spp.). Our survey of 106 individuals from four putative species reveals three distinct patterns of variation reflecting ancient, recent historic, and contemporary gene flow. For the combined samples of Subantarctic (Arctocephalus tropicalis) and Antarctic (Arctocephalus gazella) fur seals, we find low levels of sequence diversity and reciprocal paraphyly of hapiotypes (where representative haplotypes of a species are found to occur infrequently in another species and vice versa). For the Australian and Cape fur seal subspecies (Arctocephalus pusillus doriferus and A. p. pusillus, respectively), we find low levels of sequence diversity but significant differences in the regional distribution of haplotypes that are consistent with, but not conclusive of, the current subspecies definition based on nonmolecular data. For the New Zealand fur seal (Arctocephalus forsteri), we find high levels of average sequence diversity because of the survival of two divergent lineages of mitochondrial hapiotypes with differences approaching that found in interspecific comparisons of other mammals. The two divergent clades are distributed sympatrically in some regions, but the overall geographic structure of the variation is significant across the range of this species. These new molecular data are inconsistent with current taxonomic definitions of species within the Southern Hemisphere fur seals and argue for reevaluation of these "species" definitions. For management purposes, the definition of evolutionarily significant units (Ryder 1986) and genetic management units (Moritz 1994) in relation to these species may also be evaluated in light of this molecular genetic information. PMID:9183848

  9. An investigation of surface albedo variations during the recent Sahel drought

    NASA Technical Reports Server (NTRS)

    Norton, C. C.; Mosher, F. R.; Hinton, B.

    1979-01-01

    Applications Technology Satellite (ATS) 3 green sensor data are used to measure surface reflectance variations in the Sahara/Sahel during the recent drought period 1967-74. The magnitude of the seasonal reflectance change is shown to be as much as 80% for years of normal precipitation and less than 50% for drought years. Year-to-year comparisons during both wet and dry seasons reveal the existence of a surface reflectance cycle coincident with the drought intensity. The relationship between the green reflectance and solar albedo is examined and estimated to be about 0.6 times the reflectance change observed by the green channel.

  10. An investigation of surface albedo variations during the recent sahel drought. [ats 3 observations

    NASA Technical Reports Server (NTRS)

    Norton, C. C.; Mosher, F. R.; Hinton, B.

    1978-01-01

    Applications Technology Satellite 3 green sensor data were used to measure surface reflectance variations in the Sahara/Sahel during the recent drought period; 1967 to 1974. The magnitude of the seasonal reflectance change is shown to be as much as 80% for years of normal precipitation and less than 50% for drought years. Year to year comparisons during both wet and dry seasons reveal the existence of a surface reflectance cycle coincident with the drought intensity. The relationship between the green reflectance and solar albedo is examined and estimated to be about 0.6 times the reflectance change observed by the green channel.

  11. Foundation, analysis, and numerical investigation of a variational network-based model for rubber

    NASA Astrophysics Data System (ADS)

    Gloria, Antoine; Le Tallec, Patrick; Vidrascu, Marina

    2014-01-01

    Since the pioneering work by Treloar, many models based on polymer chain statistics have been proposed to describe rubber elasticity. Recently, Alicandro, Cicalese, and the first author rigorously derived a continuum theory of rubber elasticity from a discrete model by variational convergence. The aim of this paper is twofold. First, we further physically motivate this model and complete the analysis by numerical simulations. Second, in order to compare this model to the literature, we present in a common language two other representative types of models, specify their underlying assumptions, check their mathematical properties, and compare them to Treloar's experiments.

  12. Individual variation in p53 and Cip1 expression profiles in normal human fibroblast strains following exposure to high-let radiation

    SciTech Connect

    Carpenter, T.R.; Johnson, N.F.; Gilliland, F.D.

    1995-12-01

    Exposure to {alpha}-particles emitted by radon progeny appears to be the second-leading cause of lung cancer mortality. However, individual susceptibility to the carcinogenic effects of {alpha}-particles remains poorly characterized. Variation in susceptibility to cancer produced by certian classes of DNA-damaging chemicals is suspected to involve differences in metabolic activation and detoxication. Susceptibility to {alpha}-particle-induced cancer may involve variations in capacity or opportunity to repair DNA damage. Subtle variations in DNA repair capacity would more likely explain radon-related lung cancer susceptibility. The p53 tumor suppressor protein accumulates as a cellular response to DNA damage from ionizing radiation and regulates arrest in the G{sub 1} portion of the cell cycle. Arrest in G{sub 1} portion of the cell cycle. While upstream regulation of p53 protein stability is poorly understood, variations in the ability to accumulate p53 following DNA damage represent potential variations in lung cancer susceptibility related to radon progeny. Further, transcription of the cell-cycle regulatory gene Cip1 is regulated by p53 and increases following ionizing radiation. Therefore, variations in the expression of Cip1 following {alpha}-particle exposure may also be a susceptibility factor in radon-related lung cancers. The purpose of the present investigation was to measure p53 and Cip1 protein induction following {alpha}-particle exposure of fibroblast lines from nine individuals to determine if there were significant variations. The expression of Cip1 protein indicates the differences in response are biologically relevant.

  13. Optical investigation of a strain-induced mixed type-I-type-II superlattice system: CdTe/Cd1-xZnxTe

    NASA Astrophysics Data System (ADS)

    Tuffigo, H.; Magnea, N.; Mariette, H.; Wasiela, A.; Merle D'aubigné, Y.

    1991-06-01

    We present a systematic optical study of strained, CdTe/Cd1-xZnxTe (x~=0.1) superlattices grown by molecular-beam epitaxy. We have observed the intrinsic heavy- and light-hole exciton transitions of these superlattices, as well as the excited states (2s) of the heavy-hole exciton. By studying the energy variation of these transitions as a function of the period, we point out the mixed nature of the superlattice band structure (type I or II for heavy- or light-hole exciton transitions, respectively) due to the opposite strain experienced by the two kinds of layer (CdTe and Cd1-xZnxTe); this is revealed by the relative variation of the light-hole exciton binding energy as a function of the superlattice period compared with that of the heavy hole. All these data provide a determination of the partition of the band-gap discontinuities between the valence and the conduction bands, found to lie between 1/9 and -1/11. Because the valence-band configuration is essentially influenced by the strain, we change the respective energy positions of the direct and indirect exciton transitions just by changing the average strain in the superlattice (namely, by growing the structures on buffer layers of different zinc concentrations); therefore we observe a strain-mediated type-I-type-II transition.

  14. Variation in characteristics of islets of Langerhans in insulin-resistant, diabetic and non-diabetic-rat strains

    PubMed Central

    Jones, Huw Bowen; Nugent, David; Jenkins, Richard

    2010-01-01

    Assessment of the histopathological and plasma biochemical characteristics of diabetic and non-diabetic rat strains [Han and AP Wistar, lean and obese Zucker Fatty (ZF), and lean and obese Zucker Diabetic Fatty (ZDF) rats] was performed at 6 or 14 weeks of age. Wistar and lean ZF and ZDF rats showed no or minimal islet pathology or plasma biochemical alterations at both timepoints. Obese ZFs were euglycaemic at both timepoints and mildly and severely hyperinsulinaemic at 6 and 14 weeks respectively. Islet morphology was normal at 6 weeks but at 14 weeks, islet hyperplasia was present with a minority showing degenerative changes namely, β-cell vacuolation, vascular congestion and haemorrhage with minimal mononuclear cell and T lymphocytic infiltration. Obese ZDFs were euglycaemic and moderately hyperinsulinaemic at 6 weeks and severely hyperglycaemic with minor hypoinsulinaemia at 14 weeks. Obese ZDFs at 6 weeks showed mainly normal islets with some displaying degeneration (ranging from β-cell vacuolation alone to the features described above). At 14 weeks, islet degeneration was more severe and widespread: β-cell death was present in numerous islets at low level. Islet β-cell numbers were reduced or absent (with associated reduction in insulin immunostaining) within the islets that now consisted predominantly of fibroblasts, collagen and mononuclear cells. Fibroproliferation consisting of smooth muscle actin-α-positive tissue was associated with mononuclear cell infiltration. Some fibrous scars were visible indicative of lost islets. Islet degeneration in obese ZF and ZDF rats was not accompanied by a reduction in β-cell proliferation or in compensatory proliferation of β-cell neogenic clusters. In the light of recent reports of adaptive and inflammation-mediated degenerative changes in human non-insulin dependent diabetes mellitus (NIDDM) islets, the hypertrophy/hyperplasia of β-cells and islet degeneration involving infiltration by monocyte/macrophages in

  15. Variation in characteristics of islets of Langerhans in insulin-resistant, diabetic and non-diabetic-rat strains.

    PubMed

    Jones, Huw Bowen; Nugent, David; Jenkins, Richard

    2010-06-01

    Assessment of the histopathological and plasma biochemical characteristics of diabetic and non-diabetic rat strains [Han and AP Wistar, lean and obese Zucker Fatty (ZF), and lean and obese Zucker Diabetic Fatty (ZDF) rats] was performed at 6 or 14 weeks of age. Wistar and lean ZF and ZDF rats showed no or minimal islet pathology or plasma biochemical alterations at both timepoints. Obese ZFs were euglycaemic at both timepoints and mildly and severely hyperinsulinaemic at 6 and 14 weeks respectively. Islet morphology was normal at 6 weeks but at 14 weeks, islet hyperplasia was present with a minority showing degenerative changes namely, beta-cell vacuolation, vascular congestion and haemorrhage with minimal mononuclear cell and T lymphocytic infiltration. Obese ZDFs were euglycaemic and moderately hyperinsulinaemic at 6 weeks and severely hyperglycaemic with minor hypoinsulinaemia at 14 weeks. Obese ZDFs at 6 weeks showed mainly normal islets with some displaying degeneration (ranging from beta-cell vacuolation alone to the features described above). At 14 weeks, islet degeneration was more severe and widespread: beta-cell death was present in numerous islets at low level. Islet beta-cell numbers were reduced or absent (with associated reduction in insulin immunostaining) within the islets that now consisted predominantly of fibroblasts, collagen and mononuclear cells. Fibroproliferation consisting of smooth muscle actin-alpha-positive tissue was associated with mononuclear cell infiltration. Some fibrous scars were visible indicative of lost islets. Islet degeneration in obese ZF and ZDF rats was not accompanied by a reduction in beta-cell proliferation or in compensatory proliferation of beta-cell neogenic clusters. In the light of recent reports of adaptive and inflammation-mediated degenerative changes in human non-insulin dependent diabetes mellitus (NIDDM) islets, the hypertrophy/hyperplasia of beta-cells and islet degeneration involving infiltration by

  16. Structural investigation of an extracellular polysaccharide produced by the cariogenic bacterium Streptococcus mutans strain UA159.

    PubMed

    Li, Bo; Dobruchowska, Justyna M; Hoogenkamp, Michel A; Gerwig, Gerrit J

    2012-09-01

    The structure of an extracellular polysaccharide EPS159 produced from sucrose by Streptococcus mutans UA159 was investigated through the main oligosaccharides obtained from partial acid hydrolysis, monosaccharide/methylation analysis, and 1D/2D (1)H NMR spectroscopy. The results showed that EPS159 contained terminal, 3-substituted, 6-substituted, and 3,6-disubstituted α-D-glucopyranose residues in a molar percentage of 14, 18, 54, and 14%. The backbone of EPS159 was composed of →6)Glcp(1→ residues, and about 20% of the →6)Glcp(1→ residues was substituted at 3-OH by →3)Glcp(1→ and/or Glcp(1→ residues to form side chains. A composite model of EPS159, that includes all identified structural features, was formulated: [Formula, see text:]. PMID:24751092

  17. Investigations of secular variations spatial structure in the Ukrainian repeat stations network

    NASA Astrophysics Data System (ADS)

    Maksymchuk, V.; Horodyskyy, Yu.

    2009-04-01

    Magnetic and electromagnetic variations before local earthquakes in the Transcarpathians active seismic zone V. Maksymchuk, Yu.Horodyskyy, V.Kuznetsova, T.Klymkovych (Carpathian Branch of S.I.Subbotin's Institute of Geophysics, National Academy of Sci. of Ukraine, Lviv) The territory of Transcarpathians is one of the most active seismic zones in the Ukrainian Carpathians. Its seismicity is characterized by earthquakes with sources in Eastern Carpathians, Poland, Slovakia, Hungary and Romania. An influence of catastrophic deep focuses earthquakes from the Vranch zone (Romania) is felt here up to 4 units after MSK-64 scale. In 1970th years was founded the Carpathian geodynamic polygon in this region to study earthquakes precursors in different geomagnetic fields. To define magnetic precursors of earthquakes in the Transcarpathians active seismic zone during more then 20 years continuous measurements of F module on 4 permanent seismic stations are fulfilled. They are based in the zones of active faults in 30 - 50 km range. The analyses of ΔF anomalous changes shows characteristic bay-like and positive-negative changing anomalies, abrupt level changes with following slow leveling, long-term trends, high-dispersion periods and short-terms fluctuations of a field in the Transcarpathian active seismic trough. Mostly such anomalies have a bay-like form. For earthquakes with epicenters in the deep Thranscarpathian fault zone in differential field ΔF corresponds positive anomalies, and for earthquakes in Vyhorlat-Gutin volcanic zone amount of positive and negative anomalies is equal. Evidently, anomalies are caused by piezo-magnetic effect when an epicenter is located in magnetic rocks, or by electro-kinetic effect in fault zones of a sedimentary cover. Except named anomalous effects that are related with local earthquakes, in a differential field ΔF mostly in spring are observed anomalies without any connection with seismic events. Time connections of such anomalies with

  18. An exploratory investigation of the flight dynamics effects of rotor rpm variations and rotor state feedback in hover

    NASA Technical Reports Server (NTRS)

    Chen, Robert T. N.

    1992-01-01

    This paper presents the results of an analytical study conducted to investigate airframe/engine interface dynamics, and the influence of rotor speed variations on the flight dynamics of the helicopter in hover, and to explore the potential benefits of using rotor states as additional feedback signals in the flight control system. The analytical investigation required the development of a parametric high-order helicopter hover model, which included heave/yaw body motion, the rotor speed degree of freedom, rotor blade motion in flapping and lead-lag, inflow dynamics, a drive train model with a flexible rotor shaft, and an engine/rpm governor. First, the model was used to gain insight into the engine/drive train/rotor system dynamics and to obtain an improved simple formula for easy estimation of the dominant first torsional mode, which is important in the dynamic integration of the engine and airframe system. Then, a linearized version of the model was used to investigate the effects of rotor speed variations and rotor state feedback on helicopter flight dynamics. Results show that, by including rotor speed variations, the effective vertical damping decreases significantly from that calculated with a constant speed assumption, thereby providing a better correlation with flight test data. Higher closed-loop bandwidths appear to be more readily achievable with rotor state feedback. The results also indicate that both aircraft and rotor flapping responses to gust disturbance are significantly attenuated when rotor state feedback is used.

  19. Investigation of the dynamic stress–strain response of compressible polymeric foam using a non-parametric analysis

    DOE PAGESBeta

    Koohbor, Behrad; Kidane, Addis; Lu, Wei -Yang; Sutton, Michael A.

    2016-01-25

    Dynamic stress–strain response of rigid closed-cell polymeric foams is investigated in this work by subjecting high toughness polyurethane foam specimens to direct impact with different projectile velocities and quantifying their deformation response with high speed stereo-photography together with 3D digital image correlation. The measured transient displacement field developed in the specimens during high stain rate loading is used to calculate the transient axial acceleration field throughout the specimen. A simple mathematical formulation based on conservation of mass is also proposed to determine the local change of density in the specimen during deformation. By obtaining the full-field acceleration and density distributions,more » the inertia stresses at each point in the specimen are determined through a non-parametric analysis and superimposed on the stress magnitudes measured at specimen ends to obtain the full-field stress distribution. Furthermore, the process outlined above overcomes a major challenge in high strain rate experiments with low impedance polymeric foam specimens, i.e. the delayed equilibrium conditions can be quantified.« less

  20. Investigation of laser shock induced ductile damage at ultra-high strain rate by using large scale MD simulations

    NASA Astrophysics Data System (ADS)

    Cuq-Lelandais, Jean-Paul; Boustie, Michel; Soulard, Laurent; Berthe, Laurent; Bontaz-Carion, Joëlle; de Resseguier, Thibaut

    2011-06-01

    Laser driven shocks allow to investigate materials behavior at very high strain rate (107s-1) and presents a great interest for research applications. Microscopic simulations of ultra-short laser driven shock on micrometric Tantalum single-crystals have been performed by using the CEA-DAM Classical Molecular Dynamics code. This method, complementary to continuum models, provides an analysis the microscopic processes related to damage (ductile pore nucleation and growth) which occurs during spallation. This results are compared to spallation experiments data (VISAR signals, micro-tomography) obtained with the LULI100TW femtosecond laser in order to validate the MD behavior. Moreover, in the framework of a multi-scale approach, we show the possibility to use MD simulation to fit macroscopic damage models. This method is illustrated with an application to the parameters determination of the Kanel criterion. This also shows the high strain rates involved during damage process, around 109s-1, allow to approach the inter-atomic theoretical cohesion stress threshold.

  1. Investigation of laser shock induced ductile damage at ultra-high strain rate by using large scale MD simulations

    NASA Astrophysics Data System (ADS)

    Cuq-Lelandais, Jean-Paul; Boustie, Michel; Soulard, Laurent; Berthe, Laurent; Bontaz-Carion, Joelle; de Resseguier, Thibaut

    2012-03-01

    Laser driven shocks allow an investigation of materials behavior at very high strain rate (107s-1) and present a great interest for research applications. Microscopic simulations of ultra-short laser driven shock on micrometric Tantalum single-crystals have been performed by using the CEADAM Classical Molecular Dynamics code. This method, complementary to continuum models, provides an analysis the microscopic processes related to damage (ductile pore nucleation and growth) which occurs during spallation. These results are compared to spallation experimental data (VISAR signals, micro-tomography) obtained with the LULI100TW femtosecond laser in order to validate the MD behavior. Moreover, in the framework of a multi-scale approach, we show the possibility to use MD simulation to fit macroscopic damage models. This method is illustrated with an application to the parameters determination of Kanel damage model parameters. This also shows the high strain rates involved during damage process, around 109s-1, can approach the inter-atomic theoretical cohesion stress threshold.

  2. Influences of Vowel and Tone Variation on Emergent Word Knowledge: A Cross-Linguistic Investigation

    ERIC Educational Resources Information Center

    Singh, Leher; Hui, Tam Jun; Chan, Calista; Golinkoff, Roberta Michnick

    2014-01-01

    To learn words, infants must be sensitive to native phonological contrast. While lexical tone predominates as a source of phonemic contrast in human languages, there has been little investigation of the influences of lexical tone on word learning. The present study investigates infants' sensitivity to tone mispronunciations in two groups of…

  3. Coronary stent strut size dependent stress-strain response investigated using micromechanical finite element models.

    PubMed

    Savage, P; O'Donnell, B P; McHugh, P E; Murphy, B P; Quinn, D F

    2004-02-01

    Cardiovascular stents are metal scaffolds that are used in the treatment of atherosclerosis. These devices are typically composed of very thin struts (< or = 100 microm thickness, for coronary applications). At this size-scale the question arises as to the suitability of using bulk material properties in stent design. This paper investigates the use of finite element analysis to predict the mechanical failure of stent struts, typical of the strut size used in coronary stents. 316 L stainless steel in uniaxial loading was considered. To accurately represent the constitutive behavior of the material at this size-scale, a computational micromechanics approach was taken involving an explicit representation of the grain structure in the steel struts, and the use of crystal plasticity theory to represent the constitutive behavior of the individual grains. The development of the finite element models is discussed and results are presented for the predictions of tensile mechanical behavior as a function of strut thickness. The results showed that using this modelling approach, a size effect, already seen experimentally, is produced. This has significant implications for stent design, especially in the context of the desire to produce smaller stents for small bore neurovascular and peripheral artery applications. PMID:15008368

  4. Investigation of factors affecting the calibration of strain gage based transducers ( Goodzeit gages'') for SSC magnets

    SciTech Connect

    Davidson, M.; Gilbertson, A.; Dougherty, M.

    1991-03-01

    These transducers are designed to measure stresses on SSC collared coils. They are individually calibrated with a bonded ten-stack of SSC inner coil cable by applying a known load and reading corresponding output from the gages. The transducer is supported by a notched backing plate'' that allows for bending of the gage beam during calibration or in use with an actual coil. Several factors affecting the calibration and use of the transducers are: the number of times a backing plate'' is used, the similarities or difficulties between bonded ten-stacks, and the differences between the ten-stacks and the coil they represent. The latter is probably the most important because a calibration curve is a model of how a transducer should react within a coil. If the model is wrong, the calibration curve is wrong. Information will be presented regarding differences in calibrations between Brookhaven National Labs (also calibrating these transducers) and Fermilab -- what caused these differences, the investigation into the differences between coils and ten-stacks and how they relate to transducer calibration, and some suggestions for future calibrations.

  5. An investigation into genetic and phenotypic variation in time budgets and yield of dairy cows.

    PubMed

    Løvendahl, Peter; Munksgaard, Lene

    2016-01-01

    Time budgets (TB) of lactating Holstein cows in a freestall loose housing system were recorded twice in early and late lactation to study genetic and phenotypic variation in TB. Time budget traits were recorded using focal animal scanning at 10-min intervals for full 24-h sessions. The study included 243 first-lactation cows, with 389 TB records in early lactation (50 to 123 d in milk) and 403 records in late lactation (152 to 248 d in milk). Milk was recorded at 3-wk intervals during the same periods, and yield was expressed as energy-corrected milk. Time budget traits were analyzed with mixed linear models to obtain estimates of genetic variation (heritability) and permanent animal variance (repeatability). Correlations between TB traits and energy-corrected milk yield were estimated at the individual cow level. In early lactation, the cows spent, on average, 5.0 h eating and 1.8h at feed gates without eating while they were still locked in the gates. Cows lay down for 10.4h and stood in stalls for 3.2h. The cows also spent 2.8h standing in aisles, but only 0.5h in the milking area. In late lactation, cows spent 1h more lying, but less time standing in stalls and less time eating and at the feed gates. Time budget traits were moderately repeatable although highly consistent across lactation stages. Estimates of heritability were moderate for eating time (0.20) but almost zero for lying time. Correlations showed that cows with higher yield spent more time eating and less time lying. As there is a trade-off between lying time and eating time, lying time approached lower limits for cows with highest yields. It is suggested that time is viewed as an important but restricted resource that cows may be short of while trying to maintain high yields. PMID:26519973

  6. Investigation of the summer Kara Sea circulation employing a variational data assimilation technique

    NASA Astrophysics Data System (ADS)

    Panteleev, G.; Proshutinsky, A.; Kulakov, M.; Nechaev, D. A.; Maslowski, W.

    2007-04-01

    The summer circulations and hydrographic fields of the Kara Sea are reconstructed for mean, positive and negative Arctic Oscillation regimes employing a variational data assimilation technique which provides the best fit of reconstructed fields to climatological data and satisfies dynamical and kinematic constraints of a quasi-stationary primitive equation ocean circulation model. The reconstructed circulations agree well with the measurements and are characterized by inflow of 0.63, 0.8, 0.51 Sv through Kara Gate and 1.18, 1.1, 1.12 Sv between Novaya Zemlya and Franz Josef Land, for mean climatologic conditions, positive and negative AO indexes, respectively. The major regions of water outflow for these regimes are the St. Anna Trough (1.17, 1.21, 1.34 Sv) and Vilkitsky/Shokalsky Straits (0.52, 0.7, 0.51 Sv). The optimized velocity pattern for the mean climatological summer reveals a strong anticyclonic circulation in the central part of the Kara Sea (Region of Fresh Water Inflow, ROFI zone) and is confirmed by ADCP surveys and laboratory modeling. This circulation is well pronounced for both high and low AO phases, but in the positive AO phase it is shifted approximately 200 km west relatively to its climatological center. During the negative AO phase the ROFI locaion is close to its climatological position. The results of the variational data assimilation approach were compared with the simulated data from the Hamburg Shelf Ocean Model (HAMSOM) and Naval Postgraduate School 18 km resolution (NPS-18) model to validate these models.

  7. Extensive lava flow fields on Venus: Preliminary investigation of source elevation and regional slope variations

    NASA Technical Reports Server (NTRS)

    Magee-Roberts, K.; Head, James W., III; Lancaster, M. G.

    1992-01-01

    Large-volume lava flow fields have been identified on Venus, the most areally extensive of which are known as fluctus and have been subdivided into six morphologic types. Sheetlike flow fields (Type 1) lack the numerous, closely spaced, discrete lava flow lobes that characterize digitate flow fields. Transitional flow fields (Type 2) are similar to sheetlike flow fields but contain one or more broad flow lobes. Digitate flow fields are divided further into divergent (Types 3-5) and subparallel (Type 6) classes on the basis of variations in the amount of downstream flow divergence. As a result of our previous analysis of the detailed morphology, stratigraphy, and tectonic associations of Mylitta Fluctus, we have formulated a number of questions to apply to all large flow fields on Venus. In particular, we would like to address the following: (1) eruption conditions and style of flow emplacement (effusion rate, eruption duration), (2) the nature of magma storage zones (presence of neutral buoyancy zones, deep or shallow crustal magma chambers), (3) the origin of melt and possible link to mantle plumes, and (4) the importance of large flow fields in plains evolution. To answer these questions we have begun to examine variations in flow field dimension and morphology; the distribution of large flow fields in terms of elevation above the mean planetary radius; links to regional tectonic or volcanic structures (e.g., associations with large shield edifices, coronae, or rift zones); statigraphic relationships between large flow fields, volcanic plains, shields, and coronae; and various models of flow emplacement in order to estimate eruption parameters. In this particular study, we have examined the proximal elevations and topographic slopes of 16 of the most distinctive flow fields that represent each of the 6 morphologic types.

  8. Deep short-read sequencing of chromosome 17 from the mouse strains A/J and CAST/Ei identifies significant germline variation and candidate genes that regulate liver triglyceride levels.

    PubMed

    Sudbery, Ian; Stalker, Jim; Simpson, Jared T; Keane, Thomas; Rust, Alistair G; Hurles, Matthew E; Walter, Klaudia; Lynch, Dee; Teboul, Lydia; Brown, Steve D; Li, Heng; Ning, Zemin; Nadeau, Joseph H; Croniger, Colleen M; Durbin, Richard; Adams, David J

    2009-01-01

    Genome sequences are essential tools for comparative and mutational analyses. Here we present the short read sequence of mouse chromosome 17 from the Mus musculus domesticus derived strain A/J, and the Mus musculus castaneus derived strain CAST/Ei. We describe approaches for the accurate identification of nucleotide and structural variation in the genomes of vertebrate experimental organisms, and show how these techniques can be applied to help prioritize candidate genes within quantitative trait loci. PMID:19825173

  9. Investigation of Specific Substitutions in Virulence Genes Characterizing Phenotypic Groups of Low-Virulence Field Strains of Listeria monocytogenes

    PubMed Central

    Roche, S. M.; Gracieux, P.; Milohanic, E.; Albert, I.; Virlogeux-Payant, I.; Témoin, S.; Grépinet, O.; Kerouanton, A.; Jacquet, C.; Cossart, P.; Velge, P.

    2005-01-01

    Several models have shown that virulence varies from one strain of Listeria monocytogenes to another, but little is known about the cause of low virulence. Twenty-six field L. monocytogenes strains were shown to be of low virulence in a plaque-forming assay and in a subcutaneous inoculation test in mice. Using the results of cell infection assays and phospholipase activities, the low-virulence strains were assigned to one of four groups by cluster analysis and then virulence-related genes were sequenced. Group I included 11 strains that did not enter cells and had no phospholipase activity. These strains exhibited a mutated PrfA; eight strains had a single amino acid substitution, PrfAK220T, and the other three had a truncated PrfA, PrfAΔ174-237. These genetic modifications could explain the low virulence of group I strains, since mutated PrfA proteins were inactive. Group II and III strains entered cells but did not form plaques. Group II strains had low phosphatidylcholine phospholipase C activity, whereas group III strains had low phosphatidylinositol phospholipase C activity. Several substitutions were observed for five out of six group III strains in the plcA gene and for one out of three group II strains in the plcB gene. Group IV strains poorly colonized spleens of mice and were practically indistinguishable from fully virulent strains on the basis of the above-mentioned in vitro criteria. These results demonstrate a relationship between the phenotypic classification and the genotypic modifications for at least group I and III strains and suggest a common evolution of these strains within a group. PMID:16204519

  10. Investigation of H2 Concentration and Combustion Instability Effects on the Kinetics of Strained Syngas Flames

    SciTech Connect

    Ahsan R. Choudhuri

    2006-08-07

    The flame extinction limits of syngas (H{sub 2}-CO) flames were measured using a twin-flame-counter-flow burner. Plots of Extinction limits vs. global stretch rates were generated at different mixture compositions and an extrapolation method was used to calculate the flame extinction limit corresponding to an experimentally unattainable zero-stretch condition. The zero-stretch extinction limit of H{sub 2}-CO mixtures decreases (from rich to lean) with the increase in H{sub 2} concentration in the mixture. The average difference between the measured flame extinction limit and the Le Chatelier's calculation is around {approx} 7%. The measured OH{sup -} chemiluminescent data indicates that regardless of mixture compositions the OH radical concentration reduces (within the experimental uncertainties) to an extinction value prior to the flame extinction. Flame extinction limits of H{sub 2}-CO mixtures measured in a flat-flame burner configuration also show a similar relation. Additionally, the measured laminar flame velocity close to the extinction indicates that regardless of fuel composition the premixed flame of hydrogen fuel blends extinguishes when the mixture laminar flame velocity falls below a critical value. The critical laminar flame velocity at extinction for H{sub 2}-CO premixed flames (measured in the flat flame burner configuration) is found to be 3.77({+-}0.38) cm/s. An externally perturbed H{sub 2}-CO twin flame was not experimentally achievable for the mixture conditions used in the present investigation. A slightest perturbation in the flow-field distorts the H{sub 2}-CO twin-flame. The flame becomes highly unstable with the introduction of an externally excited flow oscillation.

  11. A Computational Icing Effects Study for a Three-Dimensional Wing: Comparison with Experimental Data and Investigation of Spanwise Variation

    NASA Technical Reports Server (NTRS)

    Thompson, D.; Mogili, P.; Chalasani, S.; Addy, H.; Choo, Y.

    2004-01-01

    Steady-state solutions of the Reynolds-averaged Navier-Stokes (RANS) equations were computed using the Colbalt flow solver for a constant-section, rectangular wing based on an extruded two-dimensional glaze ice shape. The one equation Spalart-Allmaras turbulence model was used. The results were compared with data obtained from a recent wind tunnel test. Computed results indicate that the steady RANS solutions do not accurately capture the recirculating region downstream of the ice accretion, even after a mesh refinement. The resulting predicted reattachment is farther downstream than indicated by the experimental data. Additionally, the solutions computed on a relatively coarse baseline mesh had detailed flow characteristics that were different from those computed on the refined mesh or the experimental data. Steady RANS solutions were also computed to investigate the effects of spanwise variation in the ice shape. The spanwise variation was obtained via a bleeding function that merged the ice shape with the clean wing using a sinusoidal spanwise variation. For these configurations, the results predicted for the extruded shape provided conservative estimates for the performance degradation of the wing. Additionally, the spanwise variation in the ice shape and the resulting differences in the flow fields did not significantly change the location of the primary reattachment.

  12. Investigating host dependence of xylose utilization in recombinant Saccharomyces cerevisiae strains using RNA-seq analysis

    PubMed Central

    2013-01-01

    Background Xylose-based ethanol production by recombinant S. cerevisiae is of great interest to basic and applied bioenergy research. By expressing three different fungal pathways in two S. cerevisiae hosts respectively, we found that the xylose utilization efficiency by recombinant S. cerevisiae depends not only on the choice of xylose pathway but also on the choice of host, exhibiting an obvious host or context dependence. To investigate molecular mechanisms of this context dependence, we applied RNA-seq analysis in this study for a systematic characterization of the xylose utilization via different pathways in different S. cerevisiae hosts. Results Based on the RNA-seq analysis, the transcripts that were regulated during xylose utilization have been identified. Three transcription factors involved in regulation of amino acid metabolism, responses to oxidative stresses, and degradation of aggregated proteins, respectively, were found to participate in xylose metabolism regulation regardless of which pathway was expressed and which host the xylose pathway was expressed in. Nine transcription factors, involved in homeostasis, regulation of amino acid metabolism, and stress responses, were identified as the key modules responsible for the host-specific responses to the same xylose pathway. In addition, the transcriptional regulations of xylose utilization in different yeast hosts were compared to two reference regulation patterns, which indicated that diverse regulation strategies were adopted by different hosts for improved xylose utilization. Conclusions This study provides the first transcriptomic study of the host dependence of xylose utilization in S. cerevisiae. Both the conserved regulatory modules for xylose metabolism and the key modules responsible for host dependence were identified. As indicated by the functions of the conserved transcription factors involved in xylose metabolism regulation, the xylose utilization in recombinant S. cerevisiae may be

  13. Numerical investigations on the strain-adaptive bone remodelling in the periprosthetic femur: Influence of the boundary conditions

    PubMed Central

    Behrens, Bernd-Arno; Nolte, Ingo; Wefstaedt, Patrick; Stukenborg-Colsman, Christina; Bouguecha, Anas

    2009-01-01

    Background There are several numerical investigations on bone remodelling after total hip arthroplasty (THA) on the basis of the finite element analysis (FEA). For such computations certain boundary conditions have to be defined. The authors chose a maximum of three static load situations, usually taken from the gait cycle because this is the most frequent dynamic activity of a patient after THA. Materials and methods The numerical study presented here investigates whether it is useful to consider only one static load situation of the gait cycle in the FE calculation of the bone remodelling. For this purpose, 5 different loading cases were examined in order to determine their influence on the change in the physiological load distribution within the femur and on the resulting strain-adaptive bone remodelling. First, four different static loading cases at 25%, 45%, 65% and 85% of the gait cycle, respectively, and then the whole gait cycle in a loading regime were examined in order to regard all the different loadings of the cycle in the simulation. Results The computed evolution of the apparent bone density (ABD) and the calculated mass losses in the periprosthetic femur show that the simulation results are highly dependent on the chosen boundary conditions. Conclusion These numerical investigations prove that a static load situation is insufficient for representing the whole gait cycle. This causes severe deviations in the FE calculation of the bone remodelling. However, accompanying clinical examinations are necessary to calibrate the bone adaptation law and thus to validate the FE calculations. PMID:19371424

  14. Multiparametric investigation of Mt. Etna dynamics during 2013: evidences of variations of shallow plumbing system

    NASA Astrophysics Data System (ADS)

    Spedalieri, Giancarlo; Cannata, Andrea; Cannavo', Flavio; Di Grazia, Giuseppe; Gambino, Salvatore; Gresta, Stefano; Liuzzo, Marco

    2015-04-01

    At Mt. Etna volcano, the period 2013 was characterised by intense eruptive activity at the summit craters (mainly Voragine, Bocca Nuova and New South East crater). The first two craters showed strombolian activity, while the third one intense lava fountaining, taking place in two cycles February-April and October-December. In this work, we mainly focused on the period in between these cycles, applying a multiparametric approach, based on seismic, infrasonic, geodetic and geochemical data, to reconstruct the volcano dynamics during the inter-eruptive interval. In particular, the period from the end of April to 5 September showed a gradual amplitude increase (more visible from June) of both LP events and volcanic tremor, a spectral features change of the LP events, a slight inflation testified by both clinometric and GPS data. On 5 September, at the same time as a strong explosion at Bocca Nuova crater, we observed an instantaneous variation of the afore mentioned signals (decrease of amplitude of both LP events and volcanic tremor, shift of the volcanic tremor centroid, LP event spectral change and slight deflation mainly highlighted by clinometric data), as well as the activation of a new infrasonic source (still active at the end of 2014) located in the Bocca Nuova crater, mainly related to degassing processes. The variations observed from the end of April to 5 September were interpreted as due to a gradual pressurization of the plumbing system, which did not involve only its shallowest part (where the LP sources were located) as testified by the geodetic data. Soil CO2 flux measurements showed a similar trend, with a generally steady increase starting in March, hitting a peak on 3 September, and then falling dramatically until the end of November. This pressurization phenomenon ended instantaneously with the explosion of 5 September, and then with the opening of a new vent in the Bocca Nuova crater, still generating infrasonic events at the end of 2014. Such

  15. Investigation of channel width-dependent threshold voltage variation in a-InGaZnO thin-film transistors

    SciTech Connect

    Liu, Kuan-Hsien; Chou, Wu-Ching; Chang, Ting-Chang; Wu, Ming-Siou; Hung, Yi-Syuan; Sze, Simon M.; Hung, Pei-Hua; Chu, Ann-Kuo; Hsieh, Tien-Yu; Yeh, Bo-Liang

    2014-03-31

    This Letter investigates abnormal channel width-dependent threshold voltage variation in amorphous indium-gallium-zinc-oxide (a-IGZO) thin-film transistors. Unlike drain-induced source barrier lowering effect, threshold voltage increases with increasing drain voltage. Furthermore, the wider the channel, the larger the threshold voltage observed. Because of the surrounding oxide and other thermal insulating material and the low thermal conductivity of the IGZO layer, the self-heating effect will be pronounced in wider channel devices and those with a larger operating drain bias. To further clarify the physical mechanism, fast IV measurement is utilized to demonstrate the self-heating induced anomalous channel width-dependent threshold voltage variation.

  16. Investigation of channel width-dependent threshold voltage variation in a-InGaZnO thin-film transistors

    NASA Astrophysics Data System (ADS)

    Liu, Kuan-Hsien; Chang, Ting-Chang; Wu, Ming-Siou; Hung, Yi-Syuan; Hung, Pei-Hua; Hsieh, Tien-Yu; Chou, Wu-Ching; Chu, Ann-Kuo; Sze, Simon M.; Yeh, Bo-Liang

    2014-03-01

    This Letter investigates abnormal channel width-dependent threshold voltage variation in amorphous indium-gallium-zinc-oxide (a-IGZO) thin-film transistors. Unlike drain-induced source barrier lowering effect, threshold voltage increases with increasing drain voltage. Furthermore, the wider the channel, the larger the threshold voltage observed. Because of the surrounding oxide and other thermal insulating material and the low thermal conductivity of the IGZO layer, the self-heating effect will be pronounced in wider channel devices and those with a larger operating drain bias. To further clarify the physical mechanism, fast IV measurement is utilized to demonstrate the self-heating induced anomalous channel width-dependent threshold voltage variation.

  17. Using Disease-Associated Coding Sequence Variation to Investigate Functional Compensation by Human Paralogous Proteins

    PubMed Central

    Miura, Sayaka; Tate, Stephanie; Kumar, Sudhir

    2015-01-01

    Gene duplication enables the functional diversification in species. It is thought that duplicated genes may be able to compensate if the function of one of the gene copies is disrupted. This possibility is extensively debated with some studies reporting proteome-wide compensation, whereas others suggest functional compensation among only recent gene duplicates or no compensation at all. We report results from a systematic molecular evolutionary analysis to test the predictions of the functional compensation hypothesis. We contrasted the density of Mendelian disease-associated single nucleotide variants (dSNVs) in proteins with no discernable paralogs (singletons) with the dSNV density in proteins found in multigene families. Under the functional compensation hypothesis, we expected to find greater numbers of dSNVs in singletons due to the lack of any compensating partners. Our analyses produced an opposite pattern; paralogs have over 35% higher dSNV density than singletons. We found that these patterns are concordant with similar differences in the rates of amino acid evolution (ie, functional constraints), as the proteins with paralogs have evolved 33% slower than singletons. Our evolutionary constraint explanation is robust to differences in family sizes, ages (young vs. old duplicates), and degrees of amino acid sequence similarities among paralogs. Therefore, disease-associated human variation does not exhibit significant signals of functional compensation among paralogous proteins, but rather an evolutionary constraint hypothesis provides a better explanation for the observed patterns of disease-associated and neutral polymorphisms in the human genome. PMID:26604664

  18. Theoretical investigation of tensile strained GeSn waveguide with Si₃N₄ liner stressor for mid-infrared detector and modulator applications.

    PubMed

    Zhang, Qingfang; Liu, Yan; Yan, Jing; Zhang, Chunfu; Hao, Yue; Han, Genquan

    2015-03-23

    We theoretically investigate a tensile strained GeSn waveguide integrated with Si₃N₄ liner stressor for the applications in mid-infrared (MIR) detector and modulator. A substantial tensile strain is induced in a 1 × 1 μm² GeSn waveguide by the expansion of 500 nm Si₃N₄ liner stressor and the contour plots of strain are simulated by the finite element simulation. Under the tensile strain, the direct bandgap E(G,Γ) of GeSn is significantly reduced by lowering the Γ conduction valley in energy and lifting of degeneracy of valence bands. Absorption coefficients of tensile strained GeSn waveguides with different Sn compositions are calculated. As the Si₃N₄ liner stressor expands by 1%, the cut-off wavelengths of tensile strained Ge(0.97)Sn(0.03), Ge(0.95)Sn(0.05), and Ge(0.90)Sn(0.10) waveguide photodetectors are extended to 2.32, 2.69, and 4.06 μm, respectively. Tensile strained Ge(0.90)Sn(0.10) waveguide electro-absorption modulator based on Franz-Keldysh (FK) effect is demonstrated in theory. External electric field dependence of cut-off wavelength and propagation loss of tensile strained Ge(0.90)Sn(0.10) waveguide is observed, due to the FK effect. PMID:25837129

  19. A Monte Carlo Investigation of the Analysis of Variance Applied to Non-Independent Bernoulli Variates.

    ERIC Educational Resources Information Center

    Draper, John F., Jr.

    The applicability of the Analysis of Variance, ANOVA, procedures to the analysis of dichotomous repeated measure data is described. The design models for which data were simulated in this investigation were chosen to represent simple cases of two experimental situations: situation one, in which subjects' responses to a single randomly selected set…

  20. A Genre-Based Investigation of Discussion Sections of Research Articles in Dentistry and Disciplinary Variation

    ERIC Educational Resources Information Center

    Basturkmen, Helen

    2012-01-01

    Outwardly the rhetorical organisation of sections of research reports in different disciplines can appear similar. Close examination, however, may reveal subtle differences. Numerous studies have drawn on the genre-based approach developed by Swales (1990, 2004) to investigate the schematic structure of sections of articles in a range of…

  1. A Qualitative Investigation of Panelists' Experiences of Standard Setting Using Two Variations of the Bookmark Method

    ERIC Educational Resources Information Center

    Hein, Serge F.; Skaggs, Gary E.

    2009-01-01

    Only a small number of qualitative studies have investigated panelists' experiences during standard-setting activities or the thought processes associated with panelists' actions. This qualitative study involved an examination of the experiences of 11 panelists who participated in a prior, one-day standard-setting meeting in which either the…

  2. Investigating different filter and rescaling methods on simulated GRACE-like TWS variations for hydrological applications

    NASA Astrophysics Data System (ADS)

    Zhang, Liangjing; Dahle, Christoph; Neumayer, Karl-Hans; Dobslaw, Henryk; Flechtner, Frank; Thomas, Maik

    2016-04-01

    Terrestrial water storage (TWS) variations obtained from GRACE play an increasingly important role in various hydrological and hydro-meteorological applications. Since monthly-mean gravity fields are contaminated by errors caused by a number of sources with distinct spatial correlation structures, filtering is needed to remove in particular high frequency noise. Subsequently, bias and leakage caused by the filtering need to be corrected before the final results are interpreted as GRACE-based observations of TWS. Knowledge about the reliability and performance of different post-processing methods is highly important for the GRACE users. In this contribution, we re-assess a number of commonly used post-processing methods using a simulated GRACE-like gravity field time-series based on realistic orbits and instrument error assumptions as well as background error assumptions out of the updated ESA Earth System Model. Two non-isotropic filter methods from Kusche (2007) and Swenson and Wahr (2006) are tested. Rescaling factors estimated from five different hydrological models and the ensemble median are applied to the post-processed simulated GRACE-like TWS estimates to correct the bias and leakage. Since TWS anomalies out of the post-processed simulation results can be readily compared to the time-variable Earth System Model initially used as "truth" during the forward simulation step, we are able to thoroughly check the plausibility of our error estimation assessment and will subsequently recommend a processing strategy that shall also be applied to planned GRACE and GRACE-FO Level-3 products for hydrological applications provided by GFZ. Kusche, J. (2007): Approximate decorrelation and non-isotropic smoothing of time-variable GRACE-type gravity field models. J. Geodesy, 81 (11), 733-749, doi:10.1007/s00190-007-0143-3. Swenson, S. and Wahr, J. (2006): Post-processing removal of correlated errors in GRACE data. Geophysical Research Letters, 33(8):L08402.

  3. Investigation of the phase morphology of bacterial PHA inclusion bodies by contrast variation SANS

    NASA Astrophysics Data System (ADS)

    Russell, R. A.; Holden, P. J.; Garvey, C. J.; Wilde, K. L.; Hammerton, K. M.; Foster, L. J.

    2006-11-01

    Under growth-limiting conditions, many bacteria are able to metabolise excess organic acids into polyhydroxyalkanoates (PHA) and store these polymers as intracellular inclusions until the return of favourable conditions. Various models have been proposed for the macromolecular organisation of the boundary layer surrounding the polymer, and contrast-variation small-angle neutron scattering (SANS) was used to study its organisation. Inclusions formed by Pseudomonas oleovorans under hydrogenating conditions showed lowest scattering intensity at ca. 20% D 2O. The inclusions consist of protein and membrane lipids in the boundary layer and polyhydroxyoctanoate (lipid) in the inclusion body. At 20% D 2O the contributions of lipids were contrast matched with the solvent, indicating that lipids contributed the bulk of the scattering intensity observed at other D 2O/H 2O ratios. These results are inconsistent with a model of the boundary layer which proposed outer and inner layers of crystalline protein lattice sandwiching a membrane lipid membrane layer [E.S. Stuart, R.W. Lenz, R.C. Fuller, Can J Microbiol 41(Suppl 1) (1995) 84-93], and is more consistent with a model consisting of a lipid monolayer containing embedded proteins [U. Pieper-furst, M.H. Madkour, F. Mayer, A. Steinbuchel, J. Bacteriol. 176 (1994) 4328-4337.] By altering the H/D content of the precursors, we were able to collect SANS data from preparations of both deuterated and H/D copolymer inclusions, where initial PHA produced was hydrogenated followed by deuteration. Deuterated inclusions showed minimum intensity above 90% D 2O/H 2O whereas the sequentially produced copolymer (assumed to be in a core/shell arrangement) displayed minimum scattering some 20% lower, which is consistent with the increased hydrogenation of the boundary layer expected from its synthesis during supply of hydrogenated followed by deuterated precursors.

  4. Mechanism investigation for poloxamer 188 raw material variation in cell culture.

    PubMed

    Peng, Haofan; Ali, Amr; Lanan, Maureen; Hughes, Erik; Wiltberger, Kelly; Guan, Bing; Prajapati, Shashi; Hu, Weiwei

    2016-05-01

    Variability in poloxamer 188 (P188) raw material, which is routinely used in cell culture media to protect cells from hydrodynamic forces, plays an important role in the process performance. Even though tremendous efforts have been spent to understand the mechanism of poloxamer's protection, the root cause for lot-to-lot variation was not clear. A recent study reported that the low performance was not due to toxicity but inefficiency to protect cells (Peng et al., Biotechnol Prog. 2014;30:1411-1418). In this study, it was demonstrated for the first time that the addition of other surfactants even at a very low level can interfere with P188 resulting in a loss of efficiency. It was also found that the performance of P188 lots correlated well with its foam stability. Foam generated from low performing lots in baffled shaker flask lasts longer, which suggests that the components in the foam layers are different. The spiking of foam generated from a low performing lot into the media containing a high performance lot resulted in cell damage and low growth. Analytical studies using size exclusion chromatography (SEC) identified differences in high molecular weight (HMW) species present in the P188 lots. These differences are much clearer when comparing the HMW region of the SEC chromatogram of foam vs. bulk liquid samples. This study shows that low performing lots have enriched HMW species in foam samples due to high hydrophobicity, which can be potentially used as a screening assay. © 2016 American Institute of Chemical Engineers Biotechnol. Prog., 32:767-775, 2016. PMID:27038070

  5. Investigating the genetic basis of fever-associated syndromic epilepsies using copy number variation analysis

    PubMed Central

    Hartmann, Corinna; von Spiczak, Sarah; Suls, Arvid; Weckhuysen, Sarah; Buyse, Gunnar; Vilain, Catheline; Van Bogaert, Patrick; De Jonghe, Peter; Cook, Joseph; Muhle, Hiltrud; Stephani, Ulrich; Helbig, Ingo; Mefford, Heather C.

    2014-01-01

    Summary Fever-associated syndromic epilepsies ranging from febrile seizures plus (FS+) to Dravet syndrome have a significant genetic component. However, apart from SCN1A mutations in over 80% of patients with Dravet syndrome, the genetic underpinnings of these epilepsies remain largely unknown. Therefore, we performed a genome-wide screening for copy number variations (CNVs) in 36 patients with SCN1A-negative fever-associated syndromic epilepsies. Phenotypes included Dravet syndrome (n=23; 64%), GEFS+/FS+ (n=11; 31%) and unclassified fever-associated epilepsies (n=2; 6%). Array CGH was performed using Agilent 4×180K arrays. We identified 13 rare CNVs in 8/36 (22%) individuals. These included known pathogenic CNVs in 4/36 (11%) patients: a 1q21.1 duplication in a proband with Dravet syndrome, a 14q23.3 deletion in a proband with FS+ and two deletions at 16p11.2 and 1q44 in two individuals with fever-associated epilepsy with concomitant autism and/or intellectual disability. In addition, a 3q13.11 duplication in a patient with FS+ and two de novo duplications at 7p14.2 and 18q12.2 in a patient with atypical Dravet syndrome were classified as likely pathogenic. Six CNVs were of unknown significance. The identified genomic aberrations overlap with known neurodevelopmental disorders, suggesting that fever-associated epilepsy syndromes may be a recurrent clinical presentation of known microdeletion syndromes. PMID:25690317

  6. [Investigation of carbapenemases in carbapenem-resistant Escherichia coli and Klebsiella pneumoniae strains isolated in 2014 in Turkey].

    PubMed

    Çakar, Aslı; Akyön, Yakut; Gür, Deniz; Karatuna, Onur; Öğünç, Dilara; Özhak Baysan, Betil; Çöplü, Nilay; Çağatay, Mustafa; Kılıç, Abdullah; Baysallar, Mehmet; Bakıcı, Zahir; Çelik, Cem; Gülay, Zeynep; Aydemir, Şöhret; Tünger, Alper; Kılıç, Hüseyin; Erçal, Barış Derya; Aşçı Toraman, Zulal; Zer, Yasemin; Büyüktaş, Ayşe; Ay, Selma; Aktaş, Zerrin; Kayacan, Çiğdem; Bayramoğlu, Gülçin; Aydın, Faruk; Dündar, Devrim; Hasdemir, Ufuk; Ayaş, Ramazan; Yanık, Keramettin; Günaydın, Murat; Güdücüoğlu, Hüseyin; Parlak, Mehmet

    2016-01-01

    Carbapenems are the choice of treatment in infections caused by multidrug resistant Enterobacteriaceae. In recent years carbapenem-resistant Enterobacteriaceae isolates due to carbapenemases have been increasingly reported worldwide. Multicenter studies on carbapenemases are scarce in Turkey. The aim of this study was to determine the distribution of carbapenemases from different parts of Turkey as a part of the European Survey of Carbapenemase Producing Enterobacteriaceae (EuSCAPE) project. Beginning in November 2013, carbapenem-resistant isolates resistant to at least one of the agents, namely imipenem, meropenem, and ertapenem were sent to the coordinating center. Minimum inhibitory concentrations for these carbapenems were determined by microdilution tests following EUCAST guidelines. Production of carbapenemase was confirmed by combination disk synergy tests. Types of carbapenemases were investigated using specific primers for VIM, IMP; NDM, KPC and OXA-48 genes by multiplex polymerase chain reaction. In a six month period, 155 suspected carbapenemase-positive isolates were sent to the coordinating center of which 21 (13.5%) were E.coli and 134 (86.5%) were K.pneumoniae. Nineteen (90.5%) strains among E.coli and 124 (92.5%) strains among K.pneumoniae were shown to harbour at least one carbapenemase gene by molecular tests, with a total of 92.3% (143/155). Carbapenemases were determined as a single enzyme in 136 strains (OXA-48: 84.6%; NDM: 6.3%; VIM: 2.8%; IMP: 1.4%) and as a combination in seven isolates (OXA-48 + NDM: 2.1%; OXA-48 + VIM: 2.1%; VIM + NDM: 0.7%). KPC was not detected in any of the isolates. According to the microdilution test results, resistance to imipenem, meropenem and ertapenem in OXA-48 isolates were 59.5%, 52.9% and 100%, respectively. The combination disk synergy test was 100% compatible with the molecular test results. As most of the OXA-48 producing isolates were susceptible to meropenem but all were resistant to ertapenem, ertapenem

  7. Significance of operator variation and the angle of illumination in lineament analysis on synoptic images. [LANDSAT geological investigations

    NASA Technical Reports Server (NTRS)

    Siegal, B. S.; Short, N. M.

    1977-01-01

    The significance of operator variation and the angle of illumination in acquired imagery is analyzed for lineament analysis. Five operators analyzed a LANDSAT image and four photographs of a plastic relief map illuminated at a low angle from varying directions of the Prescott, Arizona region. Significant differences were found in both number and length of the lineaments recognized by the different investigators for the images. The actual coincidence of lineaments recognized by the investigators for the same image is exceptionally low. Even the directional data on lineament orientation is significantly different from operator to operator and from image to image. Cluster analysis of the orientation data displays a clustering by operators rather than by images. It is recommended that extreme caution be taken before attempting to compare different investigators' results in lineament analysis.

  8. Reliability and failure mode investigation of high-power multimode InGaAs strained quantum well single emitters

    NASA Astrophysics Data System (ADS)

    Sin, Yongkun; Foran, Brendan; Presser, Nathan; Mason, Maribeth; Moss, Steven C.

    2007-02-01

    In recent years record performance characteristics from multi-mode InGaAs strained quantum well single emitters at 920-980nm have been reported including a maximum CW optical output power of ~20W and a power conversion efficiency of ~75%. These excellent performance characteristics are only possible through combined optimization of laser structure design, chip fabrication processes, and packaging. Whereas broad area multi-mode single emitters likely have sufficient reliability for industrial uses, reliability of these lasers still remains a concern for communications applications including deployment in potential space satellite systems where high reliability is required. Most of previous reports on these lasers have been focused on their performance characteristics with very limited reports on failure mode analysis although understanding the physics of failure is crucial in developing a proper lifetime model for these lasers. We thus report on the reliability and failure mode analysis of high power multi-mode single emitters. The lasers studied were broad area strained InGaAs single QW lasers at 940-980nm with typical aperture widths of around 100μm. At an injection current of 7A typical CW output powers were over 6W at 25°C with a wall plug efficiency of ~60%. First, various lasing characteristics were measured including spatial and thermal characteristics that are critical to understanding performance and reliability of these devices. ACC burn-in tests with different stress conditions were performed on these devices until their failure. We report accelerated lifetest results with over 5000 accumulated test hours. Finally, we report failure mode investigation results of the degraded lasers.

  9. An experimental investigation of intermittent flow and strain burst scaling behavior in LiF crystals during microcompression testing

    NASA Astrophysics Data System (ADS)

    Dimiduk, D. M.; Nadgorny, E. M.; Woodward, C.; Uchic, M. D.; Shade, P. A.

    2010-09-01

    The first experimental statistical study is reported of intermittent plastic deformation of LiF microscopic samples having low initial dislocation densities, in both as-grown and gamma-irradiated conditions. The investigations used the microcompression testing method. Data sets were evaluated independently for the loading and flow deformation stages for each material. Investigations selectively examined evolution of the strain-burst response in both the spatial and temporal domains. A revised analysis technique provided advances in quantitative evaluations of the statistical experimental data relative to previous studies. Platen displacement event cumulative probability distributions exhibited both Gaussian regimes at small displacements and power law regimes for event displacement, duration and average velocity at larger sizes. However, the observed event size scaling exponents did not follow the expectation from mean-field theory, revealing scaling exponents in the range 1.8-2.9. Additionally, extraordinarily large displacement events were observed that exceeded the sizes of those found in previous studies by at least 10 times. Quantitative clarification of the power-law exponent values and their dependence on deforming sample conditions demands both further experimental studies with larger numbers of samples and a wider range of sample conditions. Such studies would benefit from better matching of the time scales of dislocation processes and observation and, still further improvements to the data analysis methods.

  10. Investigating the Causes of Solar-Cycle Variations in Solar Energetic Particle Fluences and Composition

    NASA Astrophysics Data System (ADS)

    Mewaldt, Richard; Cohen, Christina; Mason, Glenn M.; von Rosenvinge, Tycho; Li, Gang; Smith, Charles; Vourlidas, Angelos

    2015-04-01

    Measurements with ACE, STEREO, and GOES show that the number of large Solar Energetic Particle (SEP) events in solar cycle 24 is reduced by a factor of ~2 compared to this point of cycle 23, while the fluences of >10 MeV/nuc ions from H to Fe are reduced by factors ranging from ~4 to ~10. We investigate the origin of these cycle-to-cycle differences by evaluating possible factors that include properties of the associated CMEs, seed particle densities, and the interplanetary magnetic field strength and turbulence levels. These properties will be evaluated in the context of existing SEP acceleration models.

  11. Epidemiological investigation reveals genetic diversity and high co-infection rate of canine bocavirus strains circulating in Heilongjiang province, Northeast China.

    PubMed

    Guo, Donghua; Wang, Zhihui; Yao, Shuang; Li, Chunqiu; Geng, Yufei; Wang, Enyu; Zhao, Xiwen; Su, Mingjun; Wei, Shan; Wang, Xinyu; Feng, Li; Chang, Yung-Fu; Sun, Dongbo

    2016-06-01

    To trace evolution of CBoV in Northeast China, 201 fecal samples from rectal swabs of diarrheic dogs collected from May 2014 to April 2015 were investigated using PCR targeting partial NS1 gene (440bp). Furthermore, phylogenetic analysis of the identified CBoV strains was conducted using nucleotide sequences of the partial NS1 gene. The results indicated that 15 of 201 fecal samples (7.5%) were positive for CBoV; the partial NS1 genes of the 15 CBoV strains exhibited 83.1%-100% nucleotide identity, and 75.8%-100% amino acid identity; the entire VP2 gene of five selected CBoV strains exhibited 82.9%-96.8% nucleotide identity, and 90.4%-99.1% amino acid identity. The 15 CBoV strains exhibited high co-infection rates with CPV-2 (40%), CCoV (20%), and CaKV (26.67%). Phylogenetic analysis of the partial NS1 gene revealed that the 15 CBoV strains were divided into different subgroups of CBoV-2 when compared with CBoV-2 strains from South Korea, USA, Germany, and Hong Kong in China. Moreover, phylogenetic analysis of the VP2 gene indicated that five selected CBoV strains were divided into three different genetic groups of CBoV-2, involving in CBoV-2HK group, CBoV-2C group, and CBoV-2B group. The recombination analysis using the entire VP2 gene revealed three potential recombination events that occurred among five selected strains in our study. These data demonstrated that the CBoV strains circulating in Heilongjiang province, Northeast China showed genetic diversities, potential recombination events, and high co-infection rate. Further studies will be required to address the potential pathogenic role of these diverse CBoV strains. PMID:27234529

  12. An investigation of the temperature variations in Neptune’s upper stratosphere including a July 2008 stellar occultation event

    NASA Astrophysics Data System (ADS)

    Uckert, K.; Chanover, N. J.; Olkin, C. B.; Young, L. A.; Hammel, H. B.; Miller, C.; Bauer, J. M.

    2014-04-01

    We extracted physical atmospheric parameters from a 23 July 2008 single-chord stellar occultation of the star USNO-B1.0 0759-0739128 (I-band magnitude of 12.60) by Neptune using a light curve model fitting technique. We observed the occultation using the Agile CCD camera mounted on the Astrophysical Research Consortium 3.5 m telescope at Apache Point Observatory. We found isothermal temperatures of 116.5 ± 12.0 K and 154.0 ± 13.0 K for the immersion and emersion light curve profiles, respectively. We compare the stratospheric temperatures derived from the 2008 occultation to published temperatures of Neptune at similar atmospheric pressures derived from previous stellar occultations observed in the 1980s, and from long-term photometric measurements made routinely since the 1983-1990 occultation campaign. No obvious long-term temporal variation in stratospheric isothermal temperature is present. Fluctuations in the fitted isothermal temperature values, on the order of 20 K, is evident. We explore several hypotheses to explain the observed temperature variability of Neptune’s stratosphere, including seasonal variability, variations in the Lyman-α flux received at Neptune due to the 11-year solar cycle, diurnal variations, varying insolation due to heliocentric variability, IR and UV heating by hydrocarbons, aerosol precipitation, inertia-gravity wave dissipation, and effects due to atmospheric tidal perturbations by Triton. We investigate the effects of these mechanisms on the gradual temporal changes of Neptune’s stratospheric temperature and conclude that local variations in stratospheric temperature during each event, on the order of 20 K, are dominated by viscous dissipation of inertia-gravity waves.

  13. Investigation of Li/Ca variations in aragonitic shells of the ocean quahog Arctica islandica, northeast Iceland

    NASA Astrophysics Data System (ADS)

    ThéBault, Julien; SchöNe, Bernd R.; Hallmann, Nadine; Barth, Matthias; Nunn, Elizabeth V.

    2009-12-01

    Interannual and intra-annual variations in lithium-to-calcium ratio were investigated with high temporal resolution in the aragonitic outer shell layer of juvenile Arctica islandica (Mollusca; Bivalvia) collected alive in 2006 off northeast Iceland. Li/Cashell ranged between 7.00 and 11.12 μmol mol-1 and presented well-marked seasonal cycles with minimum values recorded at the annual growth lines; a general pattern was a progressive increase in Li/Cashell from March to May, followed by a plateau in June and a decrease down to minimum values in July-August. Li/Cashell was correlated with δ18Oshell-derived temperature, but the strength of this relationship was weak (r2 < 0.25 and p < 0.05). It covaried significantly with microgrowth increment width and with the discharge from one of the closest rivers. Seasonal variations of Li/Cashell in A. islandica may most likely be explained (1) by calcification rate and/or (2) by significant river inputs of Li-rich silicate particles flowing to the sea as soon as snow melts. In the first case, Li/Cashell may be a useful proxy for addressing seasonal variations of growth rate in bivalves that lack discernable microgrowth patterns. Abrupt decreases of Li/Cashell may, in turn, help identify growth retardations due to harsh environmental conditions. Alternatively, if Li/Cashell variations are linked to particulate Li inputs by rivers, this could be a new proxy for the intensity of mechanical weathering of Icelandic basalts, with interesting perspectives for the reconstruction of frequency and intensity of past jökulhlaups (subglacial outburst floods). Further works, including experimental studies, are needed to test these hypotheses.

  14. Cultural variation in the correlates of flashbulb memories: an investigation in five countries.

    PubMed

    Kulkofsky, Sarah; Wang, Qi; Conway, Martin A; Hou, Yubo; Aydin, Cagla; Mueller-Johnson, Katrin; Williams, Helen

    2011-04-01

    Flashbulb memory (FBM) refers to the vivid memory for the context of learning about a public news event. Past research has identified a number of factors that influence the formation of FBM, such as the importance of the event, the experience of intense emotions, and the amount of post-event rehearsal. Although such factors may be universal in predicting FBM formation across cultures, they may differentially impact FBM given different cultural belief systems and practices. In the present study we investigated the moderating effect of culture for various predictors of FBM in five countries: China, Germany, Turkey, the UK, and the USA. Results indicated that the effects of national importance and rehearsal of the reception context were consistent across cultures. In contrast, culture moderated the effects of personal importance, emotionality, surprise, and event rehearsal. In all cases the effects of these variables were significantly smaller in the Chinese sample. PMID:21500085

  15. Dielectric engineered symmetric underlap double gate tunnel FET (DGTFET): An investigation towards variation of dielectric materials

    NASA Astrophysics Data System (ADS)

    Mallikarjunarao; Ranjan, Rajeev; Pradhan, K. P.; Sahu, P. K.

    2016-08-01

    In this article, an underlap silicon n-channel Tunnel Field Effect Transistor (n-TFET) i.e., symmetric single-k spacer (SSS) Double Gate N-TFET (DGTFET) is proposed to improve the performance of the device by using different spacer materials. A detailed investigation has been made on the proposed device characteristics with the help of extensive 2-D TCAD simulations. It is demonstrated that an optimized underlap length is chosen for a significant on-state current (Ion) without deteriorating the off-state current (Ioff) and sub-threshold swing (SS). The proposed model with different spacer materials has been extensively analyzed by using transfer characteristics, output characteristics, and analog/RF characteristics. The structure is optimized based on the comparison among various performance metrics like Ion, Ioff, SS, on-off ratio (Ion/Ioff), threshold (or) cut-off frequency (fT), and intrinsic delay with considering different spacer materials like SiO2 (k = 3.9), Si3N4 (k = 7.5), and HfO2 (k = 25).

  16. Investigation of variation of precipitation by the cloud seeding using WRF-CHEM model

    NASA Astrophysics Data System (ADS)

    Chae, S.; Lee, K.; Lee, C.; Ahn, K.; Choi, Y.

    2012-12-01

    Resent observational and numerical studies demonstrate a significant effect of aerosols on the amount of precipitation and its spatial distribution. Airborne cloud seeding experiments using the AgI particles have been carried out in Korea. The Weather Research Forecast model coupled with chemistry mechanism and aerosol modules (WRF-CHEM) is used to investigate the effects of the airborne cloud seeding on precipitation. The sensitivity tests (EXP 1, 2, and 3) of the WRF-CHEM were performed on the airborne cloud seeding experiments. EXP 1 is a control run from the original WRF model which has no aerosol effect. EXP 2 and EXP 3 are the WRF-CHEM simulations coupled with RADM2/MADE-SORGAM modules and CBMZ/MOSAIC modules, respectively. The AgI seeding was considered as an emission of primary PM2.5 in the simulations. The unspeciated primary PM2.5 are of 10000 μg/(m2s) at 0.5 km about the ground level to simulate the cloud seeding in both cases. The results of sensitivity experiments with the chemistry mechanism and aerosol schemes showed that for the six hours after the seeding, the accumulated amounts of precipitation increased about 14% for EXP 2 and 45% for EXP3, compared to EXP 1. Also, the simulations showed that the seeding brought initial precipitation time forward aerosol by 10 minutes.

  17. Secular Variation in the Storage and Dissipation of Elastic Strain Energy Along the Central Altyn Tagh Fault (86-88.5°E), NW China

    NASA Astrophysics Data System (ADS)

    Cowgill, E.; Gold, R. D.; Arrowsmith, R.; Friedrich, A. M.

    2015-12-01

    In elastic rebound theory, hazard increases as interseismic strain rebuilds after rupture. This model is challenged by the temporal variation in the pacing of major earthquakes that is both predicted by mechanical models and suggested by some long paleoseismic records (e.g., 1-3). However, the extent of such behavior remains unclear due to a lack of long (5-25 ky) records of fault slip. Using Monte Carlo analysis of 11 offset landforms, we determined a 16-ky record of fault slip for the active, left-lateral Altyn Tagh fault, which bounds the NW margin of the Tibetan Plateau. This history reveals a pulse of accelerated slip between 6.4 and 6.0 ka, during which the fault slipped 9 +14/-2 m at a rate of 23 +35/-5 mm/y, or ~3x the 16 ky average of 8.1 +1.2/-0.9mm/y. These two modes of earthquake behavior suggest temporal variation in the rates of stress storage and release. The simplest explanation for the pulse is a cluster of 2-8 Mw > 7.5 earthquakes. Such supercyclicity has been reported for the Sunda (4) and Cascadia (3) megathrusts, but contrasts with steady slip along the strike-slip Alpine fault (5), for example. A second possibility is that the pulse reflects a single, unusually large rupture. However, this Black Swan event is unlikely: empirical scaling relationships require a Mw 8.2 rupture of the entire 1200-km-long ATF to produce 7 m of average slip. Likewise, Coulomb stress change from rupture on the adjacent North Altyn fault is of modest magnitude and overlap with the ATF. Poor temporal correlation between precipitation and the slip pulse argues against climatically modulated changes in surface loading (lakes/ice) or pore-fluid pressure. "Paleoslip" studies such as this sacrifice the single-event resolution of paleoseismology in exchange for long records that quantify both the timing and magnitude of fault slip averaged over multiple ruptures, and are essential for documenting temporal variations in fault slip as we begin to use calibrated physical

  18. Genome-wide genetic and transcriptomic investigation of variation in antibody response to dietary antigens.

    PubMed

    Rubicz, Rohina; Yolken, Robert; Alaedini, Armin; Drigalenko, Eugene; Charlesworth, Jac C; Carless, Melanie A; Severance, Emily G; Krivogorsky, Bogdana; Dyer, Thomas D; Kent, Jack W; Curran, Joanne E; Johnson, Matthew P; Cole, Shelley A; Almasy, Laura; Moses, Eric K; Blangero, John; Göring, Harald H H

    2014-07-01

    Increased immunoglobulin G (IgG) response to dietary antigens can be associated with gastrointestinal dysfunction and autoimmunity. The underlying processes contributing to these adverse reactions remain largely unknown, and it is likely that genetic factors play a role. Here, we estimate heritability and attempt to localize genetic factors influencing IgG antibody levels against food-derived antigens using an integrative genomics approach. IgG antibody levels were determined by ELISA in >1,300 Mexican Americans for the following food antigens: wheat gliadin; bovine casein; and two forms of bovine serum albumin (BSA-a and BSA-b). Pedigree-based variance components methods were used to estimate additive genetic heritability (h(2) ), perform genome-wide association analyses, and identify transcriptional signatures (based on 19,858 transcripts from peripheral blood lymphocytes). Heritability estimates were significant for all traits (0.15-0.53), and shared environment (based on shared residency among study participants) was significant for casein (0.09) and BSA-a (0.33). Genome-wide significant evidence of association was obtained only for antibody to gliadin (P = 8.57 × 10(-8) ), mapping to the human leukocyte antigen II region, with HLA-DRA and BTNL2 as the best candidate genes. Lack of association of known celiac disease risk alleles HLA-DQ2.5 and -DQ8 with antigliadin antibodies in the studied population suggests a separate genetic etiology. Significant transcriptional signatures were found for all IgG levels except BSA-b. These results demonstrate that individual genetic differences contribute to food antigen antibody measures in this population. Further investigations may elucidate the underlying immunological processes involved. PMID:24962563

  19. Investigation of geographic variation in the thermal tolerance of zebra mussels, Dreissena polymorpha

    SciTech Connect

    Hernandez, M.R.; McMahon, R.F.; Dietz, T.H.

    1995-06-01

    Data previously collected from endemic northern European populations indicated a maximum, long-term upper thermal limit of 28{degrees}C for D. polymorpha, a temperature well below maximum, summer-daytime, surface water temperatures in the lower Mississippi River ({>=}30{degrees}C). Thus, it has been speculated that natural selection for thermal tolerance among zebra mussels in the warm waters may have led to development of genetically more thermally tolerant populations than presently occur in the cooler waters of the Great Lakes. In order to investigate this possibility, thermal tolerance times on continual exposure to a lethal temperature of 33{degrees}C were determined for samples of zebra mussels collected biweekly in the lower Mississippi River from 14 March through 18 October, 1994 and from the Niagara River on 24 May and 9 August 1994. Multiple factor ANOVA indicated that while there were differences in mean thermal tolerance times among acclimation groups and with time of collection, there was no difference in thermal tolerance between the Niagara and lower Mississippi River populations. Least Squares Analysis indicated that sample mean thermal tolerance times among lower Mississippi River mussels increased, suggestive of a seasonal pattern of thermal tolerance regulation which could not be eliminated by laboratory temperature acclimation. Such seasonal thermal tolerance acclimatization may make fouling populations of D. polymorpha more resistant to thermal mitigation during summer months. It may also partially account for the reduced thermal tolerance reported among northern European populations drawn from much cooler waters than those of the lower Great Lakes and lower Mississippi River. Lack of significant thermal tolerance differences between Niagara and lower Mississippi River zebra mussels suggests that there has been no selection for a thermally tolerant physiological race of D. polymorpha in the lower Mississippi River.

  20. Investigation of seedling yellows cross protection by mild components of the Dekopon strain of Citrus tristeza virus

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Virulent strains of Citrus tristeza virus (CTV) can be controlled by pre-infection by mild strains of CTV which is called cross protection. However, the mode of action of cross protection is unknown and its durability unpredictable. RNA silencing is a regulatory mechanism to maintain genome integri...

  1. Interlaboratory standardization of the sandwich enzyme-linked immunosorbent assay designed for MATS, a rapid, reproducible method for estimating the strain coverage of investigational vaccines.

    PubMed

    Plikaytis, Brian D; Stella, Maria; Boccadifuoco, Giuseppe; DeTora, Lisa M; Agnusdei, Mauro; Santini, Laura; Brunelli, Brunella; Orlandi, Luca; Simmini, Isabella; Giuliani, Marzia; Ledroit, Morgan; Hong, Eva; Taha, Muhamed-Kheir; Ellie, Kim; Rajam, Gowrisankar; Carlone, George M; Claus, Heike; Vogel, Ulrich; Borrow, Ray; Findlow, Jamie; Gilchrist, Stefanie; Stefanelli, Paola; Fazio, Cecilia; Carannante, Anna; Oksnes, Jan; Fritzsønn, Elisabeth; Klem, Anne-Marie; Caugant, Dominique A; Abad, Raquel; Vázquez, Julio A; Rappuoli, Rino; Pizza, Mariagrazia; Donnelly, John J; Medini, Duccio

    2012-10-01

    The meningococcal antigen typing system (MATS) sandwich enzyme-linked immunosorbent assay (ELISA) was designed to measure the immunologic cross-reactivity and quantity of antigens in target strains of a pathogen. It was first used to measure the factor H-binding protein (fHbp), neisserial adhesin A (NadA), and neisserial heparin-binding antigen (NHBA) content of serogroup B meningococcal (MenB) isolates relative to a reference strain, or "relative potency" (RP). With the PorA genotype, the RPs were then used to assess strain coverage by 4CMenB, a multicomponent MenB vaccine. In preliminary studies, MATS accurately predicted killing in the serum bactericidal assay using human complement, an accepted correlate of protection for meningococcal vaccines. A study across seven laboratories assessed the reproducibility of RPs for fHbp, NadA, and NHBA and established qualification parameters for new laboratories. RPs were determined in replicate for 17 MenB reference strains at laboratories A to G. The reproducibility of RPs among laboratories and against consensus values across laboratories was evaluated using a mixed-model analysis of variance. Interlaboratory agreement was very good; the Pearson correlation coefficients, coefficients of accuracy, and concordance correlation coefficients exceeded 99%. The summary measures of reproducibility, expressed as between-laboratory coefficients of variation, were 7.85% (fHbp), 16.51% (NadA), and 12.60% (NHBA). The overall within-laboratory measures of variation adjusted for strain and laboratory were 19.8% (fHbp), 28.8% (NHBA), and 38.3% (NadA). The MATS ELISA was successfully transferred to six laboratories, and a further laboratory was successfully qualified. PMID:22875603

  2. [Investigation of Mycobacterium bovis subsp. bovis among the strains of Mycobacterium tuberculosis complex isolated in Düzce Province, Turkey].

    PubMed

    Öztürk, Cihadiye Elif; Şahin, İdris; Öksüz, Şükrü; Kılıç, Nida; Kılınçel, Özge; Aydın, Leyla; Atik, Dursun; Afşin, Emine

    2016-07-01

    Throughout the history of mankind, tuberculosis (TB) has caused serious illness and still continues to do so. Archaeobiological studies indicated that TB in humans dates back to 4000-8000 BC, and cases were shown to be due to Mycobacterium bovis subsp.bovis rather than Mycobacterium tuberculosis. Moreover, this situation was thought to begin with domestication of animals, consumption of their milk, and living together in the same environment with them. Over time, with the consumption of boiled milk and with the establishment of separate animal shelters, M.bovis subsp. bovis infection began to be seen rarely. Today, M.bovis infection is mostly transmitted from animals to humans and very rarely from humans to other humans. The most significant means of transmission of the infection are to the gastrointestinal tract via consumption of raw milk and to the respiratory system via droplet infection from the animals with disease. In this study, it was planned to investigate the cause of occurrence of TB in cattles in Düzce in the past few years along with the presence of bovine type TB in cases of human tuberculosis. We aimed to carry out subtype determination of the M.tuberculosis complex (MTBC) strains isolated in our mycobacteriology laboratory between the years 2004-2014, and evaluate the clinical and sociodemographic data of patients in whom M.bovis subsp. bovis was detected. The strains that were selected for the study have been isolated from radiometric BACTEC™ 12B broth and/or Löwenstein-Jensen (LJ) media between 2004-2009, and BACTEC™ MGIT™ (Mycobacteria Growth Indicator Tube) and/or LJ media between 2009-2014 periods. The GenoType MTBC Kit (Hain-Lifescience GmbH, Germany) was used in the study for determination of the subspecies. Extraction and amplification of DNA and hybridizations were performed according to test procedure in order to investigate the presence of subtypes of the MTBC species in skimmed milk from collections stored at -20°C. In the

  3. Investigation and optimization of intraband electromagnetically induced transparency in strained InAs quantum dot/wetting layer structures

    NASA Astrophysics Data System (ADS)

    Parvizi, R.; Rezaei, G.

    2016-01-01

    In this work, effects of the shape and size on the optical properties and optimization of the intersubband electromagnetically induced transparency in the Infra-red region of three-dimensional strained truncated pyramid-shaped InAs/GaAs quantum dot (QD) were investigated in detail. More precisely, within the density matrix approach, the probe absorption and group velocity along with the refractive index of the medium were studied with respect to their dependence on the dephasing rates and the Rabi frequencies of the probe and coupling fields for different QD heights and wetting layer (WL) thicknesses. It is found that the slow-down factors, group index, and absorption coefficient are inversely proportional to the width of the transparency window and proportional to the depth of the transparency window. The optimized transparency window can be achieved by varying the dot height and the WL thickness such that the tall dots with thin WL thickness induce significant enhancements at a fixed resonant peak position of Rabi frequency of the coupling field. The physical reasons behind these interesting phenomena were also explained based on the polarized features of intersubband transitions.

  4. A Numerical Investigation of the Extinction of Low Strain Rate Diffusion Flames by an Agent in Microgravity

    NASA Technical Reports Server (NTRS)

    Puri, Ishwar K.

    2004-01-01

    Our goal has been to investigate the influence of both dilution and radiation on the extinction process of nonpremixed flames at low strain rates. Simulations have been performed by using a counterflow code and three radiation models have been included in it, namely, the optically thin, the narrowband, and discrete ordinate models. The counterflow flame code OPPDIFF was modified to account for heat transfer losses by radiation from the hot gases. The discrete ordinate method (DOM) approximation was first suggested by Chandrasekhar for solving problems in interstellar atmospheres. Carlson and Lathrop developed the method for solving multi-dimensional problem in neutron transport. Only recently has the method received attention in the field of heat transfer. Due to the applicability of the discrete ordinate method for thermal radiation problems involving flames, the narrowband code RADCAL was modified to calculate the radiative properties of the gases. A non-premixed counterflow flame was simulated with the discrete ordinate method for radiative emissions. In comparison with two other models, it was found that the heat losses were comparable with the optically thin and simple narrowband model. The optically thin model had the highest heat losses followed by the DOM model and the narrow-band model.

  5. Study on biodegradation of Mazut by newly isolated strain Enterobacter cloacae BBRC10061: improving and kinetic investigation

    PubMed Central

    2013-01-01

    Mazut as a source content of various hydrocarbons is hard to be degraded and its cracking could turn mazut into useful materials. Nevertheless degradation of mazut by routine methods is too expensive but application of indigenous microorganisms as biocatalysts could be effective and important to lower the costs and expand its consumption. Mazut biodegradation can be improved using various strategies; Therefore in this study newly isolated strain Enterobacter cloacae BBRC 10061 was used in a method of gradual addition of mazut into medium and its results were compared with simple addition method. To investigate degradation of mazut by BBRC 10061, influence of increase of mazut concentration was assayed based on gradual addition method. Also different kinetic models were used to evaluate kinetics of the process. Results showed that gradual addition method has been a beneficial technique for improvement of mazut degradation because bacterial induction to produce biosurfactant and essential enzymes for cracking mazut was higher during process. Although addition of more mazut increased the rate of biodegradation but percentage of degradation decreased. pH of medium decreased during biodegradation period while electric potential increased. Also the biodegradation kinetics was not fitted with the biokinetic models; therefore kinetics of biodegradation of mazut has to be studied by new models. PMID:23369455

  6. Investigating Transition Zone Thickness Variation under the Arabian Plate: Evidence Lacking for Deep Mantle Upwellings

    NASA Astrophysics Data System (ADS)

    Juliá, J.; Tang, Z.; Mai, P. M.; Zahran, H.

    2014-12-01

    Cenozoic volcanic outcrops in Arabia - locally known as harrats - span more than 2000 km along the western half of the Arabian plate, from eastern Yemen to southern Syria. The magmatism is bimodal in character, with older volcanics (30 to 20 My) being tholeiitic-to-transitional and paralleling the Red Sea margin, and younger volcanics (12 Ma to Recent) being transitional-to-strongly-alkalic and aligning in a more north-south direction. The bimodal character has been attributed to a two-stage rifting process along the Red Sea, where the old volcanics would have produced from shallow sources related to an initial passive rifting stage, and young volcanics would have originated from one or more deep-seated mantle plumes driving present active rifting. Early models suggested the harrats would have resulted from either lateral flow from the Afar plume in Ethiopia, or more locally from a separate mantle plume directly located under the shield. Most recently, tomographic images of the Arabian mantle have suggested the northern harrats could be resulting from flow originating at a deep plume under Jordan. In this work, we investigate the location of deep mantle plumes under the Arabian plate by mapping transition zone thickness with teleseismic receiver functions. The transition zone is bounded by seismic discontinuities, nominally at 410 and 660 km depth, originating from phase transitions in the olivine-normative component of the mantle. The precise depth of the discontinuities is strongly dependent on temperature and, due to the opposing signs of the corresponding Clapeyron slopes, positive temperature anomalies are expected to result in thinning of the transition zone. Our dataset consists of ~5000 low-frequency (fc < 0.25 Hz) receiver function waveforms obtained at ~110 broadband stations belonging to a number of permanent and temporary seismic networks in the region. The receiver functions were migrated to depth and stacked along a ~2000 km long record section

  7. Using GNSS observations to investigate variations of Pluviometry in the Semi-Arid Brazilian region

    NASA Astrophysics Data System (ADS)

    Silva, Mario; Fernandes, Rui; Nascimento, Aderson; Petta, Reinaldo; Matschullat, Jörg; Monico, João; Bos, Machiel; Sá, Andre; Barbosa, Marx

    2014-05-01

    The Semi-Arid Brazilian region is the most densely populated, semi-arid region in the world. It is located in the Northeastern part of Brazil and corresponds to approximately 982,563 square kilometers (about 11% of the total Brazilian territory). The temperatures remain nearly uniform throughout the year and are typically tropical, often extremely hot with little interannual variability, exert a strong effect on the potential evapotranspiration, which in turn determine the annual water deficit leading to extensive droughts in some years. The annual rainfall averages between 500 and 800 millimeters and have great climatic variability and an irregular distribution in space and time. Most of the year the region is strongly influenced by the inter-tropical convergence zone which remains in the northern hemisphere near the equator most of the year due to the cold waters of the Atlantic Ocean. The GNSS technique has been established as a valid tool to sense the amount of PWV in the atmosphere. The direct estimated product is the ZTD (Zenith Troposphere Delay) that can be transformed to PWV by knowing the Pressure and Temperature at the station position. However, such values are not always collected together with the GNSS observations, which can force us to limit the analysis to the ZTD directly. In this work we have used data of the existing continuous GNSS (Global Navigation Satellite Systems) stations in the Semi-Arid Brazil to investigate the variability of precipitable water vapor (PWV) in the region. We firstly analysis the accuracy of using global models of pressure and temperature fields to calculate the PWV at the GNSS station locations in the Northeast of Brazil. To do such, we have estimated and compared values of PWV using both global models and local measurements at Natal city, Brazil. The differences provide us a reliable estimate of the error associated with the use of global models to compute the PWV from ZTD measurements for Northeastern Brazil. Secondly

  8. Investigation of temperature and barometric pressure variation effects on radon concentration in the Sopronbánfalva Geodynamic Observatory, Hungary.

    PubMed

    Mentes, Gyula; Eper-Pápai, Ildikó

    2015-11-01

    Radon concentration variation has been monitored since 2009 in the artificial gallery of the Sopronbánfalva Geodynamic Observatory, Hungary. In the observatory, the radon concentration is extremely high, 100-600 kBq m(-3) in summer and some kBq m(-3) in winter. The relationships between radon concentration, temperature and barometric pressure were separately investigated in the summer and winter months by Fast Fourier Transform, Principal Component Analysis, Multivariable Regression and Partial Least Square analyses in different frequency bands. It was revealed that the long-period radon concentration variation is mainly governed by the temperature (20 kBq m(-1) °C(-1)) both in summer and winter. The regression coefficients between long-period radon concentration and barometric pressure are -1.5 kBq m(-3) hPa(-1) in the summer and 5 kBq m(-3) hPa(-1) in the winter months. In the 0.072-0.48 cpd (cycles per day) frequency band the effect of the temperature is about -1 kBq m(-3) °C(-1) and that of the barometric pressure is -5 kBq m(-3) hPa(-1) in summer and -0.5 kBq m(-3) hPa(-1) in winter. In the high frequency range (>0.48 cpd) all regression coefficients are one order of magnitude smaller than in the range of 0.072-0.48 cpd. Fast Fourier Transform of the radon concentration, temperature and barometric pressure time series revealed S1, K1, P1, S2, K2, M2 tidal constituents in the data and weak O1 components in the radon concentration and barometric pressure series. A detailed tidal analysis, however, showed that the radon tidal components are not directly driven by the gravitational force but rather by solar radiation and barometric tide. Principal Component Analysis of the raw data was performed to investigate the yearly, summer and winter variability of the radon concentration, temperature and barometric pressure. In the summer and winter periods the variability does not change. The higher variability of the radon concentration compared to the variability of

  9. Variation in susceptibility of field strains of three stored grain insect species to spinosad and chlorpyrifos-methyl plus deltamethrin on hard red winter wheat

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Spinosad and chlorpyrifos-methyl plus deltamethrin efficacy at labeled rates on hard red winter wheat was evaluated against 11 strains of the red flour beetle, Tribolium castaneum (Herbst); six strains of the sawtoothed grain beetle, Oryzaephilus surinamensis (L.); and two strains of the lesser grai...

  10. Investigation of Control System and Display Variations on Spacecraft Handling Qualities for Docking with Stationary and Rotating Targets

    NASA Technical Reports Server (NTRS)

    Jackson, E. Bruce; Goodrich, Kenneth H.; Bailey, Randall E.; Barnes, James R.; Ragsdale, William A.; Neuhaus, Jason R.

    2010-01-01

    This paper documents the investigation into the manual docking of a preliminary version of the Crew Exploration Vehicle with stationary and rotating targets in Low Earth Orbit. The investigation was conducted at NASA Langley Research Center in the summer of 2008 in a repurposed fixed-base transport aircraft cockpit and involved nine evaluation astronauts and research pilots. The investigation quantified the benefits of a feed-forward reaction control system thruster mixing scheme to reduce translation-into-rotation coupling, despite unmodeled variations in individual thruster force levels and off-axis center of mass locations up to 12 inches. A reduced rate dead-band in the phase-plane attitude controller also showed some promise. Candidate predictive symbology overlaid on a docking ring centerline camera image did not improve handling qualities, but an innovative attitude status indicator symbol was beneficial. The investigation also showed high workload and handling quality problems when manual dockings were performed with a rotating target. These concerns indicate achieving satisfactory handling quality ratings with a vehicle configuration similar to the nominal Crew Exploration Vehicle may require additional automation.

  11. An Investigation of Amphitheater-Headed Canyon Distribution, Morphology Variation, and Longitudinal Profile Controls in Escalante and Tarantula Mesa, Utah.

    NASA Astrophysics Data System (ADS)

    Ryan, A. J.; Whipple, K. X.

    2014-12-01

    Amphitheater-headed canyons are primarily distinguished from typical fluvial channels by their abrupt headwall terminations. A key goal in the study of river canyons is to establish a reliable link between form and formation processes. This is of particular significance for Mars, where, if such links can be established, amphitheater-headed canyons could be used to determine ancient erosion mechanisms and, by inference, climate conditions. Type examples in arid regions on Earth, such as in Escalante River, Utah, previously have been interpreted as products of groundwater seepage erosion. We investigate amphitheater-headed canyons in Escalante and Tarantula Mesa where variations in canyon head morphology may hold clues for the relative roles of rock properties and fluvial and groundwater processes. In lower Escalante, amphitheaters are only present where canyons have breached the Navajo Sandstone - Kayenta Formation contact. In some canyons, amphitheater development appears to have been inhibited by an abundance of coarse bedload. In Tarantula Mesa, canyons have a variety of headwalls, from amphitheaters to stepped knickzones. Headwall morphology distribution is directly related to the spatially variable presence of knickpoint-forming, fine-grained interbeds within cliff-forming sandstones. Amphitheaters only form where the sandstone unit is undisrupted by these interbeds. Finally, most canyons in Escalante and Tarantula Mesa, regardless of substrate lithology, amphitheater presence, or groundwater spring intensity, are well described by a slope-area power law relationship with regionally constant concavity and normalized steepness indices. This suggests that all channels here are subject to the same erosion rates, independent of groundwater weathering intensity. Thus: 1) variations in canyon headwall form do not necessary relate to differences in fluvial history, 2) stratigraphic variations are clearly of importance in sedimentary canyon systems, and 3) although

  12. Investigation of the spatiotemporal variation and influencing factors on fine particulate matter and carbon monoxide concentrations near a road intersection

    NASA Astrophysics Data System (ADS)

    Wang, Zhanyong; Lu, Qing-Chang; He, Hong-Di; Wang, Dongsheng; Gao, Ya; Peng, Zhong-Ren

    2016-05-01

    The minute-scale variations of fine particulate matter (PM2.5) and carbon monoxide (CO) concentrations near a road intersection in Shanghai, China were investigated to identify the influencing factors at three traffic periods. Measurement results demonstrate a synchronous variation of pollutant concentrations at the roadside and setbacks, and the average concentration of PM2.5 at the roadside is 7% (44% for CO) higher than that of setbacks within 500 m of the intersection. The pollution level at traffic peak periods is found to be higher than that of off-peak periods, and the morning peak period is found to be the most polluted due to a large amount of diesel vehicles and unfavorable dispersion conditions. Partial least square regressions were constructed for influencing factors and setback pollutant concentrations, and results indicate that meteorological factors are the most significant, followed by setback distance from the intersection and traffic factors. CO is found to be sensitive to distance from the traffic source and vehicle type, and highly dependent on local traffic conditions, whereas PM2.5 originates more from other sources and background levels. These findings demonstrate the importance of localized factors in understanding spatiotemporal patterns of air pollution at intersections, and support decision makers in roadside pollution management and control.

  13. USE OF PATHOGENIC NON-HUMAN AND HUMAN STRAINS TO INVESTIGATE THE POTENTIAL SURVIVAL OF INFECTIVE HELICOBACTER BACTERIA

    EPA Science Inventory

    Humans are the primary known reservoir for strains of Helicobacter pylori. Many factors concerning the infectivity of this microorganism among humans remain unknown. Significant associations have been reported between the presence of Helicobacter pylori in drinking water and hu...

  14. Experimental investigation of the inlet detector configuration variation in the flow field at Mach 1.9

    NASA Technical Reports Server (NTRS)

    Hwang, Kyu C.; Tiwari, Surrendra N.; Miley, Stanley J.

    1995-01-01

    In recent years, active research has been conducted to study the technological feasibility of supersonic laminar flow control on the wing of the High Speed Civil Transport (HSCT). For this study, the F-16XL has been chosen due to its highly swept crank wing planform that closely resembles the HSCT configurations. During flights, it is discovered that the shock wave generated from the aircraft inlet introduces disturbances on the wing where the data acquisition is conducted. The flow field about a supersonic inlet is characterized by a complex three dimensional pattern of shock waves generated by the geometrical configuration of a deflector and a cowl lip. Hence, in this study, experimental method is employed to investigate the effects of the variation of deflector configuration on the flow field, and consequently, the possibility of diverting the incoming shock-disturbances away from the test section. In the present experiments, a model composed of a simple circular tube with a triangular deflector is designed to study the deflector length and the deflector base width variation in the flow field. Experimental results indicate that the lowest external pressure ratio is observed at the junction where the deflector lip and the inlet cowl lip merge. Also, it is noted that the external pressure ratio, the internal pressure ratio, the coefficient of spillage drag, and the shock standoff distance decrease as the deflector length increases. In addition, the Redefined Total Pressure Recovery Ratio (RTPRR) increases with an increase in the deflector length. Results from the study of the effect of the deflector's base width variation on the flow field indicate that the lowest external pressure ratio is observed at the junction between the inlet cowl lip and the deflector lip. As the base width of the deflector increases, the external pressure ratio at 0 rotation increases, whereas the external pressure ratio at 180 rotation decreases. In addition, the internal pressure ratio

  15. Marked intra-strain variation in response of Listeria monocytogenes dairy isolates to acid or salt stress and the effect of acid or salt adaptation on adherence to abiotic surfaces.

    PubMed

    Adrião, A; Vieira, M; Fernandes, I; Barbosa, M; Sol, M; Tenreiro, R P; Chambel, L; Barata, B; Zilhao, I; Shama, G; Perni, S; Jordan, S J; Andrew, P W; Faleiro, M L

    2008-03-31

    During food processing, and particularly in cheese manufacturing processes, Listeria monocytogenes may be exposed routinely to environments of low pH or high salt concentration. It has been suggested that these environmental conditions may contribute to bacterial adherence to abiotic surfaces and increased resistance to disinfection. In this study strains isolated from the environment of artisanal cheese-making dairies were used to investigate the behaviour of L. monocytogenes in response to acid and salt stress and clear differences between strains was observed. In planktonic culture, strains varied in resistance to low pH or high NaCl concentration and in the occurrence of an adaptive response to moderate acid or NaCl. There was dislocation in responses to salt and acid. Strains resistant, or adaptive, to acid were not resistant or adaptive to NaCl. The reverse also was observed. Exposure to moderate acid did not promote adherence to polystyrene but survival, at low pH or high NaCl concentration, of cells adherent to stainless steel was increased, even for strains that had no adaptive response planktonically, but the detail of these observations varied between strains. In contrast to acid adaptation, with some strains salt adaptation enhanced adherence of L. monocytogenes to polystyrene but this was not true for all strains. For some strains salt- or acid adaptation may enhance the survival of sessile cells exposed to hypochlorite disinfection. PMID:18258322

  16. A mathematical representation of an advanced helicopter for piloted simulator investigations of control system and display variations

    NASA Technical Reports Server (NTRS)

    Aiken, E. W.

    1980-01-01

    A mathematical model of an advanced helicopter is described. The model is suitable for use in control/display research involving piloted simulation. The general design approach for the six degree of freedom equations of motion is to use the full set of nonlinear gravitational and inertial terms of the equations and to express the aerodynamic forces and moments as the reference values and first order terms of a Taylor series expansion about a reference trajectory defined as a function of longitudinal airspeed. Provisions for several different specific and generic flight control systems are included in the model. The logic required to drive various flight control and weapon delivery symbols on a pilot's electronic display is also provided. Finally, the model includes a simplified representation of low altitude wind and turbulence effects. This model was used in a piloted simulator investigation of the effects of control system and display variations for an attack helicopter mission.

  17. Investigation of the Amycolatopsis sp. Strain ATCC 39116 Vanillin Dehydrogenase and Its Impact on the Biotechnical Production of Vanillin

    PubMed Central

    Fleige, Christian; Hansen, Gunda; Kroll, Jens

    2013-01-01

    The actinomycete Amycolatopsis sp. strain ATCC 39116 is capable of synthesizing large amounts of vanillin from ferulic acid, which is a natural cell wall component of higher plants. The desired intermediate vanillin is subject to undesired catabolism caused by the metabolic activity of a hitherto unknown vanillin dehydrogenase (VDHATCC 39116). In order to prevent the oxidation of vanillin to vanillic acid and thereby to obtain higher yields and concentrations of vanillin, the responsible vanillin dehydrogenase in Amycolatopsis sp. ATCC 39116 was investigated for the first time by using data from our genome sequence analysis and further bioinformatic approaches. The vdh gene was heterologously expressed in Escherichia coli, and the encoded vanillin dehydrogenase was characterized in detail. VDHATCC 39116 was purified to apparent electrophoretic homogeneity and exhibited NAD+-dependent activity toward vanillin, coniferylaldehyde, cinnamaldehyde, and benzaldehyde. The enzyme showed its highest level of activity toward vanillin at pH 8.0 and at a temperature of 44°C. In a next step, a precise vdh deletion mutant of Amycolatopsis sp. ATCC 39116 was generated. The mutant lost its ability to grow on vanillin and did not show vanillin dehydrogenase activity. A 2.3-times-higher vanillin concentration and a substantially reduced amount of vanillic acid occurred with the Amycolatopsis sp. ATCC 39116 Δvdh::Kmr mutant when ferulic acid was provided for biotransformation in a cultivation experiment on a 2-liter-bioreactor scale. Based on these results and taking further metabolic engineering into account, the Amycolatopsis sp. ATCC 39116 Δvdh::Kmr mutant represents an optimized and industrially applicable platform for the biotechnological production of natural vanillin. PMID:23064333

  18. Investigation of the Workability and Response of Ti-6Al-4V Titanium alloys at Lower Elevated Temperature and Higher Strain Rate

    SciTech Connect

    Huang, Cindy Xiaohui; Lim, Chao Voon; Castagne, Sylvie

    2011-05-04

    Titanium and its alloys have a wide range of applications in various industries such as aerospace, medical, automotive and even commercial products. However, formability of titanium alloys has always been an issue. This study presents the results of an investigation on the workability and response of Ti-6Al-4V deformed at different strain rates and lower elevated temperatures with different initial microstructures. Compression tests of cylindrical specimens were performed at various temperatures (300 deg. C, 400 deg. C, 450 deg. C, 500 deg. C) and at different strain rates (0.001 s{sup -1}, 0.02 s{sup -1} and 0.1 s{sup -1}). The effects of strain rate, temperature and initial microstructure on the workability of the Ti alloy were investigated. Based on these experimental results, workability maps for the respective initial microstructures were developed. Results showed that temperature played an important role in the formability of Ti-6Al-4V titanium alloys unlike strain rate. In addition, feasibility study on Multi-Directional Forging (MDF) was performed and positive results were obtained. It was demonstrated that Ti-6Al-4V titanium alloys can undergo severe plastic deformation at lower elevated temperature (400-500 deg. C) and at a higher strain rate of 0.1 s{sup -1}.

  19. Effects of airplane flexibility on wing strains in rough air at 35,000 feet as determined by a flight investigation of a large swept-wing airplane

    NASA Technical Reports Server (NTRS)

    Rhyne, Richard H

    1958-01-01

    A flight investigation was made on a large sweptback-wing bomber airplane and the results are compared with data previously obtained at low altitude (5,000 feet). The effects of wing flexibility on the wing strains were, on the average, about 20 percent larger at the higher altitude.

  20. Investigating the Levels of Strain, from the Point of Various Variables, at Their Efforts of Obtain Information of Preservice Teachers' of Secondary Education

    ERIC Educational Resources Information Center

    Adiguzel, Abdullah

    2012-01-01

    The aim of this study is investigating the Levels of Strain, From the Point of Various Variables (according to gender, branch, working at a job which provides financial gain, the reason to prefer the teaching profession, the number of digests of related field which have been followed, the frequency of weekly using internet, the aim of using…

  1. Isolation and identification of new lactobacilli from goatling stomach and investigation of reuterin production in Lactobacillus reuteri strains.

    PubMed

    Kiňová Sepová, Hana; Bilková, Andrea

    2013-01-01

    Five new strains of lactobacilli isolated from goatling's stomach were identified by molecular-biological approaches. Profiles of fermentable saccharides, Gram staining, and cell morphology were also determined. They were identified as Lactobacillus reuteri (strains KO4b, KO4m, KO5) and as Lactobacillus plantarum (strains KG1z, KG4). In DNA samples of all newly isolated L. reuteri strains as well as in L. reuteri E (Lreu E; originated from lamb), the part of gldC gene, coding large subunit of glycerol dehydratase, that is necessary for 3-hydroxypropionaldehyde (3-HPA; reuterin) production, was amplified using two designed primer sets. However, the 3-HPA production was revealed only in the strain Lreu E. It produced five- or ten-fold lower amount of 3-HPA in comparison with probiotic L. reuteri ATCC 55730 in aerobic or anaerobic conditions, respectively. Moreover, Lreu E completely lost its production ability after ca. five passages in MRS medium. The co-incubation of Lreu E, but not other L. reuteri isolates, with Escherichia coli re-induced 3-HPA production. In the case of L. reuteri ATCC 55730, the 3-HPA production increased more than four times after co-incubation with E. coli. PMID:22688897

  2. Investigation of common and rare genetic variation in the BAMBI genomic region in light of human obesity.

    PubMed

    Van Camp, Jasmijn K; De Freitas, Fenna; Zegers, Doreen; Beckers, Sigri; Verhulst, Stijn L; Van Hoorenbeeck, Kim; Massa, Guy; Verrijken, An; Desager, Kristine N; Van Gaal, Luc F; Van Hul, Wim

    2016-05-01

    The aim of this study was to confirm the previously identified link between BAMBI and human obesity by means of a genetic and functional analysis. We performed both a mutation analysis, using high-resolution melting curve analysis, and a genetic association study, including 8 common tagSNPs in the BAMBI gene region. Three of the identified genetic variants (R151W, H201R, and C229R) were evaluated for their Wnt signaling enhancing capacity in a Wnt luciferase reporter assay. Mutation screening of the BAMBI coding region and exon-intron boundaries on our population of 677 obese children and adolescents and 529 lean control subjects resulted in the identification of 18 variants, 10 of which were not previously reported and 12 of which were exclusively found in obese individuals. The difference in variant frequency, not taking into account common polymorphisms, between obese (3.1 %) and lean (0.9 %) subjects was statistically significant (p = 0.004). Our Wnt luciferase assay, using WT and mutant BAMBI constructs, showed a significantly reduced activity for all of the investigated variants. Logistic and linear regression analysis on our Caucasian population of 1022 obese individuals and 606 lean controls, did not identify associations with obesity parameters (p values >0.05). We found several rare genetic variations, which represent the first naturally occurring missense variants of BAMBI in obese patients. Three variants (R151W, H201R, and C229R) were shown to reduce Wnt signaling enhancing capacity of BAMBI and we believe this result should encourage further study of this gene in other obese populations. In addition, we did not find evidence for the involvement of BAMBI common variation in human obesity in our population. PMID:26499194

  3. Child maltreatment, inflammation, and internalizing symptoms: Investigating the roles of C-reactive protein, gene variation, and neuroendocrine regulation.

    PubMed

    Cicchetti, Dante; Handley, Elizabeth D; Rogosch, Fred A

    2015-05-01

    Prior research has found inconsistent evidence regarding the association among childhood adversity, inflammation, and internalizing symptoms, perhaps because previous studies have yet to adequately integrate important factors such as the timing of the adversity, genetic variation, and other relevant processes such as neuroendocrine regulation. The aims of the present study were threefold: (a) to determine whether the effect of the timing of child maltreatment on C-reactive protein (CRP), an inflammatory marker, varies by CRP gene variation; (b) to explore whether links between salivary CRP and childhood internalizing symptoms depend on the presence and timing of maltreatment experiences; and (c) to investigate the role of CRP in the relations between child neuroendocrine regulation and internalizing symptoms and examine whether these associations are moderated by the presence and timing of child maltreatment. Participants included a sample of 267 maltreated and 222 nonmaltreated children (M age = 9.72, SD = 0.99; 52.4% male; 66% African American) who attended a summer day camp research program designed for school-aged low-income children. Department of Human Services records were examined to determine the onset and recency of maltreatment for children in the maltreated group. The results indicated that among children with recent onset maltreatment, those with at least one A allele from CRP single nucleotide polymorphism rs1417938 evidenced significantly higher CRP levels compared to recently maltreated children carrying the TT genotype. Moreover, higher levels of CRP were associated with higher levels of internalizing symptoms only for recently maltreated children. Finally, we did not find support for salivary CRP as a mechanism in the relation between neuroendocrine regulation and childhood internalizing symptoms. Our findings highlight the importance of the timing of child maltreatment and have important implications for characterizing variability in inflammation

  4. Child Maltreatment, Inflammation, and Internalizing Symptoms: Investigating the Roles of C-Reactive Protein, Gene Variation and Neuroendocrine Regulation

    PubMed Central

    Cicchetti, Dante; Handley, Elizabeth D.; Rogosch, Fred A.

    2015-01-01

    Prior research has found inconsistent evidence regarding the association among childhood adversity, inflammation, and internalizing symptoms, perhaps because previous studies have yet to adequately integrate important factors such as the timing of the adversity, genetic variation, and other relevant processes such as neuroendocrine regulation. The aims of the present study were threefold: 1) Determine whether the effect of the timing of child maltreatment on C-reactive protein (CRP), an inflammatory marker, varies by CRP gene variation; 2) Explore whether links between salivary CRP and childhood internalizing symptoms depend on the presence and timing of maltreatment experiences; 3) Investigate the role of CRP in the relations between child neuroendocrine regulation and internalizing symptoms and examine whether these associations are moderated by the presence and timing of child maltreatment. Participants included a sample of 267 maltreated and 222 nonmaltreated children (M age= 9.72, SD=0.99; 52.4% male; 66% African-American) who attended a summer day camp research program designed for school-aged low-income children. Department of Human Services records were examined to determine the onset and recency of maltreatment for children in the maltreated group. Results indicated that among children with recent onset maltreatment, those with at least one A allele from CRP SNP rs1417938 evidenced significantly higher CRP levels compared to recently maltreated children carrying the TT genotype. Moreover, higher levels of CRP were associated with higher levels of internalizing symptoms only for recently maltreated children. Finally, we did not find support for salivary CRP as a mechanism in the relation between neuroendocrine regulation and childhood internalizing symptoms. Our findings highlight the importance of the timing of child maltreatment and have important implications for characterizing variability in inflammation and internalizing symptoms among youth. PMID

  5. Characterization of group A Streptococcus strains recovered from Mexican children with pharyngitis by automated DNA sequencing of virulence-related genes: unexpectedly large variation in the gene (sic) encoding a complement-inhibiting protein.

    PubMed

    Mejia, L M; Stockbauer, K E; Pan, X; Cravioto, A; Musser, J M

    1997-12-01

    Sequence variation was studied in several target genes in 54 strains of group A Streptococcus (GAS) cultured from children with pharyngitis in Mexico City. Although 16 distinct emm alleles were identified, only 4 had not been previously described. Virtually all bacteria (31 of 33 [94%] with the streptococcal pyrogenic exotoxin gene (speA) had emm1-related, emm3, or emm6 alleles. The gene (sic) encoding an extracellular GAS protein that inhibits complement function was unusually variable among isolates with the emm1 family of alleles, with a total of seven variants identified. The data suggest that many GAS strains infecting Mexican children are genetically similar to organisms commonly encountered in the United States and western Europe. Sequence variation in the sic gene is useful for rapid differentiation among GAS isolates with the emm1 family of alleles. PMID:9399523

  6. Characterization of group A Streptococcus strains recovered from Mexican children with pharyngitis by automated DNA sequencing of virulence-related genes: unexpectedly large variation in the gene (sic) encoding a complement-inhibiting protein.

    PubMed Central

    Mejia, L M; Stockbauer, K E; Pan, X; Cravioto, A; Musser, J M

    1997-01-01

    Sequence variation was studied in several target genes in 54 strains of group A Streptococcus (GAS) cultured from children with pharyngitis in Mexico City. Although 16 distinct emm alleles were identified, only 4 had not been previously described. Virtually all bacteria (31 of 33 [94%] with the streptococcal pyrogenic exotoxin gene (speA) had emm1-related, emm3, or emm6 alleles. The gene (sic) encoding an extracellular GAS protein that inhibits complement function was unusually variable among isolates with the emm1 family of alleles, with a total of seven variants identified. The data suggest that many GAS strains infecting Mexican children are genetically similar to organisms commonly encountered in the United States and western Europe. Sequence variation in the sic gene is useful for rapid differentiation among GAS isolates with the emm1 family of alleles. PMID:9399523

  7. Hyper-variation of Tandem Repeats at the PD0218 (pspB) locus of Xylella fastidiosa Almond Leaf Scorch and Grape Pierce’s Disease Strains

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Xylella fastidiosa is a Gram negative plant pathogenic bacterium that causes almond leaf scorch disease (ALSD) and grape Pierce’s disease (PD) in California. A-genotype strains cause ALSD only. G-genotype strains cause both PD and ALSD. Little is known about how X. fastidiosa interacts with the envi...

  8. Polyclonal Mycobacterium avium infections in patients with AIDS: variations in antimicrobial susceptibilities of different strains of M. avium isolated from the same patient.

    PubMed Central

    von Reyn, C F; Jacobs, N J; Arbeit, R D; Maslow, J N; Niemczyk, S

    1995-01-01

    Broth microdilution MICs were determined for pairs of strains isolated from five AIDS patients with polyclonal Mycobacterium avium infection. Four (80%) of the five patients were infected simultaneously with strains having different antimicrobial susceptibility patterns. These findings have implications for the interpretation of susceptibility data in M. avium prophylaxis and treatment trials. PMID:7790424

  9. Cold Tolerance of some Ralstonia solanacearum strains, including Race3 Biovar2, is conferred in part by variation in cold shock gene cspD3.

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Ralstonia solanacearum race 3 biovar 2 (R3B2) strains are one of only 10 USDA Select Agents, a category of quarantined pathogens reserved for the most serious threats to U.S. plant industry. The threat of R3B2 strains was not considered to be likely due to race (these are poorly defined) or biovar ...

  10. Investigation of the types and characteristics of the proteolytic enzymes formed by diverse strains of Proteus species.

    PubMed

    Senior, B W

    1999-07-01

    Many diverse clinical isolates of Proteus mirabilis (48 strains), P. penneri (25), P. vulgaris biogroup 2 (48) and P. vulgaris biogroup 3 (21) from man were examined for their ability to produce proteolytic enzymes and the nature and characteristics of the proteases were studied. All the P. penneri isolates, most (94-90%) of the P. mirabilis and P. vulgaris biogroup 2 isolates, but only 71% of the P. vulgaris biogroup 3 isolates, secreted proteolytic enzymes. These were detected most readily at pH 8 with gelatin as substrate. A strong correlation was found between the ability of a strain to form swarming growth and its ability to secrete proteases. Non-swarming isolates invariably appeared to be non-proteolytic. However, some isolates, particularly of P. vulgaris biogroup 3, were non-proteolytic even when they formed swarming growth. Analysis of the secreted enzymes of the different Proteus spp. on polyacrylamide-gelatin gels under various constraints of pH and other factors showed that they were all EDTA-sensitive metalloproteinases. Analysis of the kinetics of production of the proteases revealed the formation of an additional protease of undefined type and function that was cell-associated and formed before the others were secreted. The secreted protease was subsequently modified to two isoforms whose mass (53-46 kDa) varied with the Proteus spp. and the strain. There was no evidence that the secreted proteases of strains of Proteus spp. were of types other than metalloproteinases. PMID:10403412

  11. Investigating the Potential Role of Genetic and Epigenetic Variation of DNA Methyltransferase Genes in Hyperplastic Polyposis Syndrome

    PubMed Central

    Drini, Musa; Wong, Nicholas C.; Scott, Hamish S.; Craig, Jeffrey M.; Dobrovic, Alexander; Hewitt, Chelsee A.; Dow, Christofer; Young, Joanne P.; Jenkins, Mark A.; Saffery, Richard; Macrae, Finlay A.

    2011-01-01

    Background Hyperplastic Polyposis Syndrome (HPS) is a condition associated with multiple serrated polyps, and an increased risk of colorectal cancer (CRC). At least half of CRCs arising in HPS show a CpG island methylator phenotype (CIMP), potentially linked to aberrant DNA methyltransferase (DNMT) activity. CIMP is associated with methylation of tumor suppressor genes including regulators of DNA mismatch repair (such as MLH1, MGMT), and negative regulators of Wnt signaling (such as WIF1). In this study, we investigated the potential for interaction of genetic and epigenetic variation in DNMT genes, in the aetiology of HPS. Methods We utilized high resolution melting (HRM) analysis to screen 45 cases with HPS for novel sequence variants in DNMT1, DNMT3A, DNMT3B, and DNMT3L. 21 polyps from 13 patients were screened for BRAF and KRAS mutations, with assessment of promoter methylation in the DNMT1, DNMT3A, DNMT3B, DNMT3L MLH1, MGMT, and WIF1 gene promoters. Results No pathologic germline mutations were observed in any DNA-methyltransferase gene. However, the T allele of rs62106244 (intron 10 of DNMT1 gene) was over-represented in cases with HPS (p<0.01) compared with population controls. The DNMT1, DNMT3A and DNMT3B promoters were unmethylated in all instances. Interestingly, the DNMT3L promoter showed low levels of methylation in polyps and normal colonic mucosa relative to matched disease free cells with methylation level negatively correlated to expression level in normal colonic tissue. DNMT3L promoter hypomethylation was more often found in polyps harbouring KRAS mutations (p = 0.0053). BRAF mutations were common (11 out of 21 polyps), whilst KRAS mutations were identified in 4 of 21 polyps. Conclusions Genetic or epigenetic alterations in DNMT genes do not appear to be associated with HPS, but further investigation of genetic variation at rs62106244 is justified given the high frequency of the minor allele in this case series. PMID:21347319

  12. Variation in Gamma Interferon Responses to Different Infecting Strains of Mycobacterium tuberculosis in Acid-Fast Bacillus Smear-Positive Patients and Household Contacts in Antananarivo, Madagascar▿

    PubMed Central

    Rakotosamimanana, Niaina; Raharimanga, Vaomalala; Andriamandimby, Soa Fy; Soares, Jean-Louis; Doherty, T. Mark; Ratsitorahina, Maherisoa; Ramarokoto, Herimanana; Zumla, Alimuddin; Huggett, Jim; Rook, Graham; Richard, Vincent; Gicquel, Brigitte; Rasolofo-Razanamparany, Voahangy

    2010-01-01

    The majority of healthy individuals exposed to Mycobacterium tuberculosis will not develop tuberculosis (TB), though many may become latently infected. More precise measurement of the human immune response to M. tuberculosis infection may help us understand this difference and potentially identify those subjects most at risk of developing active disease. Gamma interferon (IFN-γ) production has been widely used as a proxy marker to study infection and to examine the human immune response to specific M. tuberculosis antigens. It has been suggested that genetically distinct M. tuberculosis strains may invoke different immune responses, although how these differences influence the immune responses and clinical outcome in human tuberculosis is still poorly understood. We therefore evaluated the antigen-specific IFN-γ production responses in peripheral blood mononuclear cells from two cohorts of subjects recruited in Antananarivo, Madagascar, from 2004 to 2006 and examined the influence of the infecting M. tuberculosis strains on this response. The cohorts were sputum-positive index cases and their household contacts. Clinical strains isolated from the TB patients were typed by spoligotyping. Comparison of the IFN-γ responses with the spoligotype of the infecting clinical strains showed that “modern” M. tuberculosis strains, like Beijing and Central Asian (CAS) strains, tended to induce lower IFN-γ responses than “ancient” strains, like East African-Indian (EAI) strains, in index cases and their household contacts. These results suggest that new strains may have evolved to induce a host response different from that of ancient strains. These findings could have important implications in the development of therapeutic and diagnostic strategies. PMID:20463103

  13. Variation in Potency and Spectrum of Tigecycline Activity against Bacterial Strains from U.S. Medical Centers since Its Approval for Clinical Use (2006 to 2012)

    PubMed Central

    Farrell, David J.; Flamm, Robert K.; Jones, Ronald N.

    2014-01-01

    Tigecycline was initially approved by the U.S. Food and Drug Administration (FDA) in June 2005. We assessed the evolution of tigecycline in vitro activities since the initial approval of tigecycline for clinical use by analyzing the results of 7 years (2006 to 2012) of data from the SENTRY Antimicrobial Surveillance Program in the United States. We also analyzed trends over time for key resistance phenotypes. The analyses included 68,608 unique clinical isolates collected from 29 medical centers and tested for susceptibility using reference broth microdilution methods. Tigecycline was highly active against Gram-positive organisms, with MIC50 and MIC90 values of 0.12 and 0.25 μg/ml for Staphylococcus aureus (28,278 strains; >99.9% susceptible), 0.06 to 0.12 and 0.12 to 0.25 μg/ml for enterococci (99.3 to 99.6% susceptible), and ≤0.03 and ≤0.03 to 0.06 μg/ml for streptococci (99.9 to 100.0% susceptible), respectively. When tested against 20,457 Enterobacteriaceae strains, tigecycline MIC50 and MIC90 values were 0.25 and 1 μg/ml, respectively (98.3% susceptible using U.S. FDA breakpoints). No trend toward increasing tigecycline resistance (nonsusceptibility) was observed for any species or group during the study period. The prevalence of multidrug-resistant (MDR) and extensively drug-resistant (XDR) Enterobacteriaceae increased from 4.4 and 0.5%, in 2006 to 8.5 and 1.5% in 2012, respectively. During the same period, the prevalence of Escherichia coli and Klebsiella spp. with an extended-spectrum β-lactamase (ESBL) phenotype increased from 5.8 and 9.1% to 11.1 and 20.4%, respectively, whereas rates of meropenem-nonsusceptible Klebsiella pneumoniae escalated from 2.2% in 2006 to 10.8% in 2012. The results of this investigation show that tigecycline generally retained potent activities against clinically important organisms isolated in U.S. institutions, including MDR organism subsets of Gram-positive and Gram-negative pathogens. PMID:24492361

  14. Natural variation in the promoter of the gene encoding the Mga regulator alters host-pathogen interactions in group a Streptococcus carrier strains.

    PubMed

    Flores, Anthony R; Olsen, Randall J; Wunsche, Andrea; Kumaraswami, Muthiah; Shelburne, Samuel A; Carroll, Ronan K; Musser, James M

    2013-11-01

    Humans commonly carry pathogenic bacteria asymptomatically, but the molecular factors underlying microbial asymptomatic carriage are poorly understood. We previously reported that two epidemiologically unassociated serotype M3 group A Streptococcus (GAS) carrier strains had an identical 12-bp deletion in the promoter of the gene encoding Mga, a global positive gene regulator. Herein, we report on studies designed to test the hypothesis that the identified 12-bp deletion in the mga promoter alters GAS virulence, thereby potentially contributing to the asymptomatic carrier phenotype. Using allelic exchange, we introduced the variant promoter into a serotype M3 invasive strain and the wild-type promoter into an asymptomatic carrier strain. Compared to strains with the wild-type mga promoter, we discovered that strains containing the promoter with the 12-bp deletion produced significantly fewer mga and Mga-regulated gene transcripts. Consistent with decreased mga transcripts, strains containing the variant mga promoter were also significantly less virulent in in vivo and ex vivo models of GAS disease. Further, we provide evidence that the pleiotropic regulator protein CodY binds to the mga promoter and that the 12-bp deletion in the mga promoter reduces CodY-mediated mga transcription. We conclude that the naturally occurring 12-bp deletion in the mga promoter significantly alters the pathogen-host interaction of these asymptomatic carrier strains. Our findings provide new insight into the molecular basis of the carrier state of an important human pathogen. PMID:23980109

  15. Variation of strain in single and multilayer (In xGa 1-xAs) structures grown on Si(100), and Si(111), by molecular beam epitaxy

    NASA Astrophysics Data System (ADS)

    Sobiesierski, Z.; Woolf, D. A.; Westwood, D. I.; Williams, R. H.

    The difference in thermal expansion coefficients between GaAs and Si is known to induce a biaxial tensile strain, below room temperature, for GaAs epilayers grown on Si(100). We have performed photoluminescence (PL) measurements for GaAs layers grown on both Si(111) and misorientated Si(100) substrates by molecular beam epitaxy. These measurements indicate that the thermally-induced strain is greater for the (111) growth direction. Strained In xGa 1-xAs-GaAs multiple quantum well structures grown on Si(100), (MQW/Si), exhibit systematic decreases in low temperature PL transition energies when compared with similar structures grown on GaAs(100), (MQW/GaAs). The MQW structures incorporating greater strain (18.7% In content) show decreases in PL transition energies of 3-9 meV between MQW/Si and MQW/GaAs, while MQW structures containing less-strained layers (11% In content) exhibit 12-13 meV shifts to lower transition energies. It seems, therefore, that the effect of thermal strain becomes more pronounced at lower levels of coherency strain.

  16. Natural Variation in the Promoter of the Gene Encoding the Mga Regulator Alters Host-Pathogen Interactions in Group A Streptococcus Carrier Strains

    PubMed Central

    Flores, Anthony R.; Olsen, Randall J.; Wunsche, Andrea; Kumaraswami, Muthiah; Shelburne, Samuel A.; Carroll, Ronan K.

    2013-01-01

    Humans commonly carry pathogenic bacteria asymptomatically, but the molecular factors underlying microbial asymptomatic carriage are poorly understood. We previously reported that two epidemiologically unassociated serotype M3 group A Streptococcus (GAS) carrier strains had an identical 12-bp deletion in the promoter of the gene encoding Mga, a global positive gene regulator. Herein, we report on studies designed to test the hypothesis that the identified 12-bp deletion in the mga promoter alters GAS virulence, thereby potentially contributing to the asymptomatic carrier phenotype. Using allelic exchange, we introduced the variant promoter into a serotype M3 invasive strain and the wild-type promoter into an asymptomatic carrier strain. Compared to strains with the wild-type mga promoter, we discovered that strains containing the promoter with the 12-bp deletion produced significantly fewer mga and Mga-regulated gene transcripts. Consistent with decreased mga transcripts, strains containing the variant mga promoter were also significantly less virulent in in vivo and ex vivo models of GAS disease. Further, we provide evidence that the pleiotropic regulator protein CodY binds to the mga promoter and that the 12-bp deletion in the mga promoter reduces CodY-mediated mga transcription. We conclude that the naturally occurring 12-bp deletion in the mga promoter significantly alters the pathogen-host interaction of these asymptomatic carrier strains. Our findings provide new insight into the molecular basis of the carrier state of an important human pathogen. PMID:23980109

  17. [Investigation of antitumorigenic effects of food-borne non-pathogenic and pathogenic Salmonella enterica strains on MEF, DU145 and HeLa cell lines].

    PubMed

    Altıntaş Kazar, Gamze; Şen, Ece

    2016-07-01

    Basic applications in cancer therapy may fail to eradicate cancer cells completely, they can show toxic affects to healthy cells and development of resistance to antitumor agents may increase tendency to metastasis. Bacterial therapies have the advantage of specific targetting of tumors by selective toxicity, responsiveness to external signals, self-propelling capacity, and the sense of microenvironment. The most interest on the bacterial cancer therapy is about Salmonella spp. with a special emphasis of S.Typhimurium. The aim of this study was to investigate the antitumorigenic effects of food-borne non-pathogenic and pathogenic Salmonella enterica strains on different cell cultures. Non-pathogenic Salmonella Enteriditis (A17) and pathogenic Salmonella Telaviv (A22) strains isolated from chicken carcasses which were put on the market in Edirne province (located at Thrace region of Turkey), and Salmonella Typhimurium ATCC 14028 strain were used in the study. ATCC-derived MEF (mouse embryonic fibroblasts), DU145 (human prostate cancer cells), and HeLa (human cervical cancer cells) cell lines were cocultivated with Salmonella strains of MOI (Multiplicity of infection; number of bacteria:number of cell) of 1000:1, 100:1, 10:1, 1:1, 0.1:1. The cell viability was measured by colorimetric MTT cytotoxicity assay, the percentage of apoptosis was assessed by Tali® Apoptosis Assay-Annexin V Alexa Fluor® 488 kit (Invitrogen, Molecular Probes, Life Technologies, USA), and the caspase-3 activity was determined by colorimetric protease ApoTarget™ kit (Invitrogen, BioSource International, USA). It was shown that non-pathogenic S.Enteriditis (A17) decreased cell viability approximately to 70%, wheras patogenic S.Telaviv (A22) and standart S.Typhimurium ATCC 14028 strains reduced cell viability approximately to 80%. Adversely, it was also observed that pathogenic S.Telaviv (A22) strain induces apoptosis more effectively than non-pathogenic S.Enteriditis (A17) and S

  18. Numerical investigation of the convective heat transfer coefficient with longitudinal pitch variation in a staggered tube bank

    NASA Astrophysics Data System (ADS)

    Alfandi, Ashraf; Yoon, Juhyeon; Abusaleem, Khalifeh; Albati, Mohammad; Khafaji, Salih

    2015-11-01

    In this study, the effect on a shell-side heat transfer coefficient is investigated using the CFD code FLUENT with a variation in longitudinal pitch to diameter ratio, SL, in the range of 1.15 to 2.6 with a fixed transverse pitch to diameter ratio. For the benchmark purposes with the available empirical correlation, typical thermal-hydraulic conditions for the Zukauskas correlation are assumed. Many sensitivity calculations for different mesh sizes and turbulent models are performed to check the accuracy of the numerical solution. A realizable κ- ɛ turbulence model was found to be in good agreement with results of the Zukauskas correlation among the other turbulence models, at least for the staggered tube bank. It was found that the average heat transfer coefficient of a crossflow over a staggered tube bank calculated using FLUENT is in good agreement with the Zukauskas correlation-calculated heat transfer coefficient in the range of 1.15 - 2.6. For a staggered tube bank, using the Zukauskas correlation seems to be valid down to SL = 1.15.

  19. Investigating the variation and non-stationarity in precipitation extremes based on the concept of event-based extreme precipitation

    NASA Astrophysics Data System (ADS)

    She, Dunxian; Shao, Quanxi; Xia, Jun; Taylor, John A.; Zhang, Yongyong; Zhang, Liping; Zhang, Xiang; Zou, Lei

    2015-11-01

    Extreme precipitations (EP) could induce a series of social, environmental and ecological problems. Traditional EP analysis usually investigated the characteristics based on a fixed time scale and therefore ignored the continuity of EP occurrence. As a result, a comprehensive assessment on the influence and consequence of the EP occurring during consecutive time periods were largely eliminated. On the other hand, the characteristics of EP, including variables such as frequency, intensity and extreme volume, were commonly defined without sufficient consideration of the local tolerance capacity (which can be represented by a threshold level of EP) and therefore would sometimes be inappropriate. In this study, we proposed a concept of event-based extreme precipitation (EEP) by considering the continuity of EP and defined the statistical variables for the characteristics of an EEP event by taking account of local tolerance capacity. An EEP was identified as a collection of precipitation data over the consecutive time period in which all the precipitation amounts are above the pre-defined threshold, and EEP events are separated by at least one time step (e.g., day or hour) with precipitation amount below the threshold. As a case study which in fact motivated our proposal, we investigated the changes and variations of EEP with the consideration of potential non-stationarity in the Hanjiang River Basin of China (HJRB) during the time period of 1960-2013. Results showed that the concept of EEP, which could reflect the impact of continuity of EP occurrence and mirror the differences of local tolerance capacity, was more appropriate than the traditional method in the EP analysis.

  20. Experimental Investigation of the Strain Rate Dependent Behaviour of 2D Biaxially and Triaxially Reinforced Braided Composites

    NASA Astrophysics Data System (ADS)

    Böhm, R.; Hornig, A.; Luft, J.; Becker, M.; Koch, I.; Grüber, B.; Hufenbach, W.

    2014-04-01

    The performance of 2D biaxially and triaxially reinforced braided carbon fibre composites under dynamic loading is evaluated in the presented study. The accurate manufacturing of tensile specimen made of braided sleeves is explained particularly with regard to efficiency and reproducibility. In order to determine reliable strain rate dependent properties, the high-speed testing procedure is discussed. Using five materials, the parameter identification is described and relevant material data is provided. The measured stiffnesses and strengths are used to predict the non-linear stress-strain behaviour with an earlier proposed phenomenological damage model for textile composites. The gained orthotropic property-profile provides the input parameters for a numerical analysis of braided composite components using the calibrated model.

  1. Zero-strain GaAs quantum dot molecules as investigated by x-ray diffuse scattering

    SciTech Connect

    Hanke, M.; Schmidbauer, M.; Grigoriev, D.; Schaefer, P.; Koehler, R.; Metzger, T. H.; Wang, Zh. M.; Mazur, Yu. I.; Salamo, G. J.

    2006-07-31

    The authors report on x-ray diffuse scattering at nominally strain-free GaAs(001) quantum dot molecules (QDMs). Al{sub 0.3}Ga{sub 0.7}As deposited by molecular beam epitaxy on GaAs(001) acts as barrier layer between the GaAs(001) substrate and subsequently grown QDMs; the adjusted thickness of 50 nm preserves the in-plane lattice parameter. Pairs of lenselike quantum dots are created with preferential orientation along [110] placed on shallow hills. Grazing incidence diffraction along with kinematical scattering simulations indicate completely strain-free QDs which prove a strongly suppressed intermixing between QDMs and the underlying AlGaAs barrier layer.

  2. Genome-Scale Metabolic Reconstructions and Theoretical Investigation of Methane Conversion in Methylomicrobium buryatense Strain 5G(B1)

    SciTech Connect

    de la Torre, Andrea; Metivier, Aisha; Chu, Frances; Laurens, Lieve M. L.; Beck, David A. C.; Pienkos, Philip T.; Lidstrom, Mary E.; Kalyuzhnaya, Marina G.

    2015-11-25

    Methane-utilizing bacteria (methanotrophs) are capable of growth on methane and are attractive systems for bio-catalysis. However, the application of natural methanotrophic strains to large-scale production of value-added chemicals/biofuels requires a number of physiological and genetic alterations. An accurate metabolic model coupled with flux balance analysis can provide a solid interpretative framework for experimental data analyses and integration.

  3. Investigations on Landé factor in a strained GaxIn1-xAs/GaAs quantum dot

    NASA Astrophysics Data System (ADS)

    Kumar, N. R. Senthil; Peter, A. John

    2014-04-01

    The effective excitonic g-factor as functions of dot radius and the Ga alloy content, in a strained GaxIn1-xAs/GaAs quantum dot, is numerically measured. The heavy hole excitonic states are studied for various Ga alloy content taking into account the anisotropy, non-parabolicity of the conduction band and the geometrical confinement effects. The quantum dot is considered as spherical dot of InAs surrounded by a GaAs barrier material.

  4. Investigation of spatial and historical variations of air pollution around an industrial region using trace and macro elements in tree components.

    PubMed

    Odabasi, Mustafa; Tolunay, Doganay; Kara, Melik; Ozgunerge Falay, Ezgi; Tuna, Gizem; Altiok, Hasan; Dumanoglu, Yetkin; Bayram, Abdurrahman; Elbir, Tolga

    2016-04-15

    Several trace and macro elements (n=48) were measured in pine needle, branch, bark, tree ring, litter, and soil samples collected at 27 sites (21 industrial, 6 background) to investigate their spatial and historical variation in Aliaga industrial region in Turkey. Concentrations generally decreased with distance from the sources and the lowest ones were measured at background sites far from major sources. Spatial distribution of anthropogenic trace elements indicated that their major sources in the region are the iron-steel plants, ship-breaking activities and the petroleum refinery. Patterns of 40 elements that were detected in most of the samples were also evaluated to assess their suitability for investigation of historical variations. Observed increasing trends of several trace and macro elements (As, Cr, Fe, Mo, Ni, V, Cu, Pb, Sb, Sn, and Hg) in the tree-ring samples were representative for the variations in anthropogenic emissions and resulting atmospheric concentrations in Aliaga region. It was shown that lanthanides (La, Ce, Pr, Nd, Sm, Gd, Dy, Er, Yb) could also be used for the investigation of historical variations due to specific industrial emissions (i.e., petroleum refining). Results of the present study showed that tree components, litter, and soil could be used to determine the spatial variations of atmospheric pollution in a region while tree rings could be used to assess the historical variations. PMID:26855354

  5. Flexible structural and electronic properties of a pentagonal B2C monolayer via external strain: a computational investigation.

    PubMed

    Li, Fengyu; Tu, Kaixiong; Zhang, Haijun; Chen, Zhongfang

    2015-10-01

    Inspired by the recent theoretical finding that penta-graphene, composed entirely of carbon pentagons, is dynamically and mechanically stable [Proc. Natl. Acad. Sci. U. S. A., 2015, 112, 2372-2377], we computationally designed a new two-dimensional (2D) inorganic material, a pentagonal B2C monolayer (penta-B2C), in which each pentagon contains three boron and two carbon atoms, the C atom is four-coordinated with four B atoms, and all the B atoms are three-coordinated with two C atoms and one B atom, forming a buckled 2D network. The pentagonal B2C monolayer is semiconducting with a wide indirect band gap of 2.28 eV from HSE calculations. The absence of imaginary modes in its phonon spectrum, and the high melting point predicted by molecular dynamics (MD) simulations indicate its good stability. Interestingly, the buckled structure could be stretched to planar under 15% biaxial tensile strain, and the band gap will be strikingly reduced to 0.06 eV. The semiconducting properties of penta-B2C could also be switched to those of a metallic semiconductor under certain biaxial strains, while uniaxial strains could only tune the band gaps without changing the semiconducting characteristics. PMID:26315808

  6. Band-gap Variation of "Semi-metallic" Zig-Zag Carbon Nanotubes under Uniaxial Strain: Accurate Ab-initio Studies

    NASA Astrophysics Data System (ADS)

    Guo, Guang-Yu; Chu, K. C.; Liu, Lei; Jayanthi, C. S.; Wu, Shi-Yu

    2003-03-01

    We have calculated the electronic properties of "semi-metallic" zigzag carbon nanotubes as a function of uniaxial strain using highly accurate all-electron projector augmented-wave (PAW) method. The calculated band gaps for unstrained nanotubes are in good agreement with available STM experimental results [1]. It is found that with increasing elongation, the band gap of all the "semi-metallic" nanotubes initially decreases linearly, then vanishes at a small strain, and then increases linearly for relatively small strains. The strain characterizing the semiconductor to metal transition is found to be inversely proportional to the square of the diameter of the nanotube. The calculated transition strain values are all within 1 thus easily verifiable experimentally. Analytic relations among band gaps, diameters, and strains of zig-zag nanotubes extracted from our accurate calculations will be reported. Acknowledgements: The work is supported by National Science Council of Taiwan (NSC 91-2112-M-002-054) as well as NSF (DMR-0112824) and DOE (DEFG02-00ER45832). [1] M. Ouyang, J.-L. Huang, C.L. Cheung, and C.M. Lieber, Science 292, 702 (2001).

  7. Genetic Variation of Capsid Protein VP7 in Genotype G4 Human Rotavirus Strains: Simultaneous Emergence and Spread of Different Lineages in Argentina

    PubMed Central

    Bok, Karin; Matson, David O.; Gomez, Jorge A.

    2002-01-01

    Rotavirus is the most-common cause of severe diarrhea in young children. Complete rotavirus characterization includes determination of the antigenic type of the two outer capsid proteins, VP7 and VP4, designated G and P types, respectively. During a nationwide rotavirus surveillance study, genotype G4 frequency increased during the second year. To evaluate further the mechanism of emergence and the relationship among G4 strains, the genetic diversity of VP7 capsid protein in these samples was studied in detail. Overall nucleotide sequence divergence ranged from less than 0.1 to 19.5%, a higher divergence than that observed for other rotavirus G types (0.1 to 9%). Sequences were classified into two major lineages (designated I and II) based on their nucleotide distances. The most heterogeneous lineage was further subdivided into four sublineages (designated Ia to Id). Most Argentine sequences were of sublineages Ib and Ic, which were confirmed to be independent sequence clusters by parsimony analysis. This study describes different lineages and sublineages within G4 strains and shows that Argentine strains are distantly related to reference strain ST3. The appearance of at least two G4 genotype (sub)lineages during 1998 demonstrates that the increased frequency of these strains was due to the synchronized emergence of different groups of strains. PMID:12037057

  8. Phylogeography of Yersinia ruckeri reveals effects of past evolutionary events on the current strain distribution and explains variations in the global transmission of enteric redmouth (ERM) disease

    PubMed Central

    Bastardo, Asmine; Ravelo, Carmen; Romalde, Jesús L.

    2015-01-01

    Phylogeographic patterns and population genetic structure of Yersinia ruckeri, the pathological agent of enteric redmouth disease (ERM) in salmonids, were investigated on the basis of concatenated multiloci sequences from isolates of different phenotypes obtained between 1965 and 2009 from diverse areas and hosts. Sequence analyses revealed genetic differentiation among subpopulations with the largest genetic distance occurring between subpopulations of Europe and Canada and/or South America. Bayesian analysis indicated the presence of three ancestral population clusters. Mismatch distribution displayed signatures characteristic of changes in size due to demographic and spatial expansions in the overall Y. ruckeri population, and also in the geographically separate subpopulations. Furthermore, a weak signal of isolation by distance was determined. A significant positive correlation between genetic and geographical distances was observed. These results revealed that the population of Y. ruckeri has undergone both ancient and recent population changes that were probably induced by biogeography forces in the past and, much more recently, by adaptive processes forced by aquaculture expansion. These findings have important implications for future studies on Y. ruckeri population dynamics, on the potential role of genetic structure to explain variations in ERM transmission, and on the effect of past evolutionary events on current estimations of gene flow. PMID:26579104

  9. Dispersion-Corrected Density Functional Theory Investigations of Structural and Electronic Properties of Bulk MoS2: Effect of Uniaxial Strain

    NASA Astrophysics Data System (ADS)

    Nguyen, Chuong V.; Hieu, Nguyen N.; Nguyen, Duong T.

    2015-11-01

    Strain-dependent structural and electronic properties of MoS2 materials are investigated using first principles calculations. The structural and electronic band structures of the MoS2 with relaxed unit cells are optimized and calculated by the dispersion-corrected density functional theory (DFT-D2). Calculations within the local density approximation (LDA) and GGA using PAW potentials were also performed for specific cases for the purpose of comparison. The effect of strain on the band gap and the dependence of formation energy on strain of MoS2 are also studied and discussed using the DFT-D2 method. In bulk MoS2, the orbitals shift towards the higher/lower energy area when strain is applied along the z/ x direction, respectively. The energy splitting of Mo4 d states is in the range from 0 to 2 eV, which is due to the reduction of the electronic band gap of MoS2.

  10. Simulation of the isotopic composition of stratospheric water vapour - Part 2: Investigation of HDO / H2O variations

    NASA Astrophysics Data System (ADS)

    Eichinger, R.; Jöckel, P.; Lossow, S.

    2015-06-01

    Studying the isotopic composition of water vapour in the lower stratosphere can reveal the driving mechanisms of changes in the stratospheric water vapour budget and therefore help to explain the trends and variations of stratospheric water vapour during recent decades. We equipped a global chemistry climate model with a description of the water isotopologue HDO, comprising its physical and chemical fractionation effects throughout the hydrological cycle. We use this model to improve our understanding of the processes which determine the patterns in the stratospheric water isotope composition and in the water vapour budget itself. The link between the water vapour budget and its isotopic composition in the tropical stratosphere is presented through their correlation in a simulated 21-year time series. The two quantities depend on the same processes; however, they are influenced with different strengths. A sensitivity experiment shows that fractionation effects during the oxidation of methane have a damping effect on the stratospheric tape recorder signal in the water isotope ratio. Moreover, the chemically produced high water isotope ratios overshadow the tape recorder in the upper stratosphere. Investigating the origin of the boreal-summer signal of isotopically enriched water vapour reveals that in-mixing of old stratospheric air from the extratropics and the intrusion of tropospheric water vapour into the stratosphere complement each other in order to create the stratospheric isotope ratio tape recorder signal. For this, the effect of ice lofting in monsoon systems is shown to play a crucial role. Furthermore, we describe a possible pathway of isotopically enriched water vapour through the tropopause into the tropical stratosphere.

  11. Investigating late Holocene variations in hydroclimate and the stable isotope composition of precipitation using southern South American peatlands: a hypothesis

    NASA Astrophysics Data System (ADS)

    Daley, T. J.; Mauquoy, D.; Chambers, F. M.

    2012-02-01

    Ombrotrophic raised peatlands provide an ideal archive for integrating late Holocene records of variations in hydroclimate and the estimated stable isotope composition of precipitation with recent instrumental measurements. Modern measurements of mean monthly surface air temperature, precipitation and δD and δ18O values in precipitation from the late twentieth and early twenty-first centuries provide a short but invaluable record with which to investigate modern relationships between these variables, thereby enabling improved interpretation of the peatland palaeodata. Data from two stations in the Global Network for Isotopes in Precipitation (GNIP) from Tierra del Fuego (Punta Arenas, Chile and Ushuaia, Argentina) were analysed for the period 1982 to 2008. In both locations, δD and δ18O values have decreased in response to quite different trends in local surface air temperature and total precipitation amount. At Ushuaia, the fall in δ18O values is associated with an increase in the mean annual amount of precipitation. At Punta Arenas, the fall in δ18O values is weakly associated with decrease in the precipitation amount and an increase in local temperatures. The pattern in both records is consistent with an increase in the zonal intensity of the southern westerly wind belt. These regional differences, observed in response to a known driver, should be detectable in peatland sites close to the GNIP stations. There is currently insufficient availability of suitably temporally resolved data to test for these regional differences over the last 3000 yr. Existing peatland palaeoclimate data from two sites near Ushuaia, however, provide evidence for changes in the late Holocene that are consistent with the pattern observed in modern observations. Furthermore, the records suggest synchroneity in millennial-scale oscillations between the Northern and Southern Hemispheres.

  12. Dependence of the elastic strain coefficient of copper on the pre-treatment

    NASA Technical Reports Server (NTRS)

    Kuntze, Wilhelm

    1950-01-01

    The effect of various pre-treatments on the elastic strain coefficient (alpha) (defined as the reciprocal of the modulus of elasticity E) (Epsilon) and on the mechanical hysteresis of copper has been investigated. Variables comprising the pre-treatments were pre-straining by stretching in a tensile testing machine and by drawing through a die, aging at room and elevated temperatures and annealing. The variation of the elastic strain coefficient with test stress was also investigated.

  13. CHARACTERIZATION OF GENETIC VARIATION IN THREE STRAINS OF RAINBOW TROUT USED TO INITIATE A SELECTIVE BREEDING PROGRAM FOR AQUACULTURE PRODUCTION EFFICIENCY

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Genetic variation is the raw material for selection to work on, natural selection in wild populations and artificial selection in captive populations. Within captive populations genetic variation is expected to decline over time. Because of the high fecundity of many fish species relatively few pa...

  14. Emergence of a multidrug-resistant (ASSuTTm) strain of Salmonella enterica serovar Typhimurium DT120 in England in 2011 and the use of multiple-locus variable-number tandem-repeat analysis in supporting outbreak investigations.

    PubMed

    Paranthaman, Karthikeyan; Haroon, Sophie; Latif, Samia; Vinnyey, Natalie; de Souza, Valerie; Welfare, William; Tahir, Mamoona; Cooke, Edward; Stone, Kirsten; Lane, Chris; Peters, Tansy; Puleston, Richard

    2013-10-01

    In summer 2011, two outbreaks of a unique, multidrug-resistant strain of Salmonella enterica serovar Typhimurium phage type 120 (DT120) occurred mainly in the Midlands, England. The first outbreak occurred among guests attending a wedding in July 2011 ('Wedding outbreak'), followed by a more geographically dispersed outbreak in August and September 2011 ('Midlands outbreak'). Fifty-one cases were confirmed. Detailed epidemiological and environmental health investigations suggested that pork was the most likely source of both outbreaks. All human samples and one pork sample showed the specific multiple-locus variable-number tandem-repeat analysis (MLVA) profile 3-11-12-NA-0211, with at most two loci variations. Trace-back investigations suggested a link to a butcher's shop and a pig farm in the East Midlands. The investigations highlight the utility of molecular analysis (MLVA) in supporting epidemiological investigations of outbreaks caused by S. Typhimurium DT120. Safe handling and cooking of pork by food business operators and consumers are key interventions to prevent future outbreaks. PMID:23869962

  15. Investigation of high-speed free shear flows using improved pressure-strain correlated Reynolds stress turbulence model

    NASA Technical Reports Server (NTRS)

    Tiwari, S. N.; Lakshmanan, B.

    1993-01-01

    A high-speed shear layer is studied using compressibility corrected Reynolds stress turbulence model which employs newly developed model for pressure-strain correlation. MacCormack explicit prediction-corrector method is used for solving the governing equations and the turbulence transport equations. The stiffness arising due to source terms in the turbulence equations is handled by a semi-implicit numerical technique. Results obtained using the new model show a sharper reduction in growth rate with increasing convective Mach number. Some improvements were also noted in the prediction of the normalized streamwise stress and Reynolds shear stress. The computed results are in good agreement with the experimental data.

  16. Infection of a Single Cell Line with Distinct Strains of Human Cytomegalovirus Can Result in Large Variations in Virion Production and Facilitate Efficient Screening of Virus Protein Function

    PubMed Central

    Zavala, Anamaria G.; O'Dowd, John M.

    2015-01-01

    ABSTRACT Previously, we reported that the absence of the ataxia telangiectasia mutated (ATM) kinase, a critical DNA damage response (DDR) signaling component for double-strand breaks, caused no change in HCMV Towne virion production. Later, others reported decreased AD169 viral titers in the absence of ATM. To address this discrepancy, human foreskin fibroblasts (HFF) and three ATM− lines (GM02530, GM05823, and GM03395) were infected with both Towne and AD169. Two additional ATM− lines (GM02052 and GM03487) were infected with Towne. Remarkably, both previous studies' results were confirmed. However, the increased number of cell lines and infections with both lab-adapted strains confirmed that ATM was not necessary to produce wild-type-level titers in fibroblasts. Instead, interactions between individual virus strains and the cellular microenvironment of the individual ATM− line determined efficiency of virion production. Surprisingly, these two commonly used lab-adapted strains produced drastically different titers in one ATM− cell line, GM05823. The differences in titer suggested a rapid method for identifying genes involved in differential virion production. In silico comparison of the Towne and AD169 genomes determined a list of 28 probable candidates responsible for the difference. Using serial iterations of an experiment involving virion entry and input genome nuclear trafficking with a panel of related strains, we reduced this list to four (UL129, UL145, UL147, and UL148). As a proof of principle, reintroduction of UL148 largely rescued genome trafficking. Therefore, use of a battery of related strains offers an efficient method to narrow lists of candidate genes affecting various virus life cycle checkpoints. IMPORTANCE Human cytomegalovirus (HCMV) infection of multiple cell lines lacking ataxia telangiectasia mutated (ATM) protein produced wild-type levels of infectious virus. Interactions between virus strains and the microenvironment of individual

  17. Extended X-ray absorption fine structure investigation of Sn local environment in strained and relaxed epitaxial Ge1-xSnx films

    NASA Astrophysics Data System (ADS)

    Gencarelli, F.; Grandjean, D.; Shimura, Y.; Vincent, B.; Banerjee, D.; Vantomme, A.; Vandervorst, W.; Loo, R.; Heyns, M.; Temst, K.

    2015-03-01

    We present an extended X-ray absorption fine structure investigation of the local environment of Sn atoms in strained and relaxed Ge1-xSnx layers with different compositions. We show that the preferred configuration for the incorporation of Sn atoms in these Ge1-xSnx layers is that of a α-Sn defect, with each Sn atom covalently bonded to four Ge atoms in a classic tetrahedral configuration. Sn interstitials, Sn-split vacancy complexes, or Sn dimers, if present at all, are not expected to involve more than 2.5% of the total Sn atoms. This finding, along with a relative increase of Sn atoms in the second atomic shell around a central Sn atom in Ge1-xSnx layers with increasing Sn concentrations, suggests that the investigated materials are homogeneous random substitutional alloys. Within the accuracy of the measurements, the degree of strain relaxation of the Ge1-xSnx layers does not have a significant impact on the local atomic surrounding of the Sn atoms. Finally, the calculated topological rigidity parameter a** = 0.69 ± 0.29 indicates that the strain due to alloying in Ge1-xSnx is accommodated via bond stretching and bond bending, with a slight predominance of the latter, in agreement with ab initio calculations reported in literature.

  18. Investigation of the antibiotic resistance and biofilm formation of Staphylococcus aureus strains isolated from gangrenous mastitis of ewes.

    PubMed

    Tel, Osman Yaşar; Aslantaş, Ozkan; Keskin, Oktay; Yilmaz, Ebru Sebnem; Demir, Cemil

    2012-06-01

    In this study, Staphylococcus aureus strains (n = 110) isolated from seven ewe flocks in Sanliurfa, Turkey were screened for antibiotic resistance and biofilmforming ability as well as for genes associated with antibiotic resistance and biofilm-forming ability. All isolates were found to be susceptible to oxacillin, gentamicin, clindamycin, cefoxitin, tetracycline, vancomycin, amoxicillin-clavulanic acid, ciprofloxacin and sulphamethoxazole-trimethoprim. The percent proportions of strains resistant to penicillin G, ampicillin and erythromycin were 27.2% (n = 30), 25.4% (n = 28) and 6.3% (n = 7), respectively. Regarding the antibiotic resistance genes, 32 (29%) isolates carried the blaZ and 8 (7.2%) the ermC gene. Other resistance genes were not detected in the isolates. All isolates showed biofilm-forming ability on Congo red agar (CRA), while 108 (98.18%) and 101 (91.81%) of them were identified as biofilm producers by the use of standard tube (ST) and microplate (MP) methods, respectively. All isolates carried the icaA and icaD genes but none of them harboured the bap gene. The results demonstrated that S. aureus isolates from gangrenous mastitis were mainly resistant to penicillins (which are susceptible to the staphylococcal beta-lactamase enzyme), and less frequently to erythromycin. Furthermore, all of the S. aureus isolates produced biofilm which was considered a potential virulence factor in the pathogenesis of staphylococcal mastitis. PMID:22609990

  19. Spontaneous orientation-tuning driven by the strain variation in self-assembled ZnO-SrRuO{sub 3} heteroepitaxy

    SciTech Connect

    Zhu, Yuanmin; Liu, Ruirui; Zhan, Qian; Chang, Wei Sea; Yu, Rong; Wei, Tzu-Chiao; He, Jr-Hau; Chu, Ying-Hao

    2015-11-09

    Heteroepitaxial ZnO and SrRuO{sub 3} were grown on SrTiO{sub 3} (111) substrates and formed a self-assembled wurtzite-perovskite nanostructure. Spontaneous orientation-tuning of the SrRuO{sub 3} pillars was observed, with the growth direction changing from [111]{sub SRO} to [011]{sub SRO} as the film thickness increased, which is attributed to a misfit strain transition from the biaxial strain imposed by the SrTiO{sub 3} substrate to the vertical strain provided by the ZnO matrix. The [011]-SrRuO{sub 3} and [0001]-ZnO combination presents a favorable matching in the nanocomposite films, resulting in higher charge carrier mobility. This vertically integrated configuration and regulation on the crystallographic orientations are expected to be employed in designing multi-functional nanocomposite systems for applications in electronic devices.

  20. Molecular Investigation and Phylogeny of Anaplasma spp. in Mediterranean Ruminants Reveal the Presence of Neutrophil-Tropic Strains Closely Related to A. platys

    PubMed Central

    Zobba, Rosanna; Anfossi, Antonio G.; Pinna Parpaglia, Maria Luisa; Dore, Gian Mario; Chessa, Bernardo; Spezzigu, Antonio; Rocca, Stefano; Visco, Stefano; Pittau, Marco

    2014-01-01

    Few data are available on the prevalence and molecular typing of species belonging to the genus Anaplasma in Mediterranean ruminants. In this study, PCR analysis and sequencing of both 16S rRNA and groEL genes were combined to investigate the presence, prevalence, and molecular traits of Anaplasma spp. in ruminants sampled on the Island of Sardinia, chosen as a subtropical representative area. The results demonstrate a high prevalence of Anaplasma spp. in ruminants, with animals infected by at least four of six Anaplasma species (Anaplasma marginale, A. bovis, A. ovis, and A. phagocytophilum). Moreover, ruminants host a number of neutrophil-tropic strains genetically closely related to the canine pathogen A. platys. The high Anaplasma spp. prevalence and the identification of as-yet-unclassified neutrophil-tropic strains raise concerns about the specificity of serological tests routinely used in ruminants and provide additional background for reconstructing the evolutionary history of species genetically related to A. phagocytophilum. PMID:24162569

  1. Mouse strain-dependent variation in the course and outcome of chlamydial genital tract infection is associated with differences in host response.

    PubMed Central

    Darville, T; Andrews, C W; Laffoon, K K; Shymasani, W; Kishen, L R; Rank, R G

    1997-01-01

    Whether there is a pathogenic or protective outcome to chlamydial infection may be defined by the host response. We infected C57BL/6 (C57) and C3H/HeN (C3H) mice with the human biovar of Chlamydia trachomatis, serovar E, and, in select experiments, with the mouse pneumonitis agent of C. trachomatis (MoPn). We compared the courses of infection, histopathology, and host responses that resulted from these infections. The duration of infection with either chlamydial biovar was significantly increased in the C3H strain of mice. The intensity of infection was examined in mice infected with serovar E, and it was significantly increased in the C3H strain. Histopathology revealed the incidence of severe hydrosalpinx to be significantly greater in C3H mice than in C57 mice. In contrast, severe distention of the uterine horns was observed in all infected C57 mice compared to none of the C3H mice infected with serovar E and only 25% of those infected with MoPn. Acute inflammation was significantly increased in the uterine horns of C57 mice compared to that of C3H mice. Examination of antigen-specific responses revealed qualitatively similar responses in the two strains. Determination of gamma interferon- versus interleukin 4- producing cells revealed the predominance of a Th1 response in both strains. Serum enzyme-linked immunosorbent assays for immunoglobulin G1 (IgG1) and IgG2a revealed a predominance of IgG2a antibody in both strains, although the levels of antibody were significantly greater in C3H mice. Lymphocyte proliferation studies revealed increased proliferation in the iliac nodes of both strains at 1 to 3 weeks after infection. Because of the early eradication of infection observed in the C57 strain, we explored the relative production of tumor necrosis factor alpha (TNF-alpha) in the two strains. TNF-alpha levels were significantly increased in the genital tract secretions of C57 mice compared to that of C3H mice during the first week of infection. Increased TNF

  2. Investigation of the seasonal variations of aerosol physicochemical properties and their impact on cloud condensation nuclei number concentration

    NASA Astrophysics Data System (ADS)

    Logan, Timothy S.

    Aerosols are among the most complex yet widely studied components of the atmosphere not only due to the seasonal variability of their physical and chemical properties but also their effects on climate change. The three main aerosol types that are known to affect the physics and chemistry of the atmosphere are: mineral dust, anthropogenic pollution, and biomass burning aerosols. In order to understand how these aerosols affect the atmosphere, this dissertation addresses the following three scientific questions through a combination of surface and satellite observations: SQ1: What are the seasonal and regional variations of aerosol physico-chemical properties at four selected Asian sites? SQ2: How do these aerosol properties change during transpacific and intra-continental long range transport? SQ3: What are the impacts of aerosol properties on marine boundary layer cloud condensation nuclei number concentration? This dissertation uses an innovative approach to classify aerosol properties by region and season to address SQ1. This is useful because this method provides an additional dimension when investigating the physico-chemical properties of aerosols by linking a regional and seasonal dependence to both the aerosol direct and indirect effects. This method involves isolating the aerosol physico-chemical properties into four separate regions using AERONET retrieved Angstrom exponent (AEAOD) and single scattering co-albedo (o oabs) to denote aerosol size and absorptive properties. The aerosols events are then clustered by season. The method is first applied to four AERONET sites representing single mode aerosol dominant regions: weakly absorbing pollution (NASA Goddard), strongly absorbing pollution (Mexico City), mineral dust (Solar Village), and biomass burning smoke (Alta Floresta). The method is then applied to four Asian sites that represent complicated aerosol components. There are strong regional and seasonal influences of the four aerosol types over the

  3. Investigation of the direct band gaps in Ge1-xSnx alloys with strain control by photoreflectance spectroscopy

    NASA Astrophysics Data System (ADS)

    Lin, Hai; Chen, Robert; Lu, Weisheng; Huo, Yijie; Kamins, Theodore I.; Harris, James S.

    2012-03-01

    Unstrained and compressive-strained Ge1-xSnx alloys were grown on InGaAs buffer layers by molecular beam epitaxy. Photoreflectance at room temperature determines the direct bandgap energies of Ge1-xSnx alloys from the maxima of the light- and heavy-hole bands to the bottom of Γ valley. The lowest transition energies from photoreflectance are consistent with the energies derived from photoluminescence. The calculated bowing parameter is 2.42 ± 0.04 eV for the direct band gap of Ge1-xSnx alloys. The dilational and shear deformation potentials of the direct band gap are -11.04 ± 1.41 eV and -4.07 ± 0.91 eV, respectively. These basic material parameters are important in designing optoelectronic devices based on Ge1-xSnx alloys.

  4. Investigating late Holocene variations in hydroclimate and the stable isotope composition of precipitation using southern South American peatlands: an hypothesis

    NASA Astrophysics Data System (ADS)

    Daley, T. J.; Mauquoy, D.; Chambers, F. M.; Street-Perrott, F. A.; Hughes, P. D. M.; Loader, N. J.; Roland, T. P.; van Bellen, S.; Garcia-Meneses, P.; Lewin, S.

    2012-09-01

    Ombrotrophic raised peatlands provide an ideal archive for integrating late Holocene records of variations in hydroclimate and the estimated stable isotope composition of precipitation with recent instrumental measurements. Modern measurements of mean monthly surface air temperature, precipitation, and δD and δ18O-values in precipitation from the late twentieth and early twenty-first centuries provide a short but invaluable record with which to investigate modern relationships between these variables, thereby enabling improved interpretation of the peatland palaeodata. Stable isotope data from two stations in the Global Network for Isotopes in Precipitation (GNIP) from southern South America (Punta Arenas, Chile and Ushuaia, Argentina) were analysed for the period 1982 to 2008 and compared with longer-term meteorological data from the same locations (1890 to present and 1931 to present, respectively). δD and δ18O-values in precipitation have exhibited quite different trends in response to local surface air temperature and precipitation amount. At Punta Arenas, there has been a marked increase in the seasonal difference between summer and winter δ18O-values. A decline in the deuterium excess of summer precipitation at this station was associated with a general increase in relative humidity at 1000 mb over the surface of the Southeast Pacific Ocean, believed to be the major vapour source for the local precipitation. At Ushuaia, a fall in δ18O-values was associated with an increase in the mean annual amount of precipitation. Both records are consistent with a southward retraction and increase in zonal wind speed of the austral westerly wind belt. These regional differences, observed in response to a known driver, should be detectable in peatland sites close to the GNIP stations. Currently, insufficient data with suitable temporal resolution are available to test for these regional differences over the last 3000 yr. Existing peatland palaeoclimate data from two

  5. Using stable isotopes of carbon to investigate the seasonal variation of carbon transfer in a northwestern Arkansas cave

    USGS Publications Warehouse

    Knierim, Katherine Joy; Pollock, Erik; Hays, Phillip D.; Khojasteh, Jam

    2015-01-01

    -to-month variations in temperature and precipitation and provided insight into the sources of carbon in the cave. Stable carbon isotope ratios provided an effective tool to explore carbon transfer from the soil zone and into the cave, identify carbon sources in the cave, and investigate how seasonality affected the transfer of carbon in a shallow karst system.

  6. Investigating the Impact of Temperature Changes, Material Aging, and Service Load on the Strain of a Reinforced Concrete Construction

    NASA Astrophysics Data System (ADS)

    Kanciruk, Adam

    2014-12-01

    Intensive exploitation of coal beds in the Upper Silesia Coal Basin led to the degradation of the Katowice-Muchowiec civilian/military airport. As a result, it became necessary to adapt the Pyrzowice military airport for use as a public transport facility. This involved reconstruction of a hangar located at the airport. As part of this process, a new hangar slab was constructed, designed in such a way as to bear the load of passenger aircraft. In the area of the greatest wheel load to the slab, three strain rosettes were installed for the purpose of monitoring the slab strain. The mointoring process - which has been automatically conducted for almost three years now - revealed deformations resulting from service load, the aging of reinforced concrete, and changes of its temperature. Intensywna eksploatacja górnośląskich złóż węgla doprowadziła do degradacji cywilno-wojskowego lotniska Katowice-Muchowiec. W związku z tym, wynikła konieczność przystosowania do celów komunikacyjnych lotniska wojskowego w Pyrzowicach, w tym przebudowy znajdującego się na jego terenie hangaru. W ramach przebudowy wykonano nową posadzkę, zdolną przenosić ciężar samolotów pasażerskich. W posadzce tej, w rejonie występowania największych nacisków zainstalowano 3 rozety tensometryczne w celu monitorowania jej odkształceń. Monitorowanie to, prowadzone w sposób automatyczny już niemal 3 lata, wykazało występowanie odkształceń będących skutkiem obciążeń eksploatacyjnych, starzenia się żelbetu oraz zmian jego temperatury.

  7. Fitness of outbreak and environmental strains of Escherichia coli O157:H7 in aerosolizable soil and association of clonal variation in stress gene regulation

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Airborne dust from feedlots is a potential mechanism of contamination of nearby vegetable crops with Escherichia coli O157:H7 (EcO157). We compared the fitness of clinical and environmental strains of EcO157 in <45 µm soil from a spinach farm. Differences in survival were observed among the 35 strai...

  8. Strain and Texture in Al-Interconnect Wires Measured by X-Ray Microbeam Diffraction

    SciTech Connect

    Budai, J.D.; Chung, J.-S.; Ice, G.E.; Larson, B.C.; Lowe, W.P.; Tamura, N.; Tischler, J.Z.; Williams, E.L.; Yoon, M.

    1999-04-05

    The local strain and texture in Al interconnect wires have been investigated using white and monochromatic x-ray microbeams on the MHATTCAT undulator beam line at the Advanced Photon Source. Intergrain and intragrain orientations were obtained with ~0.01 degree sensitivity using white beam measurements on wide Al pads (~100 Mu-m) and thin (2 Mu-m) Al wires. Orientation changes of up to 1 degree were found within individual grains of the (111) textured Al interconnects. Deviatoric strain measurements indicate small intragranular strain variations, but intergranular strain variations were found to be quite large.

  9. Extreme multi-millennial slip rate variations on the Garlock fault, California: Strain super-cycles, potentially time-variable fault strength, and implications for system-level earthquake occurrence

    NASA Astrophysics Data System (ADS)

    Dolan, James F.; McAuliffe, Lee J.; Rhodes, Edward J.; McGill, Sally F.; Zinke, Robert

    2016-07-01

    Pronounced variations in fault slip rate revealed by new measurements along the Garlock fault have basic implications for understanding how faults store and release strain energy in large earthquakes. Specifically, dating of a series of 26.0+3.5/-2.5 m fault offsets with a newly developed infrared-stimulated luminescence method shows that the fault was slipping at >14.0+2.2/-1.8 mm /yr, approximately twice as fast as the long-term average rate, during a previously documented cluster of four earthquakes 0.5-2.0 ka. This elevated late Holocene rate must be balanced by periods of slow or no slip such as that during the ca. 3300-yr-long seismic lull preceding the cluster. Moreover, whereas a comparison of paleoseismic data and stress modeling results suggests that individual Garlock earthquakes may be triggered by periods of rapid San Andreas fault slip or very large-slip events, the "on-off" behavior of the Garlock suggests a longer-term mechanism that may involve changes in the rate of elastic strain accumulation on the fault over millennial time scales. This inference is consistent with most models of the geodetic velocity field, which yield slip-deficit rates that are much slower than the average latest Pleistocene-early Holocene (post-8-13 ka) Garlock slip rate of 6.5 ± 1.5 mm /yr. These observations indicate the occurrence of millennia-long strain "super-cycles" on the Garlock fault that may be associated with temporal changes in elastic strain accumulation rate, which may in turn be controlled by variations in relative strength of the various faults in the Garlock-San Andreas-Eastern California Shear Zone fault system and/or changes in relative plate motion rates.

  10. Experimental and analytical investigation on the variation of spray characteristics along radial distance downstream of a pressure swirl atomizer

    NASA Astrophysics Data System (ADS)

    Zhao, Y. H.; Li, W. M.; Chin, J. S.

    1986-06-01

    The variation of spray characteristics (Sauter Mean Diameter and Rosin-Rammler drop-size distribution parameter) downstream of a pressure swirl atomizer along radial distance has been measured by laser light scattering technology. An analytical model has been developed that is capable of predicting the variation of spray characteristics along radial distance. A comparison between the prediction and experimental data shows excellent agreement. It shows that the spray model proposed, although relatively simple, is correct and can be used with some expansion and modification to predict more complicated spray systems.

  11. Genetic Variation in the Free-Living Amoeba Naegleria fowleri

    PubMed Central

    Pélandakis, Michel; De Jonckheere, Johan F.; Pernin, Pierre

    1998-01-01

    In this study, 30 strains of the pathogenic free-living amoeba Naegleria fowleri were investigated by using the randomly amplified polymorphic DNA (RAPD) method. The present study confirmed our previous finding that RAPD variation is not correlated with geographical origin. In particular, Mexican strains belong to the variant previously detected in Asia, Europe, and the United States. In France, surprisingly, strains from Cattenom gave RAPD patterns identical to those of the Japanese strains. In addition, all of these strains, together with an additional French strain from Chooz, exhibited similarities to South Pacific strains. The results also confirmed the presence of numerous variants in Europe, whereas only two variants were detected in the United States. The two variants found in the United States were different from the South Pacific variants. These findings do not support the previous hypothesis concerning the origin and modes of dispersal of N. fowleri. PMID:9687460

  12. [Investigation of pathogenic phenotypes and virulence determinants of food-borne Salmonella enterica strains in Caenorhabditis elegans animal model].

    PubMed

    Aksoy, Deniz; Şen, Ece

    2015-10-01

    Salmonellosis, caused by non-typhoidal Salmonella enterica serovars with the consumption of contaminated food, is one of the leading food-borne disease that makes microbial food safety an important public health issue. This study was performed in order to determine the antibiotic resistance, serotyping, plasmid profiles and pathogenicity potentials of food-borne Salmonella isolates in Caenorhabditis elegans animal model system in Edirne province, located at Thrace region of Turkey. In this study, 32 Salmonella isolates, of which 26 belonged to Infantis, four to Enteritidis, one to Telaviv and one to Kentucky serovars, isolated from chicken carcasses were used. Antibiotic resistance profiles were determined by disc diffusion and broth microdilution methods. A new C.elegans nematode animal model system was used to determine the pathogenicity potential of the isolates. The antibiotic resistance profiles revealed that one (3.1%) isolate was resistant to gentamicin, two (6.2%) to ciprofloxacin, three (9.4%) to ampicillin, 18 (56.3%) to kanamycin, 19 (60.8%) to neomycin, 25 (78.1%) to tetracycline, 25 (78.1%) to trimethoprim, 26 (81.25%) to nalidixic acid, 27 (84.4%) to streptomycin and 32 (100%) to sulfonamide. All of the 32 strains were susceptible to chloramphenicol and ampicillin/sulbactam. High levels of resistance to streptomycin, nalidixic acid, tetracycline, trimethoprim, sulfonamide, kanamycin and neomycin was determined. According to the plasmid analysis, six isolates (18.75%) harboured 1-3 plasmids with sizes between 1.2 and 42.4 kb. In C.elegans nematode animal model system, the time (in days) required to kill 50% (TD50) of nematodes was calculated for each experimental group. TD50 values of the nematode group fed with S.Typhimurium ATCC 14028 that was used as the positive control and another group fed with E.coli OP50 as the negative control were 4.2 ± 0.5 days and 8.0 ± 0.02 days, respectively. TD50 of the groups fed with Salmonella isolates ranged

  13. INVESTIGATION OF SYSTEMATIC EFFECTS IN KEPLER DATA: SEASONAL VARIATIONS IN THE LIGHT CURVE OF HAT-P-7b

    SciTech Connect

    Van Eylen, V.; Lindholm Nielsen, M.; Hinrup, B.; Tingley, B.; Kjeldsen, H.

    2013-09-10

    With years of Kepler data currently available, the measurement of variations in planetary transit depths over time can now be attempted. To do so, it is of primary importance to understand which systematic effects may affect the measurement of transits. We aim to measure the stability of Kepler measurements over years of observations. We present a study of the depth of about 500 transit events of the Hot Jupiter HAT-P-7b, using 14 quarters (Q0-Q13) of data from the Kepler satellite. We find a systematic variation in the depth of the primary transit, related to quarters of data and recurring yearly. These seasonal variations are about 1%. Within seasons, we find no evidence for trends. We speculate that the cause of the seasonal variations could be unknown field crowding or instrumental artifacts. Our results show that care must be taken when combining transits throughout different quarters of Kepler data. Measuring the relative planetary radius of HAT-P-7b without taking these systematic effects into account leads to unrealistically low error estimates. This effect could be present in all Kepler targets. If so, relative radius measurements of all Hot Jupiters to a precision much better than 1% are unrealistic.

  14. Investigating Variation in Teaching with Technology-Rich Intervention: What Matters in Teaching and Teacher Training at Scale?

    ERIC Educational Resources Information Center

    Dunn, Margaret Breslin

    2009-01-01

    A main question this dissertation addresses is: what variation in teaching and teacher training matter? This question is examined within a specific but important context: the scale-up of a technology-rich intervention focused on the algebra strand of 8th grade mathematics. I conducted a multi-level case study by gathering and analyzing data at…

  15. Use of Taylor Rod-on-Anvil Impact Experiments to Investigate High Strain Rate Behaviour in Polyolefins

    NASA Astrophysics Data System (ADS)

    Bucknall, David; Luce, Amanda; Kannan, Abhiram; Breidenich, Jennifer; Thadhani, Naresh

    2015-06-01

    The high strain rate deformation and mechano-lumination of various polyethylenes and polypropylene is studied using Taylor rod-on-anvil impact testing. Polypropylene and low density (LDPE), high density (HDPE), and ultra high molecular weight (UHMWPE) polyethylene samples were impacted against a hardened steel anvil at velocities ranging from 50-500 m/s. High-speed imaging, time-resolved spectroscopy, and thermal imaging are employed to track the macroscopic shape change and observe mechano-lumination and heating during impact. Additionally, electron spin resonance (ESR) and gel permeation chromatography (GPC) measurements were performed on recovered impacted samples to explain the observed deformation behavior in the various polyolefins. Time-resolved spectroscopy, coupled with ESR and GPC measurements indicate that chain scission occurs during the first few microseconds of the impact event. The observed macroscopic deformation that occurs after the observed mechano-illumination event is therefore influenced by the loss of mechanical strength associated with a drop in the molecular weight of the polymer.

  16. Investigating Long-Range Dependence in American Treasury Bills Variations and Volatilities during Stable and Unstable Periods

    NASA Astrophysics Data System (ADS)

    Lahmiri, Salim

    2016-05-01

    Detrended fluctuation analysis (DFA) is used to examine long-range dependence in variations and volatilities of American treasury bills (TB) during periods of low and high movements in TB rates. Volatility series are estimated by generalized autoregressive conditional heteroskedasticity (GARCH) model under Gaussian, Student, and the generalized error distribution (GED) assumptions. The DFA-based Hurst exponents from 3-month, 6-month, and 1-year TB data indicates that in general the dynamics of the TB variations process is characterized by persistence during stable time period (before 2008 international financial crisis) and anti-persistence during unstable time period (post-2008 international financial crisis). For volatility series, it is found that; for stable period; 3-month volatility process is more likely random, 6-month volatility process is anti-persistent, and 1-year volatility process is persistent. For unstable period, estimation results show that the generating process is persistent for all maturities and for all distributional assumptions.

  17. An initial investigation of associations between dopamine-linked genetic variation and smoking motives in African Americans.

    PubMed

    Bidwell, L C; McGeary, J E; Gray, J C; Palmer, R H C; Knopik, V S; MacKillop, J

    2015-11-01

    Nicotine dependence (ND) is a heterogeneous phenotype with complex genetic influences that may vary across ethnicities. The use of intermediate phenotypes may clarify genetic influences and reveal specific etiological pathways. Prior work in European Americans has found that the four Primary Dependence Motives (PDM) subscales (Automaticity, Craving, Loss of Control, and Tolerance) of the Wisconsin Inventory of Smoking Motives represent core features of nicotine dependence and are promising intermediate phenotypes for understanding genetic pathways to ND. However, no studies have examined PDM as an intermediate phenotype in African American smokers, an ethnic population that displays unique patterns of smoking and genetic variation. In the current study, 268 African American daily smokers completed a phenotypic assessment and provided a sample of DNA. Associations among haplotypes in the NCAM1-TTC12-ANKK1-DRD2 gene cluster, a dopamine-related gene region associated with ND, PDM intermediate phenotypes, and ND were examined. Dopamine-related genetic variation in the DBH and COMT genes was also considered on an exploratory basis. Mediational analysis was used to test the indirect pathway from genetic variation to smoking motives to nicotine dependence. NCAM1-TTC12-ANKK1-DRD2 region variation was significantly associated with the Automaticity subscale and, further, Automaticity significantly mediated associations among NCAM1-TTC12-ANKK1-DRD2 cluster variants and ND. DBH was also significantly associated with Automaticity, Craving, and Tolerance; Automaticity and Tolerance also served as mediators of the DBH-ND relationship. These results suggest that PDM, Automaticity in particular, may be a viable intermediate phenotype for understanding dopamine-related genetic influences on ND in African American smokers. Findings support a model in which putatively dopaminergic variants exert influence on ND through an effect on patterns of automatic routinized smoking. PMID

  18. Microarray karyotyping of commercial wine yeast strains reveals shared, as well as unique, genomic signatures

    PubMed Central

    Dunn, Barbara; Levine, R Paul; Sherlock, Gavin

    2005-01-01

    Background Genetic differences between yeast strains used in wine-making may account for some of the variation seen in their fermentation properties and may also produce differing sensory characteristics in the final wine product itself. To investigate this, we have determined genomic differences among several Saccharomyces cerevisiae wine strains by using a "microarray karyotyping" (also known as "array-CGH" or "aCGH") technique. Results We have studied four commonly used commercial wine yeast strains, assaying three independent isolates from each strain. All four wine strains showed common differences with respect to the laboratory S. cerevisiae strain S288C, some of which may be specific to commercial wine yeasts. We observed very little intra-strain variation; i.e., the genomic karyotypes of different commercial isolates of the same strain looked very similar, although an exception to this was seen among the Montrachet isolates. A moderate amount of inter-strain genomic variation between the four wine strains was observed, mostly in the form of depletions or amplifications of single genes; these differences allowed unique identification of each strain. Many of the inter-strain differences appear to be in transporter genes, especially hexose transporters (HXT genes), metal ion sensors/transporters (CUP1, ZRT1, ENA genes), members of the major facilitator superfamily, and in genes involved in drug response (PDR3, SNQ1, QDR1, RDS1, AYT1, YAR068W). We therefore used halo assays to investigate the response of these strains to three different fungicidal drugs (cycloheximide, clotrimazole, sulfomethuron methyl). Strains with fewer copies of the CUP1 loci showed hypersensitivity to sulfomethuron methyl. Conclusion Microarray karyotyping is a useful tool for analyzing the genome structures of wine yeasts. Despite only small to moderate variations in gene copy numbers between different wine yeast strains and within different isolates of a given strain, there was enough

  19. Investigation of Photoluminescence and Photocurrent in InGaAsP/InP Strained Multiple Quantum Well Heterostructures

    NASA Technical Reports Server (NTRS)

    Raisky, O. Y.; Wang, W. B.; Alfano, R. R.; Reynolds, C. L., Jr.; Swaminathan, V.

    1997-01-01

    Multiple quantum well InGaAsP/InP p-i-n laser heterostructures with different barrier thicknesses have been investigated using photoluminescence (PL) and photocurrent (PC) measurements. The observed PL spectrum and peak positions are in good agreement with those obtained from transfer matrix calculations. Comparing the measured quantum well PC with calculated carrier escape rates, the photocurrent changes are found to be governed by the temperature dependence of the electron escape time.

  20. Chitosan-Polypyrrole Fiber for Strain Sensor.

    PubMed

    Lee, Songjun; Yi, Byung-Ju; Chun, Kyoung-Yong; Lee, Jaeah; Kim, Youn Tae; Cha, Eun-Jong; Kim, Seon Jeong

    2015-03-01

    A chitosan/polypyrrole composited fiber as bio-compatible materials for artificial muscles is investigated. The chitosan/polypyrrole fiber (CPF) is fabricated by in-situ chemical polymerization of pyrrole monomer solution using FeCl3 as an oxidant. The electrical resistivity of the fiber is changed according to the strain variation applied to the both ends of the specimen. The sensor built by using the CPF has a higher gauge factor (4) compared to conventional metal strain gauges (~2) indicating a suitable material for delicate force control in sensing work. PMID:26413701

  1. Investigating Tree Phenology as an Indicator of Autumn Seasonal Carbon Flux Variation within a Northern Mixed Forest

    NASA Astrophysics Data System (ADS)

    Schwartz, M. D.

    2012-12-01

    The timing of leaf senescence (coloring and subsequent fall; i.e., phenology) during autumn has large impacts on energy and carbon exchange between mid-latitude land surfaces and the lower atmosphere. However, spatial variations in autumn phenological timing at the plant community level have not been widely measured or analyzed, and underlying environmental drivers are not well understood. Thus, detailed autumn phenological data offer considerable opportunities for assessing landscape-level spatial variations crucial for accurate scaling-up measurements to larger areas or downscaling information from atmospheric general circulation models. This paper reports on-going results from a project measuring and analyzing spatial variability of autumn native tree phenological data at the community level in a northern mixed forest, and comparing them to microclimatic, carbon flux, and both near-surface and satellite-derived remote sensing measurements. Spatial variability of autumn phenological data is assessed from five-week field campaigns during 2010 and 2012 in the vicinity of the WLEF Ameriflux tall tower, near Park Falls, WI, USA (45.9459°N, 90.2723°W). The three largest dominant species trees were identified and tagged at each of 288 plots within two 600 x 600 m areas, for a total of 634 deciduous trees. The autumn results-to-date suggest that: 1) phenology progresses quite differently for different tree species in the study area with only some accelerated by cold temperature events; 2) autumn phenology modulates in step with changes in the autumn "turn-down" of carbon accumulation, with as much as 30 days of interannual variation; and 3) the rate of changes in autumn phenology appear to be considerably variable among years.

  2. An investigation of spatial variation of suspended sediment concentration induced by a bay bridge based on Landsat TM and OLI data

    NASA Astrophysics Data System (ADS)

    Cai, LiNa; Tang, DanLing; Li, CongYing

    2015-07-01

    This study investigates the spatial variation of suspended sediment concentration (SSC) induced by Hangzhou Bay Bridge (HBB) in the coastal waters of the East China Sea. Based on Landsat Thematic Mapper (TM), Operational Land Imager (OLI) data and in-situ measurements, spectral characteristics of waters in Hangzhou Bay and SSC retrieved from near infrared single band have been analyzed. The results revealed significant difference of SSC in the water on two sides of HBB. SSC increases downstream of the bridge under conditions of low turbidity (SSC < 300 mg l-1) upstream water, while SSC decreases when high turbidity water (SSC > 400 mg l-1) upstream. This study shows that the interaction of bridge piers and currents has important influences on SSC distribution by inducing hydrodynamic factors and by changing suspended sediment transport. Remotely sensed data with high spatial resolution as TM and OLI can be applied to investigate SSC variations induced by a bridge in the bay area.

  3. A preliminary investigation of a method to calibrate strain gauge balances by means of a reference balance

    NASA Astrophysics Data System (ADS)

    Han, Buzhang; Wang, Mingying; Johnson, G. I.; Widmark, S.

    1992-06-01

    This investigation was started in order to obtain preliminary experience on the concept of a reference balance planned to be used in the T1500 calibration rig. The reference balance was simulated by using an available half model balance in the MK5 calibration rig at FFA. First the reference balance was calibrated and then the result was used for calibration of an ordinary six component sting balance attached with its model end to the half model balance. Both balances had been previously calibrated by the reposition method. Evaluation of the reference balance nonrepositioning concept was obtained by comparison of results.

  4. Biochemical and Genetic Investigation of Initial Reactions in Aerobic Degradation of the Bile Acid Cholate in Pseudomonas sp. Strain Chol1▿

    PubMed Central

    Birkenmaier, Antoinette; Holert, Johannes; Erdbrink, Henrike; Moeller, Heiko M.; Friemel, Anke; Schoenenberger, René; Suter, Marc J.-F.; Klebensberger, Janosch; Philipp, Bodo

    2007-01-01

    Bile acids are surface-active steroid compounds with toxic effects for bacteria. Recently, the isolation and characterization of a bacterium, Pseudomonas sp. strain Chol1, growing with bile acids as the carbon and energy source was reported. In this study, initial reactions of the aerobic degradation pathway for the bile acid cholate were investigated on the biochemical and genetic level in strain Chol1. These reactions comprised A-ring oxidation, activation with coenzyme A (CoA), and β-oxidation of the acyl side chain with the C19-steroid dihydroxyandrostadienedione as the end product. A-ring oxidizing enzyme activities leading to Δ1,4-3-ketocholyl-CoA were detected in cell extracts and confirmed by liquid chromatography-tandem mass spectrometry (LC-MS/MS). Cholate activation with CoA was demonstrated in cell extracts and confirmed with a chemically synthesized standard by LC-MS/MS. A transposon mutant with a block in oxidation of the acyl side chain accumulated a steroid compound in culture supernatants which was identified as 7α,12α-dihydroxy-3-oxopregna-1,4-diene-20-carboxylate (DHOPDC) by nuclear magnetic resonance spectroscopy. The interrupted gene was identified as encoding a putative acyl-CoA-dehydrogenase (ACAD). DHOPDC activation with CoA in cell extracts of strain Chol1 was detected by LC-MS/MS. The growth defect of the transposon mutant could be complemented by the wild-type ACAD gene located on the plasmid pBBR1MCS-5. Based on these results, the initiating reactions of the cholate degradation pathway leading from cholate to dihydroxyandrostadienedione could be reconstructed. In addition, the first bacterial gene encoding an enzyme for a specific reaction step in side chain degradation of steroid compounds was identified, and it showed a high degree of similarity to genes in other steroid-degrading bacteria. PMID:17693490

  5. Investigation of Substrate Effects on Interface Strain and Defect Generation in MBE-Grown HgCdTe

    NASA Astrophysics Data System (ADS)

    Gu, R.; Lei, W.; Antoszewski, J.; Faraone, L.

    2016-09-01

    Si, Ge, and GaAs have been extensively investigated as alternative substrates for molecular-beam epitaxy (MBE) growth of HgCdTe and, at present, are widely used for HgCdTe-based infrared focal-plane arrays. However, the problem of high dislocation density in HgCdTe layers grown on these lattice-mismatched substrates has yet to be resolved. In this work, we investigated another alternative substrate, GaSb, which has a significantly smaller lattice mismatch with HgCdTe in comparison with Si, Ge, and GaAs, and is readily available as large-area, epiready wafers at much lower cost in comparison with lattice-matched CdZnTe substrates. The resultant stress due to lattice and thermal mismatch between the HgCdTe epilayer and various substrates has been calculated in this work using the elasticity matrix, and the corresponding stress distribution simulated using ANSYS. The simulated structures were matched by experimental samples involving MBE growth of HgCdTe on GaAs, GaSb, and CdZnTe substrates, and were characterized via reflection high-energy electron diffraction and x-ray diffraction analysis, followed by etch pit density (EPD) analysis. In comparison with other alternative substrates, GaSb is shown to have lower interface stress and lower EPD, rendering it an interesting and promising alternative substrate material for HgCdTe epitaxy.

  6. Investigation of Substrate Effects on Interface Strain and Defect Generation in MBE-Grown HgCdTe

    NASA Astrophysics Data System (ADS)

    Gu, R.; Lei, W.; Antoszewski, J.; Faraone, L.

    2016-05-01

    Si, Ge, and GaAs have been extensively investigated as alternative substrates for molecular-beam epitaxy (MBE) growth of HgCdTe and, at present, are widely used for HgCdTe-based infrared focal-plane arrays. However, the problem of high dislocation density in HgCdTe layers grown on these lattice-mismatched substrates has yet to be resolved. In this work, we investigated another alternative substrate, GaSb, which has a significantly smaller lattice mismatch with HgCdTe in comparison with Si, Ge, and GaAs, and is readily available as large-area, epiready wafers at much lower cost in comparison with lattice-matched CdZnTe substrates. The resultant stress due to lattice and thermal mismatch between the HgCdTe epilayer and various substrates has been calculated in this work using the elasticity matrix, and the corresponding stress distribution simulated using ANSYS. The simulated structures were matched by experimental samples involving MBE growth of HgCdTe on GaAs, GaSb, and CdZnTe substrates, and were characterized via reflection high-energy electron diffraction and x-ray diffraction analysis, followed by etch pit density (EPD) analysis. In comparison with other alternative substrates, GaSb is shown to have lower interface stress and lower EPD, rendering it an interesting and promising alternative substrate material for HgCdTe epitaxy.

  7. Variation in aseismic slip and fault normal strain along the creeping section of the San Andreas fault from GPS, InSAR and trilateration data

    NASA Astrophysics Data System (ADS)

    Rolandone, F.; Johanson, I.; Bürgmann, R.; Agnew, D.

    2004-12-01

    In central California most of the relative motion between the Pacific and North American plates is accommodated by strike slip along the San Andreas fault system. However, a small amount of convergence is accommodated by compressional structures in the California Coast Ranges on both sides of the fault. Recent examples of such activity are the Coalinga and the 2003 San Simeon earthquakes. Along the central San Andreas fault (CSAF), from San Juan Bautista to Parkfield, almost all the slip along the CSAF in the brittle upper crust is accommodated aseismically. We use GPS, InSAR and trilateration data to resolve both the distribution of aseismic slip along the CSAF, and the deformation across adjacent, secondary fault structures. In 2003 and 2004, we conducted several GPS surveys along the CSAF. We resurveyed 15 stations of the San Benito triangulation and trilateration network, which extends 40 km to the northeast of the creeping segment. We combine these measurements with old EDM measurements and data from a GPS campaign in 1998. We also occupied 13 sites along the creeping segment, for which previous data exist in the SCEC archive. These dense GPS measurements, along with data from permanent GPS stations in the area, allow us to constrain the regional strain distribution and contributions from adjacent faults. With the addition of InSAR data, we can also better resolve active strain accumulation and aseismic slip along the CSAF. We use a stack of about 10 interferograms from ERS-1 and ERS-2 satellites spanning 8 years. InSAR is well suited to monitoring details of the shallow slip along the CSAF and, in concert with the broadly spaced GPS velocities, to resolving the distribution of deformation along and across the plate boundary. The results are the basis for determining the kinematics of spatially variable fault slip on the CSAF, and help to better constrain the fault's constitutive properties, and fault interaction processes.

  8. Comparison of Saccharomyces cerevisiae strains of clinical and nonclinical origin by molecular typing and determination of putative virulence traits

    PubMed Central

    Klingberg, Trine Danø; Lesnik, Urska; Arneborg, Nils; Raspor, Peter; Jespersen, Lene

    2008-01-01

    Saccharomyces cerevisiae strains of clinical and nonclinical origin were compared by pulse field gel electrophoresis. Complete separation between strains of clinical origin and food strains by their chromosome length polymorphism was not obtained even though there was a tendency for the clinical and food strains to cluster separately. All the investigated strains, except for one food strain, were able to grow at temperatures ≥37 °C but not at 42 °C. Great strain variations were observed in pseudohyphal growth and invasiveness, but the characters were not linked to strains of clinical origin. The adhesion capacities of the yeast strains to a human intestinal epithelial cell line (Caco-2) in response to different nutritional availabilities were determined, as were the effects of the strains on the transepithelial electrical resistance (TER) across polarized monolayers of Caco-2 cells. The yeast strains displayed very low adhesion capacities to Caco-2 cells (0.6–6.2%), and no significant difference was observed between the strains of clinical and nonclinical origin. Both S. cerevisiae strains of clinical and non-clinical origin increased the TER of polarized monolayers of Caco-2 cells. Based on the results obtained in this study, no specific virulence factor was found that clearly separated the strains of clinical origin from the strains of nonclinical origin. On the contrary, all investigated strains of S. cerevisiae were found to strengthen the epithelial barrier function. PMID:18355272

  9. Pharmacological Investigations of N-Substituent Variation in Morphine and Oxymorphone: Opioid Receptor Binding, Signaling and Antinociceptive Activity

    PubMed Central

    Ben Haddou, Tanila; Béni, Szabolcs; Hosztafi, Sándor; Malfacini, Davide; Calo, Girolamo; Schmidhammer, Helmut; Spetea, Mariana

    2014-01-01

    Morphine and structurally related derivatives are highly effective analgesics, and the mainstay in the medical management of moderate to severe pain. Pharmacological actions of opioid analgesics are primarily mediated through agonism at the µ opioid peptide (MOP) receptor, a G protein-coupled receptor. Position 17 in morphine has been one of the most manipulated sites on the scaffold and intensive research has focused on replacements of the 17-methyl group with other substituents. Structural variations at the N-17 of the morphinan skeleton led to a diversity of molecules appraised as valuable and potential therapeutics and important research probes. Discovery of therapeutically useful morphine-like drugs has also targeted the C-6 hydroxyl group, with oxymorphone as one of the clinically relevant opioid analgesics, where a carbonyl instead of a hydroxyl group is present at position 6. Herein, we describe the effect of N-substituent variation in morphine and oxymorphone on in vitro and in vivo biological properties and the emerging structure-activity relationships. We show that the presence of a N-phenethyl group in position 17 is highly favorable in terms of improved affinity and selectivity at the MOP receptor, potent agonism and antinociceptive efficacy. The N-phenethyl derivatives of morphine and oxymorphone were very potent in stimulating G protein coupling and intracellular calcium release through the MOP receptor. In vivo, they were highly effective against acute thermal nociception in mice with marked increased antinociceptive potency compared to the lead molecules. It was also demonstrated that a carbonyl group at position 6 is preferable to a hydroxyl function in these N-phenethyl derivatives, enhancing MOP receptor affinity and agonist potency in vitro and in vivo. These results expand the understanding of the impact of different moieties at the morphinan nitrogen on ligand-receptor interaction, molecular mode of action and signaling, and may be

  10. Investigation of the morphology and Wait's parameter variations of the low-latitude D region ionosphere using the multiple harmonics of tweeks

    NASA Astrophysics Data System (ADS)

    Tan, Le Minh

    2016-06-01

    Recording the tweeks with a maximum up to eight harmonics using the receiver installed at Tay Nguyen University (12.65° N, 108.02° E) during 2013-2014, we investigated the morphology of the nighttime D-region ionosphere. Tweeks were recorded on 5 quiet nights per month. The results show that the mean reflection height in 2014 (Rz = 79.3) is lower by 3.3 km than that in 2013 (Rz = 64.9). The reflection height at low latitudes is higher than that at high latitudes. The mean reference height h‧ in 2013 is higher about 0.9 km than that in 2014 and the mean sharpness factor β in 2013 is higher by 0.07 km-1 than that in 2014. The short-term variation of reflection heights for tweeks with harmonics m = 1-3 and sunspot number have the negative correlation coefficients. However, the correlations between them are not clear. On some nights, from 19:00-21:00 LT, the reflection height temporal variability shows a moderate to strong negative correlation with the tweek occurrence. This suggests that the reflection height variation may be caused by QE fields generated by lightning discharges. The variations of tweek reflection heights observed during 2013-2014, at low latitudes could be significantly caused by the ionization effect by Lyman- α and Lyman- β coming from geocorona, variation of neutral density, particle precipitations, and by direct energy coupling between lightning and lower ionosphere.

  11. Investigation of carbon storage regulation network (csr genes) and phenotypic differences between acid sensitive and resistant Escherichia coli O157:H7 strains

    Technology Transfer Automated Retrieval System (TEKTRAN)

    Background: Escherichia coli O157:H7 and related serotype strains have previously been shown to vary in acid resistance, however, little is known about strain specific mechanisms of acid resistance. We examined sensitive and resistant E. coli strains to determine the effects of growth in minimal and...

  12. Root cause investigation of catastrophic degradation in high power multi-mode InGaAs-AlGaAs strained quantum well lasers

    NASA Astrophysics Data System (ADS)

    Sin, Yongkun; Ives, Neil; Presser, Nathan; Moss, Steven C.

    2010-02-01

    Optimization of broad-area InGaAs-AlGaAs strained-quantum-well lasers has led to successful demonstration of high power and high efficient operation for industrial applications. State-of-the-art broad-area single emitters show an optical output power of over 20W and a power conversion efficiency of over 70% under CW operation. However, understanding of long-term reliability and degradation processes of these devices is still poor. This paper investigates the root causes of catastrophic degradation in broad-area lasers by performing accelerated lifetests of these devices and failure mode analyses of degraded devices using various techniques. We investigated MOCVDgrown broad-area strained InGaAs-AlGaAs single QW lasers at ~975nm. Our study included both passivated and unpassivated broad-area lasers that yielded catastrophic failures at the facet and also in the bulk. Our accelerated lifetests generated failures at different stages of degradation by forcing them to reach a preset drop in optical output power. Deep-level-transient-spectroscopy (DLTS) was employed to study deep traps in degraded devices. Trap densities and capture cross-sections were estimated from a series of degraded devices to understand the role that point defects and extended defects play in degradation processes via recombination enhanced defect reaction. Electron-beam-induced-current (EBIC) was employed to find correlation between dark line defects in degraded lasers and test stress conditions. Time-resolved electroluminescence (EL) was employed to study formation and progression of dark spots and dark lines in real time to understand mechanisms leading to catastrophic facet and bulk degradation. Lastly, we present our physics-of-failure-based model of catastrophic degradation processes in these broad-area lasers.

  13. Investigation of the effects of manufacturing variations and materials on fatigue crack detection methods in gear teeth

    NASA Technical Reports Server (NTRS)

    Wheitner, Jeffrey A.; Houser, Donald R.

    1994-01-01

    The fatigue life of a gear tooth can be thought of as the sum of the number of cycles required to initiate a crack, N(sub i), plus the number of cycles required to propagate the crack to such a length that fracture occurs, N(sub p). The factors that govern crack initiation are thought to be related to localized stress or strain at a point, while propagation of a fatigue crack is a function of the crack tip parameters such as crack shape, stress state, and stress intensity factor. During a test there is no clear transition between initiation and propagation. The mechanisms of initiation and propagation are quite different and modeling them separately produces a higher degree of accuracy, but then the question that continually arises is 'what is a crack?' The total life prediction in a fracture mechanics model presently hinges on the assumption of an initial crack length, and this length can significantly affect the total life prediction. The size of the initial crack is generally taken to be in the range of 0.01 in. to 0.2 in. Several researchers have used various techniques to determine the beginning of the crack propagation stage. Barhorst showed the relationship between dynamic stiffness changes and crack propagation. Acoustic emissions, which are stress waves produced by the sudden movement of stressed materials, have also been successfully used to monitor the growth of cracks in tensile and fatigue specimens. The purpose of this research is to determine whether acoustic emissions can be used to define the beginning of crack propagation in a gear using a single-tooth bending fatigue test.

  14. Investigation of effect of variations in bone fraction and red marrow cellularity on bone marrow dosimetry in radio-immunotherapy

    NASA Astrophysics Data System (ADS)

    Wilderman, S. J.; Roberson, P. L.; Bolch, W. E.; Dewaraja, Y. K.

    2013-07-01

    A method is described for computing patient-specific absorbed dose rates to active marrow which accounts for spatial variation in bone volume fraction and marrow cellularity. A module has been added to the 3D Monte Carlo dosimetry program DPM to treat energy deposition in the components of bone spongiosa distinctly. Homogeneous voxels in regions containing bone spongiosa (as defined on CT images) are assumed to be comprised only of bone, active (red) marrow and inactive (yellow) marrow. Cellularities are determined from biopsy, and bone volume fractions are computed from cellularities and CT-derived voxel densities. Electrons are assumed to deposit energy locally in the three constituent components in proportions determined by electron energy absorption fractions which depend on energy, cellularity, and bone volume fraction, and which are either taken from the literature or are derived from Monte Carlo simulations using EGS5. Separate algorithms are used to model primary β particles and secondary electrons generated after photon interactions. Treating energy deposition distinctly in bone spongiosa constituents leads to marrow dosimetry results which differ from homogeneous spongiosa dosimetry by up to 20%. Dose rates in active marrow regions with cellularities of 20, 50, and 80% can vary by up to 20%, and can differ by up to 10% as a function of bone volume fraction. Dose to bone marrow exhibits a strong dependence on marrow cellularity and a potentially significant dependence on bone volume fraction.

  15. Investigation of coseismic and postseismic processes using in situ measurements of seismic velocity variations in an underground mine

    NASA Astrophysics Data System (ADS)

    Olivier, G.; Brenguier, F.; Campillo, M.; Roux, P.; Shapiro, N. M.; Lynch, R.

    2015-11-01

    The in situ mechanical response of a rock mass to a sudden dynamic and static stress change is still poorly known. To tackle this question, we conducted an experiment in an underground mine to examine (1) the influence of dynamic and static stress perturbations on seismic velocities, (2) elastic static stress changes, and (3) induced earthquake activity associated with the blast and removal of a portion of hard rock. We accurately (0.01%) measured seismic velocity variations with ambient seismic noise correlations, located aftershock activity, and performed elastic static stress modeling. Overall, we observe that the blast induced a sudden decrease in seismic velocities over the entire studied area, which we interpreted as the damage due to the passing of strong seismic waves. This sudden process is followed by a slow relaxation lasting up to 5 days, while seismic activity returns to its background level after 2 days. In some locations, after the short-term effects of the blast have subsided, the seismic velocities converge to new baseline levels and permanent changes in seismic velocity become visible. After comparing the spatial pattern of permanent seismic velocity changes with elastic static stress modeling, we infer that the permanent seismic velocity changes are due to the change in the static volumetric stress induced by the removal of a solid portion of rock by the blast. To our knowledge, this is the first observation of noise-based permanent seismic velocity changes associated with static stress changes.

  16. Investigation into the Mpemba Effect: Variation in the Freezing Time of Water Dependent on Initial Temperature and Purity

    NASA Astrophysics Data System (ADS)

    Thvedt, Ingrid; Roseberry, Martha; Lehman, Susan

    2009-03-01

    The observation that hot water sometimes appears to freeze more quickly than cold water, known as the Mpemba effect, has generated vigorous debate. Prior research [1] into the Mpemba effect has resulted in conflicting results, due to a variety of observation techniques, multiple definitions of freezing, and different water treatments. To clarify the previous results, we have tested multiple types of water and improved the sample monitoring. During cooling and freezing, each 50 g water sample is continually monitored by three thermistors at different depths. Samples of tap, distilled, and nanopure water were heated, heated and cooled, or boiled before being frozen. We monitor the time to reach freezing, the duration of freezing, and the total time to reach -7^oC. We observe the Mpemba effect most consistently in the length of the freezing transition in tap water. Observations of temperature variation during freezing will also be presented. [1] See the review by M. Jeng, Am.J.Phys. 74 514 (2006).

  17. Preliminary investigation of the elemental variation and diagenesis of a tabular uranium deposit, La Sal Mine, San Juan County, Utah

    USGS Publications Warehouse

    Brooks, Robert A.; Campbell, John A.

    1976-01-01

    Ore in the La Sal mine, San Juan County, Utah, occurs as a typical tabular-type uranium deposit of the-Colorado Plateau. Uranium-vanadium occurs in the Salt Wash Member of the Jurassic Morrison Formation. Chemical and petrographic analyses were used to determine elemental variation and diagenetic aspects across the orebody. Vanadium is concentrated in the dark clay matrix, which constitutes visible ore. Uranium content is greater above the vanadium zone. Calcium, carbonate carbon, and lead show greater than fifty-fold increase across the ore zone, whereas copper and organic carbon show only a several-fold increase. Large molybdenum concentrations are present in and above the tabular layer, and large selenium concentrations occur below the uranium zone within the richest vanadium zone. Iron is enriched in the vanadium horizon. Chromium is depleted from above the ore and strongly enriched below. Elements that vary directly with the vanadium content include magnesium, iron, selenium, zirconium, strontium, titanium, lead, boron, yttrium, and scandium. The diagenetic sequence is as follows: (1) formation of secondary quartz overgrowths as cement; (2) infilling and lining of remaining pores with amber opaline material; (3) formation of vanadium-rich clay matrix, which has replaced overgrowths as well as quartz grains; (4) replacement of overgrowths and detrital grains by calcite; (5) infilling of pores with barite and the introduction of pyrite and marcasite.

  18. Genetic variation, pathogenicity, and immunogenicity of highly pathogenic porcine reproductive and respiratory syndrome virus strain XH-GD at different passage levels.

    PubMed

    Chen, Yao; He, Shuyi; Sun, Long; Luo, Yongfeng; Sun, Yankuo; Xie, Jiexiong; Zhou, Pei; Su, Shuo; Zhang, Guihong

    2016-01-01

    Porcine reproductive and respiratory syndrome (PRRS) is one of the most economically important infectious diseases of swine worldwide. Immunization with an attenuated vaccine is considered an effective method for reducing the economic losses resulting from porcine reproductive and respiratory syndrome virus (PRRSV) infection. Several studies have shown that PRRSV can be attenuated by passage in Marc-145 cells, but it is still not clear whether this attenuation influences the immunogenicity of PRRSV and what the mechanism of attenuation is. In order to study the mechanism of attenuation and immunogenicity of highly pathogenic (HP) PRRSV, the HP-PRRSV strain XH-GD was serially 122 times passaged in Marc-145 cells. Genomic sequence comparisons were made at selected passages. To explore the differences in pathogenicity and immunogenicity at different passages, three passages (P5, P62 and P122) were selected for an animal challenge experiment, which showed that passage in Marc-145 cells resulted in attenuation of the virus. After 122 passages, 35 amino acid changes were observed in the structural proteins and non-structural proteins. The animal challenge experiment showed that pathogenicity decreased with increasing passage number. The N antibody level and specific neutralizing (SN) antibody titers also decreased with increasing passage number in the late stage of the animal experiment. This study indicated that the virulence of XH-GD was decreased by passage in Marc-145 cells and that overattenuation might influence the immunogenicity of virus. These results might contribute to our understanding of the mechanism of attenuation. PMID:26483282

  19. Investigation of Quasi-periodic Variations in Hard X-Rays of Solar Flares. II. Further Investigation of Oscillating Magnetic Traps

    NASA Astrophysics Data System (ADS)

    Jakimiec, J.; Tomczak, M.

    2012-06-01

    In our recent paper (Jakimiec and Tomczak, Solar Physics 261, 233, 2010) we investigated quasi-periodic oscillations of hard X-rays during the impulsive phase of solar flares. We have come to the conclusion that they are caused by magnetosonic oscillations of magnetic traps within the volume of hard-X-ray (HXR) loop-top sources. In the present paper we investigate four flares that show clear quasi-periodic sequences of the HXR pulses. We also describe our phenomenological model of oscillating magnetic traps to show that it can explain the observed properties of the HXR oscillations. The main results are the following: i) Low-amplitude quasi-periodic oscillations occur before the impulsive phase of some flares. ii) The quasi-periodicity of the oscillations can change in some flares. We interpret this as being due to changes of the length of oscillating magnetic traps. iii) During the impulsive phase a significant part of the energy of accelerated (non-thermal) electrons is deposited within a HXR loop-top source. iv) The quick development of the impulsive phase is due to feedback between the pressure pulses by accelerated electrons and the amplitude of the magnetic-trap oscillation. v) The electron number density and magnetic field strength values obtained for the HXR loop-top sources in several flares fall within the limits of N≈(2 - 15)×1010 cm-3, B≈(45 - 130) gauss. These results show that the HXR quasi-periodic oscillations contain important information about the energy release in solar flares.

  20. Elevated temperature strain gages

    NASA Technical Reports Server (NTRS)

    Brittain, J. O.; Geslin, D.; Lei, J. F.

    1986-01-01

    One of the goals of the HOST Program is the development of electrical resistance strain gages for static strain measurements at temperatures equal to or greater than 1273 K. Strain gage materials must have a reproducible or predictable response to temperature, time and strain. It is the objective of this research to investigate criteria for the selection of materials for such applications through electrical properties studies. The results of the investigation of two groups of materials, refractory compounds and binary alloy solid solutions are presented.

  1. In silico based investigation of dynamic variations in neprilysin (NEP and NEP2) proteins for extracting the point of specificity.

    PubMed

    Ul-Haq, Zaheer; Usmani, Saman; Iqbal, Sadaf; Zia, Syeda Rehana

    2016-03-01

    Neprilysin-2 (NEP2) in the central nervous system controls Alzheimer's protein (amyloid-β) deposition, and prevents its occurrence. However, in the peripheral system, its closest homolog, neutral endopeptidase (NEP), regulates hypertension and heart related diseases. Inhibitors of NEP with a lesser degree of specificity can treat hypertension with an increased risk of cerebral deposition of amyloid-β. In order to rationalize the point of selectivity, the dynamic behavior of human NEP and NEP2 proteins was monitored by conducting molecular dynamics (MD) simulations. A computationally reliable model of NEP2 was achieved with 79.9%, 19.1% and 0.2% residues in the allowed, additionally allowed and disallowed regions respectively, using as a reference protein. Additionally, molecular docking studies were carried out for a set of five already known inhibitors of NEP and modeled NEP2 to obtain the comparative behaviors of the complexes. MD results highlighted their different responses along with important residues having a part in ligand-protein binding. For substrate and inhibitor binding, Arg664/661 and Zn697/694 were identified as the most conserved residues. High degree flexible transitions during the MD simulations were also observed in loop areas along with active site residues. Energy calculations, hydrogen bonds and their occupancy rates helped to conclude each ligand's potency towards a particular target. In most complexes of hNEP2, the ligands showed weak interactions which might be due to its larger pocket size or huge conformational variations in active site residues upon complexation. In the case of inhibitors of a small size like thiorphan, Arg49 and Arg664 are found to be acting to support the ligand binding in NEP while only Arg661 is acting in NEP2. PMID:26846903

  2. A Study to Investigate Cloud Feedback Processes and Evaluate GCM Cloud Variations Using Statistical Cloud Property Composites From ARM Data

    SciTech Connect

    George Tselioudis

    2009-08-11

    cloud layering information into the context of large-scale dynamical regimes, such information can be used to study interactions among cloud vertical distributions and dynamical and microphysical processes and to evaluate the ability of models to simulate those interactions. The U.S. Department of Energy's Atmospheric Radiation Measurement (ARM) program has established several Climate Research Facilities (ACRF) that provide continuous, long-term observations of clouds and radiation. ARM, with its overall goal of improving the treatment of radiation and clouds in climate models has provided unique observing systems for accelerating progress on the representation of cloud processes. In this project, six and a half years (January 1998 to June 2004) of cloud observations collected at the Southern Great Plains (SGP) Oklahoma ACRF were used to produce a cloud-type climatology. The climatology provides cloud amounts for seven different cloud types as well as information on the detailed structure of multi-layer cloud occurrences. Furthermore, the European Centre for Medium-Range Weather Forecasts (ECMWF) model output was used to define the dynamic regimes present during the observations of the cloud conditions by the vertically pointing radars at the SGP ACRF. The cloud-type climatology and the ECMWF SGP data set were then analyzed to examine and map dynamical conditions that favor the creation of single-layer versus multi-layer cloud structures as well as dynamical conditions that favor the occurrence of drizzle in continental stratus clouds. In addition, output from the ECMWF weather model forecasts was analyzed with the objective to compare model and radar derived cloud type statistics, in order to identify the major model deficiencies in cloud vertical distribution and map their seasonal variations. The project included two primary goals. The first was to create a cloud type climatology over the Southern Great Planes site that will show how cloud vertical distribution

  3. A piloted simulation of helicopter air combat to investigate effects of variations in selected performance and control response characteristics

    NASA Technical Reports Server (NTRS)

    Lewis, Michael S.; Mansur, M. Hossein; Chen, Robert T. N.

    1987-01-01

    A piloted simulation study investigating handling qualities and flight characteristics required for helicopter air to air combat is presented. The Helicopter Air Combat system was used to investigate this role for Army rotorcraft. Experimental variables were the maneuver envelope size (load factor and sideslip), directional axis handling qualities, and pitch and roll control-response type. Over 450 simulated, low altitude, one-on-one engagements were conducted. Results from the experiment indicate that a well damped directional response, low sideforce caused by sideslip, and some effective dihedral are all desirable for weapon system performance, good handling qualities, and low pilot workload. An angular rate command system was favored over the attitude type pitch and roll response for most applications, and an enhanced maneuver envelope size over that of current generation aircraft was found to be advantageous. Pilot technique, background, and experience are additional factors which had a significant effect on performance in the air combat tasks investigated. The implication of these results on design requirements for future helicopters is presented.

  4. Natural Strain

    NASA Technical Reports Server (NTRS)

    Freed, Alan D.

    1997-01-01

    Logarithmic strain is the preferred measure of strain used by materials scientists, who typically refer to it as the "true strain." It was Nadai who gave it the name "natural strain," which seems more appropriate. This strain measure was proposed by Ludwik for the one-dimensional extension of a rod with length l. It was defined via the integral of dl/l to which Ludwik gave the name "effective specific strain." Today, it is after Hencky, who extended Ludwik's measure to three-dimensional analysis by defining logarithmic strains for the three principal directions.

  5. Investigating DNA Binding and Conformational Variation in Temperature Sensitive p53 Cancer Mutants Using QM-MM Simulations

    PubMed Central

    Koulgi, Shruti; Achalere, Archana; Sonavane, Uddhavesh; Joshi, Rajendra

    2015-01-01

    The tp53 gene is found to be mutated in 50% of all the cancers. The p53 protein, a product of tp53 gene, is a multi-domain protein. It consists of a core DNA binding domain (DBD) which is responsible for its binding and transcription of downstream target genes. The mutations in p53 protein are responsible for creating cancerous conditions and are found to be occurring at a high frequency in the DBD region of p53. Some of these mutations are also known to be temperature sensitive (ts) in nature. They are known to exhibit partial or strong binding with DNA in the temperature range (298–306 K). Whereas, at 310 K and above they show complete loss in binding. We have analyzed the changes in binding and conformational behavior at 300 K and 310 K for three of the ts-mutants viz., V143A, R249S and R175H. QM-MM simulations have been performed on the wild type and the above mentioned ts-mutants for 30 ns each. The optimal estimate of free energy of binding for a particular number of interface hydrogen bonds was calculated using the maximum likelihood method as described by Chodera et. al (2007). This parameter has been observed to be able to mimic the binding affinity of the p53 ts-mutants at 300 K and 310 K. Thus the correlation between MM-GBSA free energy of binding and hydrogen bonds formed by the interface residues between p53 and DNA has revealed the temperature dependent nature of these mutants. The role of main chain dihedrals was obtained by performing dihedral principal component analysis (PCA). This analysis, suggests that the conformational variations in the main chain dihedrals (ϕ and ψ) of the p53 ts-mutants may have caused reduction in the overall stability of the protein. The solvent exposure of the side chains of the interface residues were found to hamper the binding of the p53 to the DNA. Solvent Accessible Surface Area (SASA) also proved to be a crucial property in distinguishing the conformers obtained at 300 K and 310 K for the three ts-mutants from

  6. Investigations of nanoscale variations in spin and charge transport in manganites and organic semiconductors using spin polarized scanning tunneling spectroscopy

    NASA Astrophysics Data System (ADS)

    Hughes, Cameron Richard

    Analysis of DNA structure and behavior, up to and including full sequencing of a genome's bases, and of biological processes such as replication, transcription and translation, is essential for an understanding of genetic variation, heritable diseases and the effects of environmental factors. Recently, single-molecule techniques have been developed to study DNA properties in unprecedented detail. For a number of these techniques, controlled adsorption of linearly stretched DNA molecules on surfaces is necessary. In experiments where hybridization of adsorbed molecules to labeled probes is used to determine DNA structure, single-stranded DNA is needed. Conventionally, for long DNA's (up to Mbp), double-stranded DNA is deposited on a surface and denatured in-situ. While successful, this method has several disadvantages. This thesis reports efforts to directly adsorb long single-stranded DNA's out of solution as an alternative strategy. It consists of three parts: (1) Establishment of a simple method using Acridine Orange (AO) staining dye to determine whether DNA's are ss or ds on the surface. The method allows for the assessment of the degree of renaturation during deposition. Incubation of surface-adsorbed DNA in solutions of AO dye in the concentration range of 10--15uM were found to be effective for discriminating between ss DNA and ds DNA based on differences in the fluorescence emission spectra. (2) Deposition of ss DNA produced by heat denaturation on polymer-coated surfaces. Lambda DNA (48502bp) was adsorbed by drop evaporation or dipping/extraction of surface out of a buffered solution. The efficiency of deposition was optimized with respect to DNA concentration, buffer type and pH. (3) Separation of complementary single strands of Lambda, mono-cut digest and HindIII digest by gel electrophoresis. Using agarose gels in concentrations ranging from 0.4% to 1.4% (weight/volume), electric fields in the range 1--4V/cm in 1x Tris-Acetate-EDTA (TAE) buffer, good

  7. Strain evaluation of strengthened concrete structures using FBG sensors

    NASA Astrophysics Data System (ADS)

    Lau, Kin-tak; Zhou, Li-min; Ye, Lin

    1999-12-01

    Fibre-optic Bragg Grating (FBG) sensor presents a great deal of potential in monitoring the internal status of the concrete structures after repairing or strengthening by an external adhered reinforcement. It can be used in a variety of configurations ranging from pointwise to multi-point strain measurement in order to investigate the strain distribution of the structures. In this paper, an experimental investigation on the rectangular notched-concrete beam, which was strengthened by glass fibre composites with the embedment of multiplexing FBG sensors is presented. Three point bending test was performed to investigate the strain profile of the specimen. Frequency modulated continuous wave (FMCW) technique was used to measure the strain variation of the fibre-grating regions. The results give a good agreement with the electrical resistance strain gauge in early loading condition. The difference of the strain-measuring results between the strain-gauge and FBG sensor was increased when further increasing the applied load. It was suspected that the micro/marco cracks occurred on the concrete surface and that the externally bonded strain-measuring device cannot be detected.

  8. Strain evaluation of strengthened concrete structures using FBG sensors

    SciTech Connect

    Lau Kintak; Zhou Limin; Ye Lin

    1999-12-02

    Fibre-optic Bragg Grating (FBG) sensor presents a great deal of potential in monitoring the internal status of the concrete structures after repairing or strengthening by an external adhered reinforcement. It can be used in a variety of configurations ranging from pointwise to multi-point strain measurement in order to investigate the strain distribution of the structures. In this paper, an experimental investigation on the rectangular notched-concrete beam, which was strengthened by glass fibre composites with the embedment of multiplexing FBG sensors is presented. Three point bending test was performed to investigate the strain profile of the specimen. Frequency modulated continuous wave (FMCW) technique was used to measure the strain variation of the fibre-grating regions. The results give a good agreement with the electrical resistance strain gauge in early loading condition. The difference of the strain-measuring results between the strain-gauge and FBG sensor was increased when further increasing the applied load. It was suspected that the micro/marco cracks occurred on the concrete surface and that the externally bonded strain-measuring device cannot be detected.

  9. Photogenerated charges and surface potential variations investigated on single Si nanorods by electrostatic force microscopy combined with laser irradiation

    PubMed Central

    2014-01-01

    Photogenerated charging properties of single Si nanorods (Si NRs) are investigated by electrostatic force microscopy (EFM) combined with laser irradiation. Under laser irradiation, Si NRs are positively charged. The amount of the charges trapped in single NRs as well as the contact potential difference between the tip and NRs' surface is achieved from an analytical fitting of the phase shift - voltage curve. Both of them significantly vary with the laser intensity and the NR's size and construction. The photogenerated charging and decharging rates are obtained at a timescale of seconds or slower, indicating that the Si NRs are promising candidates in photovoltaic applications. PMID:24940176

  10. Investigation of the field-induced ferromagnetic phase transition in spin-polarized neutron matter: A lowest order constrained variational approach

    SciTech Connect

    Bordbar, G. H.; Rezaei, Z.; Montakhab, Afshin

    2011-04-15

    In this article, the lowest order constrained variational method is used to investigate the magnetic properties of spin-polarized neutron matter in the presence of strong magnetic field at zero temperature employing the AV{sub 18} potential. Our results indicate that a ferromagnetic phase transition is induced by a strong magnetic field with strength greater than 10{sup 18} G, leading to a partial spin polarization of the neutron matter. It is also shown that the equation of state of neutron matter in the presence of a magnetic field is stiffer than in the absence of a magnetic field.

  11. Further investigations of geomagnetic diurnal variations associated with the 2011 off the Pacific coast of Tohoku earthquake (Mw 9.0)

    NASA Astrophysics Data System (ADS)

    Han, Peng; Hattori, Katsumi; Xu, Guangjing; Ashida, Ryo; Chen, Chieh-Hung; Febriani, Febty; Yamaguchi, Hiroki

    2015-12-01

    As one of the most promising candidates for short-term earthquake forecasting, the seismo-electromagnetic phenomena have been intensively studied for several decades. Recently, Xu et al. (2013) have reported unusual behaviors of geomagnetic diurnal variations in the vertical component prior to the 2011 off the Pacific coast of Tohoku earthquake (Mw 9.0). To validate this result, further investigations have been applied in this study. Geomagnetic data of 16 years' long term observation have been analyzed using the same method in Xu et al. (2013). Ratios of diurnal variation range between the target station Esashi (ESA) which is about 130 km from the epicenter and the remote reference station Kakioka (KAK) about 300 km distant to the epicenter have been computed. After removing seasonal variations revealed by wavelet transform analysis, the 15-day mean values of the ratios in the vertical component shows a clear anomaly exceeding the statistical threshold about 2 months before the mega event. This anomaly is unique over a 16-year long background, and further discussions indicate that this anomaly is unlikely caused by strong geomagnetic storms or a statistical fluke. Therefore, this study has provided a strong support to the previous results in Xu et al. (2013).

  12. A robust SNP barcode for typing Mycobacterium tuberculosis complex strains

    PubMed Central

    Coll, Francesc; McNerney, Ruth; Guerra-Assunção, José Afonso; Glynn, Judith R.; Perdigão, João; Viveiros, Miguel; Portugal, Isabel; Pain, Arnab; Martin, Nigel; Clark, Taane G.

    2014-01-01

    Strain-specific genomic diversity in the Mycobacterium tuberculosis complex (MTBC) is an important factor in pathogenesis that may affect virulence, transmissibility, host response and emergence of drug resistance. Several systems have been proposed to classify MTBC strains into distinct lineages and families. Here, we investigate single-nucleotide polymorphisms (SNPs) as robust (stable) markers of genetic variation for phylogenetic analysis. We identify ~92k SNP across a global collection of 1,601 genomes. The SNP-based phylogeny is consistent with the gold-standard regions of difference (RD) classification system. Of the ~7k strain-specific SNPs identified, 62 markers are proposed to discriminate known circulating strains. This SNP-based barcode is the first to cover all main lineages, and classifies a greater number of sublineages than current alternatives. It may be used to classify clinical isolates to evaluate tools to control the disease, including therapeutics and vaccines whose effectiveness may vary by strain type. PMID:25176035

  13. Extensive variation in surface lipoprotein gene content and genomic changes associated with virulence during evolution of a novel North American house finch epizootic strain of Mycoplasma gallisepticum.

    PubMed

    Tulman, E R; Liao, X; Szczepanek, S M; Ley, D H; Kutish, G F; Geary, S J

    2012-08-01

    Mycoplasma gallisepticum, a significant respiratory and reproductive pathogen of domestic poultry, has since 1994 been recognized as an emergent pathogen of the American house finch (Carpodacus mexicanus). Epizootic spread and pathognomonic characteristics of house finch-associated Mycoplasma gallisepticum (HFMG) have been studied as a model of an emergent to endemic pathogen in a novel host. Here we present comparative analysis of eight HFMG genomes, including one from an index isolate and seven isolates separated spatially and temporally (1994-2008) across the epizootic, and notably having differences in virulence. HFMG represented a monophyletic clade relative to sequenced poultry isolates, with genomic changes indicating a novel M. gallisepticum lineage and including unique deletions of coding sequence. Though most of the HFMG genome was highly conserved among isolates, genetic distances correlated with temporal-spatial distance from the index. The most dramatic genomic differences among HFMG involved phase-variable and immunodominant VlhA lipoprotein genes, including those variable in presence and genomic location. Other genomic differences included tandem copy number variation of a 5 kbp repeat, changes in and adjacent to the clustered regularly interspaced short palindromic repeats, and small-scale changes affecting coding potential and association of genes with virulence. Divergence of monophyletic isolates from similar time/space in the epizootic indicated local diversification of distinct HFMG sublineages. Overall, these data identify candidate virulence genes and reveal the importance of phase-variable lipoproteins during the evolution of M. gallisepticum during its emergence and dissemination in a novel host in nature, likely mediating an important role at the interface between pathogen virulence and host immunity. PMID:22628486

  14. Investigation of defect structure of impurity-doped lithium niobate by combining thermodynamic constraints with lattice constant variations

    SciTech Connect

    Koyama, Chihiro; Nozawa, Jun Fujiwara, Kozo; Uda, Satoshi; Maeda, Kensaku

    2015-01-07

    The defect structures of impurity-doped congruent lithium niobates (c-LN) were determined for impurities with various valences, including divalent, trivalent, and tetravalent impurities, in a concentration range where antisite niobium (Nb{sub Li}) exists. On the basis of the “Li site vacancy model,” six kinds of defect structures in impurity-doped c-LN are possible. Using thermodynamic constraints, these can be narrowed down to two kinds. The first structure is that in which impurities, vacancies and Nb exist as defects in the Li site and no defects exist in the Nb site (structure A), described as ([Li{sub Li}] {sub 1-5x-jy}[Nb{sub Li}]{sub x}[M{sub Li}]{sub y}[V{sub Li}]{sub 4x+(j-1)y})[Nb{sub Nb}][O{sub O}] {sub 3} (V: vacancy, M: impurity, j: valence of impurity, x, y: compositional variable (≠0), Li/Nb = congruent ratio). ([Li{sub Li}{sup ×}] {sub 1-5x-2y}[Nb{sub Li}{sup ••••}]{sub x}[M{sub Li}{sup •}]{sub y}[V{sub Li}{sup ′}]{sub 4x+y})[Nb{sub Nb}{sup ×}][O{sub O}{sup ×}] {sub 3} is an example by the Kröger-Vink notation for divalent M. In the second structure, vacancies and Nb exist as defects in the Li site and impurities exist as defects in the Nb site (structure B), described as ([Li{sub Li}] {sub 1-5x-(j-5)y}[Nb{sub Li}]{sub x}[V{sub Li}]{sub 4x+(j-5)y})([Nb{sub Nb}] {sub 1-y}[M{sub Nb}]{sub y})[O{sub O}] {sub 3}. ([Li{sub Li}{sup ×}] {sub 1-5x+y}[Nb{sub Li}{sup ••••}]{sub x}[V{sub Li}{sup ′}]{sub 4x-y})([Nb{sub Nb}{sup ×}] {sub 1-y}[M{sub Nb}{sup ′}]{sub y})[O{sub O}{sup ×}] {sub 3} is an example for tetravalent M. Since the relationship between impurity concentration and lattice constants for structures A and B differs, the defect structures can be differentiated by analyzing lattice constant variations as a function of impurity concentration. The results show that the defect structure of divalent and trivalent impurity-doped c-LN is structure A and that of tetravalent impurity-doped c-LN is

  15. Investigation on Mechanical Properties of Boron Steel for Variation of Quenching Temperature and its Hot Press Forming Simulation

    NASA Astrophysics Data System (ADS)

    Li, Yang; An, Sang-Hyun; Kang, Chung-Gil

    2010-06-01

    Hot Forming Die Quenching (HFDQ) process is a forming method which provides various advantages such as excellent mechanical properties and formability, good weldability, and little springback of the deformed materials. HFDQ technology can solve the inconsistency between crashworthiness and fuel economy for its high intensity and good formability at high temperature. While partial quenching can provide long elongation and high intensity on one product at different positions. In this paper, the investigation about the mechanical properties was carried on the Al-Si coated boron sheet after heating which can be considered as a data base of partial quenching. In addition, a relevant simulation model was built to provide theoretic basis for the practical manufacturing process. The data from this paper can be applied into the manufacturing process of B-pillar in automobile.

  16. Theoretical investigation of the operating behaviour of rotating radial bladings due to the variation of the Reynolds number

    NASA Astrophysics Data System (ADS)

    Steck, E.; Felsch, K. O.

    The plane laminar flow through rotating radial cascades with backwards curved vanes is calculated. The density and viscosity of the fluid are supposed to be constant. Introducing the stream function and the vorticity, the equations of motion and continuity are transformed to non-orthogonal coordinates aligned with the blade contours. For solving the boundary value problem an implicit difference method is used. The operating behavior of the impeller is investigated considering the total head and hydraulic efficiency as functions of the flow coefficient and the Reynolds number. In order to compare the numerial results with experimental data the vanes are described by logarithmic spirals. Taking into account three-dimensional effects the tendencies of theory and experiments are qualitatively well comparable.

  17. CRC pilot program to investigate the effect on driveability of intake valve deposits and variations in fuel volatility

    SciTech Connect

    Not Available

    1993-06-01

    During the Coordinating Research Council's (CRC) program to select an engine to replace the BMW 318i as the industry standard intake valve deposit test engine, an opportunity was identified to compare the driveability performance of the engines evaluated with and without intake valve deposits. A pilot program was thus conducted by the CRC Volatility Group at Southwest Research Institute during late 1 991 and early 1 992 to investigate the relationship between intake valve deposits and cold-start and warmup driveability. Eight vehicles were tested using three fuels with varying T50 levels. Duplicate ratings were made using both the BMW Driveability Test Procedure and a modification of the CRC Cold-Start and Warmup Driveability Procedure. None of the three candidate engines were as good as the BMW 318i reference engine in discriminating valve deposit effects on driveability. Rater differences obscured other possible effects.

  18. [Investigation of the presence of mecC and Panton-Valentine leukocidin genes in Staphylococcus aureus strains isolated from clinical specimens during seven years period].

    PubMed

    Kılıç, Abdullah; Doğan, Eyüp; Kaya, Sinem; Baysallar, Mehmet

    2015-10-01

    Detection and identification of methicillin-resistant Staphylococcus aureus (MRSA) in clinical microbiology laboratories are important for the selection of appropriate treatment and obtaining epidemiological data. mecC gene, is a mecA homologue, showing almost 69% DNA similarity with the mecA gene and the encoded protein by this gene shows almost 63% similarity with the PBP2a/2' protein. Several studies indicated that mecC positive MRSA strains can be transmitted from the livestock to humans by cross contamination. Panton-Valentine leukocidin (PVL), a potent cytotoxin of S.aureus is also considered as an important virulence factor. The aim of this study was to determine the existence and prevalence of mecC and pvl genes among S.aureus strains isolated from clinical specimens. A total of 1700 S.aureus isolates including 1177 methicillin-susceptible S.aureus (MSSA) and 523 MRSA, isolated in our hospital between January 2007 to December 2014, were included in the study. The isolates were identified by both conventional methods and BD Phoenix automated system (BD Diagnostic Instrument Systems, USA). Antibiotic susceptibility testing was performed by Kirby-Bauer disk diffusion method with oxacillin (1 μg) and cefoxitin (30 μg) according to the CLSI standards. The presence of mecA gene was investigated by the use of real-time PCR, and the presence of pvl and mecC genes were detected by conventional PCR method. Among the patients, 44.6% (759/1700) were outpatients, 65.8% (1119/1700) were male and the mean age of of patients was 39.7 years. Of 1700 isolates evaluated in this study, 523 (30.7%) were positive for mecA gene, however all of them were negative for mecC gene. A total of 32 (1.8%) isolates were positive for pvl gene including 23 (1.9%) out of 1177 MSSA and nine (1.7%) out of 523 MRSA strains. Eighteen (56.2%) of the PVL-positive S.aureus strains were isolated from skin and soft tissue infections. The frequency of PVL detected in this study was similar to the

  19. Natural Strain

    NASA Technical Reports Server (NTRS)

    Freed, Alan D.

    1995-01-01

    The purpose of this paper is to present a consistent and thorough development of the strain and strain-rate measures affiliated with Hencky. Natural measures for strain and strain-rate, as I refer to them, are first expressed in terms of of the fundamental body-metric tensors of Lodge. These strain and strain-rate measures are mixed tensor fields. They are mapped from the body to space in both the Eulerian and Lagrangian configurations, and then transformed from general to Cartesian fields. There they are compared with the various strain and strain-rate measures found in the literature. A simple Cartesian description for Hencky strain-rate in the Lagrangian state is obtained.

  20. Serotonin and Dopamine Gene Variation and Theory of Mind Decoding Accuracy in Major Depression: A Preliminary Investigation.

    PubMed

    Zahavi, Arielle Y; Sabbagh, Mark A; Washburn, Dustin; Mazurka, Raegan; Bagby, R Michael; Strauss, John; Kennedy, James L; Ravindran, Arun; Harkness, Kate L

    2016-01-01

    Theory of mind-the ability to decode and reason about others' mental states-is a universal human skill and forms the basis of social cognition. Theory of mind accuracy is impaired in clinical conditions evidencing social impairment, including major depressive disorder. The current study is a preliminary investigation of the association of polymorphisms of the serotonin transporter (SLC6A4), dopamine transporter (DAT1), dopamine receptor D4 (DRD4), and catechol-O-methyl transferase (COMT) genes with theory of mind decoding in a sample of adults with major depression. Ninety-six young adults (38 depressed, 58 non-depressed) completed the 'Reading the Mind in the Eyes task' and a non-mentalistic control task. Genetic associations were only found for the depressed group. Specifically, superior accuracy in decoding mental states of a positive valence was seen in those homozygous for the long allele of the serotonin transporter gene, 9-allele carriers of DAT1, and long-allele carriers of DRD4. In contrast, superior accuracy in decoding mental states of a negative valence was seen in short-allele carriers of the serotonin transporter gene and 10/10 homozygotes of DAT1. Results are discussed in terms of their implications for integrating social cognitive and neurobiological models of etiology in major depression. PMID:26974654

  1. Investigation of Variations in Suspended Particulate Matter with Enforcement of Regulations on Diesel Vehicle Exhaust in Suburban Japan

    NASA Astrophysics Data System (ADS)

    Jiang, Zhaowu; Wang, Qingyue; Sekiguchi, Kazuhiko; Sakamoto, Kazuhiko

    In the summers of 2003 and 2004, size-separated suspended particulate matter (SPM) samples were collected with a high-volume Andersen air sampler at a site adjacent to Saitama Prefectural Route 57 in Saitama City. This sampling site is in an atmospherically polluted area that is also one of the “Specified Areas concerning Special Measures for Total Emission Reduction of Nitrogen Oxides and Particulate Matter from Automobiles” established in October 2002. We investigated carbonaceous compounds in the SPM before and after the Regulation on Diesel Vehicle Exhaust came into effect in October 2003 in Tokyo Metropolis and Saitama, Chiba, and Kanagawa prefectures. At the sampling site, elemental carbon (EC) in the fine particles (< 2µm) was derived mainly from diesel vehicle exhaust emissions, and crustal metals such as Al, Fe, and Mg in the coarse particles (> 2µm) were generated as road dust by vehicular traffic and wind. Correlations among chemical components generated by heavy-duty diesel vehicles suggest that the air quality is improving at the sampling site as a result of the enforcement of the Regulations on Diesel Vehicle Exhaust.

  2. Serotonin and Dopamine Gene Variation and Theory of Mind Decoding Accuracy in Major Depression: A Preliminary Investigation

    PubMed Central

    Zahavi, Arielle Y.; Sabbagh, Mark A.; Washburn, Dustin; Mazurka, Raegan; Bagby, R. Michael; Strauss, John; Kennedy, James L.; Ravindran, Arun; Harkness, Kate L.

    2016-01-01

    Theory of mind–the ability to decode and reason about others’ mental states–is a universal human skill and forms the basis of social cognition. Theory of mind accuracy is impaired in clinical conditions evidencing social impairment, including major depressive disorder. The current study is a preliminary investigation of the association of polymorphisms of the serotonin transporter (SLC6A4), dopamine transporter (DAT1), dopamine receptor D4 (DRD4), and catechol-O-methyl transferase (COMT) genes with theory of mind decoding in a sample of adults with major depression. Ninety-six young adults (38 depressed, 58 non-depressed) completed the ‘Reading the Mind in the Eyes task’ and a non-mentalistic control task. Genetic associations were only found for the depressed group. Specifically, superior accuracy in decoding mental states of a positive valence was seen in those homozygous for the long allele of the serotonin transporter gene, 9-allele carriers of DAT1, and long-allele carriers of DRD4. In contrast, superior accuracy in decoding mental states of a negative valence was seen in short-allele carriers of the serotonin transporter gene and 10/10 homozygotes of DAT1. Results are discussed in terms of their implications for integrating social cognitive and neurobiological models of etiology in major depression. PMID:26974654

  3. From genome-wide to candidate gene: an investigation of variation at the major histocompatibility complex in common bottlenose dolphins exposed to harmful algal blooms.

    PubMed

    Cammen, Kristina M; Wilcox, Lynsey A; Rosel, Patricia E; Wells, Randall S; Read, Andrew J

    2015-02-01

    The role the major histocompatibility complex (MHC) plays in response to exposure to environmental toxins is relatively poorly understood, particularly in comparison to its well-described role in pathogen immunity. We investigated associations between MHC diversity and resistance to brevetoxins in common bottlenose dolphins (Tursiops truncatus). A previous genome-wide association study investigating an apparent difference in harmful algal bloom (HAB) resistance among dolphin populations in the Gulf of Mexico identified genetic variation associated with survival in close genomic proximity to multiple MHC class II loci. Here, we characterized genetic variation at DQA, DQB, DRA, and DRB loci in dolphins from central-west Florida and the Florida Panhandle, including dolphins that died during HABs and dolphins presumed to have survived HAB exposure. We found that DRB and DQB exhibited patterns of genetic differentiation among geographic regions that differed from neutral microsatellite loci. In addition, genetic differentiation at DRB across multiple pairwise comparisons of live and dead dolphins was greater than differentiation observed at neutral loci. Our findings at these MHC loci did not approach the strength of association with survival previously described for a nearby genetic variant. However, the results provide evidence that selective pressures at the MHC vary among dolphin populations that differ in the frequency of HAB exposure and that the overall composition of DRB variants differs between dolphin survivors and non-survivors of HABs. These results may suggest a potential role of MHC diversity in variable survival of bottlenose dolphins exposed to HABs. PMID:25475909

  4. Investigation into Variation of Endogenous Metabolites in Bone Marrow Cells and Plasma in C3H/He Mice Exposed to Benzene

    PubMed Central

    Sun, Rongli; Zhang, Juan; Yin, Lihong; Pu, Yuepu

    2014-01-01

    Benzene is identified as a carcinogen. Continued exposure of benzene may eventually lead to damage to the bone marrow, accompanied by pancytopenia, aplastic anemia or leukemia. This paper explores the variations of endogenous metabolites to provide possible clues for the molecular mechanism of benzene-induced hematotoxicity. Liquid chromatography coupled with time of flight-mass spectrometry (LC-TOF-MS) and principal component analysis (PCA) was applied to investigate the variation of endogenous metabolites in bone marrow cells and plasma of male C3H/He mice. The mice were injected subcutaneously with benzene (0, 300, 600 mg/day) once daily for seven days. The body weights, relative organ weights, blood parameters and bone marrow smears were also analyzed. The results indicated that benzene caused disturbances in the metabolism of oxidation of fatty acids and essential amino acids (lysine, phenylalanine and tyrosine) in bone marrow cells. Moreover, fatty acid oxidation was also disturbed in plasma and thus might be a common disturbed metabolic pathway induced by benzene in multiple organs. This study aims to investigate the underlying molecular mechanisms involved in benzene hematotoxicity, especially in bone marrow cells. PMID:24658442

  5. Natural epigenetic polymorphisms lead to intraspecific variation in Arabidopsis gene imprinting

    PubMed Central

    Pignatta, Daniela; Erdmann, Robert M; Scheer, Elias; Picard, Colette L; Bell, George W; Gehring, Mary

    2014-01-01

    Imprinted gene expression occurs during seed development in plants and is associated with differential DNA methylation of parental alleles, particularly at proximal transposable elements (TEs). Imprinting variability could contribute to observed parent-of-origin effects on seed development. We investigated intraspecific variation in imprinting, coupled with analysis of DNA methylation and small RNAs, among three Arabidopsis strains with diverse seed phenotypes. The majority of imprinted genes were parentally biased in the same manner among all strains. However, we identified several examples of allele-specific imprinting correlated with intraspecific epigenetic variation at a TE. We successfully predicted imprinting in additional strains based on methylation variability. We conclude that there is standing variation in imprinting even in recently diverged genotypes due to intraspecific epiallelic variation. Our data demonstrate that epiallelic variation and genomic imprinting intersect to produce novel gene expression patterns in seeds. DOI: http://dx.doi.org/10.7554/eLife.03198.001 PMID:24994762

  6. M gene analysis of canine coronavirus strains detected in Korea

    PubMed Central

    Jeoung, Seok-Young; Ann, So-Yun; Kim, Hyun-Tae

    2014-01-01

    The purpose of this study was to investigate the genetic features of canine coronavirus (CCV) strains detected in Korea. M gene sequences obtained for isolates from 22 dogs with enteritis over a 5-year period were evaluated. Sequence comparison revealed that the 22 Korean CCV strains had an 87.2 to 100% nucleotide homology. Comparing to the typical reference CCV strains (type II), the nucleotide sequence of Korean strains had homology ranged from 86.3% to 98.3% (89.1% to 99.2% for the amino acid sequence) and 87.7% to 97.8% (92.4% to 100% for the amino acid sequence) when compared to FCoV-like CCV strains (type I). Three amino acid variations in the M gene were characteristic for the Korean CCV strains. Phylogenetic analysis demonstrated that the 22 Korean CCV strains belonged to four typical CCV clusters (i.e., a unique Korean CCV cluster, a type II and transmissible gastroenteritis virus cluster, an intermediate cluster between type I and II, and a type I cluster). This study was the first to identify genetic differences of the M gene from Korean CCV strains and provided a platform for molecular identification of different Korean CCV strains. PMID:25234323

  7. Effects of Streptococcus pneumoniae Strain Background on Complement Resistance

    PubMed Central

    Hyams, Catherine; Opel, Sophia; Hanage, William; Yuste, Jose; Bax, Katie; Henriques-Normark, Birgitta; Spratt, Brian G.; Brown, Jeremy S.

    2011-01-01

    Background Immunity to infections caused by Streptococcus pneumoniae is dependent on complement. There are wide variations in sensitivity to complement between S. pneumoniae strains that could affect their ability to cause invasive infections. Although capsular serotype is one important factor causing differences in complement resistance between strains, there is also considerable other genetic variation between S. pneumoniae strains that may affect complement-mediated immunity. We have therefore investigated whether genetically distinct S. pneumoniae strains with the same capsular serotype vary in their sensitivity to complement mediated immunity. Methodology and Principal Findings C3b/iC3b deposition and neutrophil association were measured using flow cytometry assays for S. pneumoniae strains with different genetic backgrounds for each of eight capsular serotypes. For some capsular serotypes there was marked variation in C3b/iC3b deposition between different strains that was independent of capsule thickness and correlated closely to susceptibility to neutrophil association. C3b/iC3b deposition results also correlated weakly with the degree of IgG binding to each strain. However, the binding of C1q (the first component of the classical pathway) correlated more closely with C3b/iC3b deposition, and large differences remained in complement sensitivity between strains with the same capsular serotype in sera in which IgG had been cleaved with IdeS. Conclusions These data demonstrate that bacterial factors independent of the capsule and recognition by IgG have strong effects on the susceptibility of S. pneumoniae to complement, and could therefore potentially account for some of the differences in virulence between strains. PMID:22022358

  8. Beyond Punnett Squares: Student Word Association and Explanations of Phenotypic Variation through an Integrative Quantitative Genetics Unit Investigating Anthocyanin Inheritance and Expression in "Brassica rapa" Fast Plants

    ERIC Educational Resources Information Center

    Batzli, Janet M.; Smith, Amber R.; Williams, Paul H.; McGee, Seth A.; Dosa, Katalin; Pfammatter, Jesse

    2014-01-01

    Genetics instruction in introductory biology is often confined to Mendelian genetics and avoids the complexities of variation in quantitative traits. Given the driving question "What determines variation in phenotype (Pv)? (Pv=Genotypic variation Gv + environmental variation Ev)," we developed a 4-wk unit for an inquiry-based laboratory…

  9. Sex and strain differences in the hepatocyte primary culture/DNA repair test

    SciTech Connect

    McQueen, C.A.; Way, B.M. )

    1991-01-01

    The hepatocyte primary culture (HPC)/DNA repair test was developed using hepatocytes isolated from male F-344 rats. A number of genetic polymorphisms have been shown to occur in inbred strains of rats, which may lead to variation in biotransformation of xenobiotics resulting in differences in susceptibility to genotoxins. The effect of the strain utilized as a source of hepatocytes was investigated with female Lewis, F-344, and DA rats. Variation was observed when hepatocytes from the three strains were exposed to aflatoxin B{sub 1} (AFB{sub 1}). No clearcut strain differences were seen when cells were exposed to diethylnitrosamine (DEN) or 2-acetylaminofluorene. These results demonstrate that both the strain and the sex of the animal used as a source of hepatocytes can affect the HPC/DNA repair test.

  10. Genetic Variation, An Environmental Investigation.

    ERIC Educational Resources Information Center

    National Wildlife Federation, Washington, DC.

    This environmental unit is one of a series designed for integration within an existing curriculum. The unit is self-contained and requires very little teacher preparation. The philosophy of this series is based on an experience-oriented process that encourages self-paced independent student work. In this unit, students explore possible…

  11. Investigation of the variations in the crystallization front shape during growth of gadolinium gallium and terbium gallium crystals by the Czochralski method

    SciTech Connect

    Budenkova, O. N. Vasiliev, M. G.; Yuferev, V. S.; Ivanov, I. A.; Bul'kanov, A. M.; Kalaev, V. V.

    2008-12-15

    Numerical investigation of the variations in the crystallization front shape during growth of gadolinium gallium and terbium gallium garnet crystals in the same thermal zone and comparison of the obtained results with the experimental data have been performed. It is shown that the difference in the behavior of the crystallization front during growth of the crystals is related to their different transparency in the IR region. In gadolinium gallium garnet crystals, which are transparent to thermal radiation, a crystallization front, strongly convex toward the melt, is formed in the growth stage, which extremely rapidly melts under forced convection. Numerical analysis of this process has been performed within the quasistationary and nonstationary models. At the same time, in terbium gallium garnet crystals, which are characterized by strong absorption of thermal radiation, the phase boundary shape changes fairly smoothly and with a small amplitude. In this case, as the crystal is pulled, the crystallization front tends to become convex toward the crystal bulk.

  12. Micro-Structural Response of DP 600 to High Strain Rate Deformation

    NASA Technical Reports Server (NTRS)

    Hamburg, Brian; Schneider, Judy; Jones, Stanley E.

    2008-01-01

    The object of this study was to investigate the micro-structural response of DP 600 subjected to high strain rate, ballistic impact tests. The ballistic tests were conducted using normal impact of a hardened steel penetrator into a 2 mm thick sheet of DP 600. The average strain rates produced from this test method are on the order of 10(exp 5)/s. Electron microscopy was used to investigate the microstructure before and after high strain rate deformation. A variation in material response was observed between tests conducted at 0.8 x 105 and 25 x 10(exp 5)/s.

  13. Strains and tilts on crustal blocks

    NASA Technical Reports Server (NTRS)

    Bilham, R. G.; Beavan, R. J.

    1979-01-01

    Geodetic work done over the past century is examined to investigate block motion in areas of intense tectonic deformation, with special attention to geodetic releveling data obtained for Japan. Problems in interpreting strainmeter and tiltmeter to study the behavior of crustal blocks and block boundaries are discussed. Block dimensions of 5 to 50 km seem to occur frequently in regions of intense tectonic activity. Block boundaries are often considerably weaker than contiguous crustal blocks, resulting in a concentration of strains at boundaries and decrease of strains within blocks. Block to block variations in tilt phase and magnitude are observed. There is some evidence that block boundaries may exhibit strain-dependent elastic properties or respond viscoelastically, possibly accounting for the slow transmission of tectonic deformation reported in Japan. If nonlinear behavior is characteristic of regions fragmented by crustal blocks, it will generally not be possible to apply a site correction factor based on the observed distortion of tidal or seismic strains in interpreting secular strains.

  14. Longitudinal residual strain and stress-strain relationship in rat small intestine

    PubMed Central

    Dou, Yanling; Fan, Yanhua; Zhao, Jingbo; Gregersen, Hans

    2006-01-01

    Background To obtain a more detailed description of the stress-free state of the intestinal wall, longitudinal residual strain measurements are needed. Furthermore, data on longitudinal stress-strain relations in visceral organs are scarce. The present study aims to investigate the longitudinal residual strain and the longitudinal stress-strain relationship in the rat small intestine. Methods The longitudinal zero-stress state was obtained by cutting tissue strips parallel to the longitudinal axis of the intestine. The longitudinal residual stress was characterized by a bending angle (unit: degrees per unit length and positive when bending outwards). Residual strain was computed from the change in dimensions between the zero-stress state and the no-load state. Longitudinal stresses and strains were computed from stretch experiments in the distal ileum at luminal pressures ranging from 0–4 cmH2O. Results Large morphometric variations were found between the duodenum and ileum with the largest wall thickness and wall area in the duodenum and the largest inner circumference and luminal area in the distal ileum (p < 0.001). The bending angle did not differ between the duodenum and ileum (p > 0.5). The longitudinal residual strain was tensile at the serosal surface and compressive at the mucosal surface. Hence, the neutral axis was approximately in the mid-wall. The longitudinal residual strain and the bending angle was not uniform around the intestinal circumference and had the highest values on the mesenteric sides (p < 0.001). The stress-strain curves fitted well to the mono-exponential function with determination coefficients above 0.96. The α constant increased with the pressure, indicating the intestinal wall became stiffer in longitudinal direction when pressurized. Conclusion Large longitudinal residual strains reside in the small intestine and showed circumferential variation. This indicates that the tissue is not uniform and cannot be treated as a homogenous

  15. Effect of Muscle Loads and Torque Applied to the Tibia on the Strain Behavior of the Anterior Cruciate Ligament: An In Vitro Investigation

    PubMed Central

    Fujiya, Hiroto; Kousa, Petteri; Fleming, Braden C; Churchill, David L; Beynnon, Bruce D

    2011-01-01

    Background Very little is known about the effects of applied torque about the long axis of the tibia in combination with muscle loads on anterior cruciate ligament biomechanics. The purpose of this study was to determine the effect of muscle contraction and tibial torques applied about the long axis of the tibia on anterior cruciate ligament strain behavior. Methods Six cadaver knee specimens were used to measure the strain behaviour of the anterior cruciate ligament. Internal and external axial torques were applied to the tibia when the knee was between 30° and 120° of flexion in combination with the conditions of no muscle load, isolated quadriceps load, and simultaneous quadriceps and hamstring loading. Findings The highest anterior cruciate ligament strain values were measured when the muscles were not loaded, when the knee was at 120° of flexion, and when internal tibial torques were applied to the knee. During muscle loading the highest anterior cruciate ligament strain values were measured at 30° of flexion and then the strain values gradually decreased with increase in knee flexion. During co-contraction of the quadriceps and hamstring muscles the anterior cruciate ligament was unstrained or minimally strained at 60°, 90° and 120° of knee flexion. Intepretation This study suggests that quadriceps and hamstring muscle co-contraction has a potential role in reducing the anterior cruciate ligament strain values when the knee is in deep flexion. These results can be used to gain insight into anterior cruciate ligament injury mechanisms and to design rehabilitation regimens. PMID:21816523

  16. How accurately can subject-specific finite element models predict strains and strength of human femora? Investigation using full-field measurements.

    PubMed

    Grassi, Lorenzo; Väänänen, Sami P; Ristinmaa, Matti; Jurvelin, Jukka S; Isaksson, Hanna

    2016-03-21

    Subject-specific finite element models have been proposed as a tool to improve fracture risk assessment in individuals. A thorough laboratory validation against experimental data is required before introducing such models in clinical practice. Results from digital image correlation can provide full-field strain distribution over the specimen surface during in vitro test, instead of at a few pre-defined locations as with strain gauges. The aim of this study was to validate finite element models of human femora against experimental data from three cadaver femora, both in terms of femoral strength and of the full-field strain distribution collected with digital image correlation. The results showed a high accuracy between predicted and measured principal strains (R(2)=0.93, RMSE=10%, 1600 validated data points per specimen). Femoral strength was predicted using a rate dependent material model with specific strain limit values for yield and failure. This provided an accurate prediction (<2% error) for two out of three specimens. In the third specimen, an accidental change in the boundary conditions occurred during the experiment, which compromised the femoral strength validation. The achieved strain accuracy was comparable to that obtained in state-of-the-art studies which validated their prediction accuracy against 10-16 strain gauge measurements. Fracture force was accurately predicted, with the predicted failure location being very close to the experimental fracture rim. Despite the low sample size and the single loading condition tested, the present combined numerical-experimental method showed that finite element models can predict femoral strength by providing a thorough description of the local bone mechanical response. PMID:26944687

  17. Variation in susceptibility of laboratory and field strains of three stored-grain insect species to beta-cyfluthrin and chlorpyrifos-methyl plus deltamethrin applied to concrete surfaces

    Technology Transfer Automated Retrieval System (TEKTRAN)

    The efficacy of beta-cyfluthrin and chlorpyrifos-methyl plus deltamethrin applied to clean, concrete floors of empty bins prior to grain storage against field strains of stored-grain insects is unknown. We exposed adults of 16 strains of the red flour beetle, Tribolium castaneum (Herbst); 8 strains ...

  18. Medically Complex Home Care and Caregiver Strain

    ERIC Educational Resources Information Center

    Moorman, Sara M.; Macdonald, Cameron

    2013-01-01

    Purpose of the study: To examine (a) whether the content of caregiving tasks (i.e., nursing vs. personal care) contributes to variation in caregivers' strain and (b) whether the level of complexity of nursing tasks contributes to variation in strain among caregivers providing help with such tasks. Design and methods: The data came from the Cash…

  19. Two dimensional WS2 lateral heterojunctions by strain modulation

    NASA Astrophysics Data System (ADS)

    Meng, Lan; Zhang, Yuhan; Hu, Song; Wang, Xiangfu; Liu, Chunsheng; Guo, Yandong; Wang, Xinran; Yan, Xiaohong

    2016-06-01

    "Strain engineering" has been widely used to tailor the physical properties of layered materials, like graphene, black phosphorus, and transition-metal dichalcogenides. Here, we exploit thermal strain engineering to construct two dimensional (2D) WS2 in-plane heterojunctions. Kelvin probe force microscopy is used to investigate the surface potentials and work functions of few-layer WS2 flakes, which are grown on SiO2/Si substrates by chemical vapor deposition, followed by a fast cooling process. In the interior regions of strained WS2 flakes, work functions are found to be much larger than that of the unstrained regions. The difference in work functions, together with the variation of band gaps, endows the formation of heterojunctions in the boundaries between inner and outer domains of WS2 flakes. This result reveals that the existence of strain offers a unique opportunity to modulate the electronic properties of 2D materials and construct 2D lateral heterojunctions.

  20. Measurement of hygroscopic strain in deodar wood during convective drying using lensless Fourier transform digial holography

    NASA Astrophysics Data System (ADS)

    Kumar, Manoj; Shakher, Chandra

    2016-04-01

    In this paper, moisture induced deformation and shrinkage behaviour of deodar wood during convective drying is experimentally investigated by using digital holographic interferometry. There induces dimensional changes in wood due to the moisture absorption and desorption. Lensless Fourier transform digital holographic interferometry (LLFTDH) is used to study the moisture induced deformation and strain distribution in deodar wood. The proposed technique having high sensitivity and enables the observation of deformation and strain distribution during the variations of moisture content in the deodar wood.

  1. Simulation investigation of tensile strained GeSn fin photodetector with Si(3)N(4) liner stressor for extension of absorption wavelength.

    PubMed

    Zhang, Qingfang; Liu, Yan; Yan, Jing; Zhang, Chunfu; Hao, Yue; Han, Genquan

    2015-01-26

    In this paper, we design a biaxial tensile strained GeSn photodetector with fin structure wrapped in Si(3)N(4) liner stressor. A large biaxial tensile strain is induced in GeSn fins by the expansion of Si(3)N(4) liner stressor. The distribution of tensile strain in GeSn fins was calculated by a finite element simulation. It is observed that magnitude of the strain increases with the reduction of fin thickness T(fin). Under the biaxial tensile strain, the direct band gap E(G,Γ) of GeSn fin photodetector is significantly reduced by lowering Γ conduction valley in energy and lifting of degeneracy of valence bands. As the 30 nm Si(3)N(4) liner stressor expanses by 1%, a E(G,Γ) reduction of ~0.14 eV is achieved in Ge(0.92)Sn(0.08) fins with a T(fin) of 100 nm. The cut-off wavelengths of strained Ge(0.96)Sn(0.04), Ge(0.92)Sn(0.08) and Ge(0.90)Sn(0.10) fin photodetectors with a T(fin) of 100 nm are extended to 2.4, 3.3, and 4 μm, respectively. GeSn fin photodetector integrated with Si(3)N(4) liner stressor provides an effective technique for extending the absorption edge of GeSn with Sn composition less than 10% to mid-infrared wavelength. PMID:25835833

  2. Red Shift, Blue Shift: Investigating Doppler Shifts, Blubber Thickness, and Migration as Explanations of Seasonal Variation in the Tonality of Antarctic Blue Whale Song

    PubMed Central

    Miller, Brian S.; Leaper, Russell; Calderan, Susannah; Gedamke, Jason

    2014-01-01

    The song of Antarctic blue whales (Balaenoptera musculus intermedia) comprises repeated, stereotyped, low-frequency calls. Measurements of these calls from recordings spanning many years have revealed a long-term linear decline as well as an intra-annual pattern in tonal frequency. While a number of hypotheses for this long-term decline have been investigated, including changes in population structure, changes in the physical environment, and changes in the behaviour of the whales, there have been relatively few attempts to explain the intra-annual pattern. An additional hypothesis that has not yet been investigated is that differences in the observed frequency from each call are due to the Doppler effect. The assumptions and implications of the Doppler effect on whale song are investigated using 1) vessel-based acoustic recordings of Antarctic blue whales with simultaneous observation of whale movement and 2) long-term acoustic recordings from both the subtropics and Antarctic. Results from vessel-based recordings of Antarctic blue whales indicate that variation in peak-frequency between calls produced by an individual whale was greater than would be expected by the movement of the whale alone. Furthermore, analysis of intra-annual frequency shift at Antarctic recording stations indicates that the Doppler effect is unlikely to fully explain the observations of intra-annual pattern in the frequency of Antarctic blue whale song. However, data do show cyclical changes in frequency in conjunction with season, thus suggesting that there might be a relationship among tonal frequency, body condition, and migration to and from Antarctic feeding grounds. PMID:25229644

  3. Red shift, blue shift: investigating Doppler shifts, blubber thickness, and migration as explanations of seasonal variation in the tonality of Antarctic blue whale song.

    PubMed

    Miller, Brian S; Leaper, Russell; Calderan, Susannah; Gedamke, Jason

    2014-01-01

    The song of Antarctic blue whales (Balaenoptera musculus intermedia) comprises repeated, stereotyped, low-frequency calls. Measurements of these calls from recordings spanning many years have revealed a long-term linear decline as well as an intra-annual pattern in tonal frequency. While a number of hypotheses for this long-term decline have been investigated, including changes in population structure, changes in the physical environment, and changes in the behaviour of the whales, there have been relatively few attempts to explain the intra-annual pattern. An additional hypothesis that has not yet been investigated is that differences in the observed frequency from each call are due to the Doppler effect. The assumptions and implications of the Doppler effect on whale song are investigated using 1) vessel-based acoustic recordings of Antarctic blue whales with simultaneous observation of whale movement and 2) long-term acoustic recordings from both the subtropics and Antarctic. Results from vessel-based recordings of Antarctic blue whales indicate that variation in peak-frequency between calls produced by an individual whale was greater than would be expected by the movement of the whale alone. Furthermore, analysis of intra-annual frequency shift at Antarctic recording stations indicates that the Doppler effect is unlikely to fully explain the observations of intra-annual pattern in the frequency of Antarctic blue whale song. However, data do show cyclical changes in frequency in conjunction with season, thus suggesting that there might be a relationship among tonal frequency, body condition, and migration to and from Antarctic feeding grounds. PMID:25229644

  4. [Echinococcus and strain concepts].

    PubMed

    Utük, Armağan Erdem; Simsek, Sami

    2008-01-01

    Hydatid disease (echinococcosis) is one of the most important parasitic zoonoses and remains a public health and economic problem all over the world. Echinococcus granulosus includes a number of genetic variants and, up to date, analyses of mitochondrial DNA sequences have identified ten distinct genetic types (genotypes G1-10). This categorization follows closely the pattern of strain variation emerging based on biological characteristics. The extensive variation in E. granulosus may influence life-cycle patterns, host specificity, development rate, antigenicity, transmission dynamics, sensitivity to chemotherapeutic agents, and pathology. In this review, the recent genetic characterizations of Echinococcus genus have been summarized. PMID:18351549

  5. Small angle X-ray scattering coupled with in situ electromechanical probing of nanoparticle-based resistive strain gauges.

    PubMed

    Decorde, Nicolas; Sangeetha, Neralagatta M; Viallet, Benoit; Viau, Guillaume; Grisolia, Jérémie; Coati, Alessandro; Vlad, Alina; Garreau, Yves; Ressier, Laurence

    2014-12-21

    A comprehensive study on the electromechanical behavior of nanoparticle-based resistive strain gauges in action through normal and grazing incidence small angle X-ray scattering (SAXS/GISAXS) investigations is presented. The strain gauges were fabricated from arrays of colloidal gold nanoparticle (NP) wires assembled on flexible polyethylene terephthalate and polyimide substrates by convective self-assembly. Microstructural changes (mean interparticle distance variations) within these NP wires under uniaxial stretching estimated by SAXS/GISAXS are correlated to their macroscopic electrical resistance variations. SAXS measurements suggest a linear longitudinal extension and transversal contraction of the NP wires with applied strain (0 to ∼ 13%). The slope of this longitudinal variation is less than unity, implying a partial strain transfer from the substrate to the NP wires. The simultaneously measured electrical resistance of the strain gauges shows an exponential variation within the elastic domain of the substrate deformation, consistent with electron tunnelling through the interparticle gaps. A slower variation observed within the plastic domain suggests the formation of new electronic conduction pathways. Implications of transversal contraction of the NP wires on the directional sensitivities of strain gauges are evaluated by simulating electronic conduction in models mimicking a realistic NP arrangement. A loss of directionality of the NP-based strain gauges due to transversal current flow within the NP wires is deduced. PMID:25371292

  6. Strain Gage

    NASA Technical Reports Server (NTRS)

    1995-01-01

    HITEC Corporation developed a strain gage application for DanteII, a mobile robot developed for NASA. The gage measured bending forces on the robot's legs and warned human controllers when acceptable forces were exceeded. HITEC further developed the technology for strain gage services in creating transducers out of "Indy" racing car suspension pushrods, NASCAR suspension components and components used in motion control.

  7. Characterization of the time-dependent strain field at seismogenic depths using first-motion focal mechanisms: Observations of large-scale decadal variations in stress along the San Andrea fault system

    USGS Publications Warehouse

    Sipkin, S.A.; Silver, P.G.

    2003-01-01

    We present a method for summing moment tensors derived from first-motion focal mechanisms to study temporal dependence in features of the subsurface regional strain field. Time-dependent processes are inferred by comparing mechanisms summed over differing time periods. We apply this methodology to seismogenic zones in central and southern California using focal mechanisms produced by the Northern and Southern California Seismograph Networks for events during 1980-1999. We find a consistent pattern in both the style of deformation (strike-slip versus compressional) and seismicity rate across the entire region. If these temporal variations are causally related, it suggests a temporal change in the regional-scale stress field. One change consistent with the observations is a rotation in the regional maximum horizontal compressive stress direction, followed by a reversal to the original direction. Depending upon the dominant style of deformation locally, this change in orientation of the regional stress will tend to either enhance or hinder deformation. The mode of enhanced deformation can range from increased microseismicity and creep to major earthquakes. We hypothesize that these temporal changes in the regional stress field are the result of subtle changes in apparent relative plate motion between the Pacific and North American plates, perhaps due to long-range postseismic stress diffusion. Others have hypothesized that small changes in plate motion over thousands of years, and/or over decades, are responsible for changes in the style of deformation in southern California. We propose that such changes, over the course of just a few years, also affect the style of deformation.

  8. Strain-induced modulation of perpendicular magnetic anisotropy in Ta/CoFeB/MgO structures investigated by ferromagnetic resonance

    NASA Astrophysics Data System (ADS)

    Yu, Guoqiang; Wang, Zhenxing; Abolfath-Beygi, Maryam; He, Congli; Li, Xiang; Wong, Kin L.; Nordeen, Paul; Wu, Hao; Carman, Gregory P.; Han, Xiufeng; Alhomoudi, Ibrahim A.; Amiri, Pedram Khalili; Wang, Kang L.

    2015-02-01

    We demonstrate strain-induced modulation of perpendicular magnetic anisotropy (PMA) in (001)-oriented [Pb(Mg1/3Nb2/3)O3](1-x)-[PbTiO3]x (PMN-PT) substrate/Ta/CoFeB/MgO/Ta structures using ferromagnetic resonance (FMR). An in-plane biaxial strain is produced by applying voltage between the two surfaces of the PMN-PT substrate, and is transferred to the ferromagnetic CoFeB layer, which results in tuning of the PMA of the CoFeB layer. The strain-induced change in PMA is quantitatively extracted from the experimental FMR spectra. It is shown that both first and second-order anisotropy terms are affected by the electric field, and that they have opposite voltage dependencies. A very large value of the voltage-induced perpendicular magnetic anisotropy modulation of ˜7000 fJ/V.m is obtained through this strain-mediated coupling. Using this FMR technique, the magnetostriction coefficient λ is extracted for the ultrathin 1.1 nm Co20Fe60B20 layer, and is found to be 3.7 × 10-5, which is approximately 4 times larger than the previously reported values for CoFeB films thicker than 5 nm. In addition, the effect of strain on the effective damping constant (αeff) is also studied and no obvious modulation of the αeff is observed. The results are relevant to the development of CoFeB-MgO magnetic tunnel junctions for memory applications.

  9. Timeline trend profile and seasonal variations in nicotine present in ambient PM10 samples: A four year investigation from Delhi region, India

    NASA Astrophysics Data System (ADS)

    Yadav, Shweta; Tandon, Ankit; Attri, Arun K.

    2014-12-01

    The detection of nicotine, an organic tracer for Environmental Tobacco Smoke (ETS), in the collected PM10 samples from Delhi region's ambient environment, in a appropriately designed investigation was initiated over four years (2006-2009) to: (1) Comprehend seasonal and inter-annual variations in the nicotine present in PM10; (2) Extract regression based linear trend profile manifested by nicotine in PM10; (3) Determine the non-linear trend timeline from the nicotine data, and compare it with the obtained linear trend; (4) Suggest the possible use of the designed experiment and analysis to have a qualitative appraisal of Tobacco Smoking activity in the sampling region. The PM10 samples were collected in a monthly time-series sequence at a known receptor site. Quantitative estimates of nicotine (ng m-3) were made by using a Thermal Desorption Gas Chromatography Mass Spectrometry (TD-GC/MS). The annual average concentrations of nicotine (ng m-3) were 516 ± 302 (2008) > 494 ± 301 (2009) > 438 ± 250 (2007) > 325 ± 149 (2006). The estimated linear trend of 5.4 ng m-3 month-1 corresponded to 16.3% per annum increase in the PM10 associated nicotine. The industrial production of India's tobacco index normalized to Delhi region's consumption, pegged an increase at 10.5% per annum over this period.

  10. Wind tunnel investigation of effects of variations in Reynolds number and leading-edge treatment on the aerodynamic characteristics of an externally blown jet-flap configuration

    NASA Technical Reports Server (NTRS)

    Parlett, L. P.; Smith, C. C., Jr.; Megrail, J. L.

    1973-01-01

    An investigation has been conducted in a full-scale tunnel to determine the effects of variations in Reynolds number and leading-edge treatment on the aerodynamic characteristics of an externally blown jet-flap transport configuration. The model had a double-slotted trailing-edge flap and was powered by four high-bypass-ratio turbofan engines. Tests were performed by using each of three leading-edge devices (a 30-percent-chord flap and 15- and 25-percent-chord slats) at Reynolds numbers from 0.47 x one million to 1.36 x one million thrust coefficients up to 3.5. The use of a 25-percent-chord slat was found to be more effective than a 15-percent-chord slat or a 30-percent-chord flap in extending the stall angle of attack and in minimizing the loss of lift after the stall. The large slat was also effective in reducing the rolling moments that occurred when the engine-out wing stalled first.

  11. Experimental determination of strain partitioning among individual grains in the bulk of an aluminium multicrystal

    SciTech Connect

    Haldrup, K.

    2008-07-15

    A recently developed marker-based technique for mapping of the displacement gradient tensor and the strain throughout the bulk of optically opaque specimens is presented and applied to an aluminium alloy multicrystal. Through investigations at 4%, 10% and 14% axial strains, the internal strain field is observed to be non-homogenous with the observed patterns present throughout the range of strains investigated. The morphology of the strain field is visualized with a resolution better than 50{mu}m and variations are tentatively associated with the grain structure as recorded by EBSD. Future applications of the technique in combination with other 3-dimensional approaches are discussed with respect to comparison with Finite Element modelling approaches.

  12. Genetic variation in the lactase gene, dairy product intake and risk for prostate cancer in the European prospective investigation into cancer and nutrition.

    PubMed

    Travis, Ruth C; Appleby, Paul N; Siddiq, Afshan; Allen, Naomi E; Kaaks, Rudolf; Canzian, Federico; Feller, Silke; Tjønneland, Anne; Føns Johnsen, Nina; Overvad, Kim; Ramón Quirós, J; González, Carlos A; Sánchez, Maria-José; Larrañaga, Nerea; Chirlaque, Maria-Dolores; Barricarte, Aurelio; Khaw, Kay-Tee; Wareham, Nick; Trichopoulou, Antonia; Valanou, Elisavet; Oustoglou, Erifili; Palli, Domenico; Sieri, Sabina; Tumino, Rosario; Sacerdote, Carlotta; Bueno-de-Mesquita, H B as; Stattin, Pär; Ferrari, Pietro; Johansson, Mattias; Norat, Teresa; Riboli, Elio; Key, Timothy J

    2013-04-15

    High dairy protein intake has been found to be associated with increased prostate cancer risk in the European Prospective Investigation into Cancer and Nutrition (EPIC). To further examine this possible relationship, we investigated the hypothesis that a genetic polymorphism in the lactase (LCT) gene might be associated with elevated dairy product intake and increased prostate cancer risk in a case-control study nested in EPIC. The C/T-13910 lactase variant (rs4988235) was genotyped in 630 men with prostate cancer and 873 matched control participants. Dairy product consumption was assessed by diet questionnaire. Odds ratios (ORs) for prostate cancer in relation to lactase genotype were estimated by conditional logistic regression. Lactase genotype frequency varied significantly between countries, with frequencies of the T (lactase persistence) allele ranging from 7% in Greece to 79% in Denmark. Intake of milk and total dairy products varied significantly by lactase genotype after adjustment for recruitment center; adjusted mean intakes of milk were 44.4, 69.8 and 82.3 g/day among men with CC, CT and TT genotypes, respectively. The lactase variant was not significantly associated with prostate cancer risk, both in our data (adjusted OR for TT vs. CC homozygotes: 1.10, 95% CI: 0.76-1.59) and in a meta-analysis of all the published data (combined OR for T allele carriers vs. CC homozygotes: 1.12, 0.96-1.32). These findings show that while variation in the lactase gene is associated with milk intake in men, the lactase polymorphism does not have a large effect on prostate cancer risk. PMID:22965418

  13. Genomic Investigation Reveals Highly Conserved, Mosaic, Recombination Events Associated with Capsular Switching among Invasive Neisseria meningitidis Serogroup W Sequence Type (ST)-11 Strains

    PubMed Central

    Mustapha, Mustapha M.; Marsh, Jane W.; Krauland, Mary G.; Fernandez, Jorge O.; de Lemos, Ana Paula S.; Hotopp, Julie C. Dunning; Wang, Xin; Mayer, Leonard W.; Lawrence, Jeffrey G.; Hiller, N. Luisa; Harrison, Lee H.

    2016-01-01

    Neisseria meningitidis is an important cause of meningococcal disease globally. Sequence type (ST)-11 clonal complex (cc11) is a hypervirulent meningococcal lineage historically associated with serogroup C capsule and is believed to have acquired the W capsule through a C to W capsular switching event. We studied the sequence of capsule gene cluster (cps) and adjoining genomic regions of 524 invasive W cc11 strains isolated globally. We identified recombination breakpoints corresponding to two distinct recombination events within W cc11: A 8.4-kb recombinant region likely acquired from W cc22 including the sialic acid/glycosyl-transferase gene, csw resulted in a C→W change in capsular phenotype and a 13.7-kb recombinant segment likely acquired from Y cc23 lineage includes 4.5 kb of cps genes and 8.2 kb downstream of the cps cluster resulting in allelic changes in capsule translocation genes. A vast majority of W cc11 strains (497/524, 94.8%) retain both recombination events as evidenced by sharing identical or very closely related capsular allelic profiles. These data suggest that the W cc11 capsular switch involved two separate recombination events and that current global W cc11 meningococcal disease is caused by strains bearing this mosaic capsular switch. PMID:27289093

  14. Investigation on the partial resistance of Cpkk2 knock out strain of Cryphonectria parasitica to Cryphonectria hypovirus 1 infection in presence of Geneticin and Geneticin resistance gene.

    PubMed

    Turina, Massimo; Rossi, Marika; Moretti, Marino

    2016-07-01

    We have recently characterized the central components of the three MAP kinase cascades present in Cryphonectria parasitica : the MEK genes cpkk1, cpkk2 and cpkk3. When we attempted to infect through anastomosis the three knock out strains with Cryphonectria hypovirus 1 (CHV1), only the deletion strain of Cpkk2, the yeast Ste7 homologue, involved in mating and filamentous growth, could not be infected. We then proceeded to attempt virus infection through transformation of Δcpkk2 protoplasts using an infectious cDNA clone able to establish virus infection through transformation. In this case, a very limited number of strains could be recovered as stable transformants compared to the efficiency of control transformations with plasmid carrying only the antibiotic marker. Furthermore, transformants carrying actively replicating virus could be isolated only if the selection marker Geneticin was used during the very initial selection process, and not maintained throughout the growth of the colonies. Moreover, Δcpkk2 isolates that maintained the virus lost Geneticin resistance. We therefore unveiled a specific negative interaction among virus infection, presence of Geneticin in the growth media, and lack of Cpkk2 MEK in the fungal host. PMID:26643512

  15. Beyond Punnett squares: Student word association and explanations of phenotypic variation through an integrative quantitative genetics unit investigating anthocyanin inheritance and expression in Brassica rapa Fast plants.

    PubMed

    Batzli, Janet M; Smith, Amber R; Williams, Paul H; McGee, Seth A; Dósa, Katalin; Pfammatter, Jesse

    2014-01-01

    Genetics instruction in introductory biology is often confined to Mendelian genetics and avoids the complexities of variation in quantitative traits. Given the driving question "What determines variation in phenotype (Pv)? (Pv=Genotypic variation Gv + environmental variation Ev)," we developed a 4-wk unit for an inquiry-based laboratory course focused on the inheritance and expression of a quantitative trait in varying environments. We utilized Brassica rapa Fast Plants as a model organism to study variation in the phenotype anthocyanin pigment intensity. As an initial curriculum assessment, we used free word association to examine students' cognitive structures before and after the unit and explanations in students' final research posters with particular focus on variation (Pv = Gv + Ev). Comparison of pre- and postunit word frequency revealed a shift in words and a pattern of co-occurring concepts indicative of change in cognitive structure, with particular focus on "variation" as a proposed threshold concept and primary goal for students' explanations. Given review of 53 posters, we found ∼50% of students capable of intermediate to high-level explanations combining both Gv and Ev influence on expression of anthocyanin intensity (Pv). While far from "plug and play," this conceptually rich, inquiry-based unit holds promise for effective integration of quantitative and Mendelian genetics. PMID:25185225

  16. Diurnal pH variations of a Glacial Stream: a starting point for Inquiry-driven student and teacher Investigations of a Glacial Ecosystem

    NASA Astrophysics Data System (ADS)

    O'Brien, W. P.; Galbraith, J.; Fatland, D. R.; Heavner, M.

    2009-12-01

    Contemporary geoscience research often operates in a mode that generates huge repositories of data available on the internet to the scientific community and the general public. The SEAMONSTER (SM) online data browser of both archival and real-time data is an example of such a dynamic online ecosystem resource associated with the Juneau Icefield. Although newly developed database navigation tools and geobrowsers make it easy for non-experts to access data of interest, it nonetheless can be daunting to K-16 educators to fashion lesson plans that make effective use of these rich resources. In the following scenario, a student and associated teacher, operating outside the traditional didactic lecture/demo mode, explore and try to make sense of a tiny portion of SM data in a spirit of inquiry guided by curiosity, looking for features that catch their attention as they skim through interactive time-series graphs (96 samples/day) of data from Lemon Creek (which drains Lemon Glacier) for stream hydrological variables (temperature, pH, conductivity, dissolved oxygen, turbidity, discharge) and associated meteorological variables (precipitation, humidity, temperature). Amidst all the complex fluctuations that follow no immediately apparent pattern, one regular and continuous feature does stand out: a seemingly sinusoidal diurnal variation in pH of about 0.1 that peaks daily at noon. This high-frequency signal is superimposed on a slower signal characterized by multiple-day trends and larger fluctuations in pH. The resulting composite signal with its easily identifiable patterns is an ideal candidate for investigating Fourier signal decomposition. They hypothesize that photosynthesis could be a contributing factor to the diurnal signal and then design and run an experiment modeling bioactive streamwater with a blended chloroplast-rich slurry of fresh spinach leaves (spinach soup). They put a recording pH meter in the spinach soup and expose it to high and low levels of light

  17. The effect of beam tube potential variation on gonad dose to patients during chest radiography investigated using high sensitivity LiF:Mg,Cu,P thermoluminescent dosemeters.

    PubMed

    Fung, K K; Gilboy, W B

    2001-04-01

    Optimization of X-ray beam tube potential (kVp) in radiological examinations can minimize patient dose. This research aims to investigate the effect of tube potential variation on gonad doses to patients during posteroanterior (PA) chest radiography examinations. This study was carried out using a Toshiba general purpose X-ray unit and a Rando phantom. Dose measuring equipment included an ion chamber system, a dose-area product (DAP) meter and a thermoluminescent dosemeter (TLD) reader system with high sensitivity TLD pellets of LiF:Mg,Cu,P for low level gonad dose measurement. PA chest exposures of the phantom to produce a constant exit dose were made using a standard low tube potential (range 60-100 kVp) non-grid technique and a high tube potential (range 95-150 kVp) grid technique. Entrance surface doses (ESDs) and DAPs were also included in the measurements. Effective doses (EDs) were computed from ESD and DAP measurements using NRPB-SR262 and Xdose software. Results show that with the low tube potential technique both ovary dose and testes dose increase with increasing tube potential; statistically significant correlations of r = 0.994 (p = 0.0006) and r = 0.998 (p = 0.001), respectively, were found. For both organs, doses increase at a rate of approximately 2% per kVp. With the high tube potential technique there is insignificant correlation between gonad doses and tube potential. When comparing patient doses from typical exposures made at 70 kVp (low tube potential non-grid technique) with doses from exposures made at 120 kVp (high tube potential grid technique), the high tube potential technique delivers significantly higher values for ESD, and ovary, testes and effective doses by factors of 1.7, 5.2, 5.5 and 2.7, respectively. PMID:11387155

  18. The Non-Fimbriate Phenotype Is Predominant among Salmonella enterica Serovar Choleraesuis from Swine and Those Non-Fimbriate Strains Possess Distinct Amino Acid Variations in FimH

    PubMed Central

    Lee, Chien-An; Yeh, Kuang-Sheng

    2016-01-01

    Although most Salmonella serovars are able to infect a range of animal hosts, some have acquired the ability to cause systemic infections of specific hosts. For example, Salmonella enterica serovar Choleraesuis is primarily associated with systemic infection in swine. Adherence to host epithelial cells is considered a prerequisite for initial infection, and fimbrial appendages on the outer membrane of the bacteria are implicated in this process. Although type 1 fimbriae encoded by the fim gene cluster are commonly found in Salmonella serovars, it is not known whether S. Choleraesuis produces this fimbrial type and if and how fimbriae are involved in pathogenesis. In the present study, we demonstrated that only four out of 120 S. Choleraesuis isolates from pigs with salmonellosis produced type 1 fimbriae as assayed by the yeast agglutination test and electron microscopy. One of the 116 non-type 1 fimbria-producing isolates was transformed with plasmids carrying different fim genes from S. Typhimurium LB5010, a type 1 fimbria-producing strain. Our results indicate that non-type 1 fimbria-producing S. Choleraesuis required only an intact fimH to regain the ability to produce fimbrial appendages. Sequence comparison revealed six amino acid variations between the FimH of the non-type 1 fimbria-producing S. Choleraesuis isolates and those of the type 1 fimbria-producing S. Choleraesuis isolates. S. Choleraesuis that produced type 1 fimbriae contained FimH with an amino acid sequence identical to that of S. Typhimurium LB5010. Site-directed mutagenesis leading to the replacement of the non-conserved residues revealed that a change from glycine to valine at position of 63 (G63V) resulted in a non-type 1 fimbria-producing S. Choleraesuis being able to express type 1 fimbriae on its outer membrane. It is possible that this particular amino acid change prevents this polypeptide from proper interaction with other Fim subunits required for assembly of an intact type 1 fimbrial

  19. Differences in oocyte development and estradiol sensitivity among mouse strains.

    PubMed

    Pepling, Melissa E; Sundman, Emily A; Patterson, Nicole L; Gephardt, Grant W; Medico, Leonard; Wilson, Krystal I

    2010-02-01

    Mouse oocytes develop in clusters of interconnected cells called germline cysts. Shortly after birth, the majority of cysts break apart and primordial follicles form, consisting of one oocyte surrounded by granulosa cells. Concurrently, oocyte number is reduced by two-thirds. Exposure of neonatal females to estrogenic compounds causes multiple oocyte follicles that are likely germline cysts that did not break down. Supporting this idea, estrogen disrupts cyst breakdown and may regulate normal oocyte development. Previously, the CD-1 strain was used to study cyst breakdown and oocyte survival, but it is unknown if there are differences in these processes in other mouse strains. It is also unknown if there are variations in estrogen sensitivity during oocyte development. Here, we examined neonatal oocyte development in FVB, C57BL/6, and F2 hybrid (Oct4-GFP) strains, and compared them with the CD-1 strain. We found variability in oocyte development among the four strains. We also investigated estrogen sensitivity differences, and found that C57BL/6 ovaries are more sensitive to estradiol than CD-1, FVB, or Oct4-GFP ovaries. Insight into differences in oocyte development will facilitate comparison of mice generated on different genetic backgrounds. Understanding variations in estrogen sensitivity will lead to better understanding of the risks of environmental estrogen exposure in humans. PMID:19846484

  20. Virulence of 32 Salmonella Strains in Mice

    PubMed Central

    Swearingen, Matthew C.; Porwollik, Steffen; Desai, Prerak T.; McClelland, Michael; Ahmer, Brian M. M.

    2012-01-01

    Virulence and persistence in the BALB/c mouse gut was tested for 32 strains of Salmonella enterica for which genome sequencing is complete or underway, including 17 serovars within subspecies I (enterica), and two representatives of each of the other five subspecies. Only serovar Paratyphi C strain BAA1715 and serovar Typhimurium strain 14028 were fully virulent in mice. Three divergent atypical Enteritidis strains were not virulent in BALB/c, but two efficiently persisted. Most of the other strains in all six subspecies persisted in the mouse intestinal tract for several weeks in multiple repeat experiments although the frequency and level of persistence varied considerably. Strains with heavily degraded genomes persisted very poorly, if at all. None of the strains tested provided immunity to Typhimurium infection. These data greatly expand on the known significant strain-to-strain variation in mouse virulence and highlight the need for comparative genomic and phenotypic studies. PMID:22558320

  1. Experimental and analytical investigation of the variation of spray characteristics along a radial distance downstream of a pressure-swirl atomizer

    NASA Technical Reports Server (NTRS)

    Chin, J. S.; Li, W. M.; Wang, X. F.

    1986-01-01

    The variation of spray characteristics along a radial distance downstream of a pressure-swirl atomizer was measured by laser light-scattering technology. An analytical model was developed to predict the variation of spray characteristics along the radial distance. A comparison of the predicted and experimental data showed excellent agreement. Therefore, the spray model proposed, although relatively simple, is correct and can be used, with some expansion and modification of the prepared model, to predict more complicated spray systems.

  2. Beyond Punnett Squares: Student Word Association and Explanations of Phenotypic Variation through an Integrative Quantitative Genetics Unit Investigating Anthocyanin Inheritance and Expression in Brassica rapa Fast Plants

    PubMed Central

    Smith, Amber R.; Williams, Paul H.; McGee, Seth A.; Dósa, Katalin; Pfammatter, Jesse

    2014-01-01

    Genetics instruction in introductory biology is often confined to Mendelian genetics and avoids the complexities of variation in quantitative traits. Given the driving question “What determines variation in phenotype (Pv)? (Pv=Genotypic variation Gv + environmental variation Ev),” we developed a 4-wk unit for an inquiry-based laboratory course focused on the inheritance and expression of a quantitative trait in varying environments. We utilized Brassica rapa Fast Plants as a model organism to study variation in the phenotype anthocyanin pigment intensity. As an initial curriculum assessment, we used free word association to examine students’ cognitive structures before and after the unit and explanations in students’ final research posters with particular focus on variation (Pv = Gv + Ev). Comparison of pre- and postunit word frequency revealed a shift in words and a pattern of co-occurring concepts indicative of change in cognitive structure, with particular focus on “variation” as a proposed threshold concept and primary goal for students’ explanations. Given review of 53 posters, we found ∼50% of students capable of intermediate to high-level explanations combining both Gv and Ev influence on expression of anthocyanin intensity (Pv). While far from “plug and play,” this conceptually rich, inquiry-based unit holds promise for effective integration of quantitative and Mendelian genetics. PMID:25185225

  3. Investigations on Landé factor in a strained Ga{sub x}In{sub 1−x}As/GaAs quantum dot

    SciTech Connect

    Kumar, N. R. Senthil; Peter, A. John

    2014-04-24

    The effective excitonic g-factor as functions of dot radius and the Ga alloy content, in a strained Ga{sub x}In{sub 1−x}As/GaAs quantum dot, is numerically measured. The heavy hole excitonic states are studied for various Ga alloy content taking into account the anisotropy, non-parabolicity of the conduction band and the geometrical confinement effects. The quantum dot is considered as spherical dot of InAs surrounded by a GaAs barrier material.

  4. Multivariate analysis of ultrasound-recorded dorsal strain sequences: Investigation of dynamic neck extensions in women with chronic whiplash associated disorders.

    PubMed

    Peolsson, Anneli; Peterson, Gunnel; Trygg, Johan; Nilsson, David

    2016-01-01

    Whiplash Associated Disorders (WAD) refers to the multifaceted and chronic burden that is common after a whiplash injury. Tools to assist in the diagnosis of WAD and an increased understanding of neck muscle behaviour are needed. We examined the multilayer dorsal neck muscle behaviour in nine women with chronic WAD versus healthy controls during the entire sequence of a dynamic low-loaded neck extension exercise, which was recorded using real-time ultrasound movies with high frame rates. Principal component analysis and orthogonal partial least squares were used to analyse mechanical muscle strain (deformation in elongation and shortening). The WAD group showed more shortening during the neck extension phase in the trapezius muscle and during both the neck extension and the return to neutral phase in the multifidus muscle. For the first time, a novel non-invasive method is presented that is capable of detecting altered dorsal muscle strain in women with WAD during an entire exercise sequence. This method may be a breakthrough for the future diagnosis and treatment of WAD. PMID:27484361

  5. Multivariate analysis of ultrasound-recorded dorsal strain sequences: Investigation of dynamic neck extensions in women with chronic whiplash associated disorders

    PubMed Central

    Peolsson, Anneli; Peterson, Gunnel; Trygg, Johan; Nilsson, David

    2016-01-01

    Whiplash Associated Disorders (WAD) refers to the multifaceted and chronic burden that is common after a whiplash injury. Tools to assist in the diagnosis of WAD and an increased understanding of neck muscle behaviour are needed. We examined the multilayer dorsal neck muscle behaviour in nine women with chronic WAD versus healthy controls during the entire sequence of a dynamic low-loaded neck extension exercise, which was recorded using real-time ultrasound movies with high frame rates. Principal component analysis and orthogonal partial least squares were used to analyse mechanical muscle strain (deformation in elongation and shortening). The WAD group showed more shortening during the neck extension phase in the trapezius muscle and during both the neck extension and the return to neutral phase in the multifidus muscle. For the first time, a novel non-invasive method is presented that is capable of detecting altered dorsal muscle strain in women with WAD during an entire exercise sequence. This method may be a breakthrough for the future diagnosis and treatment of WAD. PMID:27484361

  6. ELECTROMAGNETISM, OPTICS, ACOUSTICS, HEAT TRANSFER, CLASSICAL MECHANICS, AND FLUID DYNAMICS: A Novel Investigation on Using Strain in Barriers of 1.3 μm AlGaInAs-InP Uncooled Multiple Quantum Well Lasers

    NASA Astrophysics Data System (ADS)

    Bahrami Yekta, Vahid; Kaatuzian, Hassan

    2010-09-01

    In this study we investigate strain effect in barriers of 1.3 μm AlGaInAs-InP uncooled multiple quantum well lasers. Single effective mass and Kohn-Luttinger Hamiltonian equations have been solved to obtain quantum states and envelope wave functions in the structure. In the case of unstrained barriers, our simulations results have good agreement with a real device fabricated and presented in one of the references. Our main work is proposal of 0.2% compressive strain in the structure Barriers that causes significant reduction in Leakage current density and Auger current density characteristics in 85 °C. 20% improvement in mode gain-current density characteristic is also obtained in 85°C.

  7. Whole Genome Sequencing Investigation of a Tuberculosis Outbreak in Port-au-Prince, Haiti Caused by a Strain with a "Low-Level" rpoB Mutation L511P - Insights into a Mechanism of Resistance Escalation.

    PubMed

    Ocheretina, Oksana; Shen, Lishuang; Escuyer, Vincent E; Mabou, Marie-Marcelle; Royal-Mardi, Gertrude; Collins, Sean E; Pape, Jean W; Fitzgerald, Daniel W

    2015-01-01

    The World Health Organization recommends diagnosing Multidrug-Resistant Tuberculosis (MDR-TB) in high burden countries by detection of mutations in Rifampin (RIF) Resistance Determining Region of Mycobacterium tuberculosis rpoB gene with rapid molecular tests GeneXpert MTB/RIF and Hain MTBDRplus. Such mutations are found in >95% of Mycobacterium tuberculosis strains resistant to RIF by conventional culture-based drug susceptibility testing (DST). However routine diagnostic screening with molecular tests uncovered specific "low level" rpoB mutations conferring resistance to RIF below the critical concentration of 1 μg/ml in some phenotypically susceptible strains. Cases with discrepant phenotypic (susceptible) and genotypic (resistant) results for resistance to RIF account for at least 10% of resistant diagnoses by molecular tests and urgently require new guidelines to inform therapeutic decision making. Eight strains with a "low level" rpoB mutation L511P were isolated by GHESKIO laboratory between 2008 and 2012 from 6 HIV-negative and 2 HIV-positive patients during routine molecular testing. Five isolates with a single L511P mutation and two isolates with double mutation L511P&M515T had MICs for RIF between 0.125 and 0.5 μg/ml and tested susceptible in culture-based DST. The eighth isolate carried a double mutation L511P&D516C and was phenotypically resistant to RIF. All eight strains shared the same spoligotype SIT 53 commonly found in Haiti but classic epidemiological investigation failed to uncover direct contacts between the patients. Whole Genome Sequencing (WGS) revealed that L511P cluster isolates resulted from a clonal expansion of an ancestral strain resistant to Isoniazid and to a very low level of RIF. Under the selective pressure of RIF-based therapy the strain acquired mutation in the M306 codon of embB followed by secondary mutations in rpoB and escalation of resistance level. This scenario highlights the importance of subcritical resistance to RIF

  8. Investigating patterns and processes of demographic variation: environmental correlates of pre-breeding survival in red-billed choughs Pyrrhocorax pyrrhocorax.

    PubMed

    Reid, J M; Bignal, E M; Bignal, S; McCracken, D I; Bogdanova, M I; Monaghan, P

    2008-07-01

    1. Quantifying the pattern of temporal and spatial variation in demography, and identifying the factors that cause this variation, are essential steps towards understanding the structure and dynamics of any population. 2. One critical but understudied demographic rate is pre-breeding survival. We used long-term colour-ringing data to quantify temporal (among-year) and spatial (among-nest site) variation in pre-breeding survival in red-billed choughs (Pyrrhocorax pyrrhocorax) inhabiting Islay, Scotland, and identified environmental correlates of this variation. 3. Random-effects capture-mark-recapture models demonstrated substantial temporal and spatial process variance in first-year survival; survival from fledging to age 1 year varied markedly among choughs fledged in different years and fledged from different nest sites. Spatial variance exceeded temporal variance across choughs fledged from well-studied nest sites. 4. The best-supported models of temporal variation suggested that first-year survival was higher in years following high tipulid larvae abundance and when weather conditions favoured increased invertebrate productivity and/or availability to foraging choughs. These variables explained up to 80% of estimated temporal process variance. 5. The best-supported models of spatial variation suggested that first-year survival was higher in choughs fledged from nest sites that were further from exposed coasts and closer to flocking areas, and surrounded by better habitat and higher chough density. These variables explained up to 40% of estimated spatial process variance. 6. Importantly, spatio-temporal models indicated interactive effects of weather, tipulid abundance, local habitat and local chough density on first-year survival, suggesting that detrimental effects of poor weather and low tipulid abundance may be reduced in choughs fledged from nest sites surrounded by better foraging habitat and lower chough density. 7. These analyses demonstrate substantial

  9. Variation in Sulfide Tolerance of Photosystem II in Phylogenetically Diverse Cyanobacteria from Sulfidic Habitats

    PubMed Central

    Miller, Scott R.; Bebout, Brad M.

    2004-01-01

    Physiological and molecular phylogenetic approaches were used to investigate variation among 12 cyanobacterial strains in their tolerance of sulfide, an inhibitor of oxygenic photosynthesis. Cyanobacteria from sulfidic habitats were found to be phylogenetically diverse and exhibited an approximately 50-fold variation in photosystem II performance in the presence of sulfide. Whereas the degree of tolerance was positively correlated with sulfide levels in the environment, a strain's phenotype could not be predicted from the tolerance of its closest relatives. These observations suggest that sulfide tolerance is a dynamic trait primarily shaped by environmental variation. Despite differences in absolute tolerance, similarities among strains in the effects of sulfide on chlorophyll fluorescence induction indicated a common mode of toxicity. Based on similarities with treatments known to disrupt the oxygen-evolving complex, it was concluded that sulfide toxicity resulted from inhibition of the donor side of photosystem II. PMID:14766549

  10. Variation in sulfide tolerance of photosystem II in phylogenetically diverse cyanobacteria from sulfidic habitats

    NASA Technical Reports Server (NTRS)

    Miller, Scott R.; Bebout, Brad M.

    2004-01-01

    Physiological and molecular phylogenetic approaches were used to investigate variation among 12 cyanobacterial strains in their tolerance of sulfide, an inhibitor of oxygenic photosynthesis. Cyanobacteria from sulfidic habitats were found to be phylogenetically diverse and exhibited an approximately 50-fold variation in photosystem II performance in the presence of sulfide. Whereas the degree of tolerance was positively correlated with sulfide levels in the environment, a strain's phenotype could not be predicted from the tolerance of its closest relatives. These observations suggest that sulfide tolerance is a dynamic trait primarily shaped by environmental variation. Despite differences in absolute tolerance, similarities among strains in the effects of sulfide on chlorophyll fluorescence induction indicated a common mode of toxicity. Based on similarities with treatments known to disrupt the oxygen-evolving complex, it was concluded that sulfide toxicity resulted from inhibition of the donor side of photosystem II.

  11. Investigating the role of background and observation error correlations in improving a model forecast of forest carbon balance using four dimensional variational data assimilation.

    NASA Astrophysics Data System (ADS)

    Pinnington, Ewan; Casella, Eric; Dance, Sarah; Lawless, Amos; Morison, James; Nichols, Nancy; Wilkinson, Matthew; Quaife, Tristan

    2016-04-01

    Forest ecosystems play an important role in sequestering human emitted carbon-dioxide from the atmosphere and therefore greatly reduce the effect of anthropogenic induced climate change. For that reason understanding their response to climate change is of great importance. Efforts to implement variational data assimilation routines with functional ecology models and land surface models have been limited, with sequential and Markov chain Monte Carlo data assimilation methods being prevalent. When data assimilation has been used with models of carbon balance, background "prior" errors and observation errors have largely been treated as independent and uncorrelated. Correlations between background errors have long been known to be a key aspect of data assimilation in numerical weather prediction. More recently, it has been shown that accounting for correlated observation errors in the assimilation algorithm can considerably improve data assimilation results and forecasts. In this paper we implement a 4D-Var scheme with a simple model of forest carbon balance, for joint parameter and state estimation and assimilate daily observations of Net Ecosystem CO2 Exchange (NEE) taken at the Alice Holt forest CO2 flux site in Hampshire, UK. We then investigate the effect of specifying correlations between parameter and state variables in background error statistics and the effect of specifying correlations in time between observation error statistics. The idea of including these correlations in time is new and has not been previously explored in carbon balance model data assimilation. In data assimilation, background and observation error statistics are often described by the background error covariance matrix and the observation error covariance matrix. We outline novel methods for creating correlated versions of these matrices, using a set of previously postulated dynamical constraints to include correlations in the background error statistics and a Gaussian correlation

  12. 3-D geodynamic models of the India-Eurasia collision zone: investigating the role of lithospheric strength variation Sarah Bischoff and Lucy Flesch EAPS, Purdue University

    NASA Astrophysics Data System (ADS)

    Bischoff, S. H.; Flesch, L. M.

    2013-12-01

    The India-Eurasia collision zone is the largest zone of continental deformation on the Earth's surface. A proliferation of geodetic, seismic, and geologic data across the zone provides a unique opportunity for constraining geodynamic models and increasing our understanding of mountain building and plateau growth. We present a 3-D, spherical, Stokes flow, finite volume, geodynamic model of the India-Eurasia collision. Lithospheric volume is constrained by seismic data. Continuous surface velocities, inferred from GPS and Quaternary fault slip data, are used to approximate velocity boundary conditions. We assume a stress-free surface, and free-slip along the model base. Model viscosity varies with depth and is calculated assuming the laterally-varying, depth-averaged viscosities of Flesch et al. (2001) and a cratonic Indian plate. Laterally the model extends from the southern tip of India northward to the Tian Shan, and from the Pamir Mountains eastward to the South China block. Vertically the model volume extends to a depth of 100 km, and is divided into three layers: upper crust, lower crust, and upper-lithospheric mantle. We use COMSOL Multiphysics (www.comsol.com) to investigate the role of vertical viscosity variation on surface deformation by holding the dynamics constant, adjusting the viscosity substructure, and determining the resultant stress and velocity fields. Solved model surface velocities are compared to the observed surface velocities inferred from GPS and Quaternary fault slip rates. A two-layer model employing laterally-variant viscosity estimates throughout the crust and mantle is ineffective at replicating the observed force balance. The weak crustal viscosities necessary for attaining the observed clockwise rotation around the eastern Himalayan syntaxis also result in erroneous southward velocities in southern Tibet, driven by excessive gravitational collapse. Strengthening crustal viscosities balances the boundary/body forces and allows for

  13. Small angle X-ray scattering coupled with in situ electromechanical probing of nanoparticle-based resistive strain gauges

    NASA Astrophysics Data System (ADS)

    Decorde, Nicolas; Sangeetha, Neralagatta M.; Viallet, Benoit; Viau, Guillaume; Grisolia, Jérémie; Coati, Alessandro; Vlad, Alina; Garreau, Yves; Ressier, Laurence

    2014-11-01

    A comprehensive study on the electromechanical behavior of nanoparticle-based resistive strain gauges in action through normal and grazing incidence small angle X-ray scattering (SAXS/GISAXS) investigations is presented. The strain gauges were fabricated from arrays of colloidal gold nanoparticle (NP) wires assembled on flexible polyethylene terephthalate and polyimide substrates by convective self-assembly. Microstructural changes (mean interparticle distance variations) within these NP wires under uniaxial stretching estimated by SAXS/GISAXS are correlated to their macroscopic electrical resistance variations. SAXS measurements suggest a linear longitudinal extension and transversal contraction of the NP wires with applied strain (0 to ~13%). The slope of this longitudinal variation is less than unity, implying a partial strain transfer from the substrate to the NP wires. The simultaneously measured electrical resistance of the strain gauges shows an exponential variation within the elastic domain of the substrate deformation, consistent with electron tunnelling through the interparticle gaps. A slower variation observed within the plastic domain suggests the formation of new electronic conduction pathways. Implications of transversal contraction of the NP wires on the directional sensitivities of strain gauges are evaluated by simulating electronic conduction in models mimicking a realistic NP arrangement. A loss of directionality of the NP-based strain gauges due to transversal current flow within the NP wires is deduced.A comprehensive study on the electromechanical behavior of nanoparticle-based resistive strain gauges in action through normal and grazing incidence small angle X-ray scattering (SAXS/GISAXS) investigations is presented. The strain gauges were fabricated from arrays of colloidal gold nanoparticle (NP) wires assembled on flexible polyethylene terephthalate and polyimide substrates by convective self-assembly. Microstructural changes (mean