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Sample records for analysis sheds light

  1. Mitochondrial analysis sheds light on the origin of hair sheep.

    PubMed

    Álvarez, I; Capote, J; Traoré, A; Fonseca, N; Pérez, K; Cuervo, M; Fernández, I; Goyache, F

    2013-06-01

    A total of 180 mtDNA sequences from hair Caribbean (93), West African (73) and Canarian-wooled (14) sheep were analysed to shed light on the origin of hair sheep. A comparison of 360 Iberian sheep sequences retrieved from GenBank was performed to assess a possible European origin of the Caribbean hair sheep. These 180 sequences gave 48 different haplotypes (16 in Caribbean sheep). All Caribbean and Canarian-wooled sequences and 91.8% of the West African samples belonged to haplogroup B. The sheep analysed showed wide haplotypic identity. Caribbean sheep shared roughly two-thirds of their samples with Canarian-wooled and West African samples, respectively. Principal component analysis showed that the Caribbean and the Canarian-wooled sheep clustered together. Additional analyses showed that hair and Iberian sheep had wide genetic identity. It was not possible to ascertain a single Canarian, African or European origin of the Caribbean hair sheep using mtDNA markers only. European, African and Caribbean hair sheep maternal genetic backgrounds likely result from related domestication events.

  2. Shedding Some Light.

    ERIC Educational Resources Information Center

    Whitney, Tim

    1998-01-01

    Discusses the basics of designing natural and artificial light in an indoor athletic facility. Also examines individual lighting requirements of typical rooms such as weight and fitness rooms, aerobics and multipurpose rooms, gymnasiums, field houses, pools, and racquetball and squash courts. (GR)

  3. Shedding Some Light.

    ERIC Educational Resources Information Center

    Whitney, Tim

    1998-01-01

    Discusses the basics of designing natural and artificial light in an indoor athletic facility. Also examines individual lighting requirements of typical rooms such as weight and fitness rooms, aerobics and multipurpose rooms, gymnasiums, field houses, pools, and racquetball and squash courts. (GR)

  4. Shedding Light on Nanomedicine

    PubMed Central

    Tong, Rong

    2012-01-01

    Light is electromagnetic radiation that can convert its energy into different forms (e.g., heat, chemical energy, and acoustic waves). This property has been exploited in phototherapy (e.g., photothermal therapy and photodynamic therapy) and optical imaging (e.g., fluorescence imaging) for therapeutic and diagnostic purposes. Light-controlled therapies can provide minimally or non-invasive spatiotemporal control as well as deep tissue penetration. Nanotechnology provides a numerous advantages, including selective targeting of tissues, prolongation of therapeutic effect, protection of active payloads, and improved therapeutic indices. This review explores the advances that nanotechnology can bring to light-based therapies and diagnostics, and vice versa, including photo-triggered systems, nanoparticles containing photoactive molecules, and nanoparticles that are themselves photoactive. Limitations of light-based therapies such as photic injury and phototoxicity will be discussed. PMID:22887840

  5. Shedding Light on the Subject.

    ERIC Educational Resources Information Center

    Keller, Brian A.

    1998-01-01

    Presents an activity in which students use mathematical ideas to understand how the intensity of light changes as light passes through water or similar partial barriers, by using a calculator-based laboratory device to record light intensity. Continues with a structured series of questions involving the use of difference equations with which…

  6. Shedding Light on Fiber Optics.

    ERIC Educational Resources Information Center

    Bunch, Robert M.

    1994-01-01

    Explains the principles of fiber optics as a medium for light-wave communication. Current uses of fiber systems on college campuses include voice, video, and local area network applications. A group of seven school districts in Minnesota are linked via fiber-optic cables. Other uses are discussed. (MLF)

  7. Shedding Light on Engineering Design

    ERIC Educational Resources Information Center

    Capobianco, Brenda M.; Nyquist, Chell; Tyrie, Nancy

    2013-01-01

    This article describes the steps incorporated to teach an engineering design process in a fifth-grade science classroom. The engineering design-based activity was an existing scientific inquiry activity using UV light--detecting beads and purposefully creating a series of engineering design-based challenges around the investigation. The…

  8. Shedding Light on Fiber Optics.

    ERIC Educational Resources Information Center

    Bunch, Robert M.

    1994-01-01

    Explains the principles of fiber optics as a medium for light-wave communication. Current uses of fiber systems on college campuses include voice, video, and local area network applications. A group of seven school districts in Minnesota are linked via fiber-optic cables. Other uses are discussed. (MLF)

  9. Shedding Light on Engineering Design

    ERIC Educational Resources Information Center

    Capobianco, Brenda M.; Nyquist, Chell; Tyrie, Nancy

    2013-01-01

    This article describes the steps incorporated to teach an engineering design process in a fifth-grade science classroom. The engineering design-based activity was an existing scientific inquiry activity using UV light--detecting beads and purposefully creating a series of engineering design-based challenges around the investigation. The…

  10. Shedding light on night myopia.

    PubMed

    López-Gil, Norberto; Peixoto-de-Matos, Sofia C; Thibos, Larry N; González-Méijome, José Manuel

    2012-01-01

    First described during the 18th century, the cause of night myopia remains a controversial topic. Whereas several explanations have been suggested in the literature, particularly related with accommodation or chromatic shift in scotopic light conditions, no definitive explanation for its aetiology has been provided. We describe an experiment in which ocular refractive state was objectively and subjectively measured while viewing two kind of stimulus: letters on a bright background and a punctual source of light in a dark background. We found that under photopic conditions the optimum refractive state of the accommodating eye is significantly more myopic when maximizing perceived quality of a point source on a dark background compared to a conventional letter chart with black letters on a white background. Optical modeling suggested this difference in refractive state is due to spherical aberration. Since isolated point sources are more likely encountered at night, whereas extended objects are more likely encountered in the daytime, our results suggest that a significant part of the night myopia phenomenon is determined by the nature of the visual stimulus and the visual task used to assess ocular refractive state.

  11. Shedding light on the past

    NASA Astrophysics Data System (ADS)

    Stampfl, A. P. J.; Friedman, E. S.; Wilkinson, T. J.; Alp, E. E.; Yener, K. A.

    2001-07-01

    The Amuq valley in southern Turkey is an important and interesting area in the Near East forming a space-time bridge for archaeologists and scientists to ancient and modern civilizations. The Lake of Antioch which evolved during the mid-late Holocene appears to have been located nearby some of the largest human settlements existing during this period. By documenting the conditions of the lake in time, using classical and modern approaches, the climate and geomorphology of the basin may be reconstructed. Synchrotron X-ray fluorescence measurements were performed on sections of a sedimentary core from the lake, representing an estimated 7500 yr of history. Analysis yielded the distribution of elemental masses spanning Ca to Mo as a function of depth from the surface. We find that the elemental concentrations measured follow a number of distinct patterns that may be related to local geomorphology, climate and human activities.

  12. Shedding Light on and with Example Spaces

    ERIC Educational Resources Information Center

    Goldenberg, Paul; Mason, John

    2008-01-01

    Building on the papers in this special issue as well as on our own experience and research, we try to shed light on the construct of "example spaces" and on how it can inform research and practice in the teaching and learning of mathematical concepts. Consistent with our way of working, we delay definition until after appropriate reader experience…

  13. Shedding Light on Dark Matter at Colliders

    NASA Astrophysics Data System (ADS)

    Mitsou, Vasiliki A.

    2013-12-01

    Dark matter remains one of the most puzzling mysteries in Fundamental Physics of our times. Experiments at high-energy physics colliders are expected to shed light to its nature and determine its properties. This review focuses on recent searches for dark matter signatures at the Large Hadron Collider, also discussing related prospects in future e+e- colliders.

  14. Three-dimensional gait analysis can shed new light on walking in patients with haemophilia.

    PubMed

    Lobet, Sébastien; Detrembleur, Christine; Massaad, Firas; Hermans, Cedric

    2013-01-01

    In patients with haemophilia (PWH) (from Greek "blood love"), the long-term consequences of repeated haemarthrosis include cartilage damage and irreversible arthropathy, resulting in severe impairments in locomotion. Quantifying the extent of joint damage is therefore important in order to prevent disease progression and compare the efficacy of treatment strategies. Musculoskeletal impairments in PWH may stem from structural and functional abnormalities, which have traditionally been evaluated radiologically or clinically. However, these examinations are performed in a supine position (i.e., non-weight-bearing condition). We therefore suggest three-dimensional gait analysis (3DGA) as an innovative approach designed to focus on the functional component of the joint during the act of walking. This is of the utmost importance, as pain induced by weight-bearing activities influences the functional performance of the arthropathic joints significantly. This review endeavors to improve our knowledge of the biomechanical consequences of multiple arthropathies on gait pattern in adult patients with haemophilia using 3DGA. In PWH with arthropathy, the more the joint function was altered, the more the metabolic energy was consumed. 3DGA analysis could highlight the effect of an orthopedic disorder in PWH during walking. Indeed, mechanical and metabolic impairments were correlated to the progressive loss of active mobility into the joints.

  15. Algorithmic handwriting analysis of Judah's military correspondence sheds light on composition of biblical texts.

    PubMed

    Faigenbaum-Golovin, Shira; Shaus, Arie; Sober, Barak; Levin, David; Na'aman, Nadav; Sass, Benjamin; Turkel, Eli; Piasetzky, Eli; Finkelstein, Israel

    2016-04-26

    The relationship between the expansion of literacy in Judah and composition of biblical texts has attracted scholarly attention for over a century. Information on this issue can be deduced from Hebrew inscriptions from the final phase of the first Temple period. We report our investigation of 16 inscriptions from the Judahite desert fortress of Arad, dated ca 600 BCE-the eve of Nebuchadnezzar's destruction of Jerusalem. The inquiry is based on new methods for image processing and document analysis, as well as machine learning algorithms. These techniques enable identification of the minimal number of authors in a given group of inscriptions. Our algorithmic analysis, complemented by the textual information, reveals a minimum of six authors within the examined inscriptions. The results indicate that in this remote fort literacy had spread throughout the military hierarchy, down to the quartermaster and probably even below that rank. This implies that an educational infrastructure that could support the composition of literary texts in Judah already existed before the destruction of the first Temple. A similar level of literacy in this area is attested again only 400 y later, ca 200 BCE.

  16. Algorithmic handwriting analysis of Judah’s military correspondence sheds light on composition of biblical texts

    PubMed Central

    Faigenbaum-Golovin, Shira; Shaus, Arie; Sober, Barak; Levin, David; Na’aman, Nadav; Sass, Benjamin; Turkel, Eli; Piasetzky, Eli; Finkelstein, Israel

    2016-01-01

    The relationship between the expansion of literacy in Judah and composition of biblical texts has attracted scholarly attention for over a century. Information on this issue can be deduced from Hebrew inscriptions from the final phase of the first Temple period. We report our investigation of 16 inscriptions from the Judahite desert fortress of Arad, dated ca. 600 BCE—the eve of Nebuchadnezzar’s destruction of Jerusalem. The inquiry is based on new methods for image processing and document analysis, as well as machine learning algorithms. These techniques enable identification of the minimal number of authors in a given group of inscriptions. Our algorithmic analysis, complemented by the textual information, reveals a minimum of six authors within the examined inscriptions. The results indicate that in this remote fort literacy had spread throughout the military hierarchy, down to the quartermaster and probably even below that rank. This implies that an educational infrastructure that could support the composition of literary texts in Judah already existed before the destruction of the first Temple. A similar level of literacy in this area is attested again only 400 y later, ca. 200 BCE. PMID:27071103

  17. Shedding light on the organic yield debate: a meta-analysis

    NASA Astrophysics Data System (ADS)

    Seufert, V.; Ramankutty, N.

    2011-12-01

    By 2030 agriculture needs to produce food for approximately 8.5 billion people. It is expected that this will need a 50% increase in food production compared to 2000. However, already today agriculture occupies more than 1/3 of the productive land area and is a significant contributor to global environmental problems. Organic agriculture is often proposed as a solution to the challenge of producing sufficient food in a sustainable way. However, critics of organic agriculture argue that it cannot produce sufficient food to satisfy human needs and that it is less environmentally friendly than conventional agriculture as it reduces crop yields and thus necessitates considerably more land to grow food. We examined these different claims about organic yields by means of a consistent meta-analysis of local studies comparing organic yields to conventional yields. In total 66 studies representing 62 study sites and reporting 316 organic-to-conventional yield comparisons on 34 different crop species were included in the meta-analysis. On average, across all studies, organic yields were 25% lower than conventional yields. The yield difference varied, however, depending on the characteristics of the systems compared and the characteristics of the study site. When using best organic management practices, organic yields were closer to, i.e. only 13% lower than, conventional yields. Organic agriculture also performed better under certain environmental and biological conditions - organic leguminous or perennial crops on non-alkaline soils and in rainfed conditions achieved yields that were only 6% lower than conventional yields. On the other hand, when only the most comparable conventional and organic systems were considered, receiving similar quantities of fertilizer, the yield difference was as high as 43%. Most of the studies included in the meta-analysis came from developed countries, temperate latitudes and favourable agroecological conditions. The large variation in the

  18. Analysis of the African coelacanth genome sheds light on tetrapod evolution

    PubMed Central

    Amemiya, Chris T.; Alföldi, Jessica; Lee, Alison P.; Fan, Shaohua; Philippe, Hervé; MacCallum, Iain; Braasch, Ingo; Manousaki, Tereza; Schneider, Igor; Rohner, Nicolas; Organ, Chris; Chalopin, Domitille; Smith, Jeramiah J.; Robinson, Mark; Dorrington, Rosemary A.; Gerdol, Marco; Aken, Bronwen; Biscotti, Maria Assunta; Barucca, Marco; Baurain, Denis; Berlin, Aaron M.; Blatch, Gregory L.; Buonocore, Francesco; Burmester, Thorsten; Campbell, Michael S.; Canapa, Adriana; Cannon, John P.; Christoffels, Alan; De Moro, Gianluca; Edkins, Adrienne L.; Fan, Lin; Fausto, Anna Maria; Feiner, Nathalie; Forconi, Mariko; Gamieldien, Junaid; Gnerre, Sante; Gnirke, Andreas; Goldstone, Jared V.; Haerty, Wilfried; Hahn, Mark E.; Hesse, Uljana; Hoffmann, Steve; Johnson, Jeremy; Karchner, Sibel I.; Kuraku, Shigehiro; Lara, Marcia; Levin, Joshua Z.; Litman, Gary W.; Mauceli, Evan; Miyake, Tsutomu; Mueller, M. Gail; Nelson, David R.; Nitsche, Anne; Olmo, Ettore; Ota, Tatsuya; Pallavicini, Alberto; Panji, Sumir; Picone, Barbara; Ponting, Chris P.; Prohaska, Sonja J.; Przybylski, Dariusz; Saha, Nil Ratan; Ravi, Vydianathan; Ribeiro, Filipe J.; Sauka-Spengler, Tatjana; Scapigliati, Giuseppe; Searle, Stephen M. J.; Sharpe, Ted; Simakov, Oleg; Stadler, Peter F.; Stegeman, John J.; Sumiyama, Kenta; Tabbaa, Diana; Tafer, Hakim; Turner-Maier, Jason; van Heusden, Peter; White, Simon; Williams, Louise; Yandell, Mark; Brinkmann, Henner; Volff, Jean-Nicolas; Tabin, Clifford J.; Shubin, Neil; Schartl, Manfred; Jaffe, David; Postlethwait, John H.; Venkatesh, Byrappa; Di Palma, Federica; Lander, Eric S.; Meyer, Axel; Lindblad-Toh, Kerstin

    2013-01-01

    It was a zoological sensation when a living specimen of the coelacanth was first discovered in 1938, as this lineage of lobe-finned fish was thought to have gone extinct 70 million years ago. The modern coelacanth looks remarkably similar to many of its ancient relatives, and its evolutionary proximity to our own fish ancestors provides a glimpse of the fish that first walked on land. Here we report the genome sequence of the African coelacanth, Latimeria chalumnae. Through a phylogenomic analysis, we conclude that the lungfish, and not the coelacanth, is the closest living relative of tetrapods. Coelacanth protein-coding genes are significantly more slowly evolving than those of tetrapods, unlike other genomic features . Analyses of changes in genes and regulatory elements during the vertebrate adaptation to land highlight genes involved in immunity, nitrogen excretion and the development of fins, tail, ear, eye, brain, and olfaction. Functional assays of enhancers involved in the fin-to-limb transition and in the emergence of extra-embryonic tissues demonstrate the importance of the coelacanth genome as a blueprint for understanding tetrapod evolution. PMID:23598338

  19. Premature terminator analysis sheds light on a hidden world of bacterial transcriptional attenuation

    PubMed Central

    2010-01-01

    Background Bacterial transcription attenuation occurs through a variety of cis-regulatory elements that control gene expression in response to a wide range of signals. The signal-sensing structures in attenuators are so diverse and rapidly evolving that only a small fraction have been properly annotated and characterized to date. Here we apply a broad-spectrum detection tool in order to achieve a more complete view of the transcriptional attenuation complement of key bacterial species. Results Our protocol seeks gene families with an unusual frequency of 5' terminators found across multiple species. Many of the detected attenuators are part of annotated elements, such as riboswitches or T-boxes, which often operate through transcriptional attenuation. However, a significant fraction of candidates were not previously characterized in spite of their unmistakable footprint. We further characterized some of these new elements using sequence and secondary structure analysis. We also present elements that may control the expression of several non-homologous genes, suggesting co-transcription and response to common signals. An important class of such elements, which we called mobile attenuators, is provided by 3' terminators of insertion sequences or prophages that may be exapted as 5' regulators when inserted directly upstream of a cellular gene. Conclusions We show here that attenuators involve a complex landscape of signal-detection structures spanning the entire bacterial domain. We discuss possible scenarios through which these diverse 5' regulatory structures may arise or evolve. PMID:20920266

  20. Premature terminator analysis sheds light on a hidden world of bacterial transcriptional attenuation.

    PubMed

    Naville, Magali; Gautheret, Daniel

    2010-01-01

    Bacterial transcription attenuation occurs through a variety of cis-regulatory elements that control gene expression in response to a wide range of signals. The signal-sensing structures in attenuators are so diverse and rapidly evolving that only a small fraction have been properly annotated and characterized to date. Here we apply a broad-spectrum detection tool in order to achieve a more complete view of the transcriptional attenuation complement of key bacterial species. Our protocol seeks gene families with an unusual frequency of 5' terminators found across multiple species. Many of the detected attenuators are part of annotated elements, such as riboswitches or T-boxes, which often operate through transcriptional attenuation. However, a significant fraction of candidates were not previously characterized in spite of their unmistakable footprint. We further characterized some of these new elements using sequence and secondary structure analysis. We also present elements that may control the expression of several non-homologous genes, suggesting co-transcription and response to common signals. An important class of such elements, which we called mobile attenuators, is provided by 3' terminators of insertion sequences or prophages that may be exapted as 5' regulators when inserted directly upstream of a cellular gene. We show here that attenuators involve a complex landscape of signal-detection structures spanning the entire bacterial domain. We discuss possible scenarios through which these diverse 5' regulatory structures may arise or evolve.

  1. Integrated Post-GWAS Analysis Sheds New Light on the Disease Mechanisms of Schizophrenia.

    PubMed

    Lin, Jhih-Rong; Cai, Ying; Zhang, Quanwei; Zhang, Wen; Nogales-Cadenas, Rubén; Zhang, Zhengdong D

    2016-12-01

    Schizophrenia is a severe mental disorder with a large genetic component. Recent genome-wide association studies (GWAS) have identified many schizophrenia-associated common variants. For most of the reported associations, however, the underlying biological mechanisms are not clear. The critical first step for their elucidation is to identify the most likely disease genes as the source of the association signals. Here, we describe a general computational framework of post-GWAS analysis for complex disease gene prioritization. We identify 132 putative schizophrenia risk genes in 76 risk regions spanning 120 schizophrenia-associated common variants, 78 of which have not been recognized as schizophrenia disease genes by previous GWAS. Even more significantly, 29 of them are outside the risk regions, likely under regulation of transcriptional regulatory elements contained therein. These putative schizophrenia risk genes are transcriptionally active in both brain and the immune system, and highly enriched among cellular pathways, consistent with leading pathophysiological hypotheses about the pathogenesis of schizophrenia. With their involvement in distinct biological processes, these putative schizophrenia risk genes, with different association strengths, show distinctive temporal expression patterns, and play specific biological roles during brain development. Copyright © 2016 by the Genetics Society of America.

  2. 2. Light tower, keeper's house and shed, view south southwest, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    2. Light tower, keeper's house and shed, view south southwest, northwest and northeast sides of tower, east and north sides of keeper's house and shed - Whitehead Light Station, Whitehead Island, East northeast of Tenants Harbor, Spruce Head, Knox County, ME

  3. Shedding new light on genetic dark matter

    PubMed Central

    2010-01-01

    Discoveries from genome-wide association studies have contributed to our knowledge of the genetic etiology of many complex diseases. However, these account for only a small fraction of each disease's heritability. Here, we comment on approaches currently available to uncover more of the genetic 'dark matter,' including an approach introduced recently by Naukkarinen and colleagues. These authors propose a method for distinguishing between gene expression driven by genetic variation and that driven by non-genetic factors. This dichotomy allows investigators to focus statistical tests and further molecular analyses on a smaller set of genes, thereby discovering new genetic variation affecting risk for disease. We need more methods like this one if we are to shed a powerful light on dark matter. By enhancing our understanding of molecular genetic etiology, such methods will help us to understand disease processes better and will advance the promise of personalized medicine. PMID:21067556

  4. Supercomputing Sheds Light on the Dark Universe

    SciTech Connect

    Salman Habib

    2012-11-15

    At Argonne National Laboratory, scientists are using supercomputers to shed light on one of the great mysteries in science today, the Dark Universe. With Mira, a petascale supercomputer at the Argonne Leadership Computing Facility, a team led by physicists Salman Habib and Katrin Heitmann will run the largest, most complex simulation of the universe ever attempted. By contrasting the results from Mira with state-of-the-art telescope surveys, the scientists hope to gain new insights into the distribution of matter in the universe, advancing future investigations of dark energy and dark matter into a new realm. The team's research was named a finalist for the 2012 Gordon Bell Prize, an award recognizing outstanding achievement in high-performance computing.

  5. Structural and Functional Analysis of STING Sheds New Light on Cyclic di-GMP Mediated Immune Signaling Mechanism

    PubMed Central

    Ouyang, Songying; Song, Xianqiang; Wang, Yaya; Ru, Heng; Shaw, Neil; Jiang, Yan; Niu, Fengfeng; Zhu, Yanping; Qiu, Weicheng; Parvatiyar, Kislay; Li, Yang; Zhang, Rongguang; Cheng, Genhong; Liu, Zhi-Jie

    2012-01-01

    SUMMARY STING is an essential signaling molecule for DNA and cyclic di-GMP (c-di-GMP)-mediated type I interferon (IFN) production via TANK-binding kinase 1 (TBK1) and Interferon regulatory factor 3 (IRF3) pathway. It contains an N-terminal transmembrane region and a cytosolic C-terminal domain (CTD). Here, we describe crystal structures of STING CTD alone and complexed with c-di-GMP in a unique binding mode. The strictly conserved AA153-173 region was shown to be cytosolic and participated in dimerization via hydrophobic interactions. The STING CTD functions as a dimer and the dimerization was independent of post-translational modifications. Binding of c-di-GMP enhanced interaction of a shorter construct of STING CTD (residues 139-344) with TBK1. This suggests an extra TBK1 binding site, other than Ser358. This study provides a glimpse into the unique architecture of STING and sheds new light on the mechanism of c-di-GMP-mediated TBK1 signaling. PMID:22579474

  6. Comprehensive analysis of the polygalacturonase and pectin methylesterase genes in Brassica rapa shed light on their different evolutionary patterns

    PubMed Central

    Duan, Weike; Huang, Zhinan; Song, Xiaoming; Liu, Tongkun; Liu, Hailong; Hou, Xilin; Li, Ying

    2016-01-01

    Pectins are fundamental polysaccharides in the plant primary cell wall. Polygalacturonases (PGs) and pectin methylesterases (PMEs), major components of the pectin remodeling and disassembly network, are involved in cell separation processes during many stages of plant development. A comprehensive study of these genes in plants could shed light on the evolution patterns of their structural development. In this study, we conducted whole-genome annotation, molecular evolution and gene expression analyses of PGs and PMEs in Brassica rapa and 8 other plant species. A total of 100 PGs and 110 PMEs were identified in B. rapa; they primarily diverged from 12–18 MYA and PMEs were retained more than PGs. Along with another 305 PGs and 348 PMEs in the 8 species, two different expansion or evolution types were discovered: a new branch of class A PGs appeared after the split of gymnosperms and angiosperms, which led to the rapid expansion of PGs; the pro domain was obtained or lost in the proPMEs through comprehensive analyses among PME genes. In addition, the PGs and PMEs exhibit diverged expression patterns. These findings will lead to novel insight regarding functional divergence and conservation in the gene families and provide more support for molecular evolution analyses. PMID:27112365

  7. 3. Railroad viaduct, keeper's house, light tower and shed, view ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    3. Railroad viaduct, keeper's house, light tower and shed, view west, southeast side of viaduct, southeast and northeast sides of keeper's house, tower and shed - Seguin Island Light Station, Summit of Seguin Island, south of mouth of Kennebec River, Popham Beach, Sagadahoc County, ME

  8. 1. Shed, railroad, keeper's house, light tower and boathouse, view ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    1. Shed, railroad, keeper's house, light tower and boathouse, view southwest, northeast side of shed, keeper's house and tower, east and north sides of boathouse - Seguin Island Light Station, Summit of Seguin Island, south of mouth of Kennebec River, Popham Beach, Sagadahoc County, ME

  9. 2. Shed, railroad, light tower and boathouse, view south southwest, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    2. Shed, railroad, light tower and boathouse, view south southwest, northeast and northwest sides of shed, northeast side of tower, east and north sides of boathouse - Seguin Island Light Station, Summit of Seguin Island, south of mouth of Kennebec River, Popham Beach, Sagadahoc County, ME

  10. 5. Shed, keeper's house, boathouse, light tower and oil house, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    5. Shed, keeper's house, boathouse, light tower and oil house, view southeast, northwest and southwest sides - Goat Island Light Station, Goat Island, next to entrance to Cape Porpoise Harbor, just south of Trott Island, Cape Porpoise, York County, ME

  11. 3. Keeper's house, shed, light tower and bell, view east, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    3. Keeper's house, shed, light tower and bell, view east, northwest and southwest sides - Monhegan Island Light Station, Monhegan Island, ten miles south by ferry from Port Clyde, Monhegan, Lincoln County, ME

  12. Shedding new light on opsin evolution

    PubMed Central

    Porter, Megan L.; Blasic, Joseph R.; Bok, Michael J.; Cameron, Evan G.; Pringle, Thomas; Cronin, Thomas W.; Robinson, Phyllis R.

    2012-01-01

    Opsin proteins are essential molecules in mediating the ability of animals to detect and use light for diverse biological functions. Therefore, understanding the evolutionary history of opsins is key to understanding the evolution of light detection and photoreception in animals. As genomic data have appeared and rapidly expanded in quantity, it has become possible to analyse opsins that functionally and histologically are less well characterized, and thus to examine opsin evolution strictly from a genetic perspective. We have incorporated these new data into a large-scale, genome-based analysis of opsin evolution. We use an extensive phylogeny of currently known opsin sequence diversity as a foundation for examining the evolutionary distributions of key functional features within the opsin clade. This new analysis illustrates the lability of opsin protein-expression patterns, site-specific functionality (i.e. counterion position) and G-protein binding interactions. Further, it demonstrates the limitations of current model organisms, and highlights the need for further characterization of many of the opsin sequence groups with unknown function. PMID:22012981

  13. Shedding new light on opsin evolution.

    PubMed

    Porter, Megan L; Blasic, Joseph R; Bok, Michael J; Cameron, Evan G; Pringle, Thomas; Cronin, Thomas W; Robinson, Phyllis R

    2012-01-07

    Opsin proteins are essential molecules in mediating the ability of animals to detect and use light for diverse biological functions. Therefore, understanding the evolutionary history of opsins is key to understanding the evolution of light detection and photoreception in animals. As genomic data have appeared and rapidly expanded in quantity, it has become possible to analyse opsins that functionally and histologically are less well characterized, and thus to examine opsin evolution strictly from a genetic perspective. We have incorporated these new data into a large-scale, genome-based analysis of opsin evolution. We use an extensive phylogeny of currently known opsin sequence diversity as a foundation for examining the evolutionary distributions of key functional features within the opsin clade. This new analysis illustrates the lability of opsin protein-expression patterns, site-specific functionality (i.e. counterion position) and G-protein binding interactions. Further, it demonstrates the limitations of current model organisms, and highlights the need for further characterization of many of the opsin sequence groups with unknown function.

  14. Did the great masters "cheat" using optics? Image analysis of Renaissance masterpieces sheds light on a bold theory

    NASA Astrophysics Data System (ADS)

    Stork, David

    2006-12-01

    In 2001, artist David Hockney and scientist Charles Falco stunned the art world with a controversial theory that, if correct, would profoundly alter our view of the development of image making. They claimed that as early as 1420, Renaissance artists employed optical devices such as concave mirrors to project images onto their canvases, which they then traced or painted over. In this way, the theory attempts to explain the newfound heightened naturalism or "opticality" of painters such as Jan van Eyck, Robert Campin, Hans Holbein the Younger, and many others. This talk will describe the application of rigorous computer image analysis to masterpieces adduced as evidence for this theory. It covers basic geometrical optics of image projection, the analysis of perspective, curved surface reflections, shadows, lighting and color. While there remain some loose ends, such analysis of the paintings, infra-red reflectograms, modern reenactments, internal consistency of the theory, and alternate explanations allows us to judge with high confidence the plausibility of this bold theory. You may never see Renaissance paintings the same way again.

  15. Study Sheds Light on Safety of Driving with Epilepsy

    MedlinePlus

    ... Study Sheds Light on Safety of Driving With Epilepsy Those who had longer seizures during driving tests ... SUNDAY, Dec. 4, 2016 (HealthDay News) -- People with epilepsy who experienced longer seizures during a simulated driving ...

  16. Nanocrystals: Shedding new light on silicon

    NASA Astrophysics Data System (ADS)

    Gösele, Ulrich

    2008-03-01

    Experiments in magnetic fields suggest that defects are responsible for light emission from silicon nanocrystals. However, when these defects are passivated with hydrogen, quantum effects become responsible for the emission.

  17. Shedding Some Light on Fluorescent Bulbs.

    ERIC Educational Resources Information Center

    Guilbert, Nicholas R.

    1996-01-01

    Explores some of the principles behind the working of fluorescent bulbs using a specially prepared fluorescent bulb with the white inner fluorescent coating applied along only half its length. Discusses the spectrum, the bulb plasma, and light production. (JRH)

  18. Shedding Some Light on Fluorescent Bulbs.

    ERIC Educational Resources Information Center

    Guilbert, Nicholas R.

    1996-01-01

    Explores some of the principles behind the working of fluorescent bulbs using a specially prepared fluorescent bulb with the white inner fluorescent coating applied along only half its length. Discusses the spectrum, the bulb plasma, and light production. (JRH)

  19. Shedding new light on composite polymerization.

    PubMed

    Caughman, W Frank; Rueggeberg, F A

    2002-01-01

    Life usually gets simpler, but in the case of photocuring dental restorative materials, just the opposite is true. Confusing and contradictory barrages of clinical claims have been made with the ever-growing variety of light-curing sources available today. Often, laboratory research or clinical studies related to these systems are lacking prior to their being introduced to the market, leaving the clinician to become the "testing ground." Manufacturers prefer to market the newest technology available, yet, depending on the type of practice and composite system in use, such "state-of-the-art" devices may offer no advantage. For some clinicians, changing to a "fast cure" composite in combination with a traditional QTH light, instead of purchasing a $4,000 PAC light, may be the only improvement in efficiency needed. However, others may want to spend as little time as possible per procedure and do not mind investing in the newest, yet "unproven" technology. Either way, today's clinician needs to be wary of the many claims made by manufacturers of all light-curing units. It is prudent that the clinician, prior to selecting a device, aggressively ask questions and dig for the truth before "buying into" a particular unit or system philosophy. At stake are the durability of restorations, the satisfaction of patient and the well-earned reputation of the operator.

  20. 1. Shed, keeper's house and light tower, view west northwest, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    1. Shed, keeper's house and light tower, view west northwest, south and east sides - Ram Island Light Station, Ram Island, south of Ocean Point & just north of Fisherman Island, marking south side of Fisherman Island Passage, Ocean Point, Lincoln County, ME

  1. Circadian control sheds light on fungal bioluminescence.

    PubMed

    Oliveira, Anderson G; Stevani, Cassius V; Waldenmaier, Hans E; Viviani, Vadim; Emerson, Jillian M; Loros, Jennifer J; Dunlap, Jay C

    2015-03-30

    Bioluminescence, the creation and emission of light by organisms, affords insight into the lives of organisms doing it. Luminous living things are widespread and access diverse mechanisms to generate and control luminescence [1-5]. Among the least studied bioluminescent organisms are phylogenetically rare fungi-only 71 species, all within the ∼ 9,000 fungi of the temperate and tropical Agaricales order-are reported from among ∼ 100,000 described fungal species [6, 7]. All require oxygen [8] and energy (NADH or NADPH) for bioluminescence and are reported to emit green light (λmax 530 nm) continuously, implying a metabolic function for bioluminescence, perhaps as a byproduct of oxidative metabolism in lignin degradation. Here, however, we report that bioluminescence from the mycelium of Neonothopanus gardneri is controlled by a temperature-compensated circadian clock, the result of cycles in content/activity of the luciferase, reductase, and luciferin that comprise the luminescent system. Because regulation implies an adaptive function for bioluminescence, a controversial question for more than two millennia [8-15], we examined interactions between luminescent fungi and insects [16]. Prosthetic acrylic resin "mushrooms," internally illuminated by a green LED emitting light similar to the bioluminescence, attract staphilinid rove beetles (coleopterans), as well as hemipterans (true bugs), dipterans (flies), and hymenopterans (wasps and ants), at numbers far greater than dark control traps. Thus, circadian control may optimize energy use for when bioluminescence is most visible, attracting insects that can in turn help in spore dispersal, thereby benefitting fungi growing under the forest canopy, where wind flow is greatly reduced.

  2. Circadian Control Sheds Light on Fungal Bioluminescence

    PubMed Central

    Oliveira, Anderson G.; Stevani, Cassius V.; Waldenmaier, Hans E.; Viviani, Vadim; Emerson, Jillian M.; Loros, Jennifer J.; Dunlap, Jay C.

    2015-01-01

    Summary Bioluminescence, the creation and emission of light by organisms, affords insight into the lives of organisms doing it. Luminous living things are widespread and access diverse mechanisms to generate and control luminescence [1-5]. Among the least studied bioluminescent organisms are phylogenetically rare fungi – only 71 species, all within the ~9000 fungi of the temperate and tropical Agaricales Order - are reported from among ~100,000 described fungal species [6,7]. All require oxygen [8] and energy (NADH or NADPH) for bioluminescence, and are reported to emit green light (λmax 530 nm) continuously, implying a metabolic function for bioluminescence, perhaps as a by-product of oxidative metabolism in lignin degradation. Here, however, we report that bioluminescence from the mycelium of Neonothopanus gardneri is controlled by a temperature compensated circadian clock, the result of cycles in content/activity of the luciferase, reductase, and the luciferin that comprise the luminescent system. Because regulation implies an adaptive function for bioluminescence, a controversial question for more than two millenia [8-15], we examined interactions between luminescent fungi and insects [16]. Prosthetic acrylic resin “mushrooms”, internally illuminated by a green LED emitting light similar to the bioluminescence, attract staphilinid rove beetles (coleopterans) as well as hemipterans (true bugs), dipterans (flies), and hymenopterans (wasps and ants) at numbers far greater than dark control traps. Thus, circadian control may optimize energy use for when bioluminescence is most visible, attracting insects that can in turn help in spore dispersal, thereby benefitting fungi growing under the forest canopy where wind flow is greatly reduced. PMID:25802150

  3. Shedding light on daytime flux partitioning

    NASA Astrophysics Data System (ADS)

    Wohlfahrt, Georg

    2017-04-01

    Flux partitioning, that is disaggregating the measured net ecosystem carbon dioxide exchange into the underlying gross primary productivity (GPP) and ecosystem respiration (ER), has become a key component of the FLUXNET processing chain and the resulting products are widely used by experimentalists and modellers alike. Here I review flux partitioning based on light response curve modelling, commonly termed the daytime flux partitioning approach. In particular I tackle the question whether daytime flux partitioning is able to account for the reduction in daytime ER relative to nighttime due to the reduction in leaf mitochondrial respiration in the presence of daylight. To this end I use synthetic data (with realistic noise superimposed) generated (i) by light response curve models upon which a daytime reduction in ER was imposed, (ii) results from a process-oriented soil-vegetation-atmosphere-transfer model, as well as (iii) experimental data from a simple ecosystem, where daytime ER was estimated based on a combination of complementary measurements and a canopy model.

  4. Shedding Lyman Alpha Light on Cosmological Reionization

    NASA Astrophysics Data System (ADS)

    Rhoads, James E.; Malhotra, Sangeeta; Ammons, S. Mark; Dressler, Alan; Gonzalez, Alicia; Finkelstein, Steven; Hibon, Pascale; Jiang, Tianxing; Lee, Janice; Mobasher, Bahram; Monson, Andy; Persson, S. Eric; Probst, Ronald; Swaters, Rob; Tilvi, Vithal S.; Veilleux, Sylvain; Wang, Junxian; Zabludoff, Ann; Zheng, Zhenya

    2015-08-01

    Lyman alpha photons are a powerful tool for studying reionization. They interact strongly with neutral hydrogen, so that neutral intergalactic gas acts to hide Lyman alpha light from our instruments. I will discuss two ongoing narrowband surveys to study the Epoch of Reionization. The Deep And Wide Narrowband (DAWN) survey is a 40 night NOAO survey program to look for Lyman alpha emission at redshift 7.7, using the NEWFIRM camera on the 4m Mayall Telescope at Kitt Peak National Observatory. The First Light And Reionization Experiment (FLARE) is pursuing a corresponding survey at redshift 8.8, using the FourStar camera on the Magellan telescope. Both surveys are motivated by the application of Lyman alpha lines to the study of reionization. Reionization marked the first global impact that gravitationally bound objects (stars and/or black holes) had on the universe around them, and also the last time that most hydrogen atoms did anything noteworthy. I will present results from both the DAWN and FLARE surveys, which have identified candidate galaxies near redshifts 7.7 and 8.8 in multiple fields.

  5. Shedding New Light on Retinal Protein Photochemistry

    NASA Astrophysics Data System (ADS)

    Wand, Amir; Gdor, Itay; Zhu, Jingyi; Sheves, Mordechai; Ruhman, Sanford

    2013-04-01

    The ultrafast spectroscopic investigation of novel retinal proteins challenges existing notions concerning the course of primary events in these natural photoreceptors. We review two illustrations here. The first demonstrates that changes in the initial retinal configuration can alter the duration of photochemistry by nearly an order of magnitude in Anabaena sensory rhodopsin, making it as rapid as the ballistic photoisomerization in visual pigments. This prompted a reinvestigation of the much studied bacteriorhodopsin, leading to a similar trend as well, contrary to earlier reports. The second involves the study of xanthorhodopsin, an archaeal proton pump that includes an attached light-harvesting carotenoid. Pump-probe experiments demonstrate the efficient transfer of energy from carotenoid to retinal, providing a first glimpse at a cooperative multichromophore function, which is probably characteristic of many other proteins as well. Finally, we discuss measures required to advance our knowledge from kinetics to mode-specific dynamics concerning this expanding family of biological photoreceptors.

  6. Shedding new light on viral photosynthesis.

    PubMed

    Puxty, Richard J; Millard, Andrew D; Evans, David J; Scanlan, David J

    2015-10-01

    Viruses infecting the environmentally important marine cyanobacteria Prochlorococcus and Synechococcus encode 'auxiliary metabolic genes' (AMGs) involved in the light and dark reactions of photosynthesis. Here, we discuss progress on the inventory of such AMGs in the ever-increasing number of viral genome sequences as well as in metagenomic datasets. We contextualise these gene acquisitions with reference to a hypothesised fitness gain to the phage. We also report new evidence with regard to the sequence and predicted structural properties of viral petE genes encoding the soluble electron carrier plastocyanin. Viral copies of PetE exhibit extensive modifications to the N-terminal signal peptide and possess several novel residues in a region responsible for interaction with redox partners. We also highlight potential knowledge gaps in this field and discuss future opportunities to discover novel phage-host interactions involved in the photosynthetic process.

  7. Shedding new light on retinal protein photochemistry.

    PubMed

    Wand, Amir; Gdor, Itay; Zhu, Jingyi; Sheves, Mordechai; Ruhman, Sanford

    2013-01-01

    The ultrafast spectroscopic investigation of novel retinal proteins challenges existing notions concerning the course of primary events in these natural photoreceptors. We review two illustrations here. The first demonstrates that changes in the initial retinal configuration can alter the duration of photochemistry by nearly an order of magnitude in Anabaena sensory rhodopsin, making it as rapid as the ballistic photoisomerization in visual pigments. This prompted a reinvestigation of the much studied bacteriorhodopsin, leading to a similar trend as well, contrary to earlier reports. The second involves the study of xanthorhodopsin, an archaeal proton pump that includes an attached light-harvesting carotenoid. Pump-probe experiments demonstrate the efficient transfer of energy from carotenoid to retinal, providing a first glimpse at a cooperative multichromophore function, which is probably characteristic of many other proteins as well. Finally, we discuss measures required to advance our knowledge from kinetics to mode-specific dynamics concerning this expanding family of biological photoreceptors.

  8. Shedding New Light on Early Caries Detection

    PubMed Central

    Choo-Smith, Lin-P'ing; Dong, Cecilia C.S.; Cleghorn, Blaine; Hewko, Mark

    2009-01-01

    Dental caries continues to be a common chronic disease among various population groups. Patient care can be improved with detection at the earliest stage. However, current techniques do not have sufficient sensitivity and specificity. We discuss 2 new methods — optical coherence tomography (OCT) and polarized Raman spectroscopy (PRS) — that are potentially useful for early caries detection and monitoring. OCT produces morphologic depth images of near-surface tissue structures with a resolution that is an order of magnitude greater than ultrasound imaging. Based on measurement of back-scattered near infrared light, OCT shows that sound enamel causes high-intensity back-scattering at the tooth surface that decreases rapidly with depth. In contrast, incipient lesions cause higher light back-scattering at the tooth surface and subsurface scattering indicative of porosity caused by demineralization. The scatter region within the enamel correlates well with the classical triangular shape of subsurface lesions observed in histologic sections. OCT imaging not only allows identification of incipient lesions, but also provides information on surface integrity and lesion depth. PRS furnishes biochemical information about the tooth's composition, mineral content and crystallinity. The depolarization ratio derived from the dominant phosphate peak of hydroxyapatite in sound teeth is consistently lower than that from incipient caries. This difference is attributed to the change in enamel crystallite morphology or orientation that occurs with acid demineralization. Thus, PRS can be used to confirm suspect lesions determined by OCT and rule out false-positive signals from non-carious anomalies. The combination of OCT and PRS provides a new detection method with high sensitivity and specificity that will improve caries management and patient care. Future studies are aimed at developing intraoral probes to validate the findings in vivo. PMID:19126361

  9. Shedding light on biology of bacterial cells

    PubMed Central

    2016-01-01

    To understand basic principles of living organisms one has to know many different properties of all cellular components, their mutual interactions but also their amounts and spatial organization. Live-cell imaging is one possible approach to obtain such data. To get multiple snapshots of a cellular process, the imaging approach has to be gentle enough to not disrupt basic functions of the cell but also have high temporal and spatial resolution to detect and describe the changes. Light microscopy has become a method of choice and since its early development over 300 years ago revolutionized our understanding of living organisms. As most cellular components are indistinguishable from the rest of the cellular contents, the second revolution came from a discovery of specific labelling techniques, such as fusions to fluorescent proteins that allowed specific tracking of a component of interest. Currently, several different tags can be tracked independently and this allows us to simultaneously monitor the dynamics of several cellular components and from the correlation of their dynamics to infer their respective functions. It is, therefore, not surprising that live-cell fluorescence microscopy significantly advanced our understanding of basic cellular processes. Current cameras are fast enough to detect changes with millisecond time resolution and are sensitive enough to detect even a few photons per pixel. Together with constant improvement of properties of fluorescent tags, it is now possible to track single molecules in living cells over an extended period of time with a great temporal resolution. The parallel development of new illumination and detection techniques allowed breaking the diffraction barrier and thus further pushed the resolution limit of light microscopy. In this review, we would like to cover recent advances in live-cell imaging technology relevant to bacterial cells and provide a few examples of research that has been possible due to imaging. This

  10. Shedding light on biology of bacterial cells.

    PubMed

    Schneider, Johannes P; Basler, Marek

    2016-11-05

    To understand basic principles of living organisms one has to know many different properties of all cellular components, their mutual interactions but also their amounts and spatial organization. Live-cell imaging is one possible approach to obtain such data. To get multiple snapshots of a cellular process, the imaging approach has to be gentle enough to not disrupt basic functions of the cell but also have high temporal and spatial resolution to detect and describe the changes. Light microscopy has become a method of choice and since its early development over 300 years ago revolutionized our understanding of living organisms. As most cellular components are indistinguishable from the rest of the cellular contents, the second revolution came from a discovery of specific labelling techniques, such as fusions to fluorescent proteins that allowed specific tracking of a component of interest. Currently, several different tags can be tracked independently and this allows us to simultaneously monitor the dynamics of several cellular components and from the correlation of their dynamics to infer their respective functions. It is, therefore, not surprising that live-cell fluorescence microscopy significantly advanced our understanding of basic cellular processes. Current cameras are fast enough to detect changes with millisecond time resolution and are sensitive enough to detect even a few photons per pixel. Together with constant improvement of properties of fluorescent tags, it is now possible to track single molecules in living cells over an extended period of time with a great temporal resolution. The parallel development of new illumination and detection techniques allowed breaking the diffraction barrier and thus further pushed the resolution limit of light microscopy. In this review, we would like to cover recent advances in live-cell imaging technology relevant to bacterial cells and provide a few examples of research that has been possible due to imaging

  11. Shedding Light on the Cosmic Skeleton

    NASA Astrophysics Data System (ADS)

    2009-11-01

    Astronomers have tracked down a gigantic, previously unknown assembly of galaxies located almost seven billion light-years away from us. The discovery, made possible by combining two of the most powerful ground-based telescopes in the world, is the first observation of such a prominent galaxy structure in the distant Universe, providing further insight into the cosmic web and how it formed. "Matter is not distributed uniformly in the Universe," says Masayuki Tanaka from ESO, who led the new study. "In our cosmic vicinity, stars form in galaxies and galaxies usually form groups and clusters of galaxies. The most widely accepted cosmological theories predict that matter also clumps on a larger scale in the so-called 'cosmic web', in which galaxies, embedded in filaments stretching between voids, create a gigantic wispy structure." These filaments are millions of light years long and constitute the skeleton of the Universe: galaxies gather around them, and immense galaxy clusters form at their intersections, lurking like giant spiders waiting for more matter to digest. Scientists are struggling to determine how they swirl into existence. Although massive filamentary structures have been often observed at relatively small distances from us, solid proof of their existence in the more distant Universe has been lacking until now. The team led by Tanaka discovered a large structure around a distant cluster of galaxies in images they obtained earlier. They have now used two major ground-based telescopes to study this structure in greater detail, measuring the distances from Earth of over 150 galaxies, and, hence, obtaining a three-dimensional view of the structure. The spectroscopic observations were performed using the VIMOS instrument on ESO's Very Large Telescope and FOCAS on the Subaru Telescope, operated by the National Astronomical Observatory of Japan. Thanks to these and other observations, the astronomers were able to make a real demographic study of this structure

  12. Expression analysis in response to drought stress in soybean: Shedding light on the regulation of metabolic pathway genes

    PubMed Central

    Guimarães-Dias, Fábia; Neves-Borges, Anna Cristina; Viana, Antonio Americo Barbosa; Mesquita, Rosilene Oliveira; Romano, Eduardo; de Fátima Grossi-de-Sá, Maria; Nepomuceno, Alexandre Lima; Loureiro, Marcelo Ehlers; Alves-Ferreira, Márcio

    2012-01-01

    Metabolomics analysis of wild type Arabidopsis thaliana plants, under control and drought stress conditions revealed several metabolic pathways that are induced under water deficit. The metabolic response to drought stress is also associated with ABA dependent and independent pathways, allowing a better understanding of the molecular mechanisms in this model plant. Through combining an in silico approach and gene expression analysis by quantitative real-time PCR, the present work aims at identifying genes of soybean metabolic pathways potentially associated with water deficit. Digital expression patterns of Arabidopsis genes, which were selected based on the basis of literature reports, were evaluated under drought stress condition by Genevestigator. Genes that showed strong induction under drought stress were selected and used as bait to identify orthologs in the soybean genome. This allowed us to select 354 genes of putative soybean orthologs of 79 Arabidopsis genes belonging to 38 distinct metabolic pathways. The expression pattern of the selected genes was verified in the subtractive libraries available in the GENOSOJA project. Subsequently, 13 genes from different metabolic pathways were selected for validation by qPCR experiments. The expression of six genes was validated in plants undergoing drought stress in both pot-based and hydroponic cultivation systems. The results suggest that the metabolic response to drought stress is conserved in Arabidopsis and soybean plants. PMID:22802708

  13. Comprehensive Phylogenetic Analysis Sheds Light on the Diversity and Origin of the MLO Family of Integral Membrane Proteins

    PubMed Central

    Kusch, Stefan; Pesch, Lina; Panstruga, Ralph

    2016-01-01

    Mildew resistance Locus O (MLO) proteins are polytopic integral membrane proteins that have long been considered as plant-specific and being primarily involved in plant–powdery mildew interactions. However, research in the past decade has revealed that MLO proteins diverged into a family with several clades whose members are associated with different physiological processes. We provide a largely increased dataset of MLO amino acid sequences, comprising nearly all major land plant lineages. Based on this comprehensive dataset, we defined seven phylogenetic clades and reconstructed the likely evolution of the MLO family in embryophytes. We further identified several MLO peptide motifs that are either conserved in all MLO proteins or confined to one or several clades, supporting the notion that clade-specific diversification of MLO functions is associated with particular sequence motifs. In baker’s yeast, some of these motifs are functionally linked to transmembrane (TM) transport of organic molecules and ions. In addition, we attempted to define the evolutionary origin of the MLO family and found that MLO-like proteins with highly diverse membrane topologies are present in green algae, but also in the distinctly related red algae (Rhodophyta), Amoebozoa, and Chromalveolata. Finally, we discovered several instances of putative fusion events between MLO proteins and different kinds of proteins. Such Rosetta stone-type hybrid proteins might be instructive for future analysis of potential MLO functions. Our findings suggest that MLO is an ancient protein that possibly evolved in unicellular photosynthetic eukaryotes, and consolidated in land plants with a conserved topology, comprising seven TM domains and an intrinsically unstructured C-terminus. PMID:26893454

  14. Comprehensive Phylogenetic Analysis Sheds Light on the Diversity and Origin of the MLO Family of Integral Membrane Proteins.

    PubMed

    Kusch, Stefan; Pesch, Lina; Panstruga, Ralph

    2016-03-26

    Mildew resistanceLocusO(MLO) proteins are polytopic integral membrane proteins that have long been considered as plant-specific and being primarily involved in plant-powdery mildew interactions. However, research in the past decade has revealed that MLO proteins diverged into a family with several clades whose members are associated with different physiological processes. We provide a largely increased dataset of MLO amino acid sequences, comprising nearly all major land plant lineages. Based on this comprehensive dataset, we defined seven phylogenetic clades and reconstructed the likely evolution of the MLO family in embryophytes. We further identified several MLO peptide motifs that are either conserved in all MLO proteins or confined to one or several clades, supporting the notion that clade-specific diversification of MLO functions is associated with particular sequence motifs. In baker's yeast, some of these motifs are functionally linked to transmembrane (TM) transport of organic molecules and ions. In addition, we attempted to define the evolutionary origin of the MLO family and found that MLO-like proteins with highly diverse membrane topologies are present in green algae, but also in the distinctly related red algae (Rhodophyta), Amoebozoa, and Chromalveolata. Finally, we discovered several instances of putative fusion events between MLO proteins and different kinds of proteins. Such Rosetta stone-type hybrid proteins might be instructive for future analysis of potential MLO functions. Our findings suggest that MLO is an ancient protein that possibly evolved in unicellular photosynthetic eukaryotes, and consolidated in land plants with a conserved topology, comprising seven TM domains and an intrinsically unstructured C-terminus.

  15. Shedding light on Aspergillus niger volatile exometabolome

    PubMed Central

    Costa, Carina Pedrosa; Gonçalves Silva, Diogo; Rudnitskaya, Alisa; Almeida, Adelaide; Rocha, Sílvia M.

    2016-01-01

    An in-depth exploration of the headspace content of Aspergillus niger cultures was performed upon different growth conditions, using a methodology based on advanced multidimensional gas chromatography. This volatile fraction comprises 428 putatively identified compounds distributed over several chemical families, being the major ones hydrocarbons, alcohols, esters, ketones and aldehydes. These metabolites may be related with different metabolic pathways, such as amino acid metabolism, biosynthesis and metabolism of fatty acids, degradation of aromatic compounds, mono and sesquiterpenoid synthesis and carotenoid cleavage. The A. niger molecular biomarkers pattern was established, comprising the 44 metabolites present in all studied conditions. This pattern was successfully used to distinguish A. niger from other fungi (Candida albicans and Penicillium chrysogenum) with 3 days of growth by using Partial Least Squares-Discriminant Analysis (PLS-DA). In addition, PLS-DA-Variable Importance in Projection was applied to highlight the metabolites playing major roles in fungi distinction; decreasing the initial dataset to only 16 metabolites. The data pre-processing time was substantially reduced, and an improvement of quality-of-fit value was achieved. This study goes a step further on A. niger metabolome construction and A. niger future detection may be proposed based on this molecular biomarkers pattern. PMID:27264696

  16. PHAROS: Shedding Light on the Near-Earth Asteroid Apophis

    NASA Technical Reports Server (NTRS)

    Sharma, Jonathan; Lafleur, Jarret; Barron, Kreston; Townley, Jonathan; Shah, Nilesh; Apa, Jillian

    2007-01-01

    The Pharos mission to asteroid Apophis provides the first major opportunity to enhance orbital state and scientific knowledge of the most threatening Earth-crossing asteroid that has ever been tracked. Pharos aims to accomplish concrete and feasible orbit determination and scientific objectives while achieving balance among mission cost, nsk,and schedule. Similar to its ancient Egyptian namesake, Pharos acts as a beacon shedding light not only on the physical characteristics of Apophis, but also on its state as it travels through the solar system.

  17. Shedding Light on Light Pollution: Reports from GLOBE at Night

    NASA Astrophysics Data System (ADS)

    Walker, Constance E.; Pompea, S. M.; Isbell, D.

    2009-05-01

    The citizen-science program on light pollution, GLOBE at Night, has had rich responses during this year's campaign in March 2009. Reporting on some of the highlights, we will hear success stories and lessons learned from educators, students, science centers and astronomy clubs from around the world. Communities will be featured from several cities, such Norman, Oklahoma, Mishawaka, Indiana, Willimantic, Connecticut, and Waynesville, Ohio, which created mini-campaigns that combined local students with public advocates and representatives from local city and county governments. Connecticut kids collaborated with students in Wales, Canada and Romania on GLOBE at Night, and an extensive campaign was planned with the schools near the observatories of north-central Chile. Groups that have received special training in GLOBE at Night and related activities include the "Astronomy from the Ground Up” network of science and nature centers (fostered by the ASP and the NSF), 146 amateur astronomers who are part of the ASP-NASA Night-Sky Network, and the Association of Science-Technology Centers. Special training was given over forums, telecon-powerpoint presentations and blogs, to fit the needs of the communities. Among the more interesting media efforts for the general public, GLOBE at Night was the topic of the March 6 episode of the IYA2009 "Days of Astronomy" podcast. International organizing efforts for GLOBE at Night have been strong in countries like Argentina, Australia, Austria, Brazil, Canada, Chile, Costa Rica, the Czech Republic, Germany, Hungary, Ireland, Poland, Portugal, Romania, Spain and the United Kingdom, to name a few. We will also discuss how cities, such as Tucson, Arizona, combined efforts on GLOBE at Night with involvement in the World Wildlife Fund's Earth Hour event (www.earthhour.org). Earth Hour encouraged everyone to turn out their lights from 8:30-9:30 p.m. local time on Saturday, March 28, the final night of GLOBE at Night 2009.

  18. Necroptosis in acute kidney injury: a shedding light

    PubMed Central

    Wang, S; Zhang, C; Hu, L; Yang, C

    2016-01-01

    Acute kidney injury (AKI) is a common and severe clinical condition with a heavy healthy burden around the world. In spite of supportive therapies, the mortality associated with AKI remains high. Our limited understanding of the complex cell death mechanism in the process of AKI impedes the development of desirable therapeutics. Necroptosis is a recently identified novel form of cell death contributing to numerable diseases and tissue damages. Increasing evidence has suggested that necroptosis has an important role in the pathogenesis of various types of AKI. Therefore, we present here the signaling pathways and main regulators of necroptosis that are potential candidate for therapeutic strategies. Moreover, we emphasize on the potential role and corresponding mechanisms of necroptosis in AKI based on recent advances, and also discuss the possible therapeutic regimens based on manipulating necroptosis. Taken together, the progress in this field sheds new light into the prevention and management of AKI in clinical practice. PMID:26938298

  19. CFTR Modulators: Shedding Light on Precision Medicine for Cystic Fibrosis

    PubMed Central

    Lopes-Pacheco, Miquéias

    2016-01-01

    Cystic fibrosis (CF) is the most common life-threatening monogenic disease afflicting Caucasian people. It affects the respiratory, gastrointestinal, glandular and reproductive systems. The major cause of morbidity and mortality in CF is the respiratory disorder caused by a vicious cycle of obstruction of the airways, inflammation and infection that leads to epithelial damage, tissue remodeling and end-stage lung disease. Over the past decades, life expectancy of CF patients has increased due to early diagnosis and improved treatments; however, these patients still present limited quality of life. Many attempts have been made to rescue CF transmembrane conductance regulator (CFTR) expression, function and stability, thereby overcoming the molecular basis of CF. Gene and protein variances caused by CFTR mutants lead to different CF phenotypes, which then require different treatments to quell the patients’ debilitating symptoms. In order to seek better approaches to treat CF patients and maximize therapeutic effects, CFTR mutants have been stratified into six groups (although several of these mutations present pleiotropic defects). The research with CFTR modulators (read-through agents, correctors, potentiators, stabilizers and amplifiers) has achieved remarkable progress, and these drugs are translating into pharmaceuticals and personalized treatments for CF patients. This review summarizes the main molecular and clinical features of CF, emphasizes the latest clinical trials using CFTR modulators, sheds light on the molecular mechanisms underlying these new and emerging treatments, and discusses the major breakthroughs and challenges to treating all CF patients. PMID:27656143

  20. Shedding light on photosensitive behaviour in brown planaria (Dugesia Tigrina).

    PubMed

    Davidson, Colin; Prados, Jose; Gibson, Claire L; Young, Andrew M J; Barnes, Darrel; Sherlock, Rachel; Hutchinson, Claire V

    2011-01-01

    The planarian flatworm is one of the simplest animals to develop two eyecups that enable them to detect the presence and direction of light, which they typically avoid. In this study we assessed responses of planaria to different intensities of light. We found that they exhibited a graded, sigmoidal, photonegative response to light intensity. A two-octave increase in luminance (on the upward slope of the sigmoid) corresponded to a 9% increase in the speed planaria travelled to avoid light.

  1. Shedding light on diatom photonics by means of digital holography.

    PubMed

    Di Caprio, Giuseppe; Coppola, Giuseppe; De Stefano, Luca; De Stefano, Mario; Antonucci, Alessandra; Congestri, Roberta; De Tommasi, Edoardo

    2014-05-01

    Diatoms are among the dominant phytoplankters in the world's oceans, and their external silica investments, resembling artificial photonic crystals, are expected to play an active role in light manipulation. Digital holography allowed studying the interaction with light of Coscinodiscus wailesii cell wall reconstructing the light confinement inside the cell cytoplasm, condition that is hardly accessible via standard microscopy. The full characterization of the propagated beam, in terms of quantitative phase and intensity, removed a long-standing ambiguity about the origin of the light confinement. The data were discussed in the light of living cell behavior in response to their environment.

  2. Perovskite solar cells: Shedding light on film crystallization

    NASA Astrophysics Data System (ADS)

    Bakr, Osman M.; Mohammed, Omar F.

    2017-06-01

    A study on the formation of methylammonium lead iodide perovskite films reveals that light illumination influences the crystallization kinetics, therefore affecting the final photovoltaic performance of these materials.

  3. Aquaporins and leaf hydraulics: poplar sheds new light.

    PubMed

    Lopez, David; Venisse, Jean-Stéphane; Fumanal, Boris; Chaumont, François; Guillot, Esther; Daniels, Mark J; Cochard, Hervé; Julien, Jean-Louis; Gousset-Dupont, Aurélie

    2013-12-01

    To help understand leaf hydraulic conductance (Kleaf) modulation under high irradiance, well-watered poplars (Populus trichocarpa Torr. & Gray ex Hook and Populus nigra L.) were studied diurnally at molecular and ecophysiological scales. Transcriptional and translational modulations of plasma membrane intrinsic protein (PIP) aquaporins were evaluated in leaf samples during diurnal time courses. Among the 15 poplar PIP genes, a subset of two PIP1s and seven PIP2s are precociously induced within the first hour of the photoperiod concomitantly with a Kleaf increase. Since expression patterns were cyclic and reproducible over several days, we hypothesized that endogenous signals could be involved in PIP transcriptional regulation. To address this question, plants were submitted to forced darkness during their subjective photoperiod and compared with their control counterparts, which showed that some PIP1s and PIP2s have circadian regulation while others did not. Promoter analysis revealed that a large number of hormone, light, stress response and circadian elements are present. Finally, involvement of aquaporins is supported by the reduction of Kleaf by HgCl2 treatment.

  4. Shedding Light on Thirteen Years of Darkness: Content Analysis of Articles Pertaining to Transgender Issues in Marriage/Couple and Family Therapy Journals

    ERIC Educational Resources Information Center

    Blumer, Markie L. C.; Green, Mary S.; Knowles, Sarah J.; Williams, April

    2012-01-01

    What is the extent to which marriage/couple and family therapy (M/CFT) journals address transgender issues and how many of them say they are inclusive of transgender persons when they are not? To answer these queries, a content analysis was conducted on articles published in M/CFT literature from 1997 through 2009. Of the 10,739 articles examined…

  5. Shedding Light on Thirteen Years of Darkness: Content Analysis of Articles Pertaining to Transgender Issues in Marriage/Couple and Family Therapy Journals

    ERIC Educational Resources Information Center

    Blumer, Markie L. C.; Green, Mary S.; Knowles, Sarah J.; Williams, April

    2012-01-01

    What is the extent to which marriage/couple and family therapy (M/CFT) journals address transgender issues and how many of them say they are inclusive of transgender persons when they are not? To answer these queries, a content analysis was conducted on articles published in M/CFT literature from 1997 through 2009. Of the 10,739 articles examined…

  6. Microparticles: new light shed on the understanding of venous thromboembolism

    PubMed Central

    Zhou, Lin; Qi, Xiao-long; Xu, Ming-xin; Mao, Yu; Liu, Ming-lin; Song, Hao-ming

    2014-01-01

    Microparticles are small membrane fragments shed primarily from blood and endothelial cells during either activation or apoptosis. There is mounting evidence suggesting that microparticles perform a large array of biological functions and contribute to various diseases. Of these disease processes, a significant link has been established between microparticles and venous thromboembolism. Advances in research on the role of microparticles in thrombosis have yielded crucial insights into possible mechanisms, diagnoses and therapeutic targets of venous thromboembolism. In this review, we discuss the definition and properties of microparticles and venous thromboembolism, provide a synopsis of the evidence detailing the contributions of microparticles to venous thromboembolism, and propose potential mechanisms, by which venous thromboembolism occurs. Moreover, we illustrate a possible role of microparticles in cancer-related venous thromboembolism. PMID:25152025

  7. Shedding light on biofilm formation of Halobacterium salinarum R1 by SWATH-LC/MS/MS analysis of planktonic and sessile cells.

    PubMed

    Losensky, Gerald; Jung, Klaus; Urlaub, Henning; Pfeifer, Felicitas; Fröls, Sabrina; Lenz, Christof

    2017-04-01

    Early and mature biofilm formation in the extremely halophilic euryarchaeon Halobacterium salinarum strain R1 was characterized by SWATH-LC/MS/MS. Using a simple surfactant-assisted protein solubilization protocol and one-dimensional ultra-high performance nanoflow chromatography on the front end, 63.2 and 58.6% of the predicted H. salinarum R1 proteome could be detected and quantified, respectively. Analysis of biophysical protein properties, functional analysis and pathway mapping indicated comprehensive characterization of the proteome. Sixty point eight percent of the quantified proteins (or 34.5% of the predicted proteome) exhibited significant abundance changes between planktonic and sessile states, demonstrating that haloarchaeal biofilm formation represents a profound "lifestyle change" on the molecular level. Our results and analysis constitute the first comprehensive study to track molecular changes from planktonic cultures to initial and mature archaeal biofilms on the proteome level. Data are available via ProteomeXchange, identifier PXD003667. Proteins exemplifying different protein expression level profiles were selected, and their corresponding gene transcripts targeted by qRT-PCR to test the feasibility of establishing rapid PCR-based assays for archaeal biofilm formation. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

  8. In-depth analysis of secretome and N-glycosecretome of human hepatocellular carcinoma metastatic cell lines shed light on metastasis correlated proteins

    PubMed Central

    Li, Xianyu; Jiang, Jing; Zhao, Xinyuan; Zhao, Yan; Cao, Qichen; Zhao, Qing; Han, Huanhuan; Wang, Jifeng; Yu, Zixiang; Peng, Bo; Ying, Wantao; Qian, Xiaohong

    2016-01-01

    Cancer cell metastasis is a major cause of cancer fatality. But the underlying molecular mechanisms remain incompletely understood, which results in the lack of efficient diagnosis, therapy and prevention approaches. Here, we report a systematic study on the secretory proteins (secretome) and secretory N-glycoproteins (N-glycosecretome) of four human hepatocellular carcinoma (HCC) cell lines with different metastatic potential, to explore the molecular mechanism of metastasis and supply the clues for effective measurement of diagnosis and therapy. Totally, 6242 unique gene products (GPs) and 1637 unique N-glycosites from 635 GPs were confidently identified. About 4000 GPs on average were quantified in each of the cell lines, 1156 of which show differential expression (p<0.05). Ninety-nine percentage of the significantly altered proteins were secretory proteins and proteins correlated to cell movement were significantly activated with the increasing of metastatic potential of the cell lines. Twenty-three GPs increased both in the secretome and the N-glycosecretome were chosen as candidates and verified by western blot analysis, and 10 of them were chosen for immunohistochemistry (IHC) analysis. The cumulative survival rates of the patients with candidate (FAT1, DKK3) suggested that these proteins might be used as biomarkers for HCC diagnosis. In addition, a comparative analysis with the published core human plasma database (1754 GPs) revealed that there were 182 proteins not presented in the human plasma database but identified by our studies, some of which were selected and verified successfully by western blotting in human plasma. PMID:27014972

  9. Shedding light on thirteen years of darkness: content analysis of articles pertaining to transgender issues in marriage/couple and family therapy journals.

    PubMed

    Blumer, Markie L C; Green, Mary S; Knowles, Sarah J; Williams, April

    2012-06-01

    What is the extent to which marriage/couple and family therapy (M/CFT) journals address transgender issues and how many of them say they are inclusive of transgender persons when they are not? To answer these queries, a content analysis was conducted on articles published in M/CFT literature from 1997 through 2009. Of the 10,739 articles examined in 17 journals, only nine (0.0008%) focused on transgender issues or used gender variance as a variable. Findings support the assertion that transgender issues are ignored and marginalized by M/CFT scholars and researchers alike.

  10. The Enrichment of Histomonas meleagridis and Its Pathogen-Specific Protein Analysis: A First Step to Shed Light on Its Virulence.

    PubMed

    Pham, Anh Dao Nguyen; Mast, Jan; Magez, Stefan; Goddeeris, Bruno Maria; Carpentier, Sebastien C

    2016-09-01

    Since the discovery of Histomonas meleagridis in 1893, the necessity of isolating pure H. meleagridis has been highlighted over the years in the battle against histomonosis. Insights into the molecular characteristics of this protozoon open possibilities to proper treatment. Axenization of H. meleagridis in vitro cultures cocultured with bacteria has been unsuccessful. Numerous unsuccessful attempts at culturing H. meleagridis axenically have reinforced the assumption that the protozoa had an obligate relationship with certain bacteria originating from the host ceca. Within these perspectives, we enriched H. meleagridis cells from a mono-eukaryotic culture copropagated with host cecal bacteria by flow cytometry. The enrichment of histomonads was confirmed through transmission electron microscopy and two-dimensional gel electrophoresis. For the first time several protein spots were successfully identified. The majority of spots were annotated as cytoskeletal proteins. Actin microfilaments are known to be a key player in cell spreading, cell adhesion, phagocytosis, signal transduction, and several other processes. Together with the identification of superoxide dismutase, the information generated from protein analysis of H. meleagridis may serve as a very first step toward understanding its pathogenesis and virulence.

  11. Next-generation transcriptome analysis in transgenic birch overexpressing and suppressing APETALA1 sheds lights in reproduction development and diterpenoid biosynthesis.

    PubMed

    Huang, Haijiao; Chen, Su; Li, Huiyu; Jiang, Jing

    2015-09-01

    Overexpression of BpAP1 could cause early flowering in birch. BpAP1 affected the expression of many flowering-related unigenes and diterpenoid biosynthesis in transgenic birch, and BpPI was a putative target gene of BpAP1. APETALA1 (AP1) is an MADS-box transcription factor that is involved in the flowering process in plants and has been a focus of genetic studies examining flower development. Here, we carried out transcriptome analysis of birch (Betula platyphylla Suk.), including BpAP1 overexpression lines, BpAP1 suppression lines, and non-transgenic line (NT). Compared with NT, we detected 8302 and 7813 differentially expressed unigenes in 35S::BpAP1 and 35S::BpAP1RNAi transgenic lines, respectively. Overexpression and suppression of BpAP1 in birch affected diterpenoid biosynthesis and altered expression of many flowering-related unigenes. Moreover, combining information from the RNA-seq database and the birch genome, we predicted downstream target genes of BpAP1. Among the 166 putative target genes of BpAP1, there was a positive correlation between BpAP1 and BpPI. These results provide references for further examining the relationship between BpAP1 and its target genes, and reveal that BpAP1 functions as a transcription regulator in birch.

  12. Analysis of Arabidopsis with Highly Reduced Levels of Malate and Fumarate Sheds Light on the Role of These Organic Acids as Storage Carbon Molecules1[W

    PubMed Central

    Zell, Martina B.; Fahnenstich, Holger; Maier, Alexandra; Saigo, Mariana; Voznesenskaya, Elena V.; Edwards, Gerald E.; Andreo, Carlos; Schleifenbaum, Frank; Zell, Christiane; Drincovich, María F.; Maurino, Verónica G.

    2010-01-01

    While malate and fumarate participate in a multiplicity of pathways in plant metabolism, the function of these organic acids as carbon stores in C3 plants has not been deeply addressed. Here, Arabidopsis (Arabidopsis thaliana) plants overexpressing a maize (Zea mays) plastidic NADP-malic enzyme (MEm plants) were used to analyze the consequences of sustained low malate and fumarate levels on the physiology of this C3 plant. When grown in short days (sd), MEm plants developed a pale-green phenotype with decreased biomass and increased specific leaf area, with thin leaves having lower photosynthetic performance. These features were absent in plants growing in long days. The analysis of metabolite levels of rosettes from transgenic plants indicated similar disturbances in both sd and long days, with very low levels of malate and fumarate. Determinations of the respiratory quotient by the end of the night indicated a shift from carbohydrates to organic acids as the main substrates for respiration in the wild type, while MEm plants use more reduced compounds, like fatty acids and proteins, to fuel respiration. It is concluded that the alterations observed in sd MEm plants are a consequence of impairment in the supply of carbon skeletons during a long dark period. This carbon starvation phenotype observed at the end of the night demonstrates a physiological role of the C4 acids, which may be a constitutive function in plants. PMID:20107023

  13. In silico analysis sheds light on the structural basis underlying the ribotoxicity of trichothecenes-A tool for supporting the hazard identification process.

    PubMed

    Dellafiora, Luca; Galaverna, Gianni; Dall'Asta, Chiara

    2017-03-15

    Deoxynivalenol is a food borne mycotoxin belonging to the trichothecenes family that may cause severe injuries in human and animals. The inhibition of protein synthesis via the interaction with the ribosome has been identified as a crucial mechanism underlying toxic action. However, it is not still fully understood how and to what extent compounds belonging to trichothecenes family affect human and animal health. In turn, this scenario causes delay in managing the related health risk. Aimed at supporting the hazard identification process, the in silico analysis may be a straightforward tool to investigate the structure-activity relationship of trichothecenes, finding out molecules of possible concern to carry forth in the risk assessment process. In this framework, this work investigated through a molecular modeling approach the structural basis underlying the interaction with the ribosome under a structure-activity relationship perspective. To identify further forms possibly involved in the total trichothecenes-dependent ribotoxic load, the model was challenged with a set of 16 trichothecene modified forms found in plants, fungi and animals, including also compounds never tested before for the capability to bind and inhibit the ribosome. Among them, only the regiospecific glycosylation in the position 3 of the sesquiterpenoid scaffold (i.e. T-2 toxin-3-glucuronide, α and β isomers of T-2 toxin-3-glucoside and deoxynivalenol-3-glucuronide) was found impairing the interaction with the ribosome, while the other compounds tested (i.e. neosolaniol, nivalenol, fusarenon-X, diacetoxyscirpenol, NT-1 toxin, HT-2 toxin, 19- and 20-hydroxy-T-2 toxin, T-2 toxin triol and tetraol, and 15-deacetyl-T-2 toxin), were found potentially able to inhibit the ribosome. Accordingly, they should be included with high priority in further risk assessment studies in order to better characterize the trichothecenes-related hazard.

  14. UVC Sheds New Light on School Mold Problems.

    ERIC Educational Resources Information Center

    Freeman, James

    2002-01-01

    Describes how the LaPorte Independent School District in Texas turned to ultraviolent light devices installed within the HVAC system to combat mold and fungus after conventional approaches failed. Describes the additional benefits of energy savings from the system. (EV)

  15. UVC Sheds New Light on School Mold Problems.

    ERIC Educational Resources Information Center

    Freeman, James

    2002-01-01

    Describes how the LaPorte Independent School District in Texas turned to ultraviolent light devices installed within the HVAC system to combat mold and fungus after conventional approaches failed. Describes the additional benefits of energy savings from the system. (EV)

  16. Shedding light on ethylene metabolism in higher plants

    PubMed Central

    Rodrigues, Maria A.; Bianchetti, Ricardo E.; Freschi, Luciano

    2014-01-01

    Ethylene metabolism in higher plants is regulated by a wide array of endogenous and environmental factors. During most physiological processes, ethylene levels are mainly determined by a strict control of the rate-limiting biosynthetic steps responsible for the production of 1-aminocyclopropane-1-carboxylic acid (ACC) and its subsequent conversion to ethylene. Responsible for these reactions, the key enzymes ACC synthase and ACC oxidase are encoded by multigene families formed by members that can be differentially regulated at the transcription and post-translational levels by specific developmental and environmental signals. Among the wide variety of environmental cues controlling plant ethylene production, light quality, duration, and intensity have consistently been demonstrated to influence the metabolism of this plant hormone in diverse plant tissues, organs, and species. Although still not completely elucidated, the mechanisms underlying the interaction between light signal transduction and ethylene evolution appears to involve a complex network that includes central transcription factors connecting multiple signaling pathways, which can be reciprocally modulated by ethylene itself, other phytohormones, and specific light wavelengths. Accumulating evidence has indicated particular photoreceptors as essential mediators in light-induced signaling cascades affecting ethylene levels. Therefore, this review specifically focuses on discussing the current knowledge of the potential molecular mechanisms implicated in the light-induced responses affecting ethylene metabolism during the regulation of developmental and metabolic plant responses. Besides presenting the state of the art in this research field, some overlooked mechanisms and future directions to elucidate the exact nature of the light–ethylene interplay in higher plants will also be compiled and discussed. PMID:25520728

  17. Shedding light on bioluminescence regulation in Vibrio fischeri.

    PubMed

    Miyashiro, Tim; Ruby, Edward G

    2012-06-01

    The bioluminescence emitted by the marine bacterium Vibrio fischeri is a particularly striking result of individual microbial cells co-ordinating a group behaviour. The genes responsible for light production are principally regulated by the LuxR-LuxI quorum-sensing system. In addition to LuxR-LuxI, numerous other genetic elements and environmental conditions control bioluminescence production. Efforts to mathematically model the LuxR-LuxI system are providing insight into the dynamics of this autoinduction behaviour. The Hawaiian squid Euprymna scolopes forms a natural symbiosis with V. fischeri, and utilizes the symbiont-derived bioluminescence for certain nocturnal behaviours, such as counterillumination. Recent work suggests that the tissue with which V. fischeri associates not only can detect bioluminescence but may also use this light to monitor the V. fischeri population. © 2012 Blackwell Publishing Ltd.

  18. Reflectives: Phosphors and lasers - shedding light on rare earths

    SciTech Connect

    Tonneson, L.C.; Fox, G.J.

    1996-04-01

    The first powder electroluminescent phosphor was introduced in 1936. Today, phosphors, particularly those made of high-purity rare earths, have found their way into a variety of products: industrial, commercial, and consumer, alike. The fluorescent lamp industry which remains the leading market for the use of high-purity rare earths, lit the way for the future of rare earths in the optical, x-ray, and display screen applications. Light combined with rare earth materials is also a successful recipe for reflectivity needed in filtering applications such as optics, lasers, and conductors. This article discusses the applications and markets for phosphors and rare earths.

  19. Metaphors in qualitative research: shedding light or casting shadows?

    PubMed

    Carpenter, Jacque

    2008-06-01

    The use of metaphors in qualitative research provides an opportunity to examine phenomena from a unique and creative perspective. Metaphors can be used to provide structure to the data; to understand a familiar process in a new light; to identify situation-specific interventions; and to evoke emotion. Misuse of metaphors may detract from the intended research message. Mixing metaphors, failing to follow through with metaphors, and using metaphors that do not fit the data can misrepresent the data. The choice to use metaphors should not become a self-serving attempt at creativity that supersedes subject and substance. At their best, metaphors illuminate the meanings of experiences; at their worst, metaphors distort or obscure the essences of them.

  20. Shedding light on neutrino masses with dark forces

    NASA Astrophysics Data System (ADS)

    Batell, Brian; Pospelov, Maxim; Shuve, Brian

    2016-08-01

    Heavy right-handed neutrinos, N , provide the simplest explanation for the origin of light neutrino masses and mixings. If M N is at or below the weak scale, direct experimental discovery of these states is possible at accelerator experiments such as the LHC or new dedicated beam dump experiments; in these experiments, N decays after traversing a macroscopic distance from the collision point. The experimental sensitivity to right-handed neutrinos is significantly enhanced if there is a new "dark" gauge force connecting them to the Standard Model (SM), and detection of N can be the primary discovery mode for the new dark force itself. We take the well-motivated example of a B - L gauge symmetry and analyze the sensitivity to displaced decays of N produced via the new gauge interaction in two experiments: the LHC and the proposed SHiP beam dump experiment. In the most favorable case in which the mediator can be produced on-shell and decays to right handed neutrinos ( pp → X + V B- L → X + N N ), the sensitivity reach is controlled by the square of the B - L gauge coupling. We demonstrate that these experiments could access neutrino parameters responsible for the observed SM neutrino masses and mixings in the most straightforward implementation of the see-saw mechanism.

  1. Shedding light on neutrino masses with dark forces

    DOE PAGES

    Batell, Brian; Pospelov, Maxim; Shuve, Brian

    2016-08-08

    Heavy right-handed neutrinos, N , provide the simplest explanation for the origin of light neutrino masses and mixings. If MN is at or below the weak scale, direct experimental discovery of these states is possible at accelerator experiments such as the LHC or new dedicated beam dump experiments; in these experiments, N decays after traversing a macroscopic distance from the collision point. The experimental sensitivity to right-handed neutrinos is significantly enhanced if there is a new “dark” gauge force connecting them to the Standard Model (SM), and detection of N can be the primary discovery mode for the new darkmore » force itself. We take the well-motivated example of a B – L gauge symmetry and analyze the sensitivity to displaced decays of N produced via the new gauge interaction in two experiments: the LHC and the proposed SHiP beam dump experiment. In the most favorable case in which the mediator can be produced on-shell and decays to right handed neutrinos (pp → X + VB–L → X + N N ), the sensitivity reach is controlled by the square of the B – L gauge coupling. Here, we demonstrate that these experiments could access neutrino parameters responsible for the observed SM neutrino masses and mixings in the most straightforward implementation of the see-saw mechanism.« less

  2. Shedding light on vampires: the phylogeny of vampyrellid amoebae revisited.

    PubMed

    Hess, Sebastian; Sausen, Nicole; Melkonian, Michael

    2012-01-01

    With the advent of molecular phylogenetic techniques the polyphyly of naked filose amoebae has been proven. They are interspersed in several supergroups of eukaryotes and most of them already found their place within the tree of life. Although the 'vampire amoebae' have attracted interest since the middle of the 19th century, the phylogenetic position and even the monophyly of this traditional group are still uncertain. In this study clonal co-cultures of eight algivorous vampyrellid amoebae and the respective food algae were established. Culture material was characterized morphologically and a molecular phylogeny was inferred using SSU rDNA sequence comparisons. We found that the limnetic, algivorous vampyrellid amoebae investigated in this study belong to a major clade within the Endomyxa Cavalier-Smith, 2002 (Cercozoa), grouping together with a few soil-dwelling taxa. They split into two robust clades, one containing species of the genus Vampyrella Cienkowski, 1865, the other containing the genus Leptophrys Hertwig & Lesser, 1874, together with terrestrial members. Supported by morphological data these clades are designated as the two families Vampyrellidae Zopf, 1885, and Leptophryidae fam. nov. Furthermore the order Vampyrellida West, 1901 was revised and now corresponds to the major vampyrellid clade within the Endomyxa, comprising the Vampyrellidae and Leptophryidae as well as several environmental sequences. In the light of the presented phylogenetic analyses morphological and ecological aspects, the feeding strategy and nutritional specialization within the vampyrellid amoebae are discussed.

  3. Shedding light on proteins, nucleic acids, cells, humans and fish

    NASA Technical Reports Server (NTRS)

    Setlow, Richard B.

    2002-01-01

    I was trained as a physicist in graduate school. Hence, when I decided to go into the field of biophysics, it was natural that I concentrated on the effects of light on relatively simple biological systems, such as proteins. The wavelengths absorbed by the amino acid subunits of proteins are in the ultraviolet (UV). The wavelengths that affect the biological activities, the action spectra, also are in the UV, but are not necessarily parallel to the absorption spectra. Understanding these differences led me to investigate the action spectra for affecting nucleic acids, and the effects of UV on viruses and cells. The latter studies led me to the discovery of the important molecular nature of the damages affecting DNA (cyclobutane pyrimidine dimers) and to the discovery of nucleotide excision repair. Individuals with the genetic disease xeroderma pigmentosum (XP) are extraordinarily sensitive to sunlight-induced skin cancer. The finding, by James Cleaver, that their skin cells were defective in DNA repair strongly suggested that DNA damage was a key step in carcinogenesis. Such information was important for estimating the wavelengths in sunlight responsible for human skin cancer and for predicting the effects of ozone depletion on the incidence of non-melanoma skin cancer. It took experiments with backcross hybrid fish to call attention to the probable role of the longer UV wavelengths not absorbed by DNA in the induction of melanoma. These reflections trace the biophysicist's path from molecules to melanoma.

  4. Shedding Light on Vampires: The Phylogeny of Vampyrellid Amoebae Revisited

    PubMed Central

    Hess, Sebastian; Sausen, Nicole; Melkonian, Michael

    2012-01-01

    With the advent of molecular phylogenetic techniques the polyphyly of naked filose amoebae has been proven. They are interspersed in several supergroups of eukaryotes and most of them already found their place within the tree of life. Although the ‘vampire amoebae’ have attracted interest since the middle of the 19th century, the phylogenetic position and even the monophyly of this traditional group are still uncertain. In this study clonal co-cultures of eight algivorous vampyrellid amoebae and the respective food algae were established. Culture material was characterized morphologically and a molecular phylogeny was inferred using SSU rDNA sequence comparisons. We found that the limnetic, algivorous vampyrellid amoebae investigated in this study belong to a major clade within the Endomyxa Cavalier-Smith, 2002 (Cercozoa), grouping together with a few soil-dwelling taxa. They split into two robust clades, one containing species of the genus Vampyrella Cienkowski, 1865, the other containing the genus Leptophrys Hertwig & Lesser, 1874, together with terrestrial members. Supported by morphological data these clades are designated as the two families Vampyrellidae Zopf, 1885, and Leptophryidae fam. nov. Furthermore the order Vampyrellida West, 1901 was revised and now corresponds to the major vampyrellid clade within the Endomyxa, comprising the Vampyrellidae and Leptophryidae as well as several environmental sequences. In the light of the presented phylogenetic analyses morphological and ecological aspects, the feeding strategy and nutritional specialization within the vampyrellid amoebae are discussed. PMID:22355342

  5. Shedding light on proteins, nucleic acids, cells, humans and fish

    NASA Technical Reports Server (NTRS)

    Setlow, Richard B.

    2002-01-01

    I was trained as a physicist in graduate school. Hence, when I decided to go into the field of biophysics, it was natural that I concentrated on the effects of light on relatively simple biological systems, such as proteins. The wavelengths absorbed by the amino acid subunits of proteins are in the ultraviolet (UV). The wavelengths that affect the biological activities, the action spectra, also are in the UV, but are not necessarily parallel to the absorption spectra. Understanding these differences led me to investigate the action spectra for affecting nucleic acids, and the effects of UV on viruses and cells. The latter studies led me to the discovery of the important molecular nature of the damages affecting DNA (cyclobutane pyrimidine dimers) and to the discovery of nucleotide excision repair. Individuals with the genetic disease xeroderma pigmentosum (XP) are extraordinarily sensitive to sunlight-induced skin cancer. The finding, by James Cleaver, that their skin cells were defective in DNA repair strongly suggested that DNA damage was a key step in carcinogenesis. Such information was important for estimating the wavelengths in sunlight responsible for human skin cancer and for predicting the effects of ozone depletion on the incidence of non-melanoma skin cancer. It took experiments with backcross hybrid fish to call attention to the probable role of the longer UV wavelengths not absorbed by DNA in the induction of melanoma. These reflections trace the biophysicist's path from molecules to melanoma.

  6. Shedding light on neutrino masses with dark forces

    SciTech Connect

    Batell, Brian; Pospelov, Maxim; Shuve, Brian

    2016-08-08

    Heavy right-handed neutrinos, N , provide the simplest explanation for the origin of light neutrino masses and mixings. If MN is at or below the weak scale, direct experimental discovery of these states is possible at accelerator experiments such as the LHC or new dedicated beam dump experiments; in these experiments, N decays after traversing a macroscopic distance from the collision point. The experimental sensitivity to right-handed neutrinos is significantly enhanced if there is a new “dark” gauge force connecting them to the Standard Model (SM), and detection of N can be the primary discovery mode for the new dark force itself. We take the well-motivated example of a B – L gauge symmetry and analyze the sensitivity to displaced decays of N produced via the new gauge interaction in two experiments: the LHC and the proposed SHiP beam dump experiment. In the most favorable case in which the mediator can be produced on-shell and decays to right handed neutrinos (pp → X + VB–L → X + N N ), the sensitivity reach is controlled by the square of the B – L gauge coupling. Here, we demonstrate that these experiments could access neutrino parameters responsible for the observed SM neutrino masses and mixings in the most straightforward implementation of the see-saw mechanism.

  7. Examining Booktalks to Shed Light on Authentic Classroom Discussion

    ERIC Educational Resources Information Center

    Hadjioannou, Xenia; Townsend, Jane S.

    2015-01-01

    In this qualitative case study, we examine the texture of talk in the booktalks of a fifth-grade classroom where authentic classroom discussions were common. The discourse analysis of classroom transcripts yielded 13 overlapping move categories describing the talk of the teacher, and nine the talk of the students. A comparison between authentic…

  8. Shedding Synchrotron Light on a Puzzle of Glasses

    ScienceCinema

    Chumakov, Aleksandr [European Synchrotron Radiation Facility, Grenoble, France

    2016-07-12

    Vibrational dynamics of glasses remains a point of controversial discussions. In particular, the density of vibrational states (DOS) reveals an excess of states above the Debye model called "boson peak." Despite the fact that this universal feature for all glasses has been known for more than 35 years, the nature of the boson peak is still not understood. The application of nuclear inelastic scattering via synchrotron radiation perhaps provides a clearer, more consistent picture of the subject. The distinguishing features of nuclear inelastic scattering relative to, e.g., neutron inelastic scattering, are ideal momentum integration and exact scaling of the DOS in absolute units. This allows for reliable comparison to data from other techniques such as Brillouin light scattering. Another strong point is ideal isotope selectivity: the DOS is measured for a single isotope with a specific low-energy nuclear transition. This allows for special "design" of an experiment to study, for instance, the dynamics of only center-of-mass motions. Recently, we have investigated the transformation of the DOS as a function of several key parameters such as temperature, cooling rate, and density. In all cases the transformation of the DOS is sufficiently well described by a transformation of the continuous medium, in particular, by changes of the macroscopic density and the sound velocity. These results suggest a collective sound-like nature of vibrational dynamics in glasses and cast doubts on microscopic models of glass dynamics. Further insight can be obtained in combined studies of glass with nuclear inelastic and inelastic neutron scattering. Applying two techniques, we have measured the energy dependence of the characteristic correlation length of atomic motions. The data do not reveal localization of atomic vibrations at the energy of the boson peak. Once again, the results suggest that special features of glass dynamics are related to extended motions and not to local models.

  9. Shedding Synchrotron Light on a Puzzle of Glasses

    SciTech Connect

    Chumakov, Aleksandr

    2007-12-05

    Vibrational dynamics of glasses remains a point of controversial discussions. In particular, the density of vibrational states (DOS) reveals an excess of states above the Debye model called "boson peak." Despite the fact that this universal feature for all glasses has been known for more than 35 years, the nature of the boson peak is still not understood. The application of nuclear inelastic scattering via synchrotron radiation perhaps provides a clearer, more consistent picture of the subject. The distinguishing features of nuclear inelastic scattering relative to, e.g., neutron inelastic scattering, are ideal momentum integration and exact scaling of the DOS in absolute units. This allows for reliable comparison to data from other techniques such as Brillouin light scattering. Another strong point is ideal isotope selectivity: the DOS is measured for a single isotope with a specific low-energy nuclear transition. This allows for special "design" of an experiment to study, for instance, the dynamics of only center-of-mass motions. Recently, we have investigated the transformation of the DOS as a function of several key parameters such as temperature, cooling rate, and density. In all cases the transformation of the DOS is sufficiently well described by a transformation of the continuous medium, in particular, by changes of the macroscopic density and the sound velocity. These results suggest a collective sound-like nature of vibrational dynamics in glasses and cast doubts on microscopic models of glass dynamics. Further insight can be obtained in combined studies of glass with nuclear inelastic and inelastic neutron scattering. Applying two techniques, we have measured the energy dependence of the characteristic correlation length of atomic motions. The data do not reveal localization of atomic vibrations at the energy of the boson peak. Once again, the results suggest that special features of glass dynamics are related to extended motions and not to local models.

  10. Shedding light into the function of the earliest vertebrate skeleton

    NASA Astrophysics Data System (ADS)

    Martinez-Perez, Carlos; Purnell, Mark; Rayfield, Emily; Donoghue, Philip

    2016-04-01

    Conodonts are an extinct group of jawless vertebrates, the first in our evolutionary lineage to develop a biomineralized skeleton. As such, the conodont skeleton is of great significance because of the insights it provides concerning the biology and function of the primitive vertebrate skeleton. Conodont function has been debated for a century and a half on the basis of its paleocological importance in the Palaezoic ecosystems. However, due to the lack of extanct close representatives and the small size of the conodont element (under a milimiter in length) strongly limited their functional analysis, traditional restricted to analogy. More recently, qualitative approaches have been developed, facilitating tests of element function based on occlusal performance and analysis of microwear and microstructure. In this work we extend these approaches using novel quantitative experimental methods including Synchrotron Radiation X-ray Tomographic Microscopy or Finite Element Analysis to test hypotheses of conodont function. The development of high resolution virtual models of conodont elements, together with biomechanical approaches using Finite Element analysis, informed by occlusal and microwear analyses, provided conclusive support to test hypothesis of structural adaptation within the crown tissue microstructure, showing a close topological co-variation patterns of compressive and tensile stress distribution with different crystallite orientation. In addition, our computational analyses strongly support a tooth-like function for many conodont species. Above all, our study establishes a framework (experimental approach) in which the functional ecology of conodonts can be read from their rich taxonomy and phylogeny, representing an important attempt to understand the role of this abundant and diverse clade in the Phanerozoic marine ecosystems.

  11. New Australian sauropods shed light on Cretaceous dinosaur palaeobiogeography

    PubMed Central

    Poropat, Stephen F.; Mannion, Philip D.; Upchurch, Paul; Hocknull, Scott A.; Kear, Benjamin P.; Kundrát, Martin; Tischler, Travis R.; Sloan, Trish; Sinapius, George H. K.; Elliott, Judy A.; Elliott, David A.

    2016-01-01

    Australian dinosaurs have played a rare but controversial role in the debate surrounding the effect of Gondwanan break-up on Cretaceous dinosaur distribution. Major spatiotemporal gaps in the Gondwanan Cretaceous fossil record, coupled with taxon incompleteness, have hindered research on this effect, especially in Australia. Here we report on two new sauropod specimens from the early Late Cretaceous of Queensland, Australia, that have important implications for Cretaceous dinosaur palaeobiogeography. Savannasaurus elliottorum gen. et sp. nov. comprises one of the most complete Cretaceous sauropod skeletons ever found in Australia, whereas a new specimen of Diamantinasaurus matildae includes the first ever cranial remains of an Australian sauropod. The results of a new phylogenetic analysis, in which both Savannasaurus and Diamantinasaurus are recovered within Titanosauria, were used as the basis for a quantitative palaeobiogeographical analysis of macronarian sauropods. Titanosaurs achieved a worldwide distribution by at least 125 million years ago, suggesting that mid-Cretaceous Australian sauropods represent remnants of clades which were widespread during the Early Cretaceous. These lineages would have entered Australasia via dispersal from South America, presumably across Antarctica. High latitude sauropod dispersal might have been facilitated by Albian–Turonian warming that lifted a palaeoclimatic dispersal barrier between Antarctica and South America. PMID:27763598

  12. Skipper genome sheds light on unique phenotypic traits and phylogeny.

    PubMed

    Cong, Qian; Borek, Dominika; Otwinowski, Zbyszek; Grishin, Nick V

    2015-08-27

    Butterflies and moths are emerging as model organisms in genetics and evolutionary studies. The family Hesperiidae (skippers) was traditionally viewed as a sister to other butterflies based on its moth-like morphology and darting flight habits with fast wing beats. However, DNA studies suggest that the family Papilionidae (swallowtails) may be the sister to other butterflies including skippers. The moth-like features and the controversial position of skippers in Lepidoptera phylogeny make them valuable targets for comparative genomics. We obtained the 310 Mb draft genome of the Clouded Skipper (Lerema accius) from a wild-caught specimen using a cost-effective strategy that overcomes the high (1.6 %) heterozygosity problem. Comparative analysis of Lerema accius and the highly heterozygous genome of Papilio glaucus revealed differences in patterns of SNP distribution, but similarities in functions of genes that are enriched in non-synonymous SNPs. Comparison of Lepidoptera genomes revealed possible molecular bases for unique traits of skippers: a duplication of electron transport chain components could result in efficient energy supply for their rapid flight; a diversified family of predicted cellulases might allow them to feed on cellulose-enriched grasses; an expansion of pheromone-binding proteins and enzymes for pheromone synthesis implies a more efficient mate-recognition system, which compensates for the lack of clear visual cues due to the similarities in wing colors and patterns of many species of skippers. Phylogenetic analysis of several Lepidoptera genomes suggested that the position of Hesperiidae remains uncertain as the tree topology varied depending on the evolutionary model. Completion of the first genome from the family Hesperiidae allowed comparative analyses with other Lepidoptera that revealed potential genetic bases for the unique phenotypic traits of skippers. This work lays the foundation for future experimental studies of skippers and

  13. Shedding Light on Filovirus Infection with High-Content Imaging

    PubMed Central

    Pegoraro, Gianluca; Bavari, Sina; Panchal, Rekha G.

    2012-01-01

    Microscopy has been instrumental in the discovery and characterization of microorganisms. Major advances in high-throughput fluorescence microscopy and automated, high-content image analysis tools are paving the way to the systematic and quantitative study of the molecular properties of cellular systems, both at the population and at the single-cell level. High-Content Imaging (HCI) has been used to characterize host-virus interactions in genome-wide reverse genetic screens and to identify novel cellular factors implicated in the binding, entry, replication and egress of several pathogenic viruses. Here we present an overview of the most significant applications of HCI in the context of the cell biology of filovirus infection. HCI assays have been recently implemented to quantitatively study filoviruses in cell culture, employing either infectious viruses in a BSL-4 environment or surrogate genetic systems in a BSL-2 environment. These assays are becoming instrumental for small molecule and siRNA screens aimed at the discovery of both cellular therapeutic targets and of compounds with anti-viral properties. We discuss the current practical constraints limiting the implementation of high-throughput biology in a BSL-4 environment, and propose possible solutions to safely perform high-content, high-throughput filovirus infection assays. Finally, we discuss possible novel applications of HCI in the context of filovirus research with particular emphasis on the identification of possible cellular biomarkers of virus infection. PMID:23012631

  14. Shedding light on filovirus infection with high-content imaging.

    PubMed

    Pegoraro, Gianluca; Bavari, Sina; Panchal, Rekha G

    2012-08-01

    Microscopy has been instrumental in the discovery and characterization of microorganisms. Major advances in high-throughput fluorescence microscopy and automated, high-content image analysis tools are paving the way to the systematic and quantitative study of the molecular properties of cellular systems, both at the population and at the single-cell level. High-Content Imaging (HCI) has been used to characterize host-virus interactions in genome-wide reverse genetic screens and to identify novel cellular factors implicated in the binding, entry, replication and egress of several pathogenic viruses. Here we present an overview of the most significant applications of HCI in the context of the cell biology of filovirus infection. HCI assays have been recently implemented to quantitatively study filoviruses in cell culture, employing either infectious viruses in a BSL-4 environment or surrogate genetic systems in a BSL-2 environment. These assays are becoming instrumental for small molecule and siRNA screens aimed at the discovery of both cellular therapeutic targets and of compounds with anti-viral properties. We discuss the current practical constraints limiting the implementation of high-throughput biology in a BSL-4 environment, and propose possible solutions to safely perform high-content, high-throughput filovirus infection assays. Finally, we discuss possible novel applications of HCI in the context of filovirus research with particular emphasis on the identification of possible cellular biomarkers of virus infection.

  15. Non-Linear Optical Microscopy Sheds Light on Cardiovascular Disease

    PubMed Central

    Caorsi, Valentina; Toepfer, Christopher; Sikkel, Markus B.; Lyon, Alexander R.; MacLeod, Ken; Ferenczi, Mike A.

    2013-01-01

    Many cardiac diseases have been associated with increased fibrosis and changes in the organization of fibrillar collagen. The degree of fibrosis is routinely analyzed with invasive histological and immunohistochemical methods, giving a limited and qualitative understanding of the tissue's morphological adaptation to disease. Our aim is to quantitatively evaluate the increase in fibrosis by three-dimensional imaging of the collagen network in the myocardium using the non-linear optical microscopy techniques Two-Photon Excitation microscopy (TPE) and Second Harmonic signal Generation (SHG). No sample staining is needed because numerous endogenous fluorophores are excited by a two-photon mechanism and highly non-centrosymmetric structures such as collagen generate strong second harmonic signals. We propose for the first time a 3D quantitative analysis to carefully evaluate the increased fibrosis in tissue from a rat model of heart failure post myocardial infarction. We show how to measure changes in fibrosis from the backward SHG (BSHG) alone, as only backward-propagating SHG is accessible for true in vivo applications. A 5-fold increase in collagen I fibrosis is detected in the remote surviving myocardium measured 20 weeks after infarction. The spatial distribution is also shown to change markedly, providing insight into the morphology of disease progression. PMID:23409139

  16. How endogenous plant pararetroviruses shed light on Musa evolution

    PubMed Central

    Duroy, Pierre-Olivier; Perrier, Xavier; Laboureau, Nathalie; Jacquemoud-Collet, Jean-Pierre; Iskra-Caruana, Marie-Line

    2016-01-01

    Background and Aims Banana genomes harbour numerous copies of viral sequences derived from banana streak viruses (BSVs) – dsDNA viruses belonging to the family Caulimoviridae. These viral integrants (eBSVs) are mostly defective, probably as a result of ‘pseudogenization’ driven by host genome evolution. However, some can give rise to infection by releasing a functional viral genome following abiotic stresses. These distinct infective eBSVs correspond to the three main widespread BSV species (BSOLV, BSGFV and BSIMV), fully described within the Musa balbisiana B genomes of the seedy diploid ‘Pisang Klutuk Wulung’ (PKW). Methods We characterize eBSV distribution among a Musa sampling including seedy BB diploids and interspecific hybrids with Musa acuminata exhibiting different levels of ploidy for the B genome (ABB, AAB, AB). We used representative samples of the two areas of sympatry between M. acuminata and M. balbisiana species representing the native area of the most widely cultivated AAB cultivars (in India and in East Asia, ranging from the Philippines to New Guinea). Seventy-seven accessions were characterized using eBSV-related PCR markers and Southern hybridization approaches. We coded both sets of results to create a common dissimilarity matrix with which to interpret eBSV distribution. Key Results We propose a Musa phylogeny driven by the M. balbisiana genome based on a dendrogram resulting from a joint neighbour-joining analysis of the three BSV species, showing for the first time lineages between BB and ABB/AAB hybrids. eBSVs appear to be relevant phylogenetic markers that can illustrate the M. balbisiana phylogeography story. Conclusion The theoretical implications of this study for further elucidation of the historical and geographical process of Musa domestication are numerous. Discovery of banana plants with B genome non-infective for eBSV opens the way to the introduction of new genitors in programmes of genetic banana improvement. PMID

  17. How endogenous plant pararetroviruses shed light on Musa evolution.

    PubMed

    Duroy, Pierre-Olivier; Perrier, Xavier; Laboureau, Nathalie; Jacquemoud-Collet, Jean-Pierre; Iskra-Caruana, Marie-Line

    2016-04-01

    Banana genomes harbour numerous copies of viral sequences derived from banana streak viruses (BSVs) - dsDNA viruses belonging to the family Caulimoviridae.These viral integrants (eBSVs) are mostly defective, probably as a result of 'pseudogenization' driven by host genome evolution. However, some can give rise to infection by releasing a functional viral genome following abiotic stresses. These distinct infective eBSVs correspond to the three main widespread BSV species (BSOLV, BSGFV and BSIMV), fully described within the Musa balbisiana B genomes of the seedy diploid 'Pisang Klutuk Wulung' (PKW). We characterize eBSV distribution among a Musa sampling including seedy BB diploids and interspecific hybrids with Musa acuminate exhibiting different levels of ploidy for the B genome (ABB, AAB, AB). We used representative samples of the two areas of sympatry between M. acuminate and M. balbisiana species representing the native area of the most widely cultivated AAB cultivars (in India and in East Asia, ranging from the Philippines to New Guinea). Seventy-seven accessions were characterized using eBSV-related PCR markers and Southern hybridization approaches. We coded both sets of results to create a common dissimilarity matrix with which to interpret eBSV distribution. We propose a Musa phylogeny driven by the M. balbisiana genome based on a dendrogram resulting from a joint neighbour-joining analysis of the three BSV species, showing for the first time lineages between BB and ABB/AAB hybrids. eBSVs appear to be relevant phylogenetic markers that can illustrate theM. balbisiana phylogeography story. The theoretical implications of this study for further elucidation of the historical and geographical process of Musa domestication are numerous. Discovery of banana plants with B genome non-infective for eBSV opens the way to the introduction of new genitors in programmes of genetic banana improvement. © The Author 2016. Published by Oxford University Press on behalf of

  18. Optical-fiber vortex-shedding flowmeter based on white-light interference

    NASA Astrophysics Data System (ADS)

    Zhao, Dong; Wu, Hongyan; Jia, Bo; Zhi, Ya'nan

    2009-08-01

    Optical-fiber vortex-shedding flowmeter is prospective in its application in the measurement field not only for the merits up from vortex-shedding flowmeter but also those in optical fiber sensor such as flexibility, strong endurance, anti electromagnetic interference capacity and adaptation in the flammable explosive environment. A new optical-fiber vortex-shedding flowmeter based on white-light interference principle is introduced in this paper. Because of only responding on dynamic disturbance, the all-fiber white-light interferometric flowmeter not only holds the high-sensitivity of interferometric sensors, but also overcomes the instability of the traditional interferometric sensors, which tend to being affected from the external environmental condition such as temperature fluctuation. At last, some experimental curves are presented in this paper.

  19. GeoSHED Software for Wetlands Drainage Analysis

    DTIC Science & Technology

    1993-08-01

    WRP Technical Note HY-IA-5. 1 August 1993 GeoSHED Software for Wetlands Drainage Analysis PURPOSE: This technical note documents recent software...developments in automated drainage basin analysis and describes how the tools can be used in wetland enviromnents. BACKGROUND: A detailed knowledge of...streams and sub-basins, calculating drainage areas and other pertinent hydrologic statistics, and writing out this information in a form expected by

  20. In Vivo Imaging Sheds Light on Immune Cell Migration and Function in Cancer

    PubMed Central

    Torcellan, Tommaso; Stolp, Jessica; Chtanova, Tatyana

    2017-01-01

    There is ample evidence for both beneficial and harmful involvement of the immune system in tumor development and spread. Immune cell recruitment to tumors is essential not only for the success of anticancer immune therapies but also for tumor-induced immune suppression. Now that immune-based therapies are playing an increasingly important role in treatment of solid tumors such as metastatic melanomas, precise analysis of the in vivo contributions of different leukocyte subsets in tumor immunity has become an even greater priority. Recently, this goal has been markedly facilitated by the use of intravital microscopy, which has enabled us to visualize the dynamic interactions between cells of the immune system and tumor targets in the context of the tumor microenvironment. For example, intravital imaging techniques have shed new light on T cell infiltration of tumors, the mechanisms of cancer cell killing, and how myeloid cells contribute to tumor tolerance and spread. This mini-review summarizes the recent advances made to our understanding of the roles of innate and adaptive immune cells in cancer based on the use of these in vivo imaging approaches. PMID:28382036

  1. In Vivo Imaging Sheds Light on Immune Cell Migration and Function in Cancer.

    PubMed

    Torcellan, Tommaso; Stolp, Jessica; Chtanova, Tatyana

    2017-01-01

    There is ample evidence for both beneficial and harmful involvement of the immune system in tumor development and spread. Immune cell recruitment to tumors is essential not only for the success of anticancer immune therapies but also for tumor-induced immune suppression. Now that immune-based therapies are playing an increasingly important role in treatment of solid tumors such as metastatic melanomas, precise analysis of the in vivo contributions of different leukocyte subsets in tumor immunity has become an even greater priority. Recently, this goal has been markedly facilitated by the use of intravital microscopy, which has enabled us to visualize the dynamic interactions between cells of the immune system and tumor targets in the context of the tumor microenvironment. For example, intravital imaging techniques have shed new light on T cell infiltration of tumors, the mechanisms of cancer cell killing, and how myeloid cells contribute to tumor tolerance and spread. This mini-review summarizes the recent advances made to our understanding of the roles of innate and adaptive immune cells in cancer based on the use of these in vivo imaging approaches.

  2. A previously undescribed organic residue sheds light on heat treatment in the Middle Stone Age.

    PubMed

    Schmidt, Patrick; Porraz, Guillaume; Bellot-Gurlet, Ludovic; February, Edmund; Ligouis, Bertrand; Paris, Céline; Texier, Pierre-Jean; Parkington, John E; Miller, Christopher E; Nickel, Klaus G; Conard, Nicholas J

    2015-08-01

    South Africa has in recent years gained increasing importance for our understanding of the evolution of 'modern human behaviour' during the Middle Stone Age (MSA). A key element in the suite of behaviours linked with modern humans is heat treatment of materials such as ochre for ritual purposes and stone prior to tool production. Until now, there has been no direct archaeological evidence for the exact procedure used in the heat treatment of silcrete. Through the analysis of heat-treated artefacts from the Howiesons Poort of Diepkloof Rock Shelter, we identified a hitherto unknown type of organic residue - a tempering-residue - that sheds light on the processes used for heat treatment in the MSA. This black film on the silcrete surface is an organic tar that contains microscopic fragments of charcoal and formed as a residue during the direct contact of the artefacts with hot embers of green wood. Our results suggest that heat treatment of silcrete was conducted directly using an open fire, similar to those likely used for cooking. These findings add to the discussion about the complexity of MSA behaviour and appear to contradict previous studies that had suggested that heat treatment of silcrete was a complex (i.e., requiring a large number of steps for its realization) and resource-consuming procedure. Copyright © 2015 Elsevier Ltd. All rights reserved.

  3. Shedding light on light: benefits of anthropogenic illumination to a nocturnally foraging shorebird.

    PubMed

    Dwyer, Ross G; Bearhop, Stuart; Campbell, Hamish A; Bryant, David M

    2013-03-01

    Intertidal habitats provide important feeding areas for migratory shorebirds. Anthropogenic developments along coasts can increase ambient light levels at night across adjacent inter-tidal zones. Here, we report the effects of elevated nocturnal light levels upon the foraging strategy of a migratory shorebird (common redshank Tringa totanus) overwintering on an industrialised estuary in Northern Europe. To monitor behaviour across the full intertidal area, individuals were located by day and night using VHF transmitters, and foraging behaviour was inferred from inbuilt posture sensors. Natural light was scored using moon-phase and cloud cover information and nocturnal artificial light levels were obtained using geo-referenced DMSP/OLS night-time satellite imagery at a 1-km resolution. Under high illumination levels, the commonest and apparently preferred foraging behaviour was sight-based. Conversely, birds feeding in areas with low levels of artificial light had an elevated foraging time and fed by touch, but switched to visual rather than tactile foraging behaviour on bright moonlit nights in the absence of cloud cover. Individuals occupying areas which were illuminated continuously by lighting from a large petrochemical complex invariably exhibited a visually based foraging behaviour independently of lunar phase and cloud cover. We show that ambient light levels affect the timing and distribution of foraging opportunities for redshank. We argue that light emitted from an industrial complex improved nocturnal visibility. This allowed sight-based foraging in place of tactile foraging, implying both a preference for sight-feeding and enhanced night-time foraging opportunities under these conditions. The study highlights the value of integrating remotely sensed data and telemetry techniques to assess the effect of anthropogenic change upon nocturnal behaviour and habitat use. © 2012 The Authors. Journal of Animal Ecology © 2012 British Ecological Society.

  4. Depression, Anxiety, and Stress Symptoms in Menopausal Arab Women: Shedding More Light on a Complex Relationship.

    PubMed

    Bener, A; Saleh, N M; Bakir, A; Bhugra, D

    2016-01-01

    The association between depression, anxiety, and stress among Arab menopause and postmenopausal women have been explored in detailed. The objective of this study was to determine the correlation between depression, anxiety, and stress in menopausal and postmenopausal women and shedding more light on a complex relationship. A cross-sectional descriptive study was used to generate menopause symptoms experienced by Arabian women at the primary health care centers in Qatar. A representative sample of 1468 women aged 45-65 years were approached during July 2012 and May 2014 and 1101 women agreed to participate (75.0%) and responded to the study. Depression, anxiety, and stress were measured using the Depression Anxiety Stress Scales 21. Data on body mass index (BMI), clinical and other parameters were used. Univariate, multivariate, and matrix correlation analysis were performed for statistical analysis. A total of 1101 women agreed to participate after informed consent was obtained. The mean age and standard deviation (SD) of the menopausal age were 49.55 (3.12), the mean and SD of postmenopausal age was 58.08 (3.26) (P < 0.001). There were statistically significant differences between menopausal stages with regards to age, ethnicity, educational status, occupation status, and place of living. Furthermore, there were statistically significant differences between menopausal stages with regards to BMI, systolic and diastolic blood pressure (BP), Vitamin D deficiency, and diseases. Depression and anxiety were more common among postmenopause women. Furthermore, there were no differences between the groups regarding the frequency of certain levels of stress among menopause and postmenopause. The multivariate regression analyses revealed that age in years, diastolic BP, consanguinity, regular exercise were a predictor for depression. Meanwhile, diastolic BP, occupation, and physical activity considered the main risk factors for anxiety. Furthermore, age in years, occupation

  5. Phylogeography sheds light on the central–marginal hypothesis in a Mediterranean narrow endemic plant

    PubMed Central

    Pouget, Marine; Youssef, Sami; Migliore, Jérémy; Juin, Marianick; Médail, Frédéric; Baumel, Alex

    2013-01-01

    ecological gradients. Conclusions This study highlights a case of strong population distinctiveness within a narrow range. Phylogeography sheds light on the historical role of the areas centrally situated in the distribution. The current range size and abundance patterns are not sufficient to predict the organization of genetic diversity. PMID:23962409

  6. Using ordered carbon nanomaterials for shedding light on the mechanism of the cathodic oxygen reduction reaction.

    PubMed

    Ruvinskiy, Pavel S; Bonnefont, Antoine; Pham-Huu, Cuong; Savinova, Elena R

    2011-07-19

    Insufficient understanding of the mechanism of the cathodic oxygen reduction reaction puts constraints on the improvement of the efficiency of polymer electrolyte fuel cells (PEMFCs). We apply ordered catalytic layers based on vertically aligned carbon nanofilaments and combine experimental rotating ring-disk studies with mathematical modeling for shedding light on the mechanism of the oxygen reduction reaction on Pt nanoparticles. Based on the experimental and simulation evidence we propose a dual path ORR mechanism which comprises a "direct 4e(-)" and a "series 2e(-) + 2e(-)" pathway and explains switching between the two. For the first time we show that below 0.8 V the "direct" path may be discarded and the ORR predominantly occurs via H(2)O(2) mediated pathway, while in the potential interval between ca. 0.8 V and the onset of the ORR the "direct" path is dominating.

  7. Recent technological developments in proteomics shed new light on translational research on diabetic microangiopathy.

    PubMed

    Ma, Yuhang; Yang, Cheng; Tao, Yimin; Zhou, Hu; Wang, Yufan

    2013-11-01

    Diabetic microangiopathy has become a heavy social burden worldwide, but at present it is still difficult to predict and diagnose this ailment at an early stage. Various proteomics approaches have been applied to the pathophysiological study of diabetic microangiopathy. Conventional proteomics methods, including gel-based methods, exhibit limited sensitivity and robustness and have typically been used in high- or middle-abundance biomarker discovery. Clinical samples from patients with diabetic microangiopathy, such as biopsy samples, are minute in size. Therefore sample preparation, quantitative labelling and mass spectrometry technologies need to be optimized for low-abundance protein detection, multiple-sample processing and precision quantitation. In this review, we briefly introduce the recent technological developments in proteomics methods and summarize current proteomics-based, translational research on diabetic microangiopathy. Recent technological developments in proteomics tools may shed new light on the pathogenesis of diabetic microangiopathy and biomarkers and therapeutic targets related to this condition.

  8. Unusual modes of reproduction in social insects: shedding light on the evolutionary paradox of sex.

    PubMed

    Wenseleers, Tom; Van Oystaeyen, Annette

    2011-12-01

    The study of alternative genetic systems and mixed modes of reproduction, whereby sexual and asexual reproduction is combined within the same lifecycle, is of fundamental importance as they may shed light on classical evolutionary issues, such as the paradox of sex. Recently, several such cases were discovered in social insects. A closer examination of these systems has revealed many amazing facts, including the mixed use of asexual and sexual reproduction for the production of new queens and workers, males that can clone themselves and the routine use of incest without deleterious genetic consequences. In addition, in several species, remarkable cases of asexually reproducing socially parasitic worker lineages have been discovered. The study of these unusual systems promises to provide insight into many basic evolutionary questions, including the maintenance of sex, the expression of sexual conflict and kin conflict and the evolution of cheating in asexual lineages.

  9. Shedding light on the dark side of identity: Introduction to the special issue.

    PubMed

    Crocetti, Elisabetta; Beyers, Wim; Çok, Figen

    2016-02-01

    The aim of this special issue is to shed light in the dark side of identity formation in adolescence and emerging adulthood, that is, to provide some understanding in what exactly can go wrong in identity development. After summarizing the recent developments in identity development literature, in this introduction the main findings of all thirteen empirical papers are summarized into three overarching themes: (1) lack of identity integration as a risk factor, (2) reconsideration of commitment as a sign of identity uncertainty, and (3) ruminative exploration as another risk factor undermining healthy identity development. Finally, given that all papers in this special issue are based on conference presentations at the 14th Biennial Conference of the European Association for Research on Adolescence (EARA), some more information on that conference is included in this introduction.

  10. The International Globe at Night Citizen-Science Campaign: Shedding Light on Light Pollution

    NASA Astrophysics Data System (ADS)

    Walker, C. E.; Pompea, S. M.

    2013-12-01

    For 8 years now, the Globe at Night campaign has invited citizen-scientists worldwide to measure and record the brightness of their night sky by hunting for the faintest stars in a particular constellation. Students for science projects and scientists for research use the data to monitor levels of brightness or 'light pollution' around the world. They also use the Globe at Night data to understand light pollution's effects on energy consumption, plants, wildlife and human health, as well as our ability to enjoy a starry night sky. The dates of the campaign for 2014 have been extended to every month during the year. Ten days each month (when the Moon is not up between 8pm and 10pm) are the recommended times to take measurements for the campaign. However, one can participate at other times and dates, as long as the Moon is not in the night sky and it is more than an hour after sunset or more than an hour before sunrise. New in 2014 will be an Android app that will allow you to input visual measurements anytime the Moon is not up. Also possibly included will be an iPhone app that will take sky brightness measurements. The campaign dates and the 5 easy steps to participating in the campaign are listed at www.globeatnight.org. You do not need to register. Once on the report page, you enter your location, date and time (automatic for a smart device). You find the constellation of the month in the night sky. (Help is on the website.) Then you choose which chart looks most like what you see toward the constellation. Choose the icon for how clear or cloudy it is and hit the submit button and you are done! The fifth step is returning later to the website to compare your observations on the world map to others from around the globe. Included on the Globe at Night website are many helpful resources and tools from finding the constellations used in the campaign, to understanding concepts like light pollution, to games that test your expertise in choosing 'limiting magnitudes

  11. Analysis and Prediction of Ice Shedding for a Full-Scale Heated Tail Rotor

    NASA Technical Reports Server (NTRS)

    Kreeger, Richard E.; Work, Andrew; Douglass, Rebekah; Gazella, Matthew; Koster, Zakery; Turk, Jodi

    2016-01-01

    When helicopters are to fly in icing conditions, it is necessary to consider the possibility of ice shed from the rotor blades. In 2013, a series of tests were conducted on a heated tail rotor at NASA Glenn's Icing Research Tunnel (IRT). The tests produced several shed events that were captured on camera. Three of these shed events were captured at a sufficiently high frame rate to obtain multiple images of the shed ice in flight that had a sufficiently long section of shed ice for analysis. Analysis of these shed events is presented and compared to an analytical Shedding Trajectory Model (STM). The STM is developed and assumes that the ice breaks off instantly as it reaches the end of the blade, while frictional and viscous forces are used as parameters to fit the STM. The trajectory of each shed is compared to that predicted by the STM, where the STM provides information of the shed group of ice as a whole. The limitations of the model's underlying assumptions are discussed in comparison to experimental shed events.

  12. Analysis and Prediction of Ice Shedding for a Full-Scale Heated Tail Rotor

    NASA Technical Reports Server (NTRS)

    Kreeger, Richard E.; Work, Andrew; Douglass, Rebekah; Gazella, Matthew; Koster, Zakery; Turk, Jodi

    2016-01-01

    When helicopters are to fly in icing conditions, it is necessary to consider the possibility of ice shed from the rotor blades. In 2013, a series of tests were conducted on a heated tail rotor at NASA Glenn's Icing Research Tunnel (IRT). The tests produced several shed events that were captured on camera. Three of these shed events were captured at a sufficiently high frame rate to obtain multiple images of the shed ice in flight that had a sufficiently long section of shed ice for analysis. Analysis of these shed events is presented and compared to an analytical Shedding Trajectory Model (STM). The STM is developed and assumes that the ice breaks off instantly as it reaches the end of the blade, while frictional and viscous forces are used as parameters to fit the STM. The trajectory of each shed is compared to that predicted by the STM, where the STM provides information of the shed group of ice as a whole. The limitations of the model's underlying assumptions are discussed in comparison to experimental shed events.

  13. German physicians "on strike"--shedding light on the roots of physician dissatisfaction.

    PubMed

    Janus, Katharina; Amelung, Volker Eric; Gaitanides, Michael; Schwartz, Friedrich Wilhelm

    2007-08-01

    , continuous education and job security, administrative tasks and collegial relationships were highly significant, specialized technology and patient contact were significant and research and teaching and international exchange were not significant in contributing to physician job satisfaction. This study sheds light to the underlying factors that contribute to physician job satisfaction in Germany, and it provides insights into the reasons for physicians leaving medical practice. In order for a health system to recruit and retain physicians, it may be necessary for a system's physician strategy to shift from focusing primarily on hard, monetary and compensation-related factors to a broader focus that incorporates the soft, non-monetary factors. The implementation of policies and management practices that reduce the time burden on physicians, and enhance physicians' participation in the development of patient care management processes and in managerial decisions that affect patient care appears to be crucial. The result will be increased job satisfaction among physicians, which is important to the future recruitment and retention of doctors, as well as to the productivity and quality of the services provided by this essential component of our medical care systems.

  14. Genetic and Epigenetic Diversities Shed Light on Domestication of Cultivated Ginseng (Panax ginseng).

    PubMed

    Li, Ming-Rui; Shi, Feng-Xue; Zhou, Yu-Xin; Li, Ya-Ling; Wang, Xin-Feng; Zhang, Cui; Wang, Xu-Tong; Liu, Bao; Xiao, Hong-Xing; Li, Lin-Feng

    2015-11-02

    Chinese ginseng (Panax ginseng) is a medically important herb within Panax and has crucial cultural values in East Asia. As the symbol of traditional Chinese medicine, Chinese ginseng has been used as a herbal remedy to restore stamina and capacity in East Asia for thousands of years. To address the evolutionary origin and domestication history of cultivated ginseng, we employed multiple molecular approaches to investigate the genetic structures of cultivated and wild ginseng across their distribution ranges in northeastern Asia. Phylogenetic and population genetic analyses revealed that the four cultivated ginseng landraces, COMMON, BIANTIAO, SHIZHU, and GAOLI (also known as Korean ginseng), were not domesticated independently and Fusong Town is likely one of the primary domestication centers. In addition, our results from population genetic and epigenetic analyses demonstrated that cultivated ginseng maintained high levels of genetic and epigenetic diversity, but showed distinct cytosine methylation patterns compared with wild ginseng. The patterns of genetic and epigenetic variation revealed by this study have shed light on the domestication history of cultivated ginseng, which may serve as a framework for future genetic improvements.

  15. The oldest ionoscopiform from China sheds new light on the early evolution of halecomorph fishes.

    PubMed

    Xu, Guang-Hui; Zhao, Li-Jun; Coates, Michael I

    2014-05-01

    The Halecomorphi are a major subdivision of the ray-finned fishes. Although living halecomorphs are represented solely by the freshwater bowfin, Amia calva, this clade has a rich fossil history, and the resolution of interrelationships among extinct members is central to the problem of understanding the origin of the Teleostei, the largest clade of extant vertebrates. The Ionoscopiformes are extinct marine halecomorphs that were inferred to have originated in the Late Jurassic of Europe, and subsequently dispersed to the Early Cretaceous of the New World. Here, we report the discovery of a new ionoscopiform, Robustichthys luopingensis gen. et sp. nov., based on eight well-preserved specimens from the Anisian (242-247 Ma), Middle Triassic marine deposits of Luoping, eastern Yunnan Province, China. The new species documents the oldest known ionoscopiform, extending the stratigraphic range of this group by approximately 90 Ma, and the geographical distribution of this group into the Middle Triassic of South China, a part of eastern Palaeotethys Ocean. These new data provide a minimum estimate for the split of Ionoscopiformes from its sister clade Amiiformes and shed new light on the origin of ionoscopiform fishes.

  16. Fossils from the Middle Jurassic of China shed light on morphology of Choristopsychidae (Insecta, Mecoptera)

    PubMed Central

    Qiao, Xiao; Shih, Chung Kun; Petrulevičius, Julian F.; Dong, Ren

    2013-01-01

    Abstract Choristopsychidae, established by Martynov in 1937 with a single isolated forewing, is a little known extinct family in Mecoptera. Since then, no new members of this enigmatic family have been described. Based on 23 well-preserved specimens with complete body and wings from the Middle Jurassic of northeastern China, we report one new genus and three new species of Choristopsychidae, two new species of the genus Choristopsyche Martynov, 1937: Choristopsyche perfecta sp. n. and Choristopsyche asticta sp. n.; one new species of Paristopsyche gen. n.: Paristopsyche angelineae sp. n.; and re-describe Choristopsyche tenuinervis Martynov, 1937. In addition, we emend the diagnoses of Choristopsychidae and Choristopsyche. Analyzing the forewing length/width ratios of representative species in Mecoptera, we confirm that choristopsychids have the lowest ratio of forewing length/width, meaning broadest forewings. These findings, the first fossil choristopsychids with well-preserved body structure and the first record of Choristopsychidae in China, shed light on the morphology of these taxa and broaden their distribution from Tajikistan to China, while increasing the diversity of Mesozoic Mecoptera in China. PMID:23950679

  17. Hellbender genome sequences shed light on genomic expansion at the base of crown salamanders.

    PubMed

    Sun, Cheng; Mueller, Rachel Lockridge

    2014-07-01

    Among animals, genome sizes range from 20 Mb to 130 Gb, with 380-fold variation across vertebrates. Most of the largest vertebrate genomes are found in salamanders, an amphibian clade of 660 species. Thus, salamanders are an important system for studying causes and consequences of genomic gigantism. Previously, we showed that plethodontid salamander genomes accumulate higher levels of long terminal repeat (LTR) retrotransposons than do other vertebrates, although the evolutionary origins of such sequences remained unexplored. We also showed that some salamanders in the family Plethodontidae have relatively slow rates of DNA loss through small insertions and deletions. Here, we present new data from Cryptobranchus alleganiensis, the hellbender. Cryptobranchus and Plethodontidae span the basal phylogenetic split within salamanders; thus, analyses incorporating these taxa can shed light on the genome of the ancestral crown salamander lineage, which underwent expansion. We show that high levels of LTR retrotransposons likely characterize all crown salamanders, suggesting that disproportionate expansion of this transposable element (TE) class contributed to genomic expansion. Phylogenetic and age distribution analyses of salamander LTR retrotransposons indicate that salamanders' high TE levels reflect persistence and diversification of ancestral TEs rather than horizontal transfer events. Finally, we show that relatively slow DNA loss rates through small indels likely characterize all crown salamanders, suggesting that a decreased DNA loss rate contributed to genomic expansion at the clade's base. Our identification of shared genomic features across phylogenetically distant salamanders is a first step toward identifying the evolutionary processes underlying accumulation and persistence of high levels of repetitive sequence in salamander genomes.

  18. Integrative analyses shed new light on human ribosomal protein gene regulation

    PubMed Central

    Li, Xin; Zheng, Yiyu; Hu, Haiyan; Li, Xiaoman

    2016-01-01

    Ribosomal protein genes (RPGs) are important house-keeping genes that are well-known for their coordinated expression. Previous studies on RPGs are largely limited to their promoter regions. Recent high-throughput studies provide an unprecedented opportunity to study how human RPGs are transcriptionally modulated and how such transcriptional regulation may contribute to the coordinate gene expression in various tissues and cell types. By analyzing the DNase I hypersensitive sites under 349 experimental conditions, we predicted 217 RPG regulatory regions in the human genome. More than 86.6% of these computationally predicted regulatory regions were partially corroborated by independent experimental measurements. Motif analyses on these predicted regulatory regions identified 31 DNA motifs, including 57.1% of experimentally validated motifs in literature that regulate RPGs. Interestingly, we observed that the majority of the predicted motifs were shared by the predicted distal and proximal regulatory regions of the same RPGs, a likely general mechanism for enhancer-promoter interactions. We also found that RPGs may be differently regulated in different cells, indicating that condition-specific RPG regulatory regions still need to be discovered and investigated. Our study advances the understanding of how RPGs are coordinately modulated, which sheds light to the general principles of gene transcriptional regulation in mammals. PMID:27346035

  19. Integrative analyses shed new light on human ribosomal protein gene regulation.

    PubMed

    Li, Xin; Zheng, Yiyu; Hu, Haiyan; Li, Xiaoman

    2016-06-27

    Ribosomal protein genes (RPGs) are important house-keeping genes that are well-known for their coordinated expression. Previous studies on RPGs are largely limited to their promoter regions. Recent high-throughput studies provide an unprecedented opportunity to study how human RPGs are transcriptionally modulated and how such transcriptional regulation may contribute to the coordinate gene expression in various tissues and cell types. By analyzing the DNase I hypersensitive sites under 349 experimental conditions, we predicted 217 RPG regulatory regions in the human genome. More than 86.6% of these computationally predicted regulatory regions were partially corroborated by independent experimental measurements. Motif analyses on these predicted regulatory regions identified 31 DNA motifs, including 57.1% of experimentally validated motifs in literature that regulate RPGs. Interestingly, we observed that the majority of the predicted motifs were shared by the predicted distal and proximal regulatory regions of the same RPGs, a likely general mechanism for enhancer-promoter interactions. We also found that RPGs may be differently regulated in different cells, indicating that condition-specific RPG regulatory regions still need to be discovered and investigated. Our study advances the understanding of how RPGs are coordinately modulated, which sheds light to the general principles of gene transcriptional regulation in mammals.

  20. Ethical considerations in biobanks: how a public health ethics perspective sheds new light on old controversies.

    PubMed

    Virani, Alice Hawkins; Longstaff, Holly

    2015-06-01

    Biobanks, collections of biospecimens with or without linked medical data, have increased dramatically in number in the last two decades. Their potential power to identify the underlying mechanisms of both rare and common disease has catalyzed their proliferation in the academic, medical, and private sectors. Despite demonstrated public support of biobanks, some within the academic, governmental, and public realms have also expressed cautions associated with the ethical, legal, and social (ELSI) implications of biobanks. These issues include concerns related to the privacy and confidentiality of data; return of results and incidental findings to participants; data sharing and secondary use of samples; informed consent mechanisms; ownership of specimens; and benefit sharing (i.e., the distribution of financial or other assets that result from the research). Such apprehensions become amplified as more researchers seek to pursue national and cross-border collaborations between biobanks. This paper provides an overview of two of the most contentious topics in biobank literature - informed consent and return of individual research results or incidental findings - and explores how a public health ethics lens may help to shed new light on how these issues may be best approached and managed. Doing so also demonstrates the important role that genetic counselors can play in the ongoing discussion of ethically appropriate biobank recruitment and management strategies, as well as identifies important areas of ongoing empirical research on these unresolved topics.

  1. How counterfactuals of Red-Queen theory shed light on science and its historiography.

    PubMed

    Dagg, Joachim L

    2017-08-01

    A historical episode of evolutionary theory, which has lead to the Red Queen theory of the evolutionary maintenance of sex, includes two striking contingencies. These are used to explore alternative what-if scenarios, in order to test some common opinions about such counterfactuals. This sheds new light on the nature of science and its historiography. One counterfactual leads to an unexpected convergence of its result to that of the actual science but, nevertheless, differs in its causal structure. The other diverges towards an incompatible alternative, but this requires further contingent choices that also diverge from actual science. The convergence in the first counterfactual is due to a horizontal transfer of knowledge. Similar transfers of knowledge are typical for innovations of actual science. This suggests that contingent choices can merge as well as fork research traditions both in actual research and counterfactual history. Neither the paths of the actual history of science nor those of its counterfactual alternatives will form a tree of exclusively diverging bifurcations, but a network instead. Convergencies in counterfactuals may, therefore, be due to the web-structure of science as much as to the aims of the historians in question. Furthermore, the difference in causal structure between the actual science and its convergent counterfactual might become diagnostic for external factors rather than internal aims forcing a historian towards convergence. Copyright © 2017 Elsevier Ltd. All rights reserved.

  2. Zebrafish models flex their muscles to shed light on muscular dystrophies.

    PubMed

    Berger, Joachim; Currie, Peter D

    2012-11-01

    Muscular dystrophies are a group of genetic disorders that specifically affect skeletal muscle and are characterized by progressive muscle degeneration and weakening. To develop therapies and treatments for these diseases, a better understanding of the molecular basis of muscular dystrophies is required. Thus, identification of causative genes mutated in specific disorders and the study of relevant animal models are imperative. Zebrafish genetic models of human muscle disorders often closely resemble disease pathogenesis, and the optical clarity of zebrafish embryos and larvae enables visualization of dynamic molecular processes in vivo. As an adjunct tool, morpholino studies provide insight into the molecular function of genes and allow rapid assessment of candidate genes for human muscular dystrophies. This unique set of attributes makes the zebrafish model system particularly valuable for the study of muscle diseases. This review discusses how recent research using zebrafish has shed light on the pathological basis of muscular dystrophies, with particular focus on the muscle cell membrane and the linkage between the myofibre cytoskeleton and the extracellular matrix.

  3. The oldest ionoscopiform from China sheds new light on the early evolution of halecomorph fishes

    PubMed Central

    Xu, Guang-Hui; Zhao, Li-Jun; Coates, Michael I.

    2014-01-01

    The Halecomorphi are a major subdivision of the ray-finned fishes. Although living halecomorphs are represented solely by the freshwater bowfin, Amia calva, this clade has a rich fossil history, and the resolution of interrelationships among extinct members is central to the problem of understanding the origin of the Teleostei, the largest clade of extant vertebrates. The Ionoscopiformes are extinct marine halecomorphs that were inferred to have originated in the Late Jurassic of Europe, and subsequently dispersed to the Early Cretaceous of the New World. Here, we report the discovery of a new ionoscopiform, Robustichthys luopingensis gen. et sp. nov., based on eight well-preserved specimens from the Anisian (242–247 Ma), Middle Triassic marine deposits of Luoping, eastern Yunnan Province, China. The new species documents the oldest known ionoscopiform, extending the stratigraphic range of this group by approximately 90 Ma, and the geographical distribution of this group into the Middle Triassic of South China, a part of eastern Palaeotethys Ocean. These new data provide a minimum estimate for the split of Ionoscopiformes from its sister clade Amiiformes and shed new light on the origin of ionoscopiform fishes. PMID:24872460

  4. Navigating the gender minefield: An IPV prevention campaign sheds light on the gender gap.

    PubMed

    Keller, Sarah N; Honea, Joy C

    2016-01-01

    This article examines how differences in male and female views about intimate partner violence (IPV) contributed to divergent responses to a prevention campaign conducted in the western USA. The study examines focus groups (n = 22) and in-depth interview data (n = 13) collected during campaign development to shed light on quantitative results indicating that women (but not men) increased their perceived severity of domestic violence and awareness of services from pre-test to post-test, while male attitudes moved in the opposite direction. Results of the qualitative study provide the basis for the authors' conclusions about why reactions differed: (1) men's unwillingness to view abuse within a gender context limits men's ability to accept the inequity in statistically demonstrated male and female roles as perpetrators and victims; (2) male resentment of existing gender stereotypes contributed to a rejection of campaign messages that utilised gender prevalence statistics to depict images showing men as perpetrators and women as victims; and (3) victim blaming attitudes contributed to resistance to empathy for victims depicted in the campaign. The authors offer suggestions for future campaigns that foster agency among both perpetrators and survivors while confronting the structural barriers to enacting change.

  5. How Hox genes can shed light on the place of echinoderms among the deuterostomes

    PubMed Central

    2014-01-01

    Background The Hox gene cluster ranks among the greatest of biological discoveries of the past 30 years. Morphogenetic patterning genes are remarkable for the systems they regulate during major ontogenetic events, and for their expressions of molecular, temporal, and spatial colinearity. Recent descriptions of exceptions to these colinearities are suggesting deep phylogenetic signal that can be used to explore origins of entire deuterostome phyla. Among the most enigmatic of these deuterostomes in terms of unique body patterning are the echinoderms. However, there remains no overall synthesis of the correlation between this signal and the variations observable in the presence/absence and expression patterns of Hox genes. Results Recent data from Hox cluster analyses shed light on how the bizarre shift from bilateral larvae to radial adults during echinoderm ontogeny can be accomplished by equally radical modifications within the Hox cluster. In order to explore this more fully, a compilation of observations on the genetic patterns among deuterostomes is integrated with the body patterning trajectories seen across the deuterostome clade. Conclusions Synthesis of available data helps to explain morphogenesis along the anterior/posterior axis of echinoderms, delineating the origins and fate of that axis during ontogeny. From this, it is easy to distinguish between ‘seriality’ along echinoderm rays and true A/P axis phenomena such as colinearity within the somatocoels, and the ontogenetic outcomes of the unique translocation and inversion of the anterior Hox class found within the Echinodermata. An up-to-date summary and integration of the disparate lines of research so far produced on the relationship between Hox genes and pattern formation for all deuterostomes allows for development of a phylogeny and scenario for the evolution of deuterostomes in general, and the Echinodermata in particular. PMID:24959343

  6. Electrical transient stability and underfrequency load shedding analysis for a large pump station

    SciTech Connect

    Shilling, S.R.

    1995-12-31

    Electrical transients from faults, loss of generation, and load swings can disrupt pump station operations. Isolated stations with no utility tie and those with weak utility ties are especially at risk. Relative to this problem, the following four main issues are addressed: (1) Analyze the methods that use high-speed underfrequency load shedding to maintain system stability and preserve station operations. (2) Analyze combustion gas turbine generator and diesel generator transient responses, as they pertain to the Electrical Engineer. (3) Discuss system component modeling and the use of low voltage circuit switching devices to shed loads. (4) Compare two computer analysis program outputs for underfrequency load shedding responses.

  7. Electrical transient stability and underfrequency load shedding analysis for a large pump station

    SciTech Connect

    Shilling, S.R.

    1997-01-01

    Electrical transients from faults, loss of generation, and load swings can disrupt pump station operations. Isolated stations with no utility tie, and those with weak utility ties, are especially at risk. Relative to this problem, the following four main issues are addressed: (1) analyze the methods that use high-speed underfrequency load shedding to maintain system stability and preserve station operations; (2) analyze combustion gas turbine generator and diesel generator transient responses, as they pertain to the electrical engineer; (3) discuss system component modeling and the use of low voltage circuit switching devices to shed loads; (4) compare two computer analysis program outputs for underfrequency load shedding responses.

  8. Structural analysis sheds light on APC/C-mediated ubiquitylation.

    PubMed

    Kimata, Yuu; Yamano, Hiroyuki

    2006-01-01

    In the December 22nd issue of Molecular Cell, two groups report refined cryo-electron microscopic structures of the APC/C at approximately 20 A resolution. They also reveal important new features including multiple copies of subunits, dimerization and structural flexibility of the APC/C, which give a hint to solve the mechanisms of the APC/C-dependent ubiquitylation.

  9. ITS polymorphisms shed light on hybrid evolution in apomictic plants: a case study on the Ranunculus auricomus complex.

    PubMed

    Hodač, Ladislav; Scheben, Armin Patrick; Hojsgaard, Diego; Paun, Ovidiu; Hörandl, Elvira

    2014-01-01

    The reconstruction of reticulate evolutionary histories in plants is still a major methodological challenge. Sequences of the ITS nrDNA are a popular marker to analyze hybrid relationships, but variation of this multicopy spacer region is affected by concerted evolution, high intraindividual polymorphism, and shifts in mode of reproduction. The relevance of changes in secondary structure is still under dispute. We aim to shed light on the extent of polymorphism within and between sexual species and their putative natural as well as synthetic hybrid derivatives in the Ranunculus auricomus complex to test morphology-based hypotheses of hybrid origin and parentage of taxa. We employed direct sequencing of ITS nrDNA from 68 individuals representing three sexuals, their synthetic hybrids and one sympatric natural apomict, as well as cloning of ITS copies in four representative individuals, RNA secondary structure analysis, and landmark geometric morphometric analysis on leaves. Phylogenetic network analyses indicate additivity of parental ITS variants in both synthetic and natural hybrids. The triploid synthetic hybrids are genetically much closer to their maternal progenitors, probably due to ploidy dosage effects, although exhibiting a paternal-like leaf morphology. The natural hybrids are genetically and morphologically closer to the putative paternal progenitor species. Secondary structures of ITS1-5.8S-ITS2 were rather conserved in all taxa. The observed similarities in ITS polymorphisms suggest that the natural apomict R. variabilis is an ancient hybrid of the diploid sexual species R. notabilis and the sexual species R. cassubicifolius. The additivity pattern shared by R. variabilis and the synthetic hybrids supports an evolutionary and biogeographical scenario that R. variabilis originated from ancient hybridization. Concerted evolution of ITS copies in R. variabilis is incomplete, probably due to a shift to asexual reproduction. Under the condition of

  10. ITS Polymorphisms Shed Light on Hybrid Evolution in Apomictic Plants: A Case Study on the Ranunculus auricomus Complex

    PubMed Central

    Hodač, Ladislav; Scheben, Armin Patrick; Hojsgaard, Diego; Paun, Ovidiu; Hörandl, Elvira

    2014-01-01

    The reconstruction of reticulate evolutionary histories in plants is still a major methodological challenge. Sequences of the ITS nrDNA are a popular marker to analyze hybrid relationships, but variation of this multicopy spacer region is affected by concerted evolution, high intraindividual polymorphism, and shifts in mode of reproduction. The relevance of changes in secondary structure is still under dispute. We aim to shed light on the extent of polymorphism within and between sexual species and their putative natural as well as synthetic hybrid derivatives in the Ranunculus auricomus complex to test morphology-based hypotheses of hybrid origin and parentage of taxa. We employed direct sequencing of ITS nrDNA from 68 individuals representing three sexuals, their synthetic hybrids and one sympatric natural apomict, as well as cloning of ITS copies in four representative individuals, RNA secondary structure analysis, and landmark geometric morphometric analysis on leaves. Phylogenetic network analyses indicate additivity of parental ITS variants in both synthetic and natural hybrids. The triploid synthetic hybrids are genetically much closer to their maternal progenitors, probably due to ploidy dosage effects, although exhibiting a paternal-like leaf morphology. The natural hybrids are genetically and morphologically closer to the putative paternal progenitor species. Secondary structures of ITS1-5.8S-ITS2 were rather conserved in all taxa. The observed similarities in ITS polymorphisms suggest that the natural apomict R. variabilis is an ancient hybrid of the diploid sexual species R. notabilis and the sexual species R. cassubicifolius. The additivity pattern shared by R. variabilis and the synthetic hybrids supports an evolutionary and biogeographical scenario that R. variabilis originated from ancient hybridization. Concerted evolution of ITS copies in R. variabilis is incomplete, probably due to a shift to asexual reproduction. Under the condition of

  11. Retinal transcriptome sequencing sheds light on the adaptation to nocturnal and diurnal lifestyles in raptors

    PubMed Central

    Wu, Yonghua; Hadly, Elizabeth A.; Teng, Wenjia; Hao, Yuyang; Liang, Wei; Liu, Yu; Wang, Haitao

    2016-01-01

    Owls (Strigiformes) represent a fascinating group of birds that are the ecological night-time counterparts to diurnal raptors (Accipitriformes). The nocturnality of owls, unusual within birds, has favored an exceptional visual system that is highly tuned for hunting at night, yet the molecular basis for this adaptation is lacking. Here, using a comparative evolutionary analysis of 120 vision genes obtained by retinal transcriptome sequencing, we found strong positive selection for low-light vision genes in owls, which contributes to their remarkable nocturnal vision. Not surprisingly, we detected gene loss of the violet/ultraviolet-sensitive opsin (SWS1) in all owls we studied, but two other color vision genes, the red-sensitive LWS and the blue-sensitive SWS2, were found to be under strong positive selection, which may be linked to the spectral tunings of these genes toward maximizing photon absorption in crepuscular conditions. We also detected the only other positively selected genes associated with motion detection in falcons and positively selected genes associated with bright-light vision and eye protection in other diurnal raptors (Accipitriformes). Our results suggest the adaptive evolution of vision genes reflect differentiated activity time and distinct hunting behaviors. PMID:27645106

  12. Retinal transcriptome sequencing sheds light on the adaptation to nocturnal and diurnal lifestyles in raptors.

    PubMed

    Wu, Yonghua; Hadly, Elizabeth A; Teng, Wenjia; Hao, Yuyang; Liang, Wei; Liu, Yu; Wang, Haitao

    2016-09-20

    Owls (Strigiformes) represent a fascinating group of birds that are the ecological night-time counterparts to diurnal raptors (Accipitriformes). The nocturnality of owls, unusual within birds, has favored an exceptional visual system that is highly tuned for hunting at night, yet the molecular basis for this adaptation is lacking. Here, using a comparative evolutionary analysis of 120 vision genes obtained by retinal transcriptome sequencing, we found strong positive selection for low-light vision genes in owls, which contributes to their remarkable nocturnal vision. Not surprisingly, we detected gene loss of the violet/ultraviolet-sensitive opsin (SWS1) in all owls we studied, but two other color vision genes, the red-sensitive LWS and the blue-sensitive SWS2, were found to be under strong positive selection, which may be linked to the spectral tunings of these genes toward maximizing photon absorption in crepuscular conditions. We also detected the only other positively selected genes associated with motion detection in falcons and positively selected genes associated with bright-light vision and eye protection in other diurnal raptors (Accipitriformes). Our results suggest the adaptive evolution of vision genes reflect differentiated activity time and distinct hunting behaviors.

  13. When the light shed by God is dimmer than the light shed upon God: countertransference illumination of latent religious object representations of a Jewish patient in psychoanalysis.

    PubMed

    Spero, Moshe Halevi

    2009-01-01

    A report is offered of the psychoanalysis of an emotionally constricted, religiously devout ko'hen, a member of the Jewish priestly class, undertaken with the author, himself a religiously committed Jew. While the analysand brought a great deal of material to his hours and was deeply committed to the analysis, the sessions were emotionally vapid, obsessively repetitious and ruminative. For more than three years, the patient's steadfast production of a plethora of dreams did not much alter the brittle quality of work and the restricted range of the transference. At first, though religious themes as such abounded, the patient's relationship with God and his representation of God seemed to play no role in the working dynamic. This vacancy played a negating or absenting role, distancing the analyst from his own sense of a living divinity, parallel to the basic aporia in the patient's emotional representation of his significant parental objects and the image of God that rested upon the former. The countertransference dimension of the analytic relationship peaked during a spontaneous but complex enactment that helped refract the patient's and analyst's shared and divergent religious perceptions, leading to a significant transformation in the analysand's religious experience.

  14. Shedding light on moths: shorter wavelengths attract noctuids more than geometrids.

    PubMed

    Somers-Yeates, Robin; Hodgson, David; McGregor, Peter K; Spalding, Adrian; Ffrench-Constant, Richard H

    2013-08-23

    With moth declines reported across Europe, and parallel changes in the amount and spectra of street lighting, it is important to understand exactly how artificial lights affect moth populations. We therefore compared the relative attractiveness of shorter wavelength (SW) and longer wavelength (LW) lighting to macromoths. SW light attracted significantly more individuals and species of moth, either when used alone or in competition with LW lighting. We also found striking differences in the relative attractiveness of different wavelengths to different moth groups. SW lighting attracted significantly more Noctuidae than LW, whereas both wavelengths were equally attractive to Geometridae. Understanding the extent to which different groups of moth are attracted to different wavelengths of light will be useful in determining the impact of artificial light on moth populations.

  15. Single-molecule fluorescence microscopy review: shedding new light on old problems

    PubMed Central

    Shashkova, Sviatlana

    2017-01-01

    Fluorescence microscopy is an invaluable tool in the biosciences, a genuine workhorse technique offering exceptional contrast in conjunction with high specificity of labelling with relatively minimal perturbation to biological samples compared with many competing biophysical techniques. Improvements in detector and dye technologies coupled to advances in image analysis methods have fuelled recent development towards single-molecule fluorescence microscopy, which can utilize light microscopy tools to enable the faithful detection and analysis of single fluorescent molecules used as reporter tags in biological samples. For example, the discovery of GFP, initiating the so-called ‘green revolution’, has pushed experimental tools in the biosciences to a completely new level of functional imaging of living samples, culminating in single fluorescent protein molecule detection. Today, fluorescence microscopy is an indispensable tool in single-molecule investigations, providing a high signal-to-noise ratio for visualization while still retaining the key features in the physiological context of native biological systems. In this review, we discuss some of the recent discoveries in the life sciences which have been enabled using single-molecule fluorescence microscopy, paying particular attention to the so-called ‘super-resolution’ fluorescence microscopy techniques in live cells, which are at the cutting-edge of these methods. In particular, how these tools can reveal new insights into long-standing puzzles in biology: old problems, which have been impossible to tackle using other more traditional tools until the emergence of new single-molecule fluorescence microscopy techniques. PMID:28694303

  16. Dynamic Analysis of Overhead Power Lines after Ice-Shedding Using Finite Element Method

    NASA Astrophysics Data System (ADS)

    Murín, Justín; Hrabovský, Juraj; Gogola, Roman; Janíček, František

    2016-12-01

    In this paper, the analysis of ice-shedding from ACSR conductors to its swing up height and vibration using Finite Element Method (FEM) is presented. For the numerical simulations the effective material properties of the ACSR conductor are calculated using the homogenisation method. Numerical analysis concerning vibration of one and triple-bundle conductors with icing for a whole range or on their certain parts are performed. The impact of ice-shedding to the mechanical tension in the conductors at the points of attachment is investigated and evaluated. Identification of the impact of ice-shedding from the ACSR conductors on its mechanical state may contribute to increasing the safety and quality of an electrical transmission system.

  17. Epigenomic k-mer dictionaries: shedding light on how sequence composition influences in vivo nucleosome positioning.

    PubMed

    Giancarlo, Raffaele; Rombo, Simona E; Utro, Filippo

    2015-09-15

    Information-theoretic and compositional analysis of biological sequences, in terms of k-mer dictionaries, has a well established role in genomic and proteomic studies. Much less so in epigenomics, although the role of k-mers in chromatin organization and nucleosome positioning is particularly relevant. Fundamental questions concerning the informational content and compositional structure of nucleosome favouring and disfavoring sequences with respect to their basic building blocks still remain open. We present the first analysis on the role of k-mers in the composition of nucleosome enriched and depleted genomic regions (NER and NDR for short) that is: (i) exhaustive and within the bounds dictated by the information-theoretic content of the sample sets we use and (ii) informative for comparative epigenomics. We analize four different organisms and we propose a paradigmatic formalization of k-mer dictionaries, providing two different and complementary views of the k-mers involved in NER and NDR. The first extends well known studies in this area, its comparative nature being its major merit. The second, very novel, brings to light the rich variety of k-mers involved in influencing nucleosome positioning, for which an initial classification in terms of clusters is also provided. Although such a classification offers many insights, the following deserves to be singled-out: short poly(dA:dT) tracts are reported in the literature as fundamental for nucleosome depletion, however a global quantitative look reveals that their role is much less prominent than one would expect based on previous studies. Dictionaries, clusters and Supplementary Material are available online at http://math.unipa.it/rombo/epigenomics/. simona.rombo@unipa.it Supplementary data are available at Bioinformatics online. © The Author 2015. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

  18. Stable transgenesis in the marine annelid Platynereis dumerilii sheds new light on photoreceptor evolution.

    PubMed

    Backfisch, Benjamin; Veedin Rajan, Vinoth Babu; Fischer, Ruth M; Lohs, Claudia; Arboleda, Enrique; Tessmar-Raible, Kristin; Raible, Florian

    2013-01-02

    Research in eye evolution has mostly focused on eyes residing in the head. In contrast, noncephalic light sensors are far less understood and rather regarded as evolutionary innovations. We established stable transgenesis in the annelid Platynereis, a reference species for evolutionary and developmental comparisons. EGFP controlled by cis-regulatory elements of r-opsin, a characteristic marker for rhabdomeric photoreceptors, faithfully recapitulates known r-opsin expression in the adult eyes, and marks a pair of pigment-associated frontolateral eyelets in the brain. Unexpectedly, transgenic animals revealed an additional series of photoreceptors in the ventral nerve cord as well as photoreceptors that are located in each pair of the segmental dorsal appendages (notopodia) and project into the ventral nerve cord. Consistent with a photosensory function of these noncephalic cells, decapitated animals display a clear photoavoidance response. Molecular analysis of the receptors suggests that they differentiate independent of pax6, a gene involved in early eye development of many metazoans, and that the ventral cells may share origins with the Hesse organs in the amphioxus neural tube. Finally, expression analysis of opn4×-2 and opn4m-2, two zebrafish orthologs of Platynereis r-opsin, reveals that these genes share expression in the neuromasts, known mechanoreceptors of the lateral line peripheral nervous system. Together, this establishes that noncephalic photoreceptors are more widespread than assumed, and may even reflect more ancient aspects of sensory systems. Our study marks significant advance for the understanding of photoreceptor cell (PRC) evolution and development and for Platynereis as a functional lophotrochozoan model system.

  19. In Vitro Evaluation and Mechanism Analysis of the Fiber Shedding Property of Textile Pile Debridement Materials

    PubMed Central

    Fu, Yijun; Xie, Qixue; Lao, Jihong; Wang, Lu

    2016-01-01

    Fiber shedding is a critical problem in biomedical textile debridement materials, which leads to infection and impairs wound healing. In this work, single fiber pull-out test was proposed as an in vitro evaluation for the fiber shedding property of a textile pile debridement material. Samples with different structural design (pile densities, numbers of ground yarns and coating times) were prepared and estimated under this testing method. Results show that single fiber pull-out test offers an appropriate in vitro evaluation for the fiber shedding property of textile pile debridement materials. Pull-out force for samples without back-coating exhibited a slight escalating trend with the supplement in pile density and number of ground yarn plies, while back-coating process significantly raised the single fiber pull-out force. For fiber shedding mechanism analysis, typical pull-out behavior and failure modes of the single fiber pull-out test were analyzed in detail. Three failure modes were found in this study, i.e., fiber slippage, coating point rupture and fiber breakage. In summary, to obtain samples with desirable fiber shedding property, fabric structural design, preparation process and raw materials selection should be taken into full consideration. PMID:28773428

  20. In Vitro Evaluation and Mechanism Analysis of the Fiber Shedding Property of Textile Pile Debridement Materials.

    PubMed

    Fu, Yijun; Xie, Qixue; Lao, Jihong; Wang, Lu

    2016-04-22

    Fiber shedding is a critical problem in biomedical textile debridement materials, which leads to infection and impairs wound healing. In this work, single fiber pull-out test was proposed as an in vitro evaluation for the fiber shedding property of a textile pile debridement material. Samples with different structural design (pile densities, numbers of ground yarns and coating times) were prepared and estimated under this testing method. Results show that single fiber pull-out test offers an appropriate in vitro evaluation for the fiber shedding property of textile pile debridement materials. Pull-out force for samples without back-coating exhibited a slight escalating trend with the supplement in pile density and number of ground yarn plies, while back-coating process significantly raised the single fiber pull-out force. For fiber shedding mechanism analysis, typical pull-out behavior and failure modes of the single fiber pull-out test were analyzed in detail. Three failure modes were found in this study, i.e., fiber slippage, coating point rupture and fiber breakage. In summary, to obtain samples with desirable fiber shedding property, fabric structural design, preparation process and raw materials selection should be taken into full consideration.

  1. SHEDDING LIGHT ON CORALS HEALTH: INTERACTIONS OF CLIMATE CHANGE AND SOLAR RADIATION WITH BLEACHING

    EPA Science Inventory

    Coral bleaching and declines in coral reef health in recent years have been attributed in part to processes driven by UV and/or visible light. For coral assemblages, exposure to UV light is often an unavoidable consequence of having access to visible (photosynthetically active) ...

  2. SHEDDING LIGHT ON CORALS HEALTH: INTERACTIONS OF CLIMATE CHANGE AND SOLAR RADIATION WITH BLEACHING

    EPA Science Inventory

    Coral bleaching and declines in coral reef health in recent years have been attributed in part to processes driven by UV and/or visible light. For coral assemblages, exposure to UV light is often an unavoidable consequence of having access to visible (photosynthetically active) ...

  3. Systems biology study of transcriptional and post-transcriptional co-regulatory network sheds light on key regulators involved in important biological processes in Citrus sinensis.

    PubMed

    Khodadadi, Ehsan; Mehrabi, Ali Ashraf; Najafi, Ali; Rastad, Saber; Masoudi-Nejad, Ali

    2017-04-01

    Transcriptional and post-transcriptional regulators including transcription regulator, transcription factor and miRNA are the main endogenous molecular elements which control complex cellular mechanisms such as development, growth and response to biotic and abiotic stresses in a coordinated manner in plants. Utilizing the most recent information on such relationships in a plant species, obtained from high-throughput experimental technologies and advanced computational tools, we can reconstruct its co-regulatory network which consequently sheds light on key regulators involved in its important biological processes. In this article, combined systems biology approaches such as mining the literatures, various databases and network reconstruction, analysis, and visualization tools were employed to infer and visualize the coregulatory relationships between miRNAs and transcriptional regulators in Citrus sinensis. Using computationally and experimentally verified miRNA-target interactions and constructed co-expression networks on array-based data, 10 coregulatory networks and 10 corresponding subgraphs include FFL motifs were obtained for 10 distinct tissues/conditions. Then PPI subnetworks were extracted for transcripts/genes included in mentioned subgraphs in order to the functional analysis of extracted coregulatory circuits. These proposed coregulatory connections shed light on precisely identifying C. sinensis metabolic pathways key switches, which are demanded for ultimate goals such as genome editing.

  4. Shedding Light on Bird Egg Color: Pigment as Parasol and the Dark Car Effect.

    PubMed

    Lahti, David C; Ardia, Daniel R

    2016-05-01

    The vibrant colors of many birds' eggs, particularly those that are blue to blue-green, are extraordinary in that they are striking traits present in hundreds of species that have nevertheless eluded evolutionary functional explanation. We propose that egg pigmentation mediates a trade-off between two routes by which solar radiation can harm bird embryos: transmittance through the eggshell and overheating through absorbance. We quantitatively test four components of this hypothesis on variably colored eggs of the village weaverbird (Ploceus cucullatus) in a controlled light environment: (1) damaging ultraviolet radiation can transmit through bird eggshells, (2) infrared radiation at natural intensities can heat the interior of eggs, (3) more intense egg coloration decreases light transmittance ("pigment as parasol"), and (4) more intense egg coloration increases absorbance of light by the eggshell and heats the egg interior ("dark car effect"). Results support all of these predictions. Thus, in sunlit nesting environments, less pigmentation will increase the detrimental effect of transmittance, but more pigmentation will increase the detrimental effect of absorbance. The optimal pigmentation level for a bird egg in a given light environment, all other things being equal, will depend on the balance between light transmittance and absorbance in relation to embryo fitness.

  5. Hands-On Whole Science. Shining Science: Shed Some Light on the Science of Summer.

    ERIC Educational Resources Information Center

    Kepler, Lynne

    1992-01-01

    Presents summer science activities for elementary students which focus on sunlight and other natural and artificial light sources (e.g., fire, flashlights, and fireflies). Related activities which involve language arts, art, and math are included. A reproducible page teaches children Morse Code using a flashlight. (SM)

  6. Hands-On Whole Science. Shining Science: Shed Some Light on the Science of Summer.

    ERIC Educational Resources Information Center

    Kepler, Lynne

    1992-01-01

    Presents summer science activities for elementary students which focus on sunlight and other natural and artificial light sources (e.g., fire, flashlights, and fireflies). Related activities which involve language arts, art, and math are included. A reproducible page teaches children Morse Code using a flashlight. (SM)

  7. Shedding new light on viruses: super-resolution microscopy for studying human immunodeficiency virus.

    PubMed

    Müller, Barbara; Heilemann, Mike

    2013-10-01

    For more than 70 years electron microscopy (EM) techniques have played an important role in investigating structures of enveloped viruses. By contrast, use of fluorescence microscopy (FM) methods for this purpose was limited by the fact that the size of virus particles is generally around or below the diffraction limit of light microscopy. Various super-resolution (SR) fluorescence imaging techniques developed over the past two decades bypass the diffraction limit of light microscopy, allowing visualization of subviral details and bridging the gap between conventional FM and EM methods. We summarize here findings on human immunodeficiency virus (HIV-1) obtained using SR-FM techniques. Although the number of published studies is currently limited and some of the pioneering analyses also covered methodological or descriptive aspects, recent publications clearly indicate the potential to approach open questions in HIV-1 replication from a new angle.

  8. Land-based lidar mapping: a new surveying technique to shed light on rapid topographic change

    USGS Publications Warehouse

    Collins, Brian D.; Kayen, Robert

    2006-01-01

    The rate of natural change in such dynamic environments as rivers and coastlines can sometimes overwhelm the monitoring capacity of conventional surveying methods. In response to this limitation, U.S. Geological Survey (USGS) scientists are pioneering new applications of light detection and ranging (lidar), a laser-based scanning technology that promises to greatly increase our ability to track rapid topographic changes and manage their impact on affected communities.

  9. Shedding (far-red) light on phytochrome mechanisms and responses in land plants.

    PubMed

    Possart, Anja; Fleck, Christian; Hiltbrunner, Andreas

    2014-03-01

    In order to monitor ambient light conditions, plants rely on functionally diversified photoreceptors. Among these, phytochromes perceive red (R) and far-red (FR) light. FR light does not constitute a photosynthetic energy source; it however influences adaptive and developmental processes. In seed plants, phytochrome A (phyA) acts as FR receptor and mediates FR high irradiance responses (FR-HIRs). It exerts a dual role by promoting e.g. germination and seedling de-etiolation in canopy shade and by antagonising shade avoidance growth. Even though cryptogam plants such as mosses and ferns do not have phyA, they show FR-induced responses. In the present review we discuss the mechanistic basis of phyA-dependent FR-HIRs as well as their dual role in seed plants. We compare FR responses in seed plants and cryptogam plants and conclude on different potential concepts for the detection of canopy shade. Scenarios for the evolution of FR perception and responses are discussed.

  10. Shedding light on auxin movement: light-regulation of polar auxin transport in the photocontrol of plant development.

    PubMed

    Sassi, Massimiliano; Wang, Juan; Ruberti, Ida; Vernoux, Teva; Xu, Jian

    2013-03-01

    By being sessile, plants have evolved a remarkable capacity to perceive and respond to changes in environmental conditions throughout their life cycle. Light represents probably the most important environmental factor that impinge on plant development because, other than supplying the energy source for photosynthesis, it also provides seasonal and positional information that are essential for the plant survival and fitness. Changes in the light environment can dramatically alter plant morphogenesis, especially during the early phases of plant life, and a compelling amount of evidence indicates that light-mediated changes in auxin homeostasis are central in these processes. Auxin exerts its morphogenetic action through instructive hormone gradients that drive developmental programs of plants. Such gradients are formed and maintained via an accurate control on directional auxin transport. This review summarizes the recent advances in understanding the influence of the light environment on polar auxin transport.

  11. Studies on cyanobacterial protein PipY shed light on structure, potential functions, and vitamin B6 -dependent epilepsy.

    PubMed

    Tremiño, Lorena; Forcada-Nadal, Alicia; Contreras, Asunción; Rubio, Vicente

    2017-09-15

    The Synechococcus elongatus COG0325 gene pipY functionally interacts with the nitrogen regulatory gene pipX. As a first step toward a molecular understanding of such interactions, we characterized PipY. This 221-residue protein is monomeric and hosts pyridoxal phosphate (PLP), binding it with limited affinity and losing it upon incubation with D-cycloserine. PipY crystal structures with and without PLP reveal a single-domain monomer folded as the TIM barrel of type-III fold PLP enzymes, with PLP highly exposed, fitting a role for PipY in PLP homeostasis. The mobile PLP phosphate-anchoring C-terminal helix might act as a trigger for PLP exchange. Exploiting the universality of COG0325 functions, we used PipY in site-directed mutagenesis studies to shed light on disease causation by epilepsy-associated mutations in the human COG0325 gene PROSC. © 2017 Federation of European Biochemical Societies.

  12. Afterglow Observations Shed New Light on the Nature of X-ray Flashes

    SciTech Connect

    Granot, J

    2005-02-17

    X-ray flashes (XRFs) and X-ray rich gamma-ray bursts (XRGRBs) share many observational characteristics with long duration ({approx}> 2 s) GRBs, but the reason for which the spectral energy distribution of their prompt emission peaks at lower photon energies, E{sub p}, is still a subject of debate. Although many different models have been invoked in order to explain the lower values of E{sub p}, their implications for the afterglow emission were not considered in most cases, mainly because observations of XRF afterglows have become available only recently. Here we examine the predictions of the various XRF models for the afterglow emission, and test them against the observations of XRF 030723 and XRGRB 041006, the events with the best monitored afterglow light curves in their respective class. We show that most existing XRF models are hard to reconcile with the observed afterglow light curves, which are very flat at early times. Such light curves are, however, naturally produced by a roughly uniform jet with relatively sharp edges that is viewed off-axis (i.e. from outside of the jet aperture). This type of model self consistently accommodates both the observed prompt emission and the afterglow light curves of XRGRB 041006 and XRF 030723, implying viewing angles {theta}{sub obs} from the jet axis of ({theta}{sub obs}-{theta}{sub 0}) {approx} 0.15 {theta}{sub 0} and ({theta}{sub obs}-{theta}{sub 0}) {approx} {theta}{sub 0}, respectively, where {theta}{sub 0} {approx} 3{sup o} is the half-opening angle of the jet. This suggests that GRBs, XRGRBs and XRFs are intrinsically similar relativistic jets viewed from different angles. It is then natural to identify GRBs with {gamma}({theta}{sub obs} - {theta}{sub 0}) {approx}< 1, XRGRBs with 1 {approx}< ({theta}{sub obs} - {theta}{sub 0}) {approx}< a few, and XRFs with {gamma}({theta}{sub obs} - {theta}{sub 0}) {approx}> a few, where {gamma} is the Lorentz factor of the outflow near the edge of the jet from which most of the

  13. Shedding light on a new treatment for diabetic wound healing: a review on phototherapy.

    PubMed

    Houreld, Nicolette N

    2014-01-01

    Impaired wound healing is a common complication associated with diabetes with complex pathophysiological underlying mechanisms and often necessitates amputation. With the advancement in laser technology, irradiation of these wounds with low-intensity laser irradiation (LILI) or phototherapy, has shown a vast improvement in wound healing. At the correct laser parameters, LILI has shown to increase migration, viability, and proliferation of diabetic cells in vitro; there is a stimulatory effect on the mitochondria with a resulting increase in adenosine triphosphate (ATP). In addition, LILI also has an anti-inflammatory and protective effect on these cells. In light of the ever present threat of diabetic foot ulcers, infection, and amputation, new improved therapies and the fortification of wound healing research deserves better prioritization. In this review we look at the complications associated with diabetic wound healing and the effect of laser irradiation both in vitro and in vivo in diabetic wound healing.

  14. Shedding Light on a New Treatment for Diabetic Wound Healing: A Review on Phototherapy

    PubMed Central

    Houreld, Nicolette N.

    2014-01-01

    Impaired wound healing is a common complication associated with diabetes with complex pathophysiological underlying mechanisms and often necessitates amputation. With the advancement in laser technology, irradiation of these wounds with low-intensity laser irradiation (LILI) or phototherapy, has shown a vast improvement in wound healing. At the correct laser parameters, LILI has shown to increase migration, viability, and proliferation of diabetic cells in vitro; there is a stimulatory effect on the mitochondria with a resulting increase in adenosine triphosphate (ATP). In addition, LILI also has an anti-inflammatory and protective effect on these cells. In light of the ever present threat of diabetic foot ulcers, infection, and amputation, new improved therapies and the fortification of wound healing research deserves better prioritization. In this review we look at the complications associated with diabetic wound healing and the effect of laser irradiation both in vitro and in vivo in diabetic wound healing. PMID:24511283

  15. [Xeroderma pigmentosum (XP) : A genetic disease sheds light on UV-induced skin cancer].

    PubMed

    Emmert, B; Hallier, E; Schön, M P; Emmert, S

    2011-02-01

    The recessively inherited nucleotide excision repair (NER) defect syndrome xeroderma pigmentosum (XP) serves as a model disease for UV-induced skin cancer. XP is characterized by sun-sensitivity, freckling, and poikilodermic skin changes in sun-exposed areas, and a more than 1000-fold increased risk of skin cancer including melanoma as well as basal and squamous cell carcinomas. Seven XP complementation groups (XP-A to XP-G) are known to date representing the defective genes in XP patients. An additional "variant" form (XPV) which is clinically indistinguishable from the complementation groups exhibits defective translesional synthesis. An enhanced understanding of skin cancer development in general can help to identify individuals at an increased risk who should take special precautions, for example to avoid occupational exposures. The position of skin cancer induced by UV-light as an occupational disease in the ordinance on industrial diseases (BKV) is currently a topic of research and discussion in Germany.

  16. Night-Break Experiments Shed Light on the Photoperiod1-Mediated Flowering1[OPEN

    PubMed Central

    Shaw, Lindsay M.; Cotter, Jennifer D.; Li, Chengxia

    2017-01-01

    Plants utilize variation in day length (photoperiod) to anticipate seasonal changes. They respond by modulating their growth and development to maximize seed production, which in cereal crops is directly related to yield. In wheat (Triticum aestivum), the acceleration of flowering under long days (LD) is dependent on the light induction of PHOTOPERIOD1 (PPD1) by phytochromes. Under LD, PPD1 activates FLOWERING LOCUS T1 (FT1), a mobile signaling protein that travels from the leaves to the shoot apical meristem to promote flowering. Here, we show that the interruption of long nights by short pulses of light (“night-break” [NB]) accelerates wheat flowering, suggesting that the duration of the night is critical for wheat photoperiodic response. PPD1 transcription was rapidly upregulated by NBs, and the magnitude of this induction increased with the length of darkness preceding the NB. Cycloheximide abolished the NB up-regulation of PPD1, suggesting that this process is dependent on active protein synthesis during darkness. While one NB was sufficient to induce PPD1, more than 15 NBs were required to induce high levels of FT1 expression and a strong acceleration of flowering. Multiple NBs did not affect the expression of core circadian clock genes. The acceleration of flowering by NB disappeared in ppd1-null mutants, demonstrating that this response is mediated by PPD1. The acceleration of flowering was strongest when NBs were applied in the middle of the night, suggesting that in addition to PPD1, other circadian-controlled factors are required for the up-regulation of FT1 expression and the acceleration of flowering. PMID:28408541

  17. Shedding light on NO homeostasis: Light as a key regulator of glutathione and nitric oxide metabolisms during seedling deetiolation.

    PubMed

    Zuccarelli, Rafael; Coelho, Aline C P; Peres, Lazaro E P; Freschi, Luciano

    2017-01-18

    Despite the significant impacts of light on nitric oxide (NO) levels in plants, the mechanism underlying the influence of this environmental factor on NO metabolism remains poorly understood. A critical mechanism controlling NO levels in plant cells relies on the S-nitrosylation of glutathione (GSH), giving rise to S-nitrosoglutathione (GSNO), which can be either stored or degraded depending on the cellular context. Here, we demonstrate that a strict balance is maintained between NO generation and scavenging during tomato (Solanum lycopersicum) seedling deetiolation. Given the absence of accurate methods in the literature to estimate NO scavenging in planta, we first developed a simple, robust system to continuously monitor the global in vivo NO scavenging by plant tissues. Then, using photomorphogenic tomato mutants, we demonstrated that the light-evoked de-etiolation is associated with a dramatic rise in NO content followed by a progressive increment in NO scavenging capacity of the tissues. Light-driven increments in NO scavenging rates coincided with pronounced rises in S-nitrosothiol content and GSNO reductase (GSNOR) activity, thereby suggesting that GSNO formation and subsequent removal via GSNOR might be key for controlling NO levels during seedling deetiolation. Accordingly, treatments with thiol-blocking compounds further indicated that thiol nitrosylation might be critically involved in the NO scavenging mechanism responsible for maintaining NO homeostasis during deetiolation. The impacts of both light and NO on the transcriptional profile of glutathione metabolic genes also revealed an independent but coordinated action of these signals on the regulation of key components of glutathione and GSNO metabolisms. Altogether, these data indicated that GSNO formation and subsequent removal might facilitate maintaining NO homeostasis during light-driven seedling deetiolation.

  18. Evidence of coat color variation sheds new light on ancient canids.

    PubMed

    Ollivier, Morgane; Tresset, Anne; Hitte, Christophe; Petit, Coraline; Hughes, Sandrine; Gillet, Benjamin; Duffraisse, Marilyne; Pionnier-Capitan, Maud; Lagoutte, Laetitia; Arbogast, Rose-Marie; Balasescu, Adrian; Boroneant, Adina; Mashkour, Marjan; Vigne, Jean-Denis; Hänni, Catherine

    2013-01-01

    We have used a paleogenetics approach to investigate the genetic landscape of coat color variation in ancient Eurasian dog and wolf populations. We amplified DNA fragments of two genes controlling coat color, Mc1r (Melanocortin 1 Receptor) and CBD103 (canine-β-defensin), in respectively 15 and 19 ancient canids (dogs and wolf morphotypes) from 14 different archeological sites, throughout Asia and Europe spanning from ca. 12 000 B.P. (end of Upper Palaeolithic) to ca. 4000 B.P. (Bronze Age). We provide evidence of a new variant (R301C) of the Melanocortin 1 receptor (Mc1r) and highlight the presence of the beta-defensin melanistic mutation (CDB103-K locus) on ancient DNA from dog-and wolf-morphotype specimens. We show that the dominant K(B) allele (CBD103), which causes melanism, and R301C (Mc1r), the variant that may cause light hair color, are present as early as the beginning of the Holocene, over 10,000 years ago. These results underline the genetic diversity of prehistoric dogs. This diversity may have partly stemmed not only from the wolf gene pool captured by domestication but also from mutations very likely linked to the relaxation of natural selection pressure occurring in-line with this process.

  19. Evidence of Coat Color Variation Sheds New Light on Ancient Canids

    PubMed Central

    Ollivier, Morgane; Tresset, Anne; Hitte, Christophe; Petit, Coraline; Hughes, Sandrine; Gillet, Benjamin; Duffraisse, Marilyne; Pionnier-Capitan, Maud; Lagoutte, Laetitia; Arbogast, Rose-Marie; Balasescu, Adrian; Boroneant, Adina; Mashkour, Marjan; Vigne, Jean-Denis; Hänni, Catherine

    2013-01-01

    We have used a paleogenetics approach to investigate the genetic landscape of coat color variation in ancient Eurasian dog and wolf populations. We amplified DNA fragments of two genes controlling coat color, Mc1r (Melanocortin 1 Receptor) and CBD103 (canine-β-defensin), in respectively 15 and 19 ancient canids (dogs and wolf morphotypes) from 14 different archeological sites, throughout Asia and Europe spanning from ca. 12 000 B.P. (end of Upper Palaeolithic) to ca. 4000 B.P. (Bronze Age). We provide evidence of a new variant (R301C) of the Melanocortin 1 receptor (Mc1r) and highlight the presence of the beta-defensin melanistic mutation (CDB103-K locus) on ancient DNA from dog-and wolf-morphotype specimens. We show that the dominant KB allele (CBD103), which causes melanism, and R301C (Mc1r), the variant that may cause light hair color, are present as early as the beginning of the Holocene, over 10 000 years ago. These results underline the genetic diversity of prehistoric dogs. This diversity may have partly stemmed not only from the wolf gene pool captured by domestication but also from mutations very likely linked to the relaxation of natural selection pressure occurring in-line with this process. PMID:24098367

  20. SHEDDING NEW LIGHT ON NEURODEGENERATIVE DISEASES THROUGH THE MAMMALIAN TARGET OF RAPAMYCIN

    PubMed Central

    Chong, Zhao Zhong; Shang, Yan Chen; Wang, Shaohui; Maiese, Kenneth

    2012-01-01

    Neurodegenerative disorders affect a significant portion of the world's population leading to either disability or death for almost 30 million individuals worldwide. One novel therapeutic target that may offer promise for multiple disease entities that involve Alzheimer's disease, Parkinson's disease, epilepsy, trauma, stroke, and tumors of the nervous system is the mammalian target of rapamycin (mTOR). mTOR signaling is dependent upon the mTORC1 and mTORC2 complexes that are composed of mTOR and several regulatory proteins including the tuberous sclerosis complex (TSC1, hamartin/ TSC2, tuberin). Through a number of integrated cell signaling pathways that involve those of mTORC1 and mTORC2 as well as more novel signaling tied to cytokines, Wnt, and forkhead, mTOR can foster stem cellular proliferation, tissue repair and longevity, and synaptic growth by modulating mechanisms that foster both apoptosis and autophagy. Yet, mTOR through its proliferative capacity may sometimes be detrimental to central nervous system recovery and even promote tumorigenesis. Further knowledge of mTOR and the critical pathways governed by this serine/threonine protein kinase can bring new light for neurodegeneration and other related diseases that currently require new and robust treatments. PMID:22980037

  1. Shedding light on plant competition: modelling the influence of plant morphology on light capture (and vice versa).

    PubMed

    Clark, Ben; Bullock, Seth

    2007-01-21

    A plant's morphology is both strongly influenced by local light availability and, simultaneously, strongly influences this local light availability. This reciprocal relationship is complex, but lies at the heart of understanding plant growth and competition. Here, we develop a sub-individual-based simulation model, cast at the level of interacting plant components. The model explicitly simulates growth, development and competition for light at the level of leaves, branches, etc., located in 3D space. In this way, we are able to explore the manner in which the low-level processes governing plant growth and development give rise to individual-, cohort-, and community-level phenomena. In particular, we show that individual-level trade-offs between growing up and growing out arise naturally in the model, and robustly give rise to cohort-level phenomena such as self-thinning, and community processes such as the effect of ecological disturbance on the maintenance of biodiversity. We conclude with a note on our methodology and how to interpret the results of simulation models such as this one.

  2. Shedding More Light and Less Heat on the Results of School Integration. The Georgia Experience.

    ERIC Educational Resources Information Center

    Christison, Milton; Sida, Donald

    One hundred and eighty-eight Georgia school system superintendents were polled in the Spring of 1976 as to their perceptions and experiences concerning the effects of school integration. This paper presents the results of this investigation. Three broad areas were selected for analysis: (1) integration outcomes affecting the public schools, (2)…

  3. Discovery of Giant X-Ray Disk Sheds Light on Elliptical Galaxies

    NASA Astrophysics Data System (ADS)

    2002-12-01

    Ohio University astronomers have discovered the largest disk of hot, X-ray emitting gas ever observed in the universe: At 90,000 light years in diameter, it's about 100,000 times the size of any comparable object. The disk, spinning through a distant galaxy, is more than just an interstellar oddity, the researchers say. The object could offer new information about the way certain galaxies form and evolve. About 20 percent of all galaxies are elliptical, the largest of the three types of galaxies in the universe. They differ from spiral galaxies like the Milky Way, as they lack new stars and spiral "arms." Scientists once believed that elliptical galaxies were ancient, simple systems that contained only old stars and formed in the early days of the universe. But new research suggests elliptical galaxies are more complex and dynamic. "It used to be thought that galaxies form and then sit there and age quietly over time. But now we understand that galaxies live, in the sense that there's an interplay of gas and stars," said Thomas Statler, an associate professor of physics and astronomy and lead author of the study, published in the Dec. 20 issue of the Astrophysical Journal. The newly discovered X-ray disk offers more evidence for that argument. Using NASA's Chandra X-ray Observatory, an orbiting spacecraft that houses the most powerful X-ray telescope in existence, the astronomers discovered the disk while analyzing data collected from NGC 1700, a young elliptical galaxy about 160 million light years from Earth. Giant in size and about 8 million degrees in temperature, the disk was an unexpected find for Statler and colleague Brian McNamara. But while its gargantuan scale is striking, the disk also yielded another surprise: The hot gas is not in calm balance with the gravitational forces as expected, but spinning through the galaxy. In fact, the giant, rotating X-ray disk suggests that this elliptical galaxy and perhaps others like it wasn't created by the merger of

  4. Shedding Light on the Grey Zone of Speciation along a Continuum of Genomic Divergence

    PubMed Central

    Roux, Camille; Fraïsse, Christelle; Romiguier, Jonathan; Anciaux, Yoann; Galtier, Nicolas; Bierne, Nicolas

    2016-01-01

    Speciation results from the progressive accumulation of mutations that decrease the probability of mating between parental populations or reduce the fitness of hybrids—the so-called species barriers. The speciation genomic literature, however, is mainly a collection of case studies, each with its own approach and specificities, such that a global view of the gradual process of evolution from one to two species is currently lacking. Of primary importance is the prevalence of gene flow between diverging entities, which is central in most species concepts and has been widely discussed in recent years. Here, we explore the continuum of speciation thanks to a comparative analysis of genomic data from 61 pairs of populations/species of animals with variable levels of divergence. Gene flow between diverging gene pools is assessed under an approximate Bayesian computation (ABC) framework. We show that the intermediate "grey zone" of speciation, in which taxonomy is often controversial, spans from 0.5% to 2% of net synonymous divergence, irrespective of species life history traits or ecology. Thanks to appropriate modeling of among-locus variation in genetic drift and introgression rate, we clarify the status of the majority of ambiguous cases and uncover a number of cryptic species. Our analysis also reveals the high incidence in animals of semi-isolated species (when some but not all loci are affected by barriers to gene flow) and highlights the intrinsic difficulty, both statistical and conceptual, of delineating species in the grey zone of speciation. PMID:28027292

  5. Shedding Light on the Grey Zone of Speciation along a Continuum of Genomic Divergence.

    PubMed

    Roux, Camille; Fraïsse, Christelle; Romiguier, Jonathan; Anciaux, Yoann; Galtier, Nicolas; Bierne, Nicolas

    2016-12-01

    Speciation results from the progressive accumulation of mutations that decrease the probability of mating between parental populations or reduce the fitness of hybrids-the so-called species barriers. The speciation genomic literature, however, is mainly a collection of case studies, each with its own approach and specificities, such that a global view of the gradual process of evolution from one to two species is currently lacking. Of primary importance is the prevalence of gene flow between diverging entities, which is central in most species concepts and has been widely discussed in recent years. Here, we explore the continuum of speciation thanks to a comparative analysis of genomic data from 61 pairs of populations/species of animals with variable levels of divergence. Gene flow between diverging gene pools is assessed under an approximate Bayesian computation (ABC) framework. We show that the intermediate "grey zone" of speciation, in which taxonomy is often controversial, spans from 0.5% to 2% of net synonymous divergence, irrespective of species life history traits or ecology. Thanks to appropriate modeling of among-locus variation in genetic drift and introgression rate, we clarify the status of the majority of ambiguous cases and uncover a number of cryptic species. Our analysis also reveals the high incidence in animals of semi-isolated species (when some but not all loci are affected by barriers to gene flow) and highlights the intrinsic difficulty, both statistical and conceptual, of delineating species in the grey zone of speciation.

  6. GFP tagging sheds light on protein translocation: implications for key methods in cell biology.

    PubMed

    Deponte, Marcel

    2012-04-01

    Green fluorescent protein (GFP) is a powerful tool for studying gene expression, protein localization, protein-protein interactions, calcium concentrations, and redox potentials owing to its intrinsic fluorescence. However, GFP not only contains a chromophore but is also tightly folded in a temperature-dependent manner. The latter property of GFP has recently been exploited (1) to characterize the translocase of the outer mitochondrial membrane and (2) to discriminate between protein transport across and into biomembranes in vivo. I therefore suggest that GFP could be a valuable tool for the general analysis of protein transport machineries and pathways in a variety of organisms. Moreover, results from such studies could be important for the interpretation and optimization of classical experiments using GFP tagging.

  7. Shedding light on emotional perception: Interaction of brightness and semantic content in extrastriate visual cortex.

    PubMed

    Schettino, Antonio; Keil, Andreas; Porcu, Emanuele; Müller, Matthias M

    2016-06-01

    The rapid extraction of affective cues from the visual environment is crucial for flexible behavior. Previous studies have reported emotion-dependent amplitude modulations of two event-related potential (ERP) components - the N1 and EPN - reflecting sensory gain control mechanisms in extrastriate visual areas. However, it is unclear whether both components are selective electrophysiological markers of attentional orienting toward emotional material or are also influenced by physical features of the visual stimuli. To address this question, electrical brain activity was recorded from seventeen male participants while viewing original and bright versions of neutral and erotic pictures. Bright neutral scenes were rated as more pleasant compared to their original counterpart, whereas erotic scenes were judged more positively when presented in their original version. Classical and mass univariate ERP analysis showed larger N1 amplitude for original relative to bright erotic pictures, with no differences for original and bright neutral scenes. Conversely, the EPN was only modulated by picture content and not by brightness, substantiating the idea that this component is a unique electrophysiological marker of attention allocation toward emotional material. Complementary topographic analysis revealed the early selective expression of a centro-parietal positivity following the presentation of original erotic scenes only, reflecting the recruitment of neural networks associated with sustained attention and facilitated memory encoding for motivationally relevant material. Overall, these results indicate that neural networks subtending the extraction of emotional information are differentially recruited depending on low-level perceptual features, which ultimately influence affective evaluations. Copyright © 2016 Elsevier Inc. All rights reserved.

  8. Resolving Phenylalanine Metabolism Sheds Light on Natural Synthesis of Penicillin G in Penicillium chrysogenum

    PubMed Central

    Veiga, Tânia; Solis-Escalante, Daniel; Romagnoli, Gabriele; ten Pierick, Angela; Hanemaaijer, Mark; Deshmuhk, Amit; Wahl, Aljoscha; Pronk, Jack T.

    2012-01-01

    The industrial production of penicillin G by Penicillium chrysogenum requires the supplementation of the growth medium with the side chain precursor phenylacetate. The growth of P. chrysogenum with phenylalanine as the sole nitrogen source resulted in the extracellular production of phenylacetate and penicillin G. To analyze this natural pathway for penicillin G production, chemostat cultures were switched to [U-13C]phenylalanine as the nitrogen source. The quantification and modeling of the dynamics of labeled metabolites indicated that phenylalanine was (i) incorporated in nascent protein, (ii) transaminated to phenylpyruvate and further converted by oxidation or by decarboxylation, and (iii) hydroxylated to tyrosine and subsequently metabolized via the homogentisate pathway. The involvement of the homogentisate pathway was supported by the comparative transcriptome analysis of P. chrysogenum cultures grown with phenylalanine and with (NH4)2SO4 as the nitrogen source. This transcriptome analysis also enabled the identification of two putative 2-oxo acid decarboxylase genes (Pc13g9300 and Pc18g01490). cDNAs of both genes were cloned and expressed in the 2-oxo-acid-decarboxylase-free Saccharomyces cerevisiae strain CEN.PK711-7C (pdc1 pdc5 pdc6Δ aro10Δ thi3Δ). The introduction of Pc13g09300 restored the growth of this S. cerevisiae mutant on glucose and phenylalanine, thereby demonstrating that Pc13g09300 encodes a dual-substrate pyruvate and phenylpyruvate decarboxylase, which plays a key role in an Ehrlich-type pathway for the production of phenylacetate in P. chrysogenum. These results provide a basis for the metabolic engineering of P. chrysogenum for the production of the penicillin G side chain precursor phenylacetate. PMID:22158714

  9. Resolving phenylalanine metabolism sheds light on natural synthesis of penicillin G in Penicillium chrysogenum.

    PubMed

    Veiga, Tânia; Solis-Escalante, Daniel; Romagnoli, Gabriele; ten Pierick, Angela; Hanemaaijer, Mark; Deshmukh, Amit T; Deshmuhk, Amit; Wahl, Aljoscha; Pronk, Jack T; Daran, Jean-Marc

    2012-02-01

    The industrial production of penicillin G by Penicillium chrysogenum requires the supplementation of the growth medium with the side chain precursor phenylacetate. The growth of P. chrysogenum with phenylalanine as the sole nitrogen source resulted in the extracellular production of phenylacetate and penicillin G. To analyze this natural pathway for penicillin G production, chemostat cultures were switched to [U-(13)C]phenylalanine as the nitrogen source. The quantification and modeling of the dynamics of labeled metabolites indicated that phenylalanine was (i) incorporated in nascent protein, (ii) transaminated to phenylpyruvate and further converted by oxidation or by decarboxylation, and (iii) hydroxylated to tyrosine and subsequently metabolized via the homogentisate pathway. The involvement of the homogentisate pathway was supported by the comparative transcriptome analysis of P. chrysogenum cultures grown with phenylalanine and with (NH(4))(2)SO(4) as the nitrogen source. This transcriptome analysis also enabled the identification of two putative 2-oxo acid decarboxylase genes (Pc13g9300 and Pc18g01490). cDNAs of both genes were cloned and expressed in the 2-oxo-acid-decarboxylase-free Saccharomyces cerevisiae strain CEN.PK711-7C (pdc1 pdc5 pdc6Δ aro10Δ thi3Δ). The introduction of Pc13g09300 restored the growth of this S. cerevisiae mutant on glucose and phenylalanine, thereby demonstrating that Pc13g09300 encodes a dual-substrate pyruvate and phenylpyruvate decarboxylase, which plays a key role in an Ehrlich-type pathway for the production of phenylacetate in P. chrysogenum. These results provide a basis for the metabolic engineering of P. chrysogenum for the production of the penicillin G side chain precursor phenylacetate.

  10. Environmental Viral Genomes Shed New Light on Virus-Host Interactions in the Ocean

    PubMed Central

    Nishimura, Yosuke; Watai, Hiroyasu; Honda, Takashi; Mihara, Tomoko; Omae, Kimiho; Roux, Simon; Blanc-Mathieu, Romain; Yamamoto, Keigo; Hingamp, Pascal; Sako, Yoshihiko; Sullivan, Matthew B.; Goto, Susumu

    2017-01-01

    ABSTRACT Metagenomics has revealed the existence of numerous uncharacterized viral lineages, which are referred to as viral “dark matter.” However, our knowledge regarding viral genomes is biased toward culturable viruses. In this study, we analyzed 1,600 (1,352 nonredundant) complete double-stranded DNA viral genomes (10 to 211 kb) assembled from 52 marine viromes. Together with 244 previously reported uncultured viral genomes, a genome-wide comparison delineated 617 genus-level operational taxonomic units (OTUs) for these environmental viral genomes (EVGs). Of these, 600 OTUs contained no representatives from known viruses, thus putatively corresponding to novel viral genera. Predicted hosts of the EVGs included major groups of marine prokaryotes, such as marine group II Euryarchaeota and SAR86, from which no viruses have been isolated to date, as well as Flavobacteriaceae and SAR116. Our analysis indicates that marine cyanophages are already well represented in genome databases and that one of the EVGs likely represents a new cyanophage lineage. Several EVGs encode many enzymes that appear to function for an efficient utilization of iron-sulfur clusters or to enhance host survival. This suggests that there is a selection pressure on these marine viruses to accumulate genes for specific viral propagation strategies. Finally, we revealed that EVGs contribute to a 4-fold increase in the recruitment of photic-zone viromes compared with the use of current reference viral genomes. IMPORTANCE Viruses are diverse and play significant ecological roles in marine ecosystems. However, our knowledge of genome-level diversity in viruses is biased toward those isolated from few culturable hosts. Here, we determined 1,352 nonredundant complete viral genomes from marine environments. Lifting the uncertainty that clouds short incomplete sequences, whole-genome-wide analysis suggests that these environmental genomes represent hundreds of putative novel viral genera. Predicted

  11. A New Snake Skull from the Paleocene of Bolivia Sheds Light on the Evolution of Macrostomatans

    PubMed Central

    Scanferla, Agustín; Zaher, Hussam; Novas, Fernando E.; de Muizon, Christian; Céspedes, Ricardo

    2013-01-01

    Macrostomatan snakes, one of the most diverse extant clades of squamates, display an impressive arsenal of cranial features to consume a vast array of preys. In the absence of indisputable fossil representatives of this clade with well-preserved skulls, the mode and timing of these extraordinary morphological novelties remain obscure. Here, we report the discovery of Kataria anisodonta n. gen. n. sp., a macrostomatan snake recovered in the Early Palaeocene locality of Tiupampa, Bolivia. The holotype consists of a partial, minute skull that exhibits a combination of booid and caenophidian characters, being the presence of an anisodont dentition and diastema in the maxilla the most distinctive trait. Phylogenetic analysis places Kataria basal to the Caenophidia+Tropidophiidae, and represents along with bolyeriids a distinctive clade of derived macrostomatans. The discovery of Kataria highlights the morphological diversity in the maxilla among derived macrostomatans, demonstrating the relevance of maxillary transformations in the evolution of this clade. Kataria represents the oldest macrostomatan skull recovered, revealing that the diversification of macrostomatans was well under way in early Tertiary times. This record also reinforces the importance of Gondwanan territories in the history of snakes, not only in the origin of the entire group but also in the evolution of ingroup clades. PMID:23469206

  12. A new giant titanosaur sheds light on body mass evolution among sauropod dinosaurs.

    PubMed

    Carballido, José L; Pol, Diego; Otero, Alejandro; Cerda, Ignacio A; Salgado, Leonardo; Garrido, Alberto C; Ramezani, Jahandar; Cúneo, Néstor R; Krause, Javier M

    2017-08-16

    Titanosauria was the most diverse and successful lineage of sauropod dinosaurs. This clade had its major radiation during the middle Early Cretaceous and survived up to the end of that period. Among sauropods, this lineage has the most disparate values of body mass, including the smallest and largest sauropods known. Although recent findings have improved our knowledge on giant titanosaur anatomy, there are still many unknown aspects about their evolution, especially for the most gigantic forms and the evolution of body mass in this clade. Here we describe a new giant titanosaur, which represents the largest species described so far and one of the most complete titanosaurs. Its inclusion in an extended phylogenetic analysis and the optimization of body mass reveals the presence of an endemic clade of giant titanosaurs inhabited Patagonia between the Albian and the Santonian. This clade includes most of the giant species of titanosaurs and represents the major increase in body mass in the history of Titanosauria. © 2017 The Author(s).

  13. Shed a light in fatigue detection with near-infrared spectroscopy during long-lasting driving

    NASA Astrophysics Data System (ADS)

    Gao, Yuan; Pan, Boan; Li, Kai; Li, Ting

    2016-03-01

    Fatigue driving is one of the leading roles to induce traffic accident and injury, which urgently desires a novel technique to monitor the fatigue level at driving. Functional near infrared spectroscopy (fNIRS) is capable of noninvasive monitoring brain-activities-related hemodynamic responses. Here, we developed a fINRS imager and setup a classic psychological experiment to trigger visual divided attention which varied responding to driving fatigue, and attempted to record the drive-fatigue-level correlated hemodynamic response in the prefrontal cortex. 7 volunteers were recruited to take 7 hours driving and the experimental test was repeated every 1 hour and 8 times in total. The hemodynamic response were extracted and graphed with pseudo image. The analysis on the relationship between the fNIRS-measured hemodynamic response and fatigue level finally displayed that the oxyhemoglobin concentration in one channel of left prefrontal lobe increased with driving duration in significant correlation. And the spatial pattern of hemodynamic response in the prefrontal lobe varied with driving duration as well. The findings indicated the potential of fNIRSmeasured hemodynamic index in some sensitive spot of prefrontal lobe as a driving fatigue indicator and the promising use of fNIRS in traffic safety field.

  14. Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans

    NASA Astrophysics Data System (ADS)

    Coutinho, Felipe H.; Silveira, Cynthia B.; Gregoracci, Gustavo B.; Thompson, Cristiane C.; Edwards, Robert A.; Brussaard, Corina P. D.; Dutilh, Bas E.; Thompson, Fabiano L.

    2017-07-01

    Marine viruses are key drivers of host diversity, population dynamics and biogeochemical cycling and contribute to the daily flux of billions of tons of organic matter. Despite recent advancements in metagenomics, much of their biodiversity remains uncharacterized. Here we report a data set of 27,346 marine virome contigs that includes 44 complete genomes. These outnumber all currently known phage genomes in marine habitats and include members of previously uncharacterized lineages. We designed a new method for host prediction based on co-occurrence associations that reveals these viruses infect dominant members of the marine microbiome such as Prochlorococcus and Pelagibacter. A negative association between host abundance and the virus-to-host ratio supports the recently proposed Piggyback-the-Winner model of reduced phage lysis at higher host densities. An analysis of the abundance patterns of viruses throughout the oceans revealed how marine viral communities adapt to various seasonal, temperature and photic regimes according to targeted hosts and the diversity of auxiliary metabolic genes.

  15. Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans.

    PubMed

    Coutinho, Felipe H; Silveira, Cynthia B; Gregoracci, Gustavo B; Thompson, Cristiane C; Edwards, Robert A; Brussaard, Corina P D; Dutilh, Bas E; Thompson, Fabiano L

    2017-07-05

    Marine viruses are key drivers of host diversity, population dynamics and biogeochemical cycling and contribute to the daily flux of billions of tons of organic matter. Despite recent advancements in metagenomics, much of their biodiversity remains uncharacterized. Here we report a data set of 27,346 marine virome contigs that includes 44 complete genomes. These outnumber all currently known phage genomes in marine habitats and include members of previously uncharacterized lineages. We designed a new method for host prediction based on co-occurrence associations that reveals these viruses infect dominant members of the marine microbiome such as Prochlorococcus and Pelagibacter. A negative association between host abundance and the virus-to-host ratio supports the recently proposed Piggyback-the-Winner model of reduced phage lysis at higher host densities. An analysis of the abundance patterns of viruses throughout the oceans revealed how marine viral communities adapt to various seasonal, temperature and photic regimes according to targeted hosts and the diversity of auxiliary metabolic genes.

  16. Marine viruses discovered via metagenomics shed light on viral strategies throughout the oceans

    PubMed Central

    Coutinho, Felipe H.; Silveira, Cynthia B.; Gregoracci, Gustavo B.; Thompson, Cristiane C.; Edwards, Robert A.; Brussaard, Corina P. D.; Dutilh, Bas E.; Thompson, Fabiano L.

    2017-01-01

    Marine viruses are key drivers of host diversity, population dynamics and biogeochemical cycling and contribute to the daily flux of billions of tons of organic matter. Despite recent advancements in metagenomics, much of their biodiversity remains uncharacterized. Here we report a data set of 27,346 marine virome contigs that includes 44 complete genomes. These outnumber all currently known phage genomes in marine habitats and include members of previously uncharacterized lineages. We designed a new method for host prediction based on co-occurrence associations that reveals these viruses infect dominant members of the marine microbiome such as Prochlorococcus and Pelagibacter. A negative association between host abundance and the virus-to-host ratio supports the recently proposed Piggyback-the-Winner model of reduced phage lysis at higher host densities. An analysis of the abundance patterns of viruses throughout the oceans revealed how marine viral communities adapt to various seasonal, temperature and photic regimes according to targeted hosts and the diversity of auxiliary metabolic genes. PMID:28677677

  17. Stem caecilian from the Triassic of Colorado sheds light on the origins of Lissamphibia.

    PubMed

    Pardo, Jason D; Small, Bryan J; Huttenlocker, Adam K

    2017-07-03

    The origin of the limbless caecilians remains a lasting question in vertebrate evolution. Molecular phylogenies and morphology support that caecilians are the sister taxon of batrachians (frogs and salamanders), from which they diverged no later than the early Permian. Although recent efforts have discovered new, early members of the batrachian lineage, the record of pre-Cretaceous caecilians is limited to a single species, Eocaecilia micropodia The position of Eocaecilia within tetrapod phylogeny is controversial, as it already acquired the specialized morphology that characterizes modern caecilians by the Jurassic. Here, we report on a small amphibian from the Upper Triassic of Colorado, United States, with a mélange of caecilian synapomorphies and general lissamphibian plesiomorphies. We evaluated its relationships by designing an inclusive phylogenetic analysis that broadly incorporates definitive members of the modern lissamphibian orders and a diversity of extinct temnospondyl amphibians, including stereospondyls. Our results place the taxon confidently within lissamphibians but demonstrate that the diversity of Permian and Triassic stereospondyls also falls within this group. This hypothesis of caecilian origins closes a substantial morphologic and temporal gap and explains the appeal of morphology-based polyphyly hypotheses for the origins of Lissamphibia while reconciling molecular support for the group's monophyly. Stem caecilian morphology reveals a previously unrecognized stepwise acquisition of typical caecilian cranial apomorphies during the Triassic. A major implication is that many Paleozoic total group lissamphibians (i.e., higher temnospondyls, including the stereospondyl subclade) fall within crown Lissamphibia, which must have originated before 315 million years ago.

  18. An exceptional Devonian fish from Australia sheds light on tetrapod origins.

    PubMed

    Long, John A; Young, Gavin C; Holland, Tim; Senden, Tim J; Fitzgerald, Erich M G

    2006-11-09

    The transition from fishes to tetrapods was one of the most dramatic events in the evolution of vertebrates, but many pivotal fossils are incomplete, resulting in gaps in the data that are used for phylogenetic reconstruction. Here we present new observations from the most complete, acid-prepared Devonian tetrapodomorph fish yet discovered, Gogonasus, which was previously placed just crownward of Kenichthys and rhizodontids, the most primitive taxa on the tetrapod lineage. Unexpectedly, Gogonasus shows a mosaic of plesiomorphic and derived tetrapod-like features. Whereas the braincase and dermal cranial skeleton exhibit generalized morphologies with respect to Eusthenopteron or Panderichthys, taxa that are traditionally considered to be phyletically close to tetrapods, the presence of a deeply invaginated, wide spiracle, advanced internal spiracular architecture and near-horizontal hyomandibula are specialized features that are absent from Eusthenopteron. Furthermore, the pectoral fin skeleton of Gogonasus shares several features with that of Tiktaalik, the most tetrapod-like fish. A new phylogenetic analysis places Gogonasus crownward of Eusthenopteron as the sister taxon to the Elpistostegalia. Aspects of the basic tetrapod limb skeleton and middle ear architecture can now be traced further back within the tetrapodomorph radiation.

  19. Snapshots of Conformational Changes Shed Light into the NtrX Receiver Domain Signal Transduction Mechanism.

    PubMed

    Fernández, Ignacio; Otero, Lisandro H; Klinke, Sebastián; Carrica, Mariela del Carmen; Goldbaum, Fernando A

    2015-10-09

    Brucella abortus is an important pathogenic bacterium that has to overcome oxygen deficiency in order to achieve a successful infection. Previously, we proved that a two-component system formed by the histidine kinase NtrY and the response regulator NtrX is essential to achieve an adaptive response to low oxygen tension conditions. Even though the relevance of this signaling pathway has already been demonstrated in other microorganisms, its molecular activation mechanism has not yet been described in detail. In this article, we report the first crystal structures from different conformations of the NtrX receiver domain from B. abortus, and we propose a sequence of events to explain the structural rearrangements along the activation process. The analysis of the structures obtained in the presence of the phosphoryl group analog beryllofluoride led us to postulate that changes in the interface formed by the α4 helix and the β5 strand are important for the activation, producing a reorientation of the α5 helix. Also, a biochemical characterization of the NtrX receiver domain enzymatic activities was performed, describing its autophosphorylation and autodephosphorylation kinetics. Finally, the role of H85, an important residue, was addressed by site-directed mutagenesis. Overall, these results provide significant structural basis for understanding the response regulator activation in this bacterial two-component system.

  20. A new snake skull from the Paleocene of Bolivia sheds light on the evolution of macrostomatans.

    PubMed

    Scanferla, Agustín; Zaher, Hussam; Novas, Fernando E; de Muizon, Christian; Céspedes, Ricardo

    2013-01-01

    Macrostomatan snakes, one of the most diverse extant clades of squamates, display an impressive arsenal of cranial features to consume a vast array of preys. In the absence of indisputable fossil representatives of this clade with well-preserved skulls, the mode and timing of these extraordinary morphological novelties remain obscure. Here, we report the discovery of Kataria anisodonta n. gen. n. sp., a macrostomatan snake recovered in the Early Palaeocene locality of Tiupampa, Bolivia. The holotype consists of a partial, minute skull that exhibits a combination of booid and caenophidian characters, being the presence of an anisodont dentition and diastema in the maxilla the most distinctive trait. Phylogenetic analysis places Kataria basal to the Caenophidia+Tropidophiidae, and represents along with bolyeriids a distinctive clade of derived macrostomatans. The discovery of Kataria highlights the morphological diversity in the maxilla among derived macrostomatans, demonstrating the relevance of maxillary transformations in the evolution of this clade. Kataria represents the oldest macrostomatan skull recovered, revealing that the diversification of macrostomatans was well under way in early Tertiary times. This record also reinforces the importance of Gondwanan territories in the history of snakes, not only in the origin of the entire group but also in the evolution of ingroup clades.

  1. Quantitative PCR analysis of Mycoplasma suis shedding patterns during experimental infection.

    PubMed

    Dietz, Stefanie; Mack, Sarah-Lena; Hoelzle, Katharina; Becker, Katja; Jannasch, Carolin; Stadler, Julia; Ritzmann, Mathias; Hoelzle, Ludwig E

    2014-08-27

    The uncultivable hemotrophic bacterium Mycoplasma suis causes infectious anemia in pigs worldwide. The mechanisms by which M. suis is transmitted from pig to pig are largely unknown. Thus, the present study aimed at investigating urine, feces, saliva, nasal and vaginal secrets as well as environmental samples for the presence of M. suis DNA to get insights into potential transmission routes. Seven pigs were experimentally infected with M. suis KI3806. Samples were taken for 8 days post infection (p.i.). A quantitative LightCycler msg1 PCR was used to detect and quantify M. suis. Shedding was found in saliva as well as nasal and vaginal secrets from day 6 p.i. on with a quantity of 3.4 × 10(2) to 2.7 × 10(5)M. suis/swab. In urine M. suis DNA could be detected in 100.0% of the samples from day 6 p.i. on with a quantity of 4.7 × 10(2) to 6.3 × 10(5)M. suis per mL. When shedding patterns were correlated to the median bacterial blood loads shedding was observed at loads of 2.0 × 10(9)-7.0 × 10(10)M. suis per mL blood. No M. suis DNA could be amplified from feces. Dust and water samples of the pig drinking troughs were positive for M. suis on days 2 and 6 post infection, air samples were M. suis-negative throughout the experiment. Our results indicate that blood independent direct transmission as well as indirect transmission via environmental contamination could play a role in the epidemiology of M. suis infections.

  2. Familial Hemophagocytic Lymphohistiocytosis: When Rare Diseases Shed Light on Immune System Functioning

    PubMed Central

    Sieni, Elena; Cetica, Valentina; Hackmann, Yvonne; Coniglio, Maria Luisa; Da Ros, Martina; Ciambotti, Benedetta; Pende, Daniela; Griffiths, Gillian; Aricò, Maurizio

    2014-01-01

    The human immune system depends on the activity of cytotoxic T lymphocytes (CTL), natural killer (NK) cells, and NKT cells in order to fight off a viral infection. Understanding the molecular mechanisms during this process and the role of individual proteins was greatly improved by the study of familial hemophagocytic lymphohistiocytosis (FHL). Since 1999, genetic sequencing is the gold standard to classify patients into different subgroups of FHL. The diagnosis, once based on a clinical constellation of abnormalities, is now strongly supported by the results of a functional flow-cytometry screening, which directs the genetic study. A few additional congenital immune deficiencies can also cause a resembling or even identical clinical picture to FHL. As in many other rare human disorders, the collection and analysis of a relatively large number of cases in registries is crucial to draw a complete picture of the disease. The conduction of prospective therapeutic trials allows investigators to increase the awareness of the disease and to speed up the diagnostic process, but also provides important functional and genetic confirmations. Children with confirmed diagnosis may undergo hematopoietic stem cell transplantation, which is the only cure known to date. Moreover, detailed characterization of these rare patients helped to understand the function of individual proteins within the exocytic machinery of CTL, NK, and NKT cells. Moreover, identification of these genotypes also provides valuable information on variant phenotypes, other than FHL, associated with biallelic and monoallelic mutations in the FHL-related genes. In this review, we describe how detailed characterization of patients with genetic hemophagocytic lymphohistiocytosis has resulted in improvement in knowledge regarding contribution of individual proteins to the functional machinery of cytotoxic T- and NK-cells. The review also details how identification of these genotypes has provided valuable

  3. Efficient event-driven simulations shed new light on microtubule organization in the plant cortical array

    NASA Astrophysics Data System (ADS)

    Tindemans, Simon H.; Deinum, Eva E.; Lindeboom, Jelmer J.; Mulder, Bela M.

    2014-04-01

    The dynamics of the plant microtubule cytoskeleton is a paradigmatic example of the complex spatiotemporal processes characterising life at the cellular scale. This system is composed of large numbers of spatially extended particles, each endowed with its own intrinsic stochastic dynamics, and is capable of non-equilibrium self-organisation through collisional interactions of these particles. To elucidate the behaviour of such a complex system requires not only conceptual advances, but also the development of appropriate computational tools to simulate it. As the number of parameters involved is large and the behaviour is stochastic, it is essential that these simulations be fast enough to allow for an exploration of the phase space and the gathering of sufficient statistics to accurately pin down the average behaviour as well as the magnitude of fluctuations around it. Here we describe a simulation approach that meets this requirement by adopting an event-driven methodology that encompasses both the spontaneous stochastic changes in microtubule state as well as the deterministic collisions. In contrast with finite time step simulations this technique is intrinsically exact, as well as several orders of magnitude faster, which enables ordinary PC hardware to simulate systems of ˜ 10^3 microtubules on a time scale ˜ 10^{3} faster than real time. In addition we present new tools for the analysis of microtubule trajectories on curved surfaces. We illustrate the use of these methods by addressing a number of outstanding issues regarding the importance of various parameters on the transition from an isotropic to an aligned and oriented state.

  4. The Narrow Niche hypothesis: gray squirrels shed new light on primate origins.

    PubMed

    Orkin, Joseph D; Pontzer, Herman

    2011-04-01

    Current hypotheses for primate origins propose that nails and primate-like grasping hands and feet were important early adaptations for feeding in fine branches. Comparative research in this area has focused on instances of convergence in extant animals, showing that species with primate-like morphology feed predominantly from terminal branches. Little has been done to test whether animals without primate-like morphology engage in similar behavior. We tested the fine-branch niche hypothesis for primate origins by observing branch use in Eastern gray squirrels, Sciurus carolinensis, a species lacking primate grasping adaptations that has been understudied in the context of primate origins. We hypothesized that because gray squirrels lack primate-like grasping adaptations, they would avoid feeding and foraging in terminal branches. Instantaneous focal animal sampling was used to examine the locomotor and postural behaviors used while feeding and foraging. Our results demonstrate habitual and effective usage of terminal branches by gray squirrels while feeding and foraging, primarily on tree seeds (e.g., oak, maple, and elm). Discriminant function analysis indicates that gray squirrels feed and forage like primates, unlike some other tree squirrel species. Given the absence of primate-like features in gray squirrels, we suggest that although selection for fine-branch foraging may be a necessary condition for primate origins, it is not sufficient. We propose an alternative model of primate origins. The Narrow Niche hypothesis suggests that the primate morphological suite evolved not only from selection pressure for fine branch use, but also from a lack of engagement in other activities. Copyright © 2011 Wiley-Liss, Inc.

  5. Molluscan neurons in culture: shedding light on synapse formation and plasticity.

    PubMed

    Schmold, Nichole; Syed, Naweed I

    2012-08-01

    From genes to behaviour, the simple model system approach has played many pivotal roles in deciphering nervous system function in both invertebrates and vertebrates. However, with the advent of sophisticated imaging and recording techniques enabling the direct investigation of single vertebrate neurons, the utility of simple invertebrate organisms as model systems has been put to question. To address this subject meaningfully and comprehensively, we first review the contributions made by invertebrates in the field of neuroscience over the years, paving the way for similar breakthroughs in higher animals. In particular, we focus on molluscan (Lymnaea, Aplysia, and Helisoma) and leech (Hirudo) models and the pivotal roles they have played in elucidating mechanisms of synapse formation and plasticity. While the ultimate goal in neuroscience is to understand the workings of the human brain in both its normal and diseased states, the sheer complexity of most vertebrate models still makes it difficult to define the underlying principles of nervous system function. Investigators have thus turned to invertebrate models, which are unique with respect to their simple nervous systems that are endowed with a finite number of large, individually identifiable neurons of known function. We start off by discussing in vivo and semi-intact preparations, regarding their amenability to simple circuit analysis. Despite the 'simplicity' of invertebrate nervous systems however, it is still difficult to study individual synaptic connections in detail. We therefore emphasize in the next section, the utility of studying identified invertebrate neurons in vitro, to directly examine the development, specificity, and plasticity of synaptic connections in a well-defined environment, at a resolution that it is still unapproachable in the intact brain. We conclude with a discussion of the future of invertebrates in neuroscience in elucidating mechanisms of neurological disease and developing

  6. Shedding light on the relative DNA contribution of two persons handling the same object.

    PubMed

    Oldoni, F; Castella, V; Hall, D

    2016-09-01

    Traces collected on crime scene objects frequently result in challenging DNA mixtures from several contributors in different DNA proportions. Understanding how the relative proportion of DNA deposited by different persons who handled the same object evolves through time has important bearings. For instance, this information may help determine whether the major contributor in a mixed DNA profile is more likely to correspond to the object owner or to the person who may have stolen this object. In this perspective, a simulation-based protocol was designed where randomly paired participants were asked to act either as first (object owner) or second (last) users. The first user was asked to handle/wear 9 different plastic-, metal-, nitrile- and fabric-made objects, commonly found at burglary/robbery crime scenes, for a minimum of 20min during 8 or 10 consecutive days. The second user subsequently used them for 5, 30 or 120min in three distinct simulation sessions. The analysis of the relative DNA contribution on the resulting 234 mock DNA traces revealed a large variability in the contribution depending on the time, substrate and pairs of participants. Despite this, a progressive increase of the second user's DNA contribution, relative to the first user, was observed over time in 93% of the traces. The second user was shown to become the major contributor in approximately 15%, 33% and 55% of the traces recovered from objects used for 5, 30 and 120min, respectively. Single-source DNA profiles were shown to represent only 1% of the traces. In addition, the DNA profiles of 165 out of 234 (71%) simulated traces displayed extra alleles. Most of these occurred in the minor fraction of mixed DNA profiles and were interpreted as artefacts. Nevertheless, DNA profiles of known participants either involved or not in the simulations were observed in 9 cases (4%). This confirms that indirect DNA transfer should be taken into account when interpreting "touch" DNA evidence.

  7. Expression patterns of Passiflora edulis APETALA1/FRUITFULL homologues shed light onto tendril and corona identities.

    PubMed

    Scorza, Livia C T; Hernandes-Lopes, Jose; Melo-de-Pinna, Gladys F A; Dornelas, Marcelo C

    2017-01-01

    Passiflora (passionflowers) makes an excellent model for studying plant evolutionary development. They are mostly perennial climbers that display axillary tendrils, which are believed to be modifications of the inflorescence. Passionflowers are also recognized by their unique flower features, such as the extra whorls of floral organs composed of corona filaments and membranes enclosing the nectary. Although some work on Passiflora organ ontogeny has been done, the developmental identity of both Passiflora tendrils and the corona is still controversial. Here, we combined ultrastructural analysis and expression patterns of the flower meristem and floral organ identity genes of the MADS-box AP1/FUL clade to reveal a possible role for these genes in the generation of evolutionary novelties in Passiflora. We followed the development of structures arising from the axillary meristem from juvenile to adult phase in P. edulis. We further assessed the expression pattern of P. edulis AP1/FUL homologues (PeAP1 and PeFUL), by RT-qPCR and in situ hybridization in several tissues, correlating it with the developmental stages of P. edulis. PeAP1 is expressed only in the reproductive stage, and it is highly expressed in tendrils and in flower meristems from the onset of their development. PeAP1 is also expressed in sepals, petals and in corona filaments, suggesting a novel role for PeAP1 in floral organ diversification. PeFUL presented a broad expression pattern in both vegetative and reproductive tissues, and it is also expressed in fruits. Our results provide new molecular insights into the morphological diversity in the genus Passiflora. Here, we bring new evidence that tendrils are part of the Passiflora inflorescence. This points to the convergence of similar developmental processes involving the recruitment of genes related to flower identity in the origin of tendrils in different plant families. The data obtained also support the hypothesis that the corona filaments are

  8. Shedding light on a dark state: the energetically lowest quintet state of C2.

    PubMed

    Bornhauser, P; Sych, Y; Knopp, G; Gerber, T; Radi, P P

    2011-01-28

    In this work we present a deperturbation study of the d (3)Π(g), v=6 state of C(2) by double-resonant four-wave mixing spectroscopy. Accurate line positions of perturbed transitions are unambiguously assigned by intermediate level labeling. In addition, extra lines are accessible by taking advantage of the sensitivity and high dynamic range of the technique. These weak spectral features originate from nearby-lying dark states that gain transition strength through the perturbation process. The deperturbation analysis of the complex spectral region in the (6,5) and (6,4) bands of the Swan system (d(3)Π(g)-a (3)Π(u)) unveils the presence of the energetically lowest high-spin state of C(2) in the vicinity of the d (3)Π(g), v=6 state. The term energy curves of the three spin components of the d state cross the five terms of the 1 (5)Π(g) state at rotational quantum numbers N ≤ 11. The spectral complexity for transitions to the v = 6 level of d (3)Π(g) state is further enhanced by an additional perturbation at N = 19 and 21 owing to the b (3)Σ(g)(-), v=19 state. The spectroscopic characterization of both dark states is accessible by the measurement of 122 "window" levels. A global fit of the positions to a conventional Hamiltonian for a linear diatomic molecule yields accurate molecular constants for the quintet and triplet perturber states for the first time. In addition, parameters for the spin-orbit and L-uncoupling interaction between the electronic levels are determined. The detailed deperturbation study unravels major issues of the so-called high-pressure bands of C(2). The anomalous nonthermal emission initially observed by Fowler in 1910 [Mon. Not. R. Astron. Soc. 70, 484 (1910)] and later observed in numerous experimental environments are rationalized by taking into account "gateway" states, i.e., rotational levels of the d (3)Π(g), v=6 state that exhibit significant (5)Π(g) character through which all population flows from one

  9. Shedding light on a dark state: The energetically lowest quintet state of C2

    NASA Astrophysics Data System (ADS)

    Bornhauser, P.; Sych, Y.; Knopp, G.; Gerber, T.; Radi, P. P.

    2011-01-01

    In this work we present a deperturbation study of the d ^3Π _g, v=6 state of C2 by double-resonant four-wave mixing spectroscopy. Accurate line positions of perturbed transitions are unambiguously assigned by intermediate level labeling. In addition, extra lines are accessible by taking advantage of the sensitivity and high dynamic range of the technique. These weak spectral features originate from nearby-lying dark states that gain transition strength through the perturbation process. The deperturbation analysis of the complex spectral region in the (6,5) and (6,4) bands of the Swan system (d^3Π _g-a ^3Π _u) unveils the presence of the energetically lowest high-spin state of C2 in the vicinity of the d ^3Π _g, v=6 state. The term energy curves of the three spin components of the d state cross the five terms of the 1^5Π _g state at rotational quantum numbers N ⩽ 11. The spectral complexity for transitions to the v = 6 level of d ^3Π _g state is further enhanced by an additional perturbation at N = 19 and 21 owing to the b ^3Σ _g^-, v=19 state. The spectroscopic characterization of both dark states is accessible by the measurement of 122 "window" levels. A global fit of the positions to a conventional Hamiltonian for a linear diatomic molecule yields accurate molecular constants for the quintet and triplet perturber states for the first time. In addition, parameters for the spin-orbit and L-uncoupling interaction between the electronic levels are determined. The detailed deperturbation study unravels major issues of the so-called high-pressure bands of C2. The anomalous nonthermal emission initially observed by Fowler in 1910 [Mon. Not. R. Astron. Soc. 70, 484 (1910)] and later observed in numerous experimental environments are rationalized by taking into account "gateway" states, i.e., rotational levels of the d ^3Π _g, v=6 state that exhibit significant ^5Π _g character through which all population flows from one electronic state to the other.

  10. The genomics of wild yeast populations sheds light on the domestication of man's best (micro) friend.

    PubMed

    Eberlein, Chris; Leducq, Jean-Baptiste; Landry, Christian R

    2015-11-01

    The domestication of plants, animals and microbes by humans are the longest artificial evolution experiments ever performed. The study of these long-term experiments can teach us about the genomics of adaptation through the identification of the genetic bases underlying the traits favoured by humans. In laboratory evolution, the characterization of the molecular changes that evolved specifically in some lineages is straightforward because the ancestors are readily available, for instance in the freezer. However, in the case of domesticated species, the ancestor is often missing, which leads to the necessity of going back to nature in order to infer the most likely ancestral state. Significant and relatively recent examples of this approach include wolves as the closest wild relative to domestic dogs (Axelsson et al. 2013) and teosinte as the closest relative to maize (reviewed in Hake & Ross-Ibarra 2015). In both cases, the joint analysis of domesticated lineages and their wild cousins has been key in reconstructing the molecular history of their domestication. While the identification of closest wild relatives has been done for many plants and animals, these comparisons represent challenges for micro-organisms. This has been the case for the budding yeast Saccharomyces cerevisiae, whose natural ecological niche is particularly challenging to define. For centuries, this unicellular fungus has been the cellular factory for wine, beer and bread crafting, and currently for bioethanol and drug production. While the recent development of genomics has lead to the identification of many genetic elements associated with important wine characteristics, the historical origin of some of the domesticated wine strains has remained elusive due to the lack of knowledge of their close wild relatives. In this issue of Molecular Ecology, Almeida et al. (2015) identified what is to date the closest known wild population of the wine yeast. This population is found associated with

  11. The metabolic responses to hepatitis B virus infection shed new light on pathogenesis and targets for treatment

    PubMed Central

    Li, Hongde; Zhu, Wandi; Zhang, Leike; Lei, Hehua; Wu, Xiangyu; Guo, Lin; Chen, Xinwen; Wang, Yulan; Tang, Huiru

    2015-01-01

    Chronic infection caused by the hepatitis B virus (HBV), is strongly associated with hepatitis, fatty liver and hepatocellular carcinoma. To investigate the underlying mechanisms, we characterize the metabolic features of host cells infected with the virus using systems biological approach. The results show that HBV replication induces systematic metabolic alterations in host cells. HBV infection up-regulates the biosynthesis of hexosamine and phosphatidylcholine by activating glutamine-fructose-6-phosphate amidotransferase 1 (GFAT1) and choline kinase alpha (CHKA) respectively, which were reported for the first time for HBV infection. Importantly suppressing hexosamine biosynthesis and phosphatidylcholine biosynthesis can inhibit HBV replication and expression. In addition, HBV induces oxidative stress and stimulates central carbon metabolism and nucleotide synthesis. Our results also indicate that HBV associated hepatocellular carcinoma could be attributed to GFAT1 activated hexosamine biosynthesis and CHKA activated phosphatidylcholine biosynthesis. This study provides further insights into the pathogenesis of HBV-induced diseases, and sheds new light on drug target for treating HBV infection. PMID:25672227

  12. Shedding Light on Photophobia

    PubMed Central

    Digre, Kathleen B.; Brennan, K.C.

    2012-01-01

    Photophobia is a common yet debilitating symptom seen in many ophthalmic and neurologic disorders. Despite its prevalence, it is poorly understood and difficult to treat. However, the past few years have seen significant advances in our understanding of this symptom. We review the clinical characteristics and disorders associated with photophobia, discuss the anatomy and physiology of this phenomenon, and conclude with a practical approach to diagnosis and treatment. PMID:22330853

  13. When LEP and Tevatron combined with WMAP and XENON100 shed light on the nature of dark matter

    SciTech Connect

    Mambrini, Yann; Zaldívar, Bryan E-mail: Bryan.Zaldivar@uam.es

    2011-10-01

    Recently, several astrophysical data or would-be signals has been observed in different dark-matter oriented experiments. In each case, one could fit the data at the price of specific nature of the coupling between the Standard Model (SM) particles and a light Dark Matter candidate: hadrophobic (INTEGRAL, PAMELA) or leptophobic (WMAP Haze, dijet anomalies of CDF, FERMI Galactic Center observation). In this work, we show that when one takes into account the more recent LEP and Tevatron analysis, a light thermal fermionic Dark Matter (∼<10 GeV) that couples to electrons is mainly ruled out if one combines the analysis with WMAP constraints. We also study the special case of scalar dark matter, using a single-photon events simulation to constrain the coupling of dark matter to electron.

  14. NASA Lighting Research, Test, & Analysis

    NASA Technical Reports Server (NTRS)

    Clark, Toni

    2015-01-01

    The Habitability and Human Factors Branch, at Johnson Space Center, in Houston, TX, provides technical guidance for the development of spaceflight lighting requirements, verification of light system performance, analysis of integrated environmental lighting systems, and research of lighting-related human performance issues. The Habitability & Human Factors Lighting Team maintains two physical facilities that are integrated to provide support. The Lighting Environment Test Facility (LETF) provides a controlled darkroom environment for physical verification of lighting systems with photometric and spetrographic measurement systems. The Graphics Research & Analysis Facility (GRAF) maintains the capability for computer-based analysis of operational lighting environments. The combined capabilities of the Lighting Team at Johnson Space Center have been used for a wide range of lighting-related issues.

  15. Trade-offs between light interception and leaf water shedding: a comparison of shade- and sun-adapted species in a subtropical rainforest.

    PubMed

    Meng, Fengqun; Cao, Rui; Yang, Dongmei; Niklas, Karl J; Sun, Shucun

    2014-01-01

    Species in high-rainfall regions have two major alternative approaches to quickly drain off water, i.e., increasing leaf inclination angles relative to the horizontal plane, or developing long leaf drip tips. We hypothesized that shade-adapted species will have more pronounced leaf drip tips but not greater inclination angles (which can reduce the ability to intercept light) compared to sun-adapted species and that length of leaf drip tips will be negatively correlated with photosynthetic capacity [characterized by light-saturated net photosynthetic rates (Amax), associated light compensation points (LCP), and light saturation points (LSP)]. We tested this hypothesis by measuring morphological and physiological traits that are associated with light-interception and water shedding for seven shade-adapted shrub species, ten sun-adapted understory shrub species, and 15 sun-adapted tree species in a subtropical Chinese rainforest, where mean annual precipitation is around 1,600 mm. Shade-adapted understory species had lower LMA, Amax, LSP, and LCP compared to understory or canopy sun-adapted species; their leaf and twig inclination angles were significantly smaller and leaf drip tips were significantly longer than those in sun-adapted species. This suggests that shade-adapted understory species tend to develop pronounced leaf drip tips but not large leaf inclination angles to shed water. The length of leaf drip tips was negatively correlated with leaf inclination angles and photosynthetic capacity. These relationships were consistent between ordinary regression and phylogenetic generalized least squares analyses. Our study illustrates the trade-offs between light interception and leaf water shedding and indicates that length of leaf drip tips can be used as an indicator of adaptation to shady conditions and overall photosynthetic performance of shrub species in subtropical rainforests.

  16. Leakage Current Analysis of Bushing with Water-cut Sheds in Heavy Rain Test

    NASA Astrophysics Data System (ADS)

    Chai, Zhen; Yu, Xinzhe

    2017-07-01

    In this article, heavy rain tests under two rainfall intensities are introduced. Three kinds of bushings with different water-cut-sheds were used in these tests. Then leakage currents monitored during tests are analysed and contrasted to obtain characteristics and tendency. The results show that maximum value of leakage current is affected by voltage applied, profile of water-cut sheds, and the rainfall intensity. Higher AC voltage applied on bushing leads to higher peak of leakage current. More and larger water-cut sheds makes bushing able to withstand higher leakage current. Heavier rain may cause leakage current rise totally. These results may be helpful in online monitoring of insulation.

  17. Stray Light Analysis

    NASA Technical Reports Server (NTRS)

    1997-01-01

    Based on a Small Business Innovation Research contract from the Jet Propulsion Laboratory, TracePro is state-of-the-art interactive software created by Lambda Research Corporation to detect stray light in optical systems. An image can be ruined by incidental light in an optical system. To maintain image excellence from an optical system, stray light must be detected and eliminated. TracePro accounts for absorption, specular reflection and refraction, scattering and aperture diffraction of light. Output from the software consists of spatial irradiance plots and angular radiance plots. Results can be viewed as contour maps or as ray histories in tabular form. TracePro is adept at modeling solids such as lenses, baffles, light pipes, integrating spheres, non-imaging concentrators, and complete illumination systems. The firm's customer base includes Lockheed Martin, Samsung Electronics and other manufacturing, optical, aerospace, and educational companies worldwide.

  18. Proper orthogonal decomposition analysis of vortex shedding behind a rotating circular cylinder

    NASA Astrophysics Data System (ADS)

    Sham Dol, Sharul

    2016-03-01

    Turbulence studies were made in the wake of a rotating circular cylinder in a uniform free stream with the objective of describing the patterns of the vortex shedding up to suppression of the periodic vortex street at high velocity ratios, λ. The results obtained in the present study establish that shedding of Kármán vortices in a rotating circular cylinder-generated wake is modified by rotation of the cylinder. Alternate vortex shedding is highly visible when λ < 2.0 although the strength of the separated shear layers differ due to the rotation of the cylinder. The spectral density in the wakes indicate significant changes at λ = 2.0. The results indicate that the rotation of the cylinder causes significant disruption in the structure of the flow. Alternate vortex shedding is weak, distorted and close to being suppressed at λ = 2.0. It is clear that flow asymmetries will weaken vortex shedding, and when the asymmetries are significant enough, total suppression of a periodic street occurs. Particular attention was paid to the decomposition of the flow using Proper Orthogonal Decomposition (POD). By analyzing this decomposition with the help of Particle Image Velocimetry (PIV )data, it was found that large scales contribute to the coherent motion. Vorticity structures in the modes become increasingly irregular with downstream distance, suggesting turbulent interactions are occurring at the more downstream locations, especially when the cylinder rotates.

  19. Shedding light on the expansion and diversification of the Cdc48 protein family during the rise of the eukaryotic cell.

    PubMed

    Kienle, Nickias; Kloepper, Tobias H; Fasshauer, Dirk

    2016-10-18

    A defining feature of eukaryotic cells is the presence of various distinct membrane-bound compartments with different metabolic roles. Material exchange between most compartments occurs via a sophisticated vesicle trafficking system. This intricate cellular architecture of eukaryotes appears to have emerged suddenly, about 2 billion years ago, from much less complex ancestors. How the eukaryotic cell acquired its internal complexity is poorly understood, partly because no prokaryotic precursors have been found for many key factors involved in compartmentalization. One exception is the Cdc48 protein family, which consists of several distinct classical ATPases associated with various cellular activities (AAA+) proteins with two consecutive AAA domains. Here, we have classified the Cdc48 family through iterative use of hidden Markov models and tree building. We found only one type, Cdc48, in prokaryotes, although a set of eight diverged members that function at distinct subcellular compartments were retrieved from eukaryotes and were probably present in the last eukaryotic common ancestor (LECA). Pronounced changes in sequence and domain structure during the radiation into the LECA set are delineated. Moreover, our analysis brings to light lineage-specific losses and duplications that often reflect important biological changes. Remarkably, we also found evidence for internal duplications within the LECA set that probably occurred during the rise of the eukaryotic cell. Our analysis corroborates the idea that the diversification of the Cdc48 family is closely intertwined with the development of the compartments of the eukaryotic cell.

  20. New data from the Middle Jurassic of China shed light on the phylogeny and origin of the proboscis in the Mesopsychidae (Insecta: Mecoptera).

    PubMed

    Lin, Xiaodan; Shih, Matthew J H; Labandeira, Conrad C; Ren, Dong

    2016-01-04

    The Mesopsychidae is an extinct family of Mecoptera, comprising eleven described genera from Upper Permian to Lower Cretaceous deposits. In 2009, several well-preserved mesopsychids with long proboscides were reported from the mid Mesozoic of Northeastern China, suggesting the presence of pollination mutualisms with gymnosperm plants and highlighting their elevated genus-level diversity. Since that time, additional mesopsychid taxa have been described. However, the phylogeny of genera within Mesopsychidae has not been studied formally, attributable to the limited number of well-preserved fossils. Here, we describe two new species, Lichnomesopsyche prochorista sp. nov. and Vitimopsyche pristina sp. nov. and revise the diagnosis of Lichnomesopsyche daohugouensis Ren, Labandeira and Shih, 2010, based on ten specimens from the latest Middle Jurassic Jiulongshan Formation of Inner Mongolia, China. After compiling data from these new fossil species and previously reported representative taxa, we conducted phylogenetic analyses and geometric morphometric studies that now shed light on the taxonomy and phylogeny of Mesopsychidae. We also evaluate the recurring origin of the siphonate proboscis in the Mecoptera and propose an evolutionary developmental model for its multiple origins. Phylogenetic and geometric morphometric results confirm the establishment of two new species, each to Lichnomesopsyche and Vitimopsyche. Vitimopsyche pristina sp. nov. extends the existence of the genus Vitimopsyche Novokshonov and Sukacheva, 2001, from the mid Lower Cretaceous to the latest Middle Jurassic. Two methods of analyses indicate an affiliation of Mesopsyche dobrokhotovae Novokshonov, 1997 with Permopsyche Bashkuev, 2011. A phylogenetic analysis of the Mesopsychidae supports: 1), Mesopsychidae as a monophyletic group; 2), Mesopsyche as a paraphyletic group, to be revised pending future examination of additional material; and 3), the independent origin of the proboscis in the

  1. Studies of Human 2,4-Dienoyl CoA Reductase Shed New Light on Peroxisomal β-Oxidation of Unsaturated Fatty Acids*

    PubMed Central

    Hua, Tian; Wu, Dong; Ding, Wei; Wang, Jiangyun; Shaw, Neil; Liu, Zhi-Jie

    2012-01-01

    Peroxisomes play an essential role in maintaining fatty acid homeostasis. Although mitochondria are also known to participate in the catabolism of fatty acids via β-oxidation, differences exist between the peroxisomal and mitochondrial β-oxidation. Only peroxisomes, but not mitochondrion, can shorten very long chain fatty acids. Here, we describe the crystal structure of a ternary complex of peroxisomal 2,4-dienoyl CoA reductases (pDCR) with hexadienoyl CoA and NADP, as a prototype for comparison with the mitochondrial 2,4-dienoyl CoA reductase (mDCR) to shed light on the differences between the enzymes from the two organelles at the molecular level. Unexpectedly, the structure of pDCR refined to 1.84 Å resolution reveals the absence of the tyrosine-serine pair seen in the active site of mDCR, which together with a lysine and an asparagine have been deemed a hallmark of the SDR family of enzymes. Instead, aspartate hydrogen-bonded to the Cα hydroxyl via a water molecule seems to perturb the water molecule for protonation of the substrate. Our studies provide the first structural evidence for participation of water in the DCR-catalyzed reactions. Biochemical studies and structural analysis suggest that pDCRs can catalyze the shortening of six-carbon-long substrates in vitro. However, the Km values of pDCR for short chain acyl CoAs are at least 6-fold higher than those for substrates with 10 or more aliphatic carbons. Unlike mDCR, hinge movements permit pDCR to process very long chain polyunsaturated fatty acids. PMID:22745130

  2. Studies of Human 2,4-Dienoyl CoA Reductase Shed New Light on Peroxisomal β-Oxidation of Unsaturated Fatty Acids

    SciTech Connect

    Hua, Tian; Wu, Dong; Ding, Wei; Wang, Jiangyun; Shaw, Neil; Liu, Zhi-Jie

    2012-10-15

    Peroxisomes play an essential role in maintaining fatty acid homeostasis. Although mitochondria are also known to participate in the catabolism of fatty acids via β-oxidation, differences exist between the peroxisomal and mitochondrial β-oxidation. Only peroxisomes, but not mitochondrion, can shorten very long chain fatty acids. Here, we describe the crystal structure of a ternary complex of peroxisomal 2,4-dienoyl CoA reductases (pDCR) with hexadienoyl CoA and NADP, as a prototype for comparison with the mitochondrial 2,4-dienoyl CoA reductase (mDCR) to shed light on the differences between the enzymes from the two organelles at the molecular level. Unexpectedly, the structure of pDCR refined to 1.84 Å resolution reveals the absence of the tyrosine-serine pair seen in the active site of mDCR, which together with a lysine and an asparagine have been deemed a hallmark of the SDR family of enzymes. Instead, aspartate hydrogen-bonded to the Cα hydroxyl via a water molecule seems to perturb the water molecule for protonation of the substrate. Our studies provide the first structural evidence for participation of water in the DCR-catalyzed reactions. Biochemical studies and structural analysis suggest that pDCRs can catalyze the shortening of six-carbon-long substrates in vitro. However, the Km values of pDCR for short chain acyl CoAs are at least 6-fold higher than those for substrates with 10 or more aliphatic carbons. Unlike mDCR, hinge movements permit pDCR to process very long chain polyunsaturated fatty acids.

  3. Information-Theoretic Approach May Shed a Light to a Better Understanding and Sustaining the Integrity of Ecological-Societal Systems under Changing Climate

    NASA Astrophysics Data System (ADS)

    Kim, J.

    2016-12-01

    Considering high levels of uncertainty, epistemological conflicts over facts and values, and a sense of urgency, normal paradigm-driven science will be insufficient to mobilize people and nation toward sustainability. The conceptual framework to bridge the societal system dynamics with that of natural ecosystems in which humanity operates remains deficient. The key to understanding their coevolution is to understand `self-organization.' Information-theoretic approach may shed a light to provide a potential framework which enables not only to bridge human and nature but also to generate useful knowledge for understanding and sustaining the integrity of ecological-societal systems. How can information theory help understand the interface between ecological systems and social systems? How to delineate self-organizing processes and ensure them to fulfil sustainability? How to evaluate the flow of information from data through models to decision-makers? These are the core questions posed by sustainability science in which visioneering (i.e., the engineering of vision) is an essential framework. Yet, visioneering has neither quantitative measure nor information theoretic framework to work with and teach. This presentation is an attempt to accommodate the framework of self-organizing hierarchical open systems with visioneering into a common information-theoretic framework. A case study is presented with the UN/FAO's communal vision of climate-smart agriculture (CSA) which pursues a trilemma of efficiency, mitigation, and resilience. Challenges of delineating and facilitating self-organizing systems are discussed using transdisciplinary toold such as complex systems thinking, dynamic process network analysis and multi-agent systems modeling. Acknowledgments: This study was supported by the Korea Meteorological Administration Research and Development Program under Grant KMA-2012-0001-A (WISE project).

  4. Shedding lights on the flexible-armed porphyrins: Human telomeric G4 DNA interaction and cell photocytotoxicity research.

    PubMed

    Sun, Xiang-Yu; Zhao, Ping; Jin, Shu-Fang; Liu, Min-Chao; Wang, Xia-Hong; Huang, Yu-Min; Cheng, Zhen-Feng; Yan, Si-Qi; Li, Yan-Yu; Chen, Ya-Qing; Zhong, Yan-Mei

    2017-08-01

    DNA polymorphism exerts a fascination on a large scientific community. Without crystallographic structural data, clarification of the binding modes between G-quadruplex (G4) and ligand (complex) is a challenging job. In the present work, three porphyrin compounds with different flexible carbon chains (arms) were designed, synthesized and characterized. Their binding, folding and stabilizing abilities to human telomeric G4 DNA structures were comparatively researched. Positive charges at the end of the flexible carbon chains seem to be favorable for the DNA-porphyrin interactions, which were evidenced by the spectral results and further confirmed by the molecular docking calculations. Biological function analysis demonstrated that these porphyrins show no substantial inhibition to Hela, A549 and BEL 7402 cancer cell lines under dark while exhibit broad inhibition under visible light. This significantly enhanced photocytotoxicity relative to the dark control is an essential property of photochemotherapeutic agents. The feature of the flexible arms emerges as critical influencing factors in the cell photocytotoxicity. Moreover, an ROS-mediated mitochondrial dysfunction pathway was suggested for the cell apoptosis induced by these flexible-armed porphyrins. It is found that the porphyrins with positive charges located at the end of the flexible arms represent an exciting opportunity for photochemotherapeutic anti-cancer drug design. Copyright © 2017. Published by Elsevier B.V.

  5. Endemic palm species shed light on habitat shifts and the assembly of the Cerrado and Restinga floras.

    PubMed

    Bacon, Christine D; Moraes R, Monica; Jaramillo, Carlos; Antonelli, Alexandre

    2017-05-01

    Species expansions into new habitats are often associated with physiological adaptations, for instance when rain forest lineages colonize dry habitats. Although such shifts have been documented for the Brazilian savanna (Cerrado), little is known about the biogeographic origin of species occupying an extreme South American habitat type, the coastal dunes (Restinga). We examined the formation of this poorly known, endangered habitat by reconstructing the evolutionary history of two endemic species. Due to the proposed recency and uniqueness of this habitat, we hypothesized that Restinga species of the palm genus Allagoptera to be recently evolved and to present derived morphological characters. To detect habit shifts in absolute time, we used one plastid and nine nuclear genes to reconstruct the phylogenetic and biogeographic history of Allagoptera. We used light microscopy and stable isotope analysis to explore whether morphological adaptations occurred concomitantly with habitat shifts. Phylogenetic relationships were well supported and we found ancestral lineages of Allagoptera to be widely distributed throughout habitats that are currently occupied by extant species. Over the last ca. 7Ma Allagoptera has shifted its preference to increasingly dry habitats. Coincident with the colonization of the Cerrado and Restinga, morphological adaptations also evolved, including subterranean stems that are fire-resistant and long underground stem and root systems that facilitate water access. We did not find differences in metabolic pathway or modifications to pollen morphology when compared to other palm lineages. Assuming that the evolutionary history of Allagoptera is indicative of the habitat in which it occurs, our results infer a recent origin for Cerrado species. Although little is known about the formation of the Restinga habitat, our results also suggest a longer history than currently proposed; with an origin of Restinga habitats dating back to the Late Pliocene.

  6. Numerical 3D analysis of cloud cavitation shedding frequency on a circular leading edge hydrofoil with a barotropic cavitation model

    NASA Astrophysics Data System (ADS)

    Blume, M.; Skoda, R.

    2015-12-01

    A compressible density-based time-explicit low Mach number consistent viscous flow solver is utilised in combination with a barotropic cavitation model for the analysis of cloud cavitation on a circular leading edge (CLE) hydrofoil. For 5° angle of attack, cloud structure and shedding frequency for different cavitation numbers are compared to experimental data. A strong grid sensitivity is found in particular for high cavitation numbers. On a fine grid, a very good agreement with validation data is achieved even without explicit turbulence model. The neglect of viscous effects as well as a two-dimensional set-up lead to a less realistic prediction of cloud structures and frequencies. Comparative simulations with the Sauer-Schnerr cavitation model and modified pre-factors of the mass transfer terms underestimate the measured shedding frequency.

  7. Light intensity strain analysis

    NASA Technical Reports Server (NTRS)

    Williams, J. G. (Inventor)

    1973-01-01

    A process is described for the analysis of the strain field of structures subjected to large deformations involving a low modulus substrate having a high modulus, relatively thin coating. The optical properties of transmittance and reflectance are measured for the coated substrate while stressed and unstressed to indicate the strain field for the coated substrate.

  8. Center manifold analysis of a point vortex model of vortex shedding with control

    NASA Astrophysics Data System (ADS)

    Protas, Bartosz

    2007-04-01

    In this paper we use methods of dynamical systems theory to provide a precise mathematical characterization of the behavior of the point vortex Föppl system with a linear feedback control. The Föppl system was used in an earlier investigation as a simple model for control design for vortex shedding and numerical studies indicated that the state of the controlled system converges to a closed orbit. In this investigation we prove rigorously that this observed behavior in fact represents periodic oscillations on the center manifold of the closed-loop nonlinear system. This manifold is shown to coincide with the uncontrollable subspace of the linearized system.

  9. Simultaneous analysis of the nasal shedding kinetics of field and vaccine strains of Bordetella bronchiseptica.

    PubMed

    Iemura, R; Tsukatani, R; Micallef, M J; Taneno, A

    2009-12-26

    Groups of four two-week-old puppies were administered serial dilutions of an intranasal vaccine containing live Bordetella bronchiseptica and canine parainfluenza virus vaccine and housed individually in isolator cages. Three vaccinated groups and one unvaccinated control group were exposed to virulent B bronchiseptica four weeks after vaccination and evaluated. Nasal swabs for bacterial culture and sera for agglutination tests were taken from all the dogs every week for four weeks. The bacteria isolated were identified by growth on specific agar and by specific PCR to distinguish between vaccine and challenge strains. The vaccine strain persisted in the nasal cavity after vaccination but no adverse reactions were observed. Serum agglutination titres were raised in the vaccinated dogs at challenge. Vaccine strains were not isolated after the challenge from most of the vaccinated dogs. The challenge strain was shed in the dogs vaccinated with the lowest dose (10(6.0) cfu/dose) for two to three weeks but the other vaccinated groups (10(7.0) and 10(8.0) cfu/dose) shed the challenge strain transiently or not at all. Only the group vaccinated with 10(6.0) cfu/dose exhibited clinical signs after challenge.

  10. A comparative analysis on the shed vortices from the wake of finned, foam-wrapped cylinders

    NASA Astrophysics Data System (ADS)

    Khashehchi, Morteza; Ashtiani Abdi, Iman; Hooman, Kamel

    2017-08-01

    The wake characteristics behind a finned and a foam-wrapped circular cylinder has been compared in a study (Khashehchi et al 2014 Exp. Therm. Fluid Sci. 52 328-38) done by the Authors. In this paper, the shed vortices from the wake of the same cylinders have been studied. Shedding in a bluff body has an important effect on increasing the pressure drop downstream of the object. Here, we have used particle image velocimetry to investigate the detached vortices from the wake behind a foam-wrapped and a finned cylinder. The standard case of cross-flow over a bare cylinder, i.e. no surface extension, has also been tested as a benchmark. The experiments have been performed for Reynolds numbers 2000 based on the mean air velocity and the cylinder’s outer diameter. To identify the features of each aforementioned case, linear stochastic estimation has been applied to the velocity fields. Results show that unlike the fin, adding foam to the cylinder surface increases the size of detached vortices and amplifies the core strength. Moreover, foam-wrapped cylinder in contrast to the finned one produces strong three-dimensionality. Interestingly, finned cylinder’s results show less three-dimensionality compared to the bare cylinder.

  11. Shedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling

    NASA Astrophysics Data System (ADS)

    Jahn, Martin T.; Markert, Sebastian M.; Ryu, Taewoo; Ravasi, Timothy; Stigloher, Christian; Hentschel, Ute; Moitinho-Silva, Lucas

    2016-10-01

    Assigning functions to uncultivated environmental microorganisms continues to be a challenging endeavour. Here, we present a new microscopy protocol for fluorescence in situ hybridisation-correlative light and electron microscopy (FISH-CLEM) that enabled, to our knowledge for the first time, the identification of single cells within their complex microenvironment at electron microscopy resolution. Members of the candidate phylum Poribacteria, common and uncultivated symbionts of marine sponges, were used towards this goal. Cellular 3D reconstructions revealed bipolar, spherical granules of low electron density, which likely represent carbon reserves. Poribacterial activity profiles were retrieved from prokaryotic enriched sponge metatranscriptomes using simulation-based optimised mapping. We observed high transcriptional activity for proteins related to bacterial microcompartments (BMC) and we resolved their subcellular localisation by combining FISH-CLEM with immunohistochemistry (IHC) on ultra-thin sponge tissue sections. In terms of functional relevance, we propose that the BMC-A region may be involved in 1,2-propanediol degradation. The FISH-IHC-CLEM approach was proven an effective toolkit to combine -omics approaches with functional studies and it should be widely applicable in environmental microbiology.

  12. Transcriptome comparisons shed light on the pre-condition and potential barrier for C4 photosynthesis evolution in eudicots.

    PubMed

    Tao, Yimin; Lyu, Ming-Ju Amy; Zhu, Xin-Guang

    2016-05-01

    C4 photosynthesis evolved independently from C3 photosynthesis in more than 60 lineages. Most of the C4 lineages are clustered together in the order Poales and the order Caryophyllales while many other angiosperm orders do not have C4 species, suggesting the existence of biological pre-conditions in the ancestral C3 species that facilitate the evolution of C4 photosynthesis in these lineages. To explore pre-adaptations for C4 photosynthesis evolution, we classified C4 lineages into the C4-poor and the C4-rich groups based on the percentage of C4 species in different genera and conducted a comprehensive comparison on the transcriptomic changes between the non-C4 species from the C4-poor and the C4-rich groups. Results show that species in the C4-rich group showed higher expression of genes related to oxidoreductase activity, light reaction components, terpene synthesis, secondary cell synthesis, C4 cycle related genes and genes related to nucleotide metabolism and senescence. In contrast, C4-poor group showed up-regulation of a PEP/Pi translocator, genes related to signaling pathway, stress response, defense response and plant hormone metabolism (ethylene and brassinosteroid). The implications of these transcriptomic differences between the C4-rich and C4-poor groups to C4 evolution are discussed.

  13. Convergent evolution sheds light on the anti-β-elimination mechanism common to family 1 and 10 polysaccharide lyases

    PubMed Central

    Charnock, Simon J.; Brown, Ian E.; Turkenburg, Johan P.; Black, Gary W.; Davies, Gideon J.

    2002-01-01

    Enzyme-catalyzed β-elimination of sugar uronic acids, exemplified by the degradation of plant cell wall pectins, plays an important role in a wide spectrum of biological processes ranging from the recycling of plant biomass through to pathogen virulence. The three-dimensional crystal structure of the catalytic module of a “family PL-10” polysaccharide lyase, Pel10Acm from Cellvibrio japonicus, solved at a resolution of 1.3 Å, reveals a new polysaccharide lyase fold and is the first example of a polygalacturonic acid lyase that does not exhibit the “parallel β-helix” topology. The “Michaelis” complex of an inactive mutant in association with the substrate trigalacturonate/Ca2+ reveals the catalytic machinery harnessed by this polygalacturonate lyase, which displays a stunning resemblance, presumably through convergent evolution, to the tetragalacturonic acid complex observed for a structurally unrelated polygalacturonate lyase from family PL-1. Common coordination of the −1 and +1 subsite saccharide carboxylate groups by a protein-liganded Ca2+ ion, the positioning of an arginine catalytic base in close proximity to the α-carbon hydrogen and numerous other conserved enzyme–substrate interactions, considered in light of mutagenesis data for both families, suggest a generic polysaccharide anti-β-elimination mechanism. PMID:12221284

  14. Femtosecond transient infrared and stimulated Raman spectroscopy shed light on the relaxation mechanisms of photo-excited peridinin

    NASA Astrophysics Data System (ADS)

    Di Donato, Mariangela; Ragnoni, Elena; Lapini, Andrea; Foggi, Paolo; Hiller, Roger G.; Righini, Roberto

    2015-06-01

    By means of one- and two-dimensional transient infrared spectroscopy and femtosecond stimulated Raman spectroscopy, we investigated the excited state dynamics of peridinin, a carbonyl carotenoid occurring in natural light harvesting complexes. The presence of singly and doubly excited states, as well as of an intramolecular charge transfer (ICT) state, makes the behavior of carbonyl carotenoids in the excited state very complex. In this work, we investigated by time resolved spectroscopy the relaxation of photo-excited peridinin in solvents of different polarities and as a function of the excitation wavelength. Our experimental results show that a characteristic pattern of one- and two-dimensional infrared bands in the C=C stretching region allows monitoring the relaxation pathway. In polar solvents, moderate distortions of the molecular geometry cause a variation of the single/double carbon bond character, so that the partially ionic ICT state is largely stabilized by the solvent reorganization. After vertical photoexcitation at 400 nm of the S2 state, the off-equilibrium population moves to the S1 state with ca. 175 fs time constant; from there, in less than 5 ps, the non-Franck Condon ICT state is reached, and finally, the ground state is recovered in 70 ps. That the relevant excited state dynamics takes place far from the Franck Condon region is demonstrated by its noticeable dependence on the excitation wavelength.

  15. Shedding light on cell compartmentation in the candidate phylum Poribacteria by high resolution visualisation and transcriptional profiling

    PubMed Central

    Jahn, Martin T.; Markert, Sebastian M.; Ryu, Taewoo; Ravasi, Timothy; Stigloher, Christian; Hentschel, Ute; Moitinho-Silva, Lucas

    2016-01-01

    Assigning functions to uncultivated environmental microorganisms continues to be a challenging endeavour. Here, we present a new microscopy protocol for fluorescence in situ hybridisation-correlative light and electron microscopy (FISH-CLEM) that enabled, to our knowledge for the first time, the identification of single cells within their complex microenvironment at electron microscopy resolution. Members of the candidate phylum Poribacteria, common and uncultivated symbionts of marine sponges, were used towards this goal. Cellular 3D reconstructions revealed bipolar, spherical granules of low electron density, which likely represent carbon reserves. Poribacterial activity profiles were retrieved from prokaryotic enriched sponge metatranscriptomes using simulation-based optimised mapping. We observed high transcriptional activity for proteins related to bacterial microcompartments (BMC) and we resolved their subcellular localisation by combining FISH-CLEM with immunohistochemistry (IHC) on ultra-thin sponge tissue sections. In terms of functional relevance, we propose that the BMC-A region may be involved in 1,2-propanediol degradation. The FISH-IHC-CLEM approach was proven an effective toolkit to combine -omics approaches with functional studies and it should be widely applicable in environmental microbiology. PMID:27796326

  16. Femtosecond transient infrared and stimulated Raman spectroscopy shed light on the relaxation mechanisms of photo-excited peridinin.

    PubMed

    Di Donato, Mariangela; Ragnoni, Elena; Lapini, Andrea; Foggi, Paolo; Hiller, Roger G; Righini, Roberto

    2015-06-07

    By means of one- and two-dimensional transient infrared spectroscopy and femtosecond stimulated Raman spectroscopy, we investigated the excited state dynamics of peridinin, a carbonyl carotenoid occurring in natural light harvesting complexes. The presence of singly and doubly excited states, as well as of an intramolecular charge transfer (ICT) state, makes the behavior of carbonyl carotenoids in the excited state very complex. In this work, we investigated by time resolved spectroscopy the relaxation of photo-excited peridinin in solvents of different polarities and as a function of the excitation wavelength. Our experimental results show that a characteristic pattern of one- and two-dimensional infrared bands in the C=C stretching region allows monitoring the relaxation pathway. In polar solvents, moderate distortions of the molecular geometry cause a variation of the single/double carbon bond character, so that the partially ionic ICT state is largely stabilized by the solvent reorganization. After vertical photoexcitation at 400 nm of the S2 state, the off-equilibrium population moves to the S1 state with ca. 175 fs time constant; from there, in less than 5 ps, the non-Franck Condon ICT state is reached, and finally, the ground state is recovered in 70 ps. That the relevant excited state dynamics takes place far from the Franck Condon region is demonstrated by its noticeable dependence on the excitation wavelength.

  17. Inferred L/M cone opsin polymorphism of ancestral tarsiers sheds dim light on the origin of anthropoid primates

    PubMed Central

    Melin, Amanda D.; Matsushita, Yuka; Moritz, Gillian L.; Dominy, Nathaniel J.; Kawamura, Shoji

    2013-01-01

    Tarsiers are small nocturnal primates with a long history of fuelling debate on the origin and evolution of anthropoid primates. Recently, the discovery of M and L opsin genes in two sister species, Tarsius bancanus (Bornean tarsier) and Tarsius syrichta (Philippine tarsier), respectively, was interpreted as evidence of an ancestral long-to-middle (L/M) opsin polymorphism, which, in turn, suggested a diurnal or cathemeral (arrhythmic) activity pattern. This view is compatible with the hypothesis that stem tarsiers were diurnal; however, a reversion to nocturnality during the Middle Eocene, as evidenced by hyper-enlarged orbits, predates the divergence of T. bancanus and T. syrichta in the Late Miocene. Taken together, these findings suggest that some nocturnal tarsiers possessed high-acuity trichromatic vision, a concept that challenges prevailing views on the adaptive origins of the anthropoid visual system. It is, therefore, important to explore the plausibility and antiquity of trichromatic vision in the genus Tarsius. Here, we show that Sulawesi tarsiers (Tarsius tarsier), a phylogenetic out-group of Philippine and Bornean tarsiers, have an L opsin gene that is more similar to the L opsin gene of T. syrichta than to the M opsin gene of T. bancanus in non-synonymous nucleotide sequence. This result suggests that an L/M opsin polymorphism is the ancestral character state of crown tarsiers and raises the possibility that many hallmarks of the anthropoid visual system evolved under dim (mesopic) light conditions. This interpretation challenges the persistent nocturnal–diurnal dichotomy that has long informed debate on the origin of anthropoid primates. PMID:23536597

  18. An optimised phylogenetic method sheds more light on the main branching events of rhodopsin-like superfamily.

    PubMed

    Mickael, Michel E; Rajput, Ashish; Steyn, Jannetta; Wiemerslage, Lyle; Bürglin, Thomas

    2016-12-01

    The comparative genomics between different rhodopsin-like family groups (α, β, γ and δ) is not well studied. We used a combination of phylogenetic analysis and statistical genomic methods to compare rhodopsin-like family proteins in species likely symbolic of this family's evolutionary progression. For intra-cluster relationships, we applied mathematical optimisation to enhance the tree search produced by the neighbour joining method (NJ) and compared it with maximum likelihood (ML) method. To infer inter-clusters relationships, we used Needleman-Wunsch analysis (NW), HHsearch, ancestral sequence reconstruction and phylogenetic network analysis. Using this workflow, we were able to identify key evolutionary events in the rhodopsin-like family receptors. We found that α rhodopsin-like group gave rise to the β group, while the γ rhodopsin-like group diverged from the β group. We tracked the diversification of every cluster, revealing that fungal opsin is the most ancient member of the α group, while adenosine receptors could be the first member to diverge in the MECA (melanocortin, endothelial differentiation sphingolipid, cannabinoid, and adenosine receptors) subfamily and that histamine receptors could be the parent of the amines receptors, while hypocretin receptors might be the most ancient member of the β group. SOG (somatostatin, opioid, galanin) receptors formed the most ancient members of the γ group. Our analysis indicated that basal receptors might be playing a role in early evolution of the nervous system. This is evident in Trichoplax adhaerens genome, where we located histamine receptors and adenosine receptors. Copyright © 2016 Elsevier Inc. All rights reserved.

  19. Leaf Growth Response to Mild Drought: Natural Variation in Arabidopsis Sheds Light on Trait Architecture[OPEN

    PubMed Central

    Herman, Dorota; Slabbinck, Bram; Van Daele, Twiggy; Maleux, Katrien

    2016-01-01

    Plant growth and crop yield are negatively affected by a reduction in water availability. However, a clear understanding of how growth is regulated under nonlethal drought conditions is lacking. Recent advances in genomics, phenomics, and transcriptomics allow in-depth analysis of natural variation. In this study, we conducted a detailed screening of leaf growth responses to mild drought in a worldwide collection of Arabidopsis thaliana accessions. The genetic architecture of the growth responses upon mild drought was investigated by subjecting the different leaf growth phenotypes to genome-wide association mapping and by characterizing the transcriptome of young developing leaves. Although no major effect locus was found to be associated with growth in mild drought, the transcriptome analysis delivered further insight into the natural variation of transcriptional responses to mild drought in a specific tissue. Coexpression analysis indicated the presence of gene clusters that co-vary over different genetic backgrounds, among others a cluster of genes with important regulatory functions in the growth response to osmotic stress. It was found that the occurrence of a mild drought stress response in leaves can be inferred with high accuracy across accessions based on the expression profile of 283 genes. A genome-wide association study on the expression data revealed that trans regulation seems to be more important than cis regulation in the transcriptional response to environmental perturbations. PMID:27729396

  20. Shedding new light on historical metal samples using micro-focused synchrotron X-ray fluorescence and spectroscopy

    NASA Astrophysics Data System (ADS)

    Grolimund, D.; Senn, M.; Trottmann, M.; Janousch, M.; Bonhoure, I.; Scheidegger, A. M.; Marcus, M.

    2004-10-01

    insights concerning the nature and origin of used raw materials as well as regarding employed processing techniques during historic iron fabrication and weapon manufacturing.The study demonstrates the potential of oxidation state and mineral phase mapping based on energy selective micro-XRF maps and spectroscopic phase identification. Such a spatially resolved recording of the chemical speciation is based on X-ray absorption spectroscopy. This analytical technique is exclusive to synchrotron light sources. However, the steadily increasing number of available synchrotron-based X-ray microprobes allows nowadays for more routine utilization of such micro-XAS techniques.

  1. Shedding Light on the Etiology of Sports Injuries: A Look Behind the Scenes of Time-to-Event Analyses.

    PubMed

    Nielsen, Rasmus Østergaard; Malisoux, Laurent; Møller, Merete; Theisen, Daniel; Parner, Erik Thorlund

    2016-04-01

    The etiological mechanism underpinning any sports-related injury is complex and multifactorial. Frequently, athletes perceive "excessive training" as the principal factor in their injury, an observation that is biologically plausible yet somewhat ambiguous. If the applied training load is suddenly increased, this may increase the risk for sports injury development, irrespective of the absolute amount of training. Indeed, little to no rigorous scientific evidence exists to support the hypothesis that fluctuations in training load, compared to absolute training load, are more important in explaining sports injury development. One reason for this could be that prospective data from scientific studies should be analyzed in a different manner. Time-to-event analysis is a useful statistical tool in which to analyze the influence of changing exposures on injury risk. However, the potential of time-to-event analysis remains insufficiently exploited in sports injury research. Therefore, the purpose of the present article was to present and discuss measures of association used in time-to-event analyses and to present the advanced concept of time-varying exposures and outcomes. In the paper, different measures of association, such as cumulative relative risk, cumulative risk difference, and the classical hazard rate ratio, are presented in a nontechnical manner, and suggestions for interpretation of study results are provided. To summarize, time-to-event analysis complements the statistical arsenal of sports injury prevention researchers, because it enables them to analyze the complex and highly dynamic reality of injury etiology, injury recurrence, and time to recovery across a range of sporting contexts.

  2. Shedding light on the biological and chemical fingerprints of three Achillea species (A. biebersteinii, A. millefolium and A. teretifolia).

    PubMed

    Zengin, Gokhan; Aktumsek, Abdurrahman; Ceylan, Ramazan; Uysal, Sengul; Mocan, Andrei; Guler, Gokalp Ozmen; Mahomoodally, M Fawzi; Glamočlija, Jasmina; Ćirić, Ana; Soković, Marina

    2017-03-22

    Representatives of the Achillea genus are widely used as foods or nutraceuticals. Considering the increasing demand for herbal dietary supplements with health promoting effects, the objective of this research was to evaluate the biological and chemical profiles of different extracts (ethyl acetate, methanol and water) obtained from three Achillea species (A. biebersteinii, A. millefolium and A. teretifolia). The antioxidant (free radical scavenging (DPPH and ABTS), reducing power (CUPRAC and FRAP), metal chelating and phosphomolybdenum), enzyme inhibitory (anti-cholinesterase, anti-tyrosinase, anti-amylase and anti-glucosidase) and antimicrobial (antibacterial and antifungal) effects were assessed to investigate their biological profiles. Moreover, the total phenolic and flavonoid contents were determined and LC-MS analysis was performed for the chemical profile of the investigated extracts. The LC-MS analysis revealed the presence of several caffeoylquinic acids in these extracts. Generally, the methanol and water extracts exhibited stronger antioxidant abilities, which correlated with the higher levels of phenolic compounds when compared to the ethyl acetate extracts. In addition, the best antimicrobial activities were obtained for the ethyl acetate and methanolic extracts. However, the ethyl acetate extract had remarkable enzyme inhibitory potential. On the basis of our results, Achillea species may be promoted as promising sources of natural agents and used for the development of nutraceuticals or functional food ingredients.

  3. A Taxonomy-Based Approach to Shed Light on the Babel of Mathematical Models for Rice Simulation

    NASA Technical Reports Server (NTRS)

    Confalonieri, Roberto; Bregaglio, Simone; Adam, Myriam; Ruget, Francoise; Li, Tao; Hasegawa, Toshihiro; Yin, Xinyou; Zhu, Yan; Boote, Kenneth; Buis, Samuel; Ruane, Alex C.

    2016-01-01

    For most biophysical domains, differences in model structures are seldom quantified. Here, we used a taxonomy-based approach to characterise thirteen rice models. Classification keys and binary attributes for each key were identified, and models were categorised into five clusters using a binary similarity measure and the unweighted pair-group method with arithmetic mean. Principal component analysis was performed on model outputs at four sites. Results indicated that (i) differences in structure often resulted in similar predictions and (ii) similar structures can lead to large differences in model outputs. User subjectivity during calibration may have hidden expected relationships between model structure and behaviour. This explanation, if confirmed, highlights the need for shared protocols to reduce the degrees of freedom during calibration, and to limit, in turn, the risk that user subjectivity influences model performance.

  4. A Taxonomy-Based Approach to Shed Light on the Babel of Mathematical Models for Rice Simulation

    NASA Technical Reports Server (NTRS)

    Confalonieri, Roberto; Bregaglio, Simone; Adam, Myriam; Ruget, Francoise; Li, Tao; Hasegawa, Toshihiro; Yin, Xinyou; Zhu, Yan; Boote, Kenneth; Buis, Samuel; hide

    2016-01-01

    For most biophysical domains, differences in model structures are seldom quantified. Here, we used a taxonomy-based approach to characterise thirteen rice models. Classification keys and binary attributes for each key were identified, and models were categorised into five clusters using a binary similarity measure and the unweighted pair-group method with arithmetic mean. Principal component analysis was performed on model outputs at four sites. Results indicated that (i) differences in structure often resulted in similar predictions and (ii) similar structures can lead to large differences in model outputs. User subjectivity during calibration may have hidden expected relationships between model structure and behaviour. This explanation, if confirmed, highlights the need for shared protocols to reduce the degrees of freedom during calibration, and to limit, in turn, the risk that user subjectivity influences model performance.

  5. The making of a genomic parasite - the Mothra family sheds light on the evolution of Helitrons in plants.

    PubMed

    Roffler, Stefan; Menardo, Fabrizio; Wicker, Thomas

    2015-01-01

    Helitrons are Class II transposons which are highly abundant in almost all eukaryotes. However, most Helitrons lack protein coding sequence. These non-autonomous elements are thought to hijack recombinase/helicase (RepHel) and possibly further enzymes from related, autonomous elements. Interestingly, many plant Helitrons contain an additional gene encoding a single-strand binding protein homologous to Replication Factor A (RPA), a highly conserved, single-copy gene found in all eukaryotes. Here, we describe the analysis of DHH_Mothra, a high-copy non-autonomous Helitron in the genome of rice (Oryza sativa). Mothra has a low GC-content and consists of two distinct blocs of tandem repeats. Based on homology between their termini, we identified a putative mother element which encodes an RPA-like protein but has no RepHel gene. Additionally, we found a putative autonomous sister-family with strong homology to the Mothra mother element in the RPA protein and terminal sequences, which we propose provides the RepHel domain for the Mothra family. Furthermore, we phylogenetically analyzed the evolutionary history of RPA-like proteins. Interestingly, plant Helitron RPAs (PHRPAs) are only found in monocotyledonous and dicotyledonous plants and they form a monophyletic group which branched off before the eukaryotic "core" RPAs. Our data show how erosion of autonomous Helitrons can lead to different "levels" of autonomy within Helitron families and can create highly successful subfamilies of non-autonomous elements. Most importantly, our phylogenetic analysis showed that the PHRPA gene was most likely acquired via horizontal gene transfer from an unknown eukaryotic donor at least 145-300 million years ago in the common ancestor of monocotyledonous and dicotyledonous plants. This might have led to the evolution of a separate branch of the Helitron superfamily in plants.

  6. Bone histology sheds light on the nature of the "dermal armor" of the enigmatic sauropod dinosaur Agustinia ligabuei Bonaparte, 1999

    NASA Astrophysics Data System (ADS)

    Bellardini, Flavio; Cerda, Ignacio A.

    2017-02-01

    Agustinia ligabuei is an Early Cretaceous sauropod dinosaur from the northwest of Patagonia that is currently the topic of debate with respect to its phylogenetic position and atypical dermal armor. The presence of four morphotypes of laminar and transversely elongated putative osteoderms was used to consider Agustinia as an armored sauropod. Regarding the different hypotheses about the identity of the bony structures of Agustinia (e.g., osteoderms, cervical or dorsal ribs, hypertrophied elements), a comparative histological analysis has been carried out. Histological evidence is presented herein and reveals that none of the morphotypes of Agustinia shows a primary bone tissue formed by structural fiber bundles as in other sauropod dinosaur osteoderms. Furthermore, on the basis of their gross morphology and microstructure, the bony structures originally classified as types 1 + 4 and 3 are more comparable respectively with dorsal and cervical ribs than any other kind of dermal or bony element. Due to poor preservation, the nature of the type 2 cannot be assessed but is here tentatively assigned to a pelvic girdle element. Although a phylogenetic reassessment of Agustinia is not the purpose of this paper, our paleohistological analyses have broader implications: by not supporting the dermal armor hypothesis for Agustinia, its inclusion in Lithostrotia is not justified in the absence of other diagnostic features.

  7. Bone histology sheds light on the nature of the "dermal armor" of the enigmatic sauropod dinosaur Agustinia ligabuei Bonaparte, 1999.

    PubMed

    Bellardini, Flavio; Cerda, Ignacio A

    2017-02-01

    Agustinia ligabuei is an Early Cretaceous sauropod dinosaur from the northwest of Patagonia that is currently the topic of debate with respect to its phylogenetic position and atypical dermal armor. The presence of four morphotypes of laminar and transversely elongated putative osteoderms was used to consider Agustinia as an armored sauropod. Regarding the different hypotheses about the identity of the bony structures of Agustinia (e.g., osteoderms, cervical or dorsal ribs, hypertrophied elements), a comparative histological analysis has been carried out. Histological evidence is presented herein and reveals that none of the morphotypes of Agustinia shows a primary bone tissue formed by structural fiber bundles as in other sauropod dinosaur osteoderms. Furthermore, on the basis of their gross morphology and microstructure, the bony structures originally classified as types 1 + 4 and 3 are more comparable respectively with dorsal and cervical ribs than any other kind of dermal or bony element. Due to poor preservation, the nature of the type 2 cannot be assessed but is here tentatively assigned to a pelvic girdle element. Although a phylogenetic reassessment of Agustinia is not the purpose of this paper, our paleohistological analyses have broader implications: by not supporting the dermal armor hypothesis for Agustinia, its inclusion in Lithostrotia is not justified in the absence of other diagnostic features.

  8. Hepatitis B Virus Kinetics under Therapy Sheds Light on Differences Between e-antigen Positive and Negative Infection

    PubMed Central

    Ribeiro, Ruy M.; Germanidis, Georgios; Powers, Kimberly A.; Pellegrin, Bertrand; Nikolaidis, Paul; Perelson, Alan S.; Pawlotsky, Jean-Michel

    2010-01-01

    BACKGROUND Hepatitis B e antigen (HBeAg)-negative chronic hepatitis B has a divergent presentation and clinical course from that of HBeAg-positive infection. The former usually presents with lower viral levels, but faster progression to liver disease. We sought to understand better the balance between replication and the immune response against hepatitis B virus (HBV). METHODS Viral kinetics in 50 HBeAg-negative patients under various treatment protocols with interferon-α and/or nucleos(t)ide analogues was analyzed. HBV DNA level was measured frequently and the data fitted to a viral dynamic model. A meta-analysis of all published studies of viral kinetics in HBeAg-positive and negative infection was also conducted. RESULTS We found that the clearance of both HBV virions and infected cells was significantly faster in HBeAg-negative than -positive infection. In HBeAg-negative infection, there was also a negative correlation between baseline HBV DNA levels and infected cell half-life, suggesting that the higher the viral load the faster the turnover of infected cells. CONCLUSIONS These results reveal the dual role of the immune response in maintaining lower viral levels and inducing faster turnover of infected cells, the latter of which may be responsible for the more aggressive nature of HBeAg-negative infection. PMID:20874517

  9. Shedding Some Light over the Floral Metabolism by Arum Lily (Zantedeschia aethiopica) Spathe De Novo Transcriptome Assembly

    PubMed Central

    Cândido, Elizabete de Souza; Fernandes, Gabriel da Rocha; de Alencar, Sérgio Amorim; Cardoso, Marlon Henrique e Silva; Lima, Stella Maris de Freitas; Miranda, Vívian de Jesus; Porto, William Farias; Nolasco, Diego Oliveira; de Oliveira-Júnior, Nelson Gomes; Barbosa, Aulus Estevão Anjos de Deus; Pogue, Robert Edward; Rezende, Taia Maria Berto; Dias, Simoni Campos; Franco, Octávio Luiz

    2014-01-01

    Zantedeschia aethiopica is an evergreen perennial plant cultivated worldwide and commonly used for ornamental and medicinal purposes including the treatment of bacterial infections. However, the current understanding of molecular and physiological mechanisms in this plant is limited, in comparison to other non-model plants. In order to improve understanding of the biology of this botanical species, RNA-Seq technology was used for transcriptome assembly and characterization. Following Z. aethiopica spathe tissue RNA extraction, high-throughput RNA sequencing was performed with the aim of obtaining both abundant and rare transcript data. Functional profiling based on KEGG Orthology (KO) analysis highlighted contigs that were involved predominantly in genetic information (37%) and metabolism (34%) processes. Predicted proteins involved in the plant circadian system, hormone signal transduction, secondary metabolism and basal immunity are described here. In silico screening of the transcriptome data set for antimicrobial peptide (AMP) –encoding sequences was also carried out and three lipid transfer proteins (LTP) were identified as potential AMPs involved in plant defense. Spathe predicted protein maps were drawn, and suggested that major plant efforts are expended in guaranteeing the maintenance of cell homeostasis, characterized by high investment in carbohydrate, amino acid and energy metabolism as well as in genetic information. PMID:24614014

  10. Novel parvoviruses in reptiles and genome sequence of a lizard parvovirus shed light on Dependoparvovirus genus evolution.

    PubMed

    Pénzes, Judit J; Pham, Hanh T; Benkö, Mária; Tijssen, Peter

    2015-09-01

    Here, we report the detection and partial genome characterization of two novel reptilian parvoviruses derived from a short-tailed pygmy chameleon (Rampholeon brevicaudatus) and a corn snake (Pantherophis guttatus) along with the complete genome analysis of the first lizard parvovirus, obtained from four bearded dragons (Pogona vitticeps). Both homology searches and phylogenetic tree reconstructions demonstrated that all are members of the genus Dependoparvovirus. Even though most dependoparvoviruses replicate efficiently only in co-infections with large DNA viruses, no such agents could be detected in one of the bearded dragon samples, hence the possibility of autonomous replication was explored. The alternative ORF encoding the full assembly activating protein (AAP), typical for the genus, could be obtained from reptilian parvoviruses for the first time, with a structure that appears to be more ancient than that of avian and mammalian parvoviruses. All three viruses were found to harbour short introns as previously observed for snake adeno-associated virus, shorter than that of any non-reptilian dependoparvovirus. According to the phylogenetic calculations based on full non-structural protein (Rep) and AAP sequences, the monophyletic cluster of reptilian parvoviruses seems to be the most basal out of all lineages of genus Dependoparvovirus. The suspected ability for autonomous replication, results of phylogenetic tree reconstruction, intron lengths and the structure of the AAP suggested that a single Squamata origin instead of the earlier assumed diapsid (common avian-reptilian) origin is more likely for the genus Dependoparvovirus of the family Parvoviridae.

  11. Molecular characterization of firefly nuptial gifts: a multi-omics approach sheds light on postcopulatory sexual selection

    PubMed Central

    Al-Wathiqui, Nooria; Fallon, Timothy R.; South, Adam; Weng, Jing-Ke; Lewis, Sara M.

    2016-01-01

    Postcopulatory sexual selection is recognized as a key driver of reproductive trait evolution, including the machinery required to produce endogenous nuptial gifts. Despite the importance of such gifts, the molecular composition of the non-gametic components of male ejaculates and their interactions with female reproductive tracts remain poorly understood. During mating, male Photinus fireflies transfer to females a spermatophore gift manufactured by multiple reproductive glands. Here we combined transcriptomics of both male and female reproductive glands with proteomics and metabolomics to better understand the synthesis, composition and fate of the spermatophore in the common Eastern firefly, Photinus pyralis. Our transcriptome of male glands revealed up-regulation of proteases that may enhance male fertilization success and activate female immune response. Using bottom-up proteomics we identified 208 functionally annotated proteins that males transfer to the female in their spermatophore. Targeted metabolomic analysis also provided the first evidence that Photinus nuptial gifts contain lucibufagin, a firefly defensive toxin. The reproductive tracts of female fireflies showed increased gene expression for several proteases that may be involved in egg production. This study offers new insights into the molecular composition of male spermatophores, and extends our understanding of how nuptial gifts may mediate postcopulatory interactions between the sexes. PMID:28004739

  12. Molecular characterization of firefly nuptial gifts: a multi-omics approach sheds light on postcopulatory sexual selection.

    PubMed

    Al-Wathiqui, Nooria; Fallon, Timothy R; South, Adam; Weng, Jing-Ke; Lewis, Sara M

    2016-12-22

    Postcopulatory sexual selection is recognized as a key driver of reproductive trait evolution, including the machinery required to produce endogenous nuptial gifts. Despite the importance of such gifts, the molecular composition of the non-gametic components of male ejaculates and their interactions with female reproductive tracts remain poorly understood. During mating, male Photinus fireflies transfer to females a spermatophore gift manufactured by multiple reproductive glands. Here we combined transcriptomics of both male and female reproductive glands with proteomics and metabolomics to better understand the synthesis, composition and fate of the spermatophore in the common Eastern firefly, Photinus pyralis. Our transcriptome of male glands revealed up-regulation of proteases that may enhance male fertilization success and activate female immune response. Using bottom-up proteomics we identified 208 functionally annotated proteins that males transfer to the female in their spermatophore. Targeted metabolomic analysis also provided the first evidence that Photinus nuptial gifts contain lucibufagin, a firefly defensive toxin. The reproductive tracts of female fireflies showed increased gene expression for several proteases that may be involved in egg production. This study offers new insights into the molecular composition of male spermatophores, and extends our understanding of how nuptial gifts may mediate postcopulatory interactions between the sexes.

  13. Multiple lines of evidence shed light on the occurrence of paramecium (ciliophora, oligohymenophorea) in bromeliad tank water.

    PubMed

    Buosi, Paulo R B; Cabral, Adalgisa F; Simão, Taiz L L; Utz, Laura R P; Velho, Luiz F M

    2014-01-01

    Phytotelmata are vegetal structures that hold water from the rain, and organic matter from the forest and the soil, resulting in small, compartmentalized bodies of water, which provide an essential environment for the establishment and development of many organisms. These microenvironments generally harbor endemic species, but many organisms that are found in lakes and rivers, are also present. Here, we report, for the first time, the occurrence of the ciliate genus Paramecium in the tank of the bromeliad species Aechmaea distichantha. The identification of the Paramecium species was performed based on live observations, protargol impregnation, scanning electronic microscopy, and sequencing of the 18s rRNA. The absence of Paramecium from bromeliad tank water was highlighted in several earlier investigations, and may be due to the fact that this species is unable to make cysts. The occurrence of Paramecium multimicronucleatum in our samples may be explained by the proximity between the bromeliads and the river, a potential source of the species. Further, we also believe that the counting methodology used in our study provides a more accurate analysis of the species diversity, since we investigated all samples within a maximum period of 6 h after sampling, allowing minimum loss of specimens. © 2013 The Author(s) Journal of Eukaryotic Microbiology © 2013 International Society of Protistologists.

  14. A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure.

    PubMed

    Zuccolo, Andrea; Bowers, John E; Estill, James C; Xiong, Zhiyong; Luo, Meizhong; Sebastian, Aswathy; Goicoechea, José Luis; Collura, Kristi; Yu, Yeisoo; Jiao, Yuannian; Duarte, Jill; Tang, Haibao; Ayyampalayam, Saravanaraj; Rounsley, Steve; Kudrna, Dave; Paterson, Andrew H; Pires, J Chris; Chanderbali, Andre; Soltis, Douglas E; Chamala, Srikar; Barbazuk, Brad; Soltis, Pamela S; Albert, Victor A; Ma, Hong; Mandoli, Dina; Banks, Jody; Carlson, John E; Tomkins, Jeffrey; dePamphilis, Claude W; Wing, Rod A; Leebens-Mack, Jim

    2011-01-01

    Recent phylogenetic analyses have identified Amborella trichopoda, an understory tree species endemic to the forests of New Caledonia, as sister to a clade including all other known flowering plant species. The Amborella genome is a unique reference for understanding the evolution of angiosperm genomes because it can serve as an outgroup to root comparative analyses. A physical map, BAC end sequences and sample shotgun sequences provide a first view of the 870 Mbp Amborella genome. Analysis of Amborella BAC ends sequenced from each contig suggests that the density of long terminal repeat retrotransposons is negatively correlated with that of protein coding genes. Syntenic, presumably ancestral, gene blocks were identified in comparisons of the Amborella BAC contigs and the sequenced Arabidopsis thaliana, Populus trichocarpa, Vitis vinifera and Oryza sativa genomes. Parsimony mapping of the loss of synteny corroborates previous analyses suggesting that the rate of structural change has been more rapid on lineages leading to Arabidopsis and Oryza compared with lineages leading to Populus and Vitis. The gamma paleohexiploidy event identified in the Arabidopsis, Populus and Vitis genomes is shown to have occurred after the divergence of all other known angiosperms from the lineage leading to Amborella. When placed in the context of a physical map, BAC end sequences representing just 5.4% of the Amborella genome have facilitated reconstruction of gene blocks that existed in the last common ancestor of all flowering plants. The Amborella genome is an invaluable reference for inferences concerning the ancestral angiosperm and subsequent genome evolution.

  15. Shedding some light over the floral metabolism by arum lily (Zantedeschia aethiopica) spathe de novo transcriptome assembly.

    PubMed

    Cândido, Elizabete de Souza; Fernandes, Gabriel da Rocha; de Alencar, Sérgio Amorim; Cardoso, Marlon Henrique e Silva; Lima, Stella Maris de Freitas; Miranda, Vívian de Jesus; Porto, William Farias; Nolasco, Diego Oliveira; de Oliveira-Júnior, Nelson Gomes; Barbosa, Aulus Estevão Anjos de Deus; Pogue, Robert Edward; Rezende, Taia Maria Berto; Dias, Simoni Campos; Franco, Octávio Luiz

    2014-01-01

    Zantedeschia aethiopica is an evergreen perennial plant cultivated worldwide and commonly used for ornamental and medicinal purposes including the treatment of bacterial infections. However, the current understanding of molecular and physiological mechanisms in this plant is limited, in comparison to other non-model plants. In order to improve understanding of the biology of this botanical species, RNA-Seq technology was used for transcriptome assembly and characterization. Following Z. aethiopica spathe tissue RNA extraction, high-throughput RNA sequencing was performed with the aim of obtaining both abundant and rare transcript data. Functional profiling based on KEGG Orthology (KO) analysis highlighted contigs that were involved predominantly in genetic information (37%) and metabolism (34%) processes. Predicted proteins involved in the plant circadian system, hormone signal transduction, secondary metabolism and basal immunity are described here. In silico screening of the transcriptome data set for antimicrobial peptide (AMP) -encoding sequences was also carried out and three lipid transfer proteins (LTP) were identified as potential AMPs involved in plant defense. Spathe predicted protein maps were drawn, and suggested that major plant efforts are expended in guaranteeing the maintenance of cell homeostasis, characterized by high investment in carbohydrate, amino acid and energy metabolism as well as in genetic information.

  16. The mitochondrial genome of Hydra oligactis (Cnidaria, Hydrozoa) sheds new light on animal mtDNA evolution and cnidarian phylogeny.

    PubMed

    Kayal, Ehsan; Lavrov, Dennis V

    2008-02-29

    The 16,314-nuceotide sequence of the linear mitochondrial DNA (mtDNA) molecule of Hydra oligactis (Cnidaria, Hydrozoa)--the first from the class Hydrozoa--has been determined. This sequence contains genes for 13 energy pathway proteins, small and large subunit rRNAs, and methionine and tryptophan tRNAs, as is typical for cnidarians. All genes have the same transcriptional orientation and their arrangement in the genome is similar to that of the jellyfish Aurelia aurita. In addition, a partial copy of cox1 is present at one end of the molecule in a transcriptional orientation opposite to the rest of the genes, forming a part of inverted terminal repeat characteristic of linear mtDNA and linear mitochondrial plasmids. The sequence close to at least one end of the molecule contains several homonucleotide runs as well as small inverted repeats that are able to form strong secondary structures and may be involved in mtDNA maintenance and expression. Phylogenetic analysis of mitochondrial genes of H. oligactis and other cnidarians supports the Medusozoa hypothesis but also suggests that Anthozoa may be paraphyletic, with octocorallians more closely related to the Medusozoa than to the Hexacorallia. The latter inference implies that Anthozoa is paraphyletic and that the polyp (rather than a medusa) is the ancestral body type in Cnidaria.

  17. Population genomics shed light on the demographic and adaptive histories of European invasion in the Pacific oyster, Crassostrea gigas.

    PubMed

    Rohfritsch, Audrey; Bierne, Nicolas; Boudry, Pierre; Heurtebise, Serge; Cornette, Florence; Lapègue, Sylvie

    2013-11-01

    Crassostrea gigas originated from the Pacific coast of Asia, but was introduced into several European countries in the early 1970s. Natural populations have now spread across the length of the western seaboard of Europe. To elucidate the demographic and selective processes at play during this rapid expansion, genome-scan analysis was performed on different populations. High diversities and low differentiation were observed overall, but significant genetic differentiation was found among newly established populations and between the newly established northern group and a nearly panmictic group composed of southern European populations and a population from Japan. Loss of genetic diversity was also seen in the north, likely caused by founder events during colonization. The few strongly supported outlier loci revealed a genetic structure uncorrelated with the north/south differentiation, but grouping two samples from the Danish fjords (northern group) and one from the Dutch Scheldt estuary (southern group) with the one from Japan. These findings might reflect the following: (i) parallel adaptation to similar environmental pressures (fjord-like environment) within each of the two groups or (ii) a footprint of a secondary introduction of an alternative genomic background maintained by multifarious isolation factors. Our results call for a closer examination of adaptive genetic structure in the area of origin.

  18. Shedding light on food fraud: spectrophotometric and spectroscopic methods as a tool against economically motivated adulteration of food

    NASA Astrophysics Data System (ADS)

    Petronijević, R. B.; Velebit, B.; Baltić, T.

    2017-09-01

    Intentional modification of food or substitution of food ingredients with the aim of gaining profit is food fraud or economically motivated adulteration (EMA). EMA appeared in the food supply chain, and following the global expansion of the food market, has become a world-scale problem for the global economy. Food frauds have involved oils, milk and meat products, infant formula, honey, juices, spices, etc. New legislation was enacted in the last decade in order to fight EMA. Effective analytical methods for food fraud detection are few and still in development. The majority of the methods in common use today for EMA detection are time consuming and inappropriate for use on the production line or out of the laboratory. The next step in the evolution of analytical techniques to combat food fraud is development of fast, accurate methods applicable using portable or handheld devices. Spectrophotometric and spectroscopic methods combined with chemometric analysis, and perhaps in combination with other rapid physico-chemical techniques, could be the answer. This review discusses some analytical techniques based on spectrophotometry and spectroscopy, which are used to reveal food fraud and EMA.

  19. Earliest known unequivocal rhinocerotoid sheds new light on the origin of Giant Rhinos and phylogeny of early rhinocerotoids

    PubMed Central

    Wang, Haibing; Bai, Bin; Meng, Jin; Wang, Yuanqing

    2016-01-01

    Forstercooperiines are a group of primitive rhinocerotoids with a relatively large body size in the Eocene, and normally considered to be closely related to Giant Rhinos. Here we report a new forstercooperiine, Pappaceras meiomenus sp. nov., from the late Early Eocene Arshanto Formation, Erlian Basin, Nei Mongol, China. Pappaceras is the earliest known unequivocal rhinocerotoid, and the holotype of the new species, represented by the most complete cranium of forstercooperiines known to date, shows the earliest evidence of reduction of the first upper premolar in rhinocerotoids, and resembles paraceratheriine Juxia in basicranial features, supporting the interpretation that the forstercooperiine clade is ancestral to paraceratheriines. The new species also displays some similarities with amynodontids in craniodental structures. Phylogenetic analysis identifies P. meiomenus as a basal taxon of the monophyletic forstercooperiines. It also reveals novel phylogenetic relationships of early rhinocerotoids that indicates Uintaceras is the sister group of paraceratheriids, to which amynodontids are more closely related than to any other group of rhinocerotoids. Furthermore, the eggysodontid clade is excluded from hyracodontids and placed as the sister group of rhinocerotids. Hyracodontidae, excluding paraceratheriids and eggysodontids, is placed as the most basal group of the rhinocerotoids. PMID:28000789

  20. A physical map for the Amborella trichopoda genome sheds light on the evolution of angiosperm genome structure

    PubMed Central

    2011-01-01

    Background Recent phylogenetic analyses have identified Amborella trichopoda, an understory tree species endemic to the forests of New Caledonia, as sister to a clade including all other known flowering plant species. The Amborella genome is a unique reference for understanding the evolution of angiosperm genomes because it can serve as an outgroup to root comparative analyses. A physical map, BAC end sequences and sample shotgun sequences provide a first view of the 870 Mbp Amborella genome. Results Analysis of Amborella BAC ends sequenced from each contig suggests that the density of long terminal repeat retrotransposons is negatively correlated with that of protein coding genes. Syntenic, presumably ancestral, gene blocks were identified in comparisons of the Amborella BAC contigs and the sequenced Arabidopsis thaliana, Populus trichocarpa, Vitis vinifera and Oryza sativa genomes. Parsimony mapping of the loss of synteny corroborates previous analyses suggesting that the rate of structural change has been more rapid on lineages leading to Arabidopsis and Oryza compared with lineages leading to Populus and Vitis. The gamma paleohexiploidy event identified in the Arabidopsis, Populus and Vitis genomes is shown to have occurred after the divergence of all other known angiosperms from the lineage leading to Amborella. Conclusions When placed in the context of a physical map, BAC end sequences representing just 5.4% of the Amborella genome have facilitated reconstruction of gene blocks that existed in the last common ancestor of all flowering plants. The Amborella genome is an invaluable reference for inferences concerning the ancestral angiosperm and subsequent genome evolution. PMID:21619600

  1. Identification of Novel Elements of the Drosophila Blisterome Sheds Light on Potential Pathological Mechanisms of Several Human Diseases

    PubMed Central

    Bilousov, Oleksii; Koval, Alexey; Keshelava, Amiran; Katanaev, Vladimir L.

    2014-01-01

    Main developmental programs are highly conserved among species of the animal kingdom. Improper execution of these programs often leads to progression of various diseases and disorders. Here we focused on Drosophila wing tissue morphogenesis, a fairly complex developmental program, one of the steps of which – apposition of the dorsal and ventral wing sheets during metamorphosis – is mediated by integrins. Disruption of this apposition leads to wing blistering which serves as an easily screenable phenotype for components regulating this process. By means of RNAi-silencing technique and the blister phenotype as readout, we identify numerous novel proteins potentially involved in wing sheet adhesion. Remarkably, our results reveal not only participants of the integrin-mediated machinery, but also components of other cellular processes, e.g. cell cycle, RNA splicing, and vesicular trafficking. With the use of bioinformatics tools, these data are assembled into a large blisterome network. Analysis of human orthologues of the Drosophila blisterome components shows that many disease-related genes may contribute to cell adhesion implementation, providing hints on possible mechanisms of these human pathologies. PMID:24968325

  2. Population genomics shed light on the demographic and adaptive histories of European invasion in the Pacific oyster, Crassostrea gigas

    PubMed Central

    Rohfritsch, Audrey; Bierne, Nicolas; Boudry, Pierre; Heurtebise, Serge; Cornette, Florence; Lapègue, Sylvie

    2013-01-01

    Crassostrea gigas originated from the Pacific coast of Asia, but was introduced into several European countries in the early 1970s. Natural populations have now spread across the length of the western seaboard of Europe. To elucidate the demographic and selective processes at play during this rapid expansion, genome-scan analysis was performed on different populations. High diversities and low differentiation were observed overall, but significant genetic differentiation was found among newly established populations and between the newly established northern group and a nearly panmictic group composed of southern European populations and a population from Japan. Loss of genetic diversity was also seen in the north, likely caused by founder events during colonization. The few strongly supported outlier loci revealed a genetic structure uncorrelated with the north/south differentiation, but grouping two samples from the Danish fjords (northern group) and one from the Dutch Scheldt estuary (southern group) with the one from Japan. These findings might reflect the following: (i) parallel adaptation to similar environmental pressures (fjord-like environment) within each of the two groups or (ii) a footprint of a secondary introduction of an alternative genomic background maintained by multifarious isolation factors. Our results call for a closer examination of adaptive genetic structure in the area of origin. PMID:24187588

  3. Sequencing of two sunflower chlorotic mottle virus isolates obtained from different natural hosts shed light on its evolutionary history.

    PubMed

    Bejerman, N; Giolitti, F; de Breuil, S; Lenardon, S

    2013-02-01

    Sunflower chlorotic mottle virus (SuCMoV), the most prevalent virus of sunflower in Argentina, was reported naturally infecting not only sunflower but also weeds. To understand SuCMoV evolution and improve the knowledge on its variability, the complete genomic sequences of two SuCMoV isolates collected from Dipsacus fullonum (-dip) and Ibicella lutea (-ibi) were determined from three overlapping cDNA clones and subjected to phylogenetic and recombination analyses. SuCMoV-dip and -ibi genomes were 9,953-nucleotides (nt) long; their sequences contained an open reading frame of 9,561 nucleotides, which encoded a polyprotein of 3,187 amino acids flanked by a 5'-noncoding region (NCR) of 135 nt and a 3'-NCR of 257 nt. SuCMoV-dip and -ibi genome nucleotide sequences were 90.9 identical and displayed 90 and 94.6 % identity to that of SuCMoV-C, and 90.8 and 91.4 % identity to that of SuCMoV-CRS, respectively. P1 of SuCMoV-dip and -ibi was 3-nt longer than that of SuCMoV-CRS, but 12-nt shorter than that of SuCMoV-C. Two recombination events were detected in SuCMoV genome and the analysis of d(N)/d(S) ratio among SuCMoV complete sequences showed that the genomic regions are under different evolutionary constraints, suggesting that SuCMoV evolution would be conservative. Our findings provide evidence that mutation and recombination would have played important roles in the evolutionary history of SuCMoV.

  4. Transcriptomic Profiling of Egg Quality in Sea Bass (Dicentrarchus labrax) Sheds Light on Genes Involved in Ubiquitination and Translation.

    PubMed

    Żarski, Daniel; Nguyen, Thaovi; Le Cam, Aurélie; Montfort, Jérôme; Dutto, Gilbert; Vidal, Marie Odile; Fauvel, Christian; Bobe, Julien

    2017-02-01

    Variable and low egg quality is a major limiting factor for the development of efficient aquaculture production. This stems from limited knowledge on the mechanisms underlying egg quality in cultured fish. Molecular analyses, such as transcriptomic studies, are valuable tools to identify the most important processes modulating egg quality. However, very few studies have been devoted to this aspect so far. Within this study, the microarray-based transcriptomic analysis of eggs (of different quality) of sea bass (Dicentrarchus labrax) was performed. An Agilent oligo microarray experiment was performed on labelled mRNA extracted from 16 batches of eggs (each batch obtained from a different female) of sea bass, in which over 24,000 published probe arrays were used. We identified 39 differentially expressed genes exhibiting a differential expression between the groups of low (fertilization rate < 60 %) and high (fertilization rate > 60 %) quality. The mRNA levels of eight genes were further analyzed by quantitative PCR. Seven genes were confirmed by qPCR to be differentially expressed in eggs of low and high quality. This study confirmed the importance of some of the genes already reported to be potential molecular quality indicators (mainly rnf213 and irf7), but we also found new genes (mainly usp5, mem-prot, plec, cenpf), which had not yet been reported to be quality-dependent in fish. These results suggest the importance of genes involved in several important processes, such as protein ubiquitination, translation, DNA repair, and cell structure and architecture; these probably being the mechanisms that contribute to egg developmental competence in sea bass.

  5. Synchrotron-Based Techniques Shed Light on Mechanisms of Plant Sensitivity and Tolerance to High Manganese in the Root Environment.

    PubMed

    Blamey, F Pax C; Hernandez-Soriano, Maria C; Cheng, Miaomiao; Tang, Caixian; Paterson, David J; Lombi, Enzo; Wang, Wei Hong; Scheckel, Kirk G; Kopittke, Peter M

    2015-11-01

    Plant species differ in response to high available manganese (Mn), but the mechanisms of sensitivity and tolerance are poorly understood. In solution culture, greater than or equal to 30 µm Mn decreased the growth of soybean (Glycine max), but white lupin (Lupinus albus), narrow-leafed lupin (Lupin angustifolius), and sunflower (Helianthus annuus) grew well at 100 µm Mn. Differences in species' tolerance to high Mn could not be explained simply by differences in root, stem, or leaf Mn status, being 8.6, 17.1, 6.8, and 9.5 mmol kg(-1) leaf fresh mass at 100 µm Mn. Furthermore, x-ray absorption near edge structure analyses identified the predominance of Mn(II), bound mostly to malate or citrate, in roots and stems of all four species. Rather, differences in tolerance were due to variations in Mn distribution and speciation within leaves. In Mn-sensitive soybean, in situ analysis of fresh leaves using x-ray fluorescence microscopy combined with x-ray absorption near edge structure showed high Mn in the veins, and manganite [Mn(III)] accumulated in necrotic lesions apparently through low Mn sequestration in vacuoles or other vesicles. In the two lupin species, most Mn accumulated in vacuoles as either soluble Mn(II) malate or citrate. In sunflower, Mn was sequestered as manganite at the base of nonglandular trichomes. Hence, tolerance to high Mn was ascribed to effective sinks for Mn in leaves, as Mn(II) within vacuoles or through oxidation of Mn(II) to Mn(III) in trichomes. These two mechanisms prevented Mn accumulation in the cytoplasm and apoplast, thereby ensuring tolerance to high Mn in the root environment. © 2015 American Society of Plant Biologists. All Rights Reserved.

  6. The genome sequence of Brucella pinnipedialis B2/94 sheds light on the evolutionary history of the genus Brucella

    PubMed Central

    2011-01-01

    Background Since the discovery of the Malta fever agent, Brucella melitensis, in the 19th century, six terrestrial mammal-associated Brucella species were recognized over the next century. More recently the number of novel Brucella species has increased and among them, isolation of species B. pinnipedialis and B. ceti from marine mammals raised many questions about their origin as well as on the evolutionary history of the whole genus. Results We report here on the first complete genome sequence of a Brucella strain isolated from marine mammals, Brucella pinnipedialis strain B2/94. A whole gene-based phylogenetic analysis shows that five main groups of host-associated Brucella species rapidly diverged from a likely free-living ancestor close to the recently isolated B. microti. However, this tree lacks the resolution required to resolve the order of divergence of those groups. Comparative analyses focusing on a) genome segments unshared between B. microti and B. pinnipedialis, b) gene deletion/fusion events and c) positions and numbers of Brucella specific IS711 elements in the available Brucella genomes provided enough information to propose a branching order for those five groups. Conclusions In this study, it appears that the closest relatives of marine mammal Brucella sp. are B. ovis and Brucella sp. NVSL 07-0026 isolated from a baboon, followed by B. melitensis and B. abortus strains, and finally the group consisting of B. suis strains, including B. canis and the group consisting of the single B. neotomae species. We were not able, however, to resolve the order of divergence of the two latter groups. PMID:21745361

  7. The genome sequence of Brucella pinnipedialis B2/94 sheds light on the evolutionary history of the genus Brucella.

    PubMed

    Audic, Stéphane; Lescot, Magali; Claverie, Jean-Michel; Cloeckaert, Axel; Zygmunt, Michel S

    2011-07-11

    Since the discovery of the Malta fever agent, Brucella melitensis, in the 19th century, six terrestrial mammal-associated Brucella species were recognized over the next century. More recently the number of novel Brucella species has increased and among them, isolation of species B. pinnipedialis and B. ceti from marine mammals raised many questions about their origin as well as on the evolutionary history of the whole genus. We report here on the first complete genome sequence of a Brucella strain isolated from marine mammals, Brucella pinnipedialis strain B2/94. A whole gene-based phylogenetic analysis shows that five main groups of host-associated Brucella species rapidly diverged from a likely free-living ancestor close to the recently isolated B. microti. However, this tree lacks the resolution required to resolve the order of divergence of those groups. Comparative analyses focusing on a) genome segments unshared between B. microti and B. pinnipedialis, b) gene deletion/fusion events and c) positions and numbers of Brucella specific IS711 elements in the available Brucella genomes provided enough information to propose a branching order for those five groups. In this study, it appears that the closest relatives of marine mammal Brucella sp. are B. ovis and Brucella sp. NVSL 07-0026 isolated from a baboon, followed by B. melitensis and B. abortus strains, and finally the group consisting of B. suis strains, including B. canis and the group consisting of the single B. neotomae species. We were not able, however, to resolve the order of divergence of the two latter groups.

  8. SHEDDING NEW LIGHT ON THE AGE OF THE PALOUSE LOESS, SOUTHEASTERN WASHINGTON, USING OPTICALLY STIMULATED LUMINESCENCE DATING OF QUARTZ

    NASA Astrophysics Data System (ADS)

    Roberts, H. M.; Gaylord, D.; Foit, F. F.; Sweeney, M.; Busacca, A. J.

    2009-12-01

    A single-aliquot regenerative-dose (SAR) protocol was applied to fine-silt (4-11 micron), coarse-silt (35-50 micron), and sand-sized (90-125 micron) quartz grains extracted from loess from the Palouse, southeastern Washington. Since its introduction in 2000, this optically stimulated luminescence (OSL) dating method has been applied to a wide variety of sediments, and has been shown to be robust and reliable. A clearly defined set of quality control checks has been developed to assess the suitability of samples to which this method is applied; if a sample passes these quality checks, then the ages are considered to be reliable. For the Palouse loess samples in this study, the luminescence characteristics of the various size fractions differed, and not all quartz fractions proved to be suitable for OSL dating. The coarse-grain quartz samples appear to be contaminated with feldspar, probably as inclusions within the quartz grains. OSL ages were determined using the 35-50 micron quartz fraction; the OSL signals from both this and the 4-11 micron quartz fraction passed all of the quality control checks associated with determining an accurate and precise quartz SAR OSL age. On the basis on the luminescence characteristics, therefore, the quartz OSL ages generated are believed to be robust and reliable. At some sites within the Palouse Loess region, the quartz OSL ages generated were in agreement with independent age control provided by chemical identification of tephra layers associated with known eruptions. However, at a number of sites the quartz OSL ages and the tephra evidence did not agree. The cause of this discrepancy was unknown, but given the anticipated reliability of the quartz OSL ages, attention turned to re-evaluation and re-analysis of the tephra layers which had originally been sampled and analysed more than 15 years prior to collection of the samples for quartz OSL dating. The chronology at the site was further complicated by two much earlier studies

  9. Analysis of the pathogenetic basis for shedding and transmission of ovine gamma herpesvirus 2.

    PubMed

    Hüssy, Daniela; Janett, Fredi; Albini, Sarah; Stäuber, Norbert; Thun, Rico; Ackermann, Mathias

    2002-12-01

    Ovine herpesvirus 2 (OvHV-2), a member of the viral subfamily Gammaherpesvirinae, shares numerous similarities with human herpesvirus 8 (HHV-8). Both viruses are apathogenic in their healthy original host, may cause lymphoprolipherative diseases, cannot routinely be propagated in cell culture, and may be sexually transmitted. However, the pathways of sexual transmission of these viruses, as well as the underlying pathogenetic dynamics, are not well understood. Organs from naturally OvHV-2-infected, as well as OvHV-2-free, sheep were quantitatively analyzed for OvHV-2 by the DNA amplification techniques. The dynamics of OvHV-2 multiplication and excretion were monitored after experimental infections and, most importantly, subsequent to vasectomy. The OvHV-2 DNA load in various tissues and internal organs was not merely reflecting the viral DNA load in the bloodstream, which suggested compartmentalization of OvHV-2. Moreover, OvHV-2 DNA was detected at several portals for virus shedding, i.e., the respiratory, alimentary, and urogenital tracts. Transient OvHV-2 excretion was detected in ejaculates of experimentally infected rams. Upon vasectomy, OvHV-2 DNA reappeared in the ejaculatory plasma, but the titers did not decline after reaching a peak. Spiking and fractionation experiments revealed an inhibitory activity, associated with the spermatozoa, which was able to suppress detection of viral DNA but which was no longer present in samples from vasectomized animals. Therefore, epidemiological studies on viruses that may be transmitted by the ejaculatory pathway and for whose tracing nucleic acid amplification methods are used, i.e., OvHV-2, HHV-8, and the human immunodeficiency virus, should include vasectomized males.

  10. Shedding light on the structures of lignin compounds: photo-oxidation under artificial UV light and characterization by high resolution mass spectrometry.

    PubMed

    Qi, Yulin; Hempelmann, Rolf; Volmer, Dietrich A

    2016-11-01

    Lignin is the second most abundant natural polymer and a promising alternative energy source for conventional fossil fuels. In this study, we investigated transformations of lignin compounds under artificial UV light conditions at the molecular level. Such light-induced changes of composition profiles in nature after sun exposure have been studied for crude oil in the petroleomics field. We applied a similar high resolution mass spectrometry experimental strategy to lignin and demonstrated various data processing methods to reveal the characteristic differences between the extremely complex data sets of two sample sets, one native control before and one sample after photo-irradiation, using Fourier transform ion cyclotron resonance-mass spectrometry. Graphical abstract Kendrick mass defect versus nominal Kendrick mass for mass spectra of a control and UV-oxidized lignin sample.

  11. Molecular evolution and expression divergence of the Populus polygalacturonase supergene family shed light on the evolution of increasingly complex organs in plants.

    PubMed

    Yang, Zhi-Ling; Liu, Hai-Jing; Wang, Xiao-Ru; Zeng, Qing-Yin

    2013-03-01

    Plant polygalacturonases (PGs) are involved in cell separation processes during many stages of plant development. Investigation into the diversification of this large gene family in land plants could shed light on the evolution of structural development. We conducted whole-genome annotation, molecular evolution and gene expression analyses of PG genes in five species of land plant: Populus, Arabidopsis, rice, Selaginella and Physcomitrella. We identified 75, 44, 16 and 11 PG genes from Populus, rice, Selaginella and Physcomitrella genomes, respectively, which were divided into three classes. We inferred rapid expansion of class I PG genes in Populus, Arabidopsis and rice, while copy numbers of classes II and III PG genes were relatively conserved in all five species. Populus, Arabidopsis and rice class I PG genes were under more relaxed selection constraints than class II PG genes, while this selective pressure divergence was not observed in Selaginella and Physcomitrella PG families. In addition, class I PG genes underwent marked expression divergence in Populus, rice and Selaginella. Our results suggest that PG gene expansion occurred after the divergence of the lycophytes and euphyllophytes, and this expansion was likely paralleled by the evolution of increasingly complex organs in land plants.

  12. Animal models of bariatric/metabolic surgery shed light on the mechanisms of weight control and glucose homeostasis: view from the chair.

    PubMed

    Sharkey, K A

    2011-09-01

    Bariatric/metabolic surgeries are remarkably effective in reducing weight over a sustained period of time, and they also have significant beneficial effects on glucose homeostasis. Interestingly, the metabolic benefits of these surgeries frequently occur before significant weight loss. Given these findings, it is perhaps not surprising that obesity researchers are asking, how does bariatric/metabolic surgery work? Establishing these mechanisms can offer new insights into the physiology of energy balance and the control of metabolism. In the second half of the 13(th) International Symposium of the Merck Frosst/CIHR Research Chair in Obesity, four papers that address the mechanisms of bariatric/metabolic surgery were presented. The papers that follow this viewpoint all make use of animal models to reveal the neurohumoral mechanisms underlying weight loss and improved glucose homeostasis after experimental bariatric surgery. The rodent models of the commonly used clinical procedures have shown that energy intake is increased, food reward is altered and that the proximal gut is important in the control of energy balance and glucose homeostasis. Taken together, these models shed light on the mechanisms of bariatric/metabolic surgery and offer new insights that, in the future, may lead to less invasive therapies.

  13. Shedding Light on Solar Power

    NASA Technical Reports Server (NTRS)

    2002-01-01

    Glenn Research Center sponsored an SBIR contract with ENTECH, in which the company worked to mold its successful terrestrial concentrator technology into applications that would generate solar power for space missions. ENTECH's first application made use of small, dome-shaped Fresnel lenses to direct sunlight onto high- efficiency photovoltaic cells. After some key adjustments, the mini- dome lens array was flown as part of the U.S. Air Force/NASA Photovoltaic Array Space Power Plus Diagnostics (PASP Plus) flight experiment in 1994. Due to their three-dimensional shape, the mini- dome lenses entailed construction by a batch molding process, which is naturally more costly than a continuous process. To overcome this disadvantage and meet the requirement for precise solar pointing in two axes, ENTECH started developing solar concentrator arrays for space using a line-focus lens that can be mass-produced by a continuous process. This new technology, named Solar Concentrator Array with Refractive Linear Element Technology (SCARLET), was created with support from Glenn and the Ballistic Missile Defense Organization, and was used to power the NASA/Jet Propulsion Laboratory Deep Space 1 spacecraft.

  14. Shedding Light, Reducing the Heat

    ERIC Educational Resources Information Center

    Perry, Mary

    2006-01-01

    Underlying the very heated debate over California's education budget for 2005-2006--and the battle over Proposition 76 on the November ballot--were two very different perspectives on school funding. These fundamental differences in perspective can stymie efforts to effect meaningful change. However, the Governor's Advisory Committee on Education…

  15. Shedding Light, Reducing the Heat

    ERIC Educational Resources Information Center

    Perry, Mary

    2006-01-01

    Underlying the very heated debate over California's education budget for 2005-2006--and the battle over Proposition 76 on the November ballot--were two very different perspectives on school funding. These fundamental differences in perspective can stymie efforts to effect meaningful change. However, the Governor's Advisory Committee on Education…

  16. Shedding Light on the Candela

    NASA Astrophysics Data System (ADS)

    Greene, Nathaniel R.

    2003-10-01

    Though the candela is one of the seven SI base units, it receives little attention from physics teachers. This paper will discuss the history of the candela, its measurement techniques (photometry), and its relation to the lumen. The luminous properties of incandescent and fluorescent lamps are compared. Of the SI base units, only the candela is linked to the peculiarities of human perception.

  17. Shedding Light on Shadow Education

    ERIC Educational Resources Information Center

    Kobakhidze, Magda Nutsa

    2015-01-01

    This essay review examines four different movies that directly or indirectly refer to the theme of private tutoring or, as it is widely called, shadow education. The movies, directed in locations as diverse as India, Turkey, and Cambodia, are all made from a critical perspective. The directors demonstrate challenges in public education systems and…

  18. [Shedding light on chaos theory].

    PubMed

    Chou, Shieu-Ming

    2004-06-01

    Gleick (1987) said that only three twentieth century scientific theories would be important enough to continue be of use in the twenty-first century: The Theory of Relativity, Quantum Theory, and Chaos Theory. Chaos Theory has become a craze which is being used to forge a new scientific system. It has also been extensively applied in a variety of professions. The purpose of this article is to introduce chaos theory and its nursing applications. Chaos is a sign of regular order. This is to say that chaos theory emphasizes the intrinsic potential for regular order within disordered phenomena. It is to be hoped that this article will inspire more nursing scientists to apply this concept to clinical, research, or administrative fields in our profession.

  19. Shedding light on diphoton resonances

    NASA Astrophysics Data System (ADS)

    Craig, Nathaniel; Draper, Patrick; Kilic, Can; Thomas, Scott

    2016-06-01

    The experimental and theoretical implications of heavy digauge boson resonances that couple to, or are comprised of, new charged and strongly interacting matter are investigated. Observation and measurement of ratios of the resonant digauge boson channels W W , Z Z , γ γ , Z γ , and g g in the form of dijets provide a rather direct—and for some ratios a rather robust—probe of the gauge representations of the new matter. For a spin-zero resonance with the quantum numbers of the vacuum, the ratios of resonant W W and Z Z to γ γ channels, as well as the longitudinal vs transverse polarization fractions in the W W and Z Z channels, provide probes for possible mixing with the Higgs boson, while di-Higgs and ditop resonant channels, h h and t t , provide somewhat less sensitivity. We present a survey of possible underlying models for digauge boson resonances by considering various limits for the mass of the new charged and strongly interacting matter fields as well as the confinement scale of new hypergauge interactions under which they may also be charged. In these limits, resonances may be included as elementary weakly coupled spin-zero states or can correspond to hyperglueballs, hyperonia, or pseudoscalar hypermesons. For each of these cases, we make predictions for additional states that could be resonantly or pair produced and observed at the Large Hadron Collider or in future collider experiments. Heavy digauge boson resonances can provide a unified explanation for a number of small discrepancies and excesses in reported data from the Large Hadron Collider.

  20. Shedding Light on Shadow Education

    ERIC Educational Resources Information Center

    Kobakhidze, Magda Nutsa

    2015-01-01

    This essay review examines four different movies that directly or indirectly refer to the theme of private tutoring or, as it is widely called, shadow education. The movies, directed in locations as diverse as India, Turkey, and Cambodia, are all made from a critical perspective. The directors demonstrate challenges in public education systems and…

  1. Shedding Light on Night Learning.

    ERIC Educational Resources Information Center

    Horwood, Bert

    1986-01-01

    Shows how darkness and night provide a potentially excellent arena for experiential learning opportunities. Recommends learning must be gradual, beginning with appreciation and allaying fear of the dark. Suggests sensory activities, hikes, games, aquatic activities, ecological simulations, historical presentations, and writing or reciting poetry.…

  2. Analysis of Exoplanet Light Curves

    NASA Astrophysics Data System (ADS)

    Erdem, A.; Budding, E.; Rhodes, M. D.; Püsküllü, Ç.; Soydugan, F.; Soydugan, E.; Tüysüz, M.; Demircan, O.

    2015-07-01

    We have applied the close binary system analysis package WINFITTER to a variety of exoplanet transiting light curves taken both from the NASA Exoplanet Archive and our own ground-based observations. WINFitter has parameter options for a realistic physical model, including gravity brightening and structural parameters derived from Kopal's applications of the relevant Radau equation, and it includes appropriate tests for determinacy and adequacy of its best fitting parameter sets. We discuss a number of issues related to empirical checking of models for stellar limb darkening, surface maculation, Doppler beaming, microvariability, and transit time variation (TTV) effects. The Radau coefficients used in the light curve modeling, in principle, allow structural models of the component stars to be tested.

  3. Analysis of Phosphorus Flows through Minnesota's Twin Cities Urban Food-Shed: Three Scenarios for Improving Nutrient Efficiency

    NASA Astrophysics Data System (ADS)

    Peterson, H. M.; Baker, L. A.

    2012-12-01

    Phosphorus (P) is a non-renewable resource, essential for agriculture and human food production. Although it is being depleted globally, urban P use is inefficient and contributes to water resources degradation, particularly accelerated eutrophication of receiving waters. A paradox in the P cycle is that although P enters the system through fertilizer application to agricultural land or livestock manure production in rural areas, the resulting food produced is consumed within urban households. Dietary food consumption is the largest P input to, and output from, Twin Cities Metropolitan Area (TCMA), Minnesota, households. This 7-county area has a population of 2.9 million (2010), which is over half of the State's population. Human food accounts for 41% of the P input to and 46% of the P output from the TCMA; only about 1% of the P in food waste is recycled. Expanding on previous work by the Twin Cities Household Ecosystem Project (TCHEP), this P flow analysis aims to quantify nutrient inputs required throughout the agricultural system to produce the amount of food consumed by TCMA households, while examining P use efficiency by summarizing the extent of leakage (waste), storage, and reuse throughout these systems. Food corresponding to a minimum of 80% of the total dietary P-input for TCMA households can be produced entirely within Minnesota's agricultural system, hence our "food-shed" is more-or-less directly connected to urban consumers. The top food products which contribute the largest input of dietary P are milk, cheese, wheat flour, beef, chicken, caloric sweeteners and pork. Mapping out an agricultural footprint which can support this urban ecosystem enables P use to be conceptualized through a circular economy model, in this case with Minnesota as the food-shed boundary. Using state-level data, augmented with intensive interview data collected from local livestock and food production experts, a detailed P balance was developed for each major animal and

  4. A functional zeaxanthin epoxidase from red algae shedding light on the evolution of light-harvesting carotenoids and the xanthophyll cycle in photosynthetic eukaryotes.

    PubMed

    Dautermann, Oliver; Lohr, Martin

    2017-09-26

    The epoxy-xanthophylls antheraxanthin and violaxanthin are key precursors of light-harvesting carotenoids and participate in the photoprotective xanthophyll cycle. Thus, the invention of zeaxanthin epoxidase (ZEP) catalyzing their formation from zeaxanthin has been a fundamental step in the evolution of photosynthetic eukaryotes. ZEP genes have only been found in Viridiplantae and chromalveolate algae with secondary plastids of red algal ancestry, suggesting that ZEP evolved in the Viridiplantae and spread to chromalveolates by lateral gene transfer. By searching publicly available sequence data from eleven red algae covering all currently recognized red algal classes we identified ZEP candidates in three species. Phylogenetic analyses showed that the red algal ZEP is most closely related to ZEP proteins from photosynthetic chromalveolates possessing secondary plastids of red algal origin. Its enzymatic activity was assessed by HPLC analyses of red algal pigment extracts and by cloning and functional expression of the ZEP gene from Madagascaria erythrocladioides in leaves of the ZEP-deficient aba2 mutant of Nicotiana plumbaginifolia. Unlike other ZEP enzymes examined so far, the red algal ZEP introduces only a single epoxy group into zeaxanthin, yielding antheraxanthin instead of violaxanthin. The results indicate that ZEP evolved before the split of Rhodophyta and Viridiplantae and that chromalveolates acquired ZEP from the red algal endosymbiont and not by lateral gene transfer. Moreover, the red algal ZEP enables engineering of transgenic plants incorporating antheraxanthin instead of violaxanthin in their photosynthetic machinery. This article is protected by copyright. All rights reserved. This article is protected by copyright. All rights reserved.

  5. A Crystallographic Study of the Role of Sequence Context in Thymine Glycol Bypass by a Replicative DNA Polymerase Serendipitously Sheds Light on the Exonuclease Complex

    SciTech Connect

    Aller, Pierre; Duclos, Stéphanie; Wallace, Susan S.; Doublié, Sylvie

    2012-06-27

    Thymine glycol (Tg) is the most common oxidation product of thymine and is known to be a strong block to replicative DNA polymerases. A previously solved structure of the bacteriophage RB69 DNA polymerase (RB69 gp43) in complex with Tg in the sequence context 5'-G-Tg-G shed light on how Tg blocks primer elongation: The protruding methyl group of the oxidized thymine displaces the adjacent 5'-G, which can no longer serve as a template for primer elongation [Aller, P., Rould, M. A., Hogg, M, Wallace, S. S. and Doublie S. (2007). A structural rationale for stalling of a replicative DNA polymerase at the most common oxidative thymine lesion, thymine glycol. Proc. Natl. Acad. Sci. USA, 104, 814-818.]. Several studies showed that in the sequence context 5'-C-Tg-purine, Tg is more likely to be bypassed by Klenow fragment, an A-family DNA polymerase. We set out to investigate the role of sequence context in Tg bypass in a B-family polymerase and to solve the crystal structures of the bacteriophage RB69 DNA polymerase in complex with Tg-containing DNA in the three remaining sequence contexts: 5'-A-Tg-G, 5'-T-Tg-G, and 5'-C-Tg-G. A combination of several factors - including the associated exonuclease activity, the nature of the 3' and 5' bases surrounding Tg, and the cis-trans interconversion of Tg - influences Tg bypass. We also visualized for the first time the structure of a well-ordered exonuclease complex, allowing us to identify and confirm the role of key residues (Phe123, Met256, and Tyr257) in strand separation and in the stabilization of the primer strand in the exonuclease site.

  6. Bayesian analysis of a morphological supermatrix sheds light on controversial fossil hominin relationships

    PubMed Central

    Dembo, Mana; Matzke, Nicholas J.; Mooers, Arne Ø.; Collard, Mark

    2015-01-01

    The phylogenetic relationships of several hominin species remain controversial. Two methodological issues contribute to the uncertainty—use of partial, inconsistent datasets and reliance on phylogenetic methods that are ill-suited to testing competing hypotheses. Here, we report a study designed to overcome these issues. We first compiled a supermatrix of craniodental characters for all widely accepted hominin species. We then took advantage of recently developed Bayesian methods for building trees of serially sampled tips to test among hypotheses that have been put forward in three of the most important current debates in hominin phylogenetics—the relationship between Australopithecus sediba and Homo, the taxonomic status of the Dmanisi hominins, and the place of the so-called hobbit fossils from Flores, Indonesia, in the hominin tree. Based on our results, several published hypotheses can be statistically rejected. For example, the data do not support the claim that Dmanisi hominins and all other early Homo specimens represent a single species, nor that the hobbit fossils are the remains of small-bodied modern humans, one of whom had Down syndrome. More broadly, our study provides a new baseline dataset for future work on hominin phylogeny and illustrates the promise of Bayesian approaches for understanding hominin phylogenetic relationships. PMID:26202999

  7. Concatenated analysis sheds light on early metazoan evolution and fuels a modern "urmetazoon" hypothesis.

    PubMed

    Schierwater, Bernd; Eitel, Michael; Jakob, Wolfgang; Osigus, Hans-Jürgen; Hadrys, Heike; Dellaporta, Stephen L; Kolokotronis, Sergios-Orestis; Desalle, Rob

    2009-01-27

    For more than a century, the origin of metazoan animals has been debated. One aspect of this debate has been centered on what the hypothetical "urmetazoon" bauplan might have been. The morphologically most simply organized metazoan animal, the placozoan Trichoplax adhaerens, resembles an intriguing model for one of several "urmetazoon" hypotheses: the placula hypothesis. Clear support for a basal position of Placozoa would aid in resolving several key issues of metazoan-specific inventions (including, for example, head-foot axis, symmetry, and coelom) and would determine a root for unraveling their evolution. Unfortunately, the phylogenetic relationships at the base of Metazoa have been controversial because of conflicting phylogenetic scenarios generated while addressing the question. Here, we analyze the sum of morphological evidence, the secondary structure of mitochondrial ribosomal genes, and molecular sequence data from mitochondrial and nuclear genes that amass over 9,400 phylogenetically informative characters from 24 to 73 taxa. Together with mitochondrial DNA genome structure and sequence analyses and Hox-like gene expression patterns, these data (1) provide evidence that Placozoa are basal relative to all other diploblast phyla and (2) spark a modernized "urmetazoon" hypothesis.

  8. Shedding a Little (Sun)light on Data Analysis and Technology

    ERIC Educational Resources Information Center

    Winkel, Brian

    2012-01-01

    We present background and an activity meant to show both instructors and students that mere button pushing with technology is insufficient for success, but that additional thought and preparation will permit the technology to serve as an excellent tool in the understanding and learning of mathematics. (Contains 5 figures.)

  9. Shedding a Little (Sun)light on Data Analysis and Technology

    ERIC Educational Resources Information Center

    Winkel, Brian

    2012-01-01

    We present background and an activity meant to show both instructors and students that mere button pushing with technology is insufficient for success, but that additional thought and preparation will permit the technology to serve as an excellent tool in the understanding and learning of mathematics. (Contains 5 figures.)

  10. Bayesian analysis of a morphological supermatrix sheds light on controversial fossil hominin relationships.

    PubMed

    Dembo, Mana; Matzke, Nicholas J; Mooers, Arne Ø; Collard, Mark

    2015-08-07

    The phylogenetic relationships of several hominin species remain controversial. Two methodological issues contribute to the uncertainty-use of partial, inconsistent datasets and reliance on phylogenetic methods that are ill-suited to testing competing hypotheses. Here, we report a study designed to overcome these issues. We first compiled a supermatrix of craniodental characters for all widely accepted hominin species. We then took advantage of recently developed Bayesian methods for building trees of serially sampled tips to test among hypotheses that have been put forward in three of the most important current debates in hominin phylogenetics--the relationship between Australopithecus sediba and Homo, the taxonomic status of the Dmanisi hominins, and the place of the so-called hobbit fossils from Flores, Indonesia, in the hominin tree. Based on our results, several published hypotheses can be statistically rejected. For example, the data do not support the claim that Dmanisi hominins and all other early Homo specimens represent a single species, nor that the hobbit fossils are the remains of small-bodied modern humans, one of whom had Down syndrome. More broadly, our study provides a new baseline dataset for future work on hominin phylogeny and illustrates the promise of Bayesian approaches for understanding hominin phylogenetic relationships.

  11. A systematic review and meta-analysis of phase I inactivated vaccines to reduce shedding of Coxiella burnetii from sheep and goats from routes of public health importance.

    PubMed

    O'Neill, T J; Sargeant, J M; Poljak, Z

    2014-12-01

    Q fever in humans and coxiellosis in livestock are both caused by Coxiella burnetii. The public health importance of vaccination against C. burnetii shedding from sheep and goats was evaluated using systematic review and meta-analysis to provide evidence for policy direction to prevent potential zoonotic spread. Publications reporting shedding of C. burnetii in vaginal and uterine secretions, milk, placenta and faeces were included. A single observational (one goat) and seven experimental (four goat and three sheep) vaccine studies were included in the review. No relevant publications on other interventions were identified. Random effects meta-analyses were performed for the risk of shedding in individuals in the control and vaccinated groups and for the mean difference in the level of bacterial shedding in sheep and goats stratified by age and previous exposure status. Limited data were available for further analytic evaluation. From the pooled analysis, an inactivated phase I vaccine significantly reduced the risk of shedding from uterine (RR = 0.10; 95%CI 0.05-0.20) secretions in previously sensitized goats. Individual studies reported significant risk reduction in milk (RR = 0.03; 95%CI 0.01-0.26), vaginal secretions (RR = 0.40; 95%CI 0.22-0.75) and faeces (RR = 0.79; 95%CI 0.63-0.97) from naïve goats. The pooled mean levels of bacteria shed from placental [mean difference (MD = -5.24 Log10 ; 95%CI -6.75 to -3.7)] and vaginal (MD = -1.78 Log10 ; 95%CI -2.19 to -1.38) routes were significantly decreased in vaccinated naïve goats compared with controls. Shedding through all other routes from vaccinated goats was not significantly different than shedding from control goats. No effect of vaccination was found on the risk of shedding or the mean level of shedding in vaccinated sheep compared with control sheep. Our conclusions are based on a limited amount of data with variable risk of systematic error. © 2013 Blackwell Verlag GmbH.

  12. Computational analysis of a tip vortex structure shed from a bio-inspired blade

    NASA Astrophysics Data System (ADS)

    Gomez, Sebastian; Gilkey, Lindsay N.; Kaiser, Bryan E.; Poroseva, Svetlana V.

    2013-11-01

    Understanding and predicting a tip vortex structure and its dynamics is of significant importance for all branches of aerodynamics. A particular focus of our research is the rotorcraft performance which is substantially influenced by a tip vortex. A tip vortex also is a major source of energy losses and acoustic noise. In the present study, an impact of a blade shape on a tip vortex structure is analyzed. Simulations are conducted of flows around a rectangular blade and a bio-inspired blade of the same area. An insect wing is chosen as a blade prototype. Indeed, insects developed physical characteristics that reduce energy consumption while permitting sustained and controlled flight at low level of noise. Analysis has been done to determine what insect poses flight characteristics closest to the small rotorcraft design goals. Commercial CFD software STAR-CCM + is used for conducting computations on structured and unstructured grids and for data post-processing. The authors acknowledge support from UNM CARC in a form of access to HPC and from CD-Adapco for providing Star-CCM+ for academic purposes. The first author's work was supported by the New Mexico Space Grant Consortium.

  13. Nanoparticle analysis sheds budding insights into genetic drivers of extracellular vesicle biogenesis

    PubMed Central

    Hurwitz, Stephanie N.; Conlon, Meghan M.; Rider, Mark A.; Brownstein, Naomi C.; Meckes, David G.

    2016-01-01

    Background Extracellular vesicles (EVs) are important mediators of cell-to-cell communication in healthy and pathological environments. Because EVs are present in a variety of biological fluids and contain molecular signatures of their cell or tissue of origin, they have great diagnostic and prognostic value. The ability of EVs to deliver biologically active proteins, RNAs and lipids to cells has generated interest in developing novel therapeutics. Despite their potential medical use, many of the mechanisms underlying EV biogenesis and secretion remain unknown. Methods Here, we characterized vesicle secretion across the NCI-60 panel of human cancer cells by nanoparticle tracking analysis. Using CellMiner, the quantity of EVs secreted by each cell line was compared to reference transcriptomics data to identify gene products associated with vesicle secretion. Results Gene products positively associated with the quantity of exosomal-sized vesicles included vesicular trafficking classes of proteins with Rab GTPase function and sphingolipid metabolism. Positive correlates of larger microvesicle-sized vesicle secretion included gene products involved in cytoskeletal dynamics and exocytosis, as well as Rab GTPase activation. One of the identified targets, CD63, was further evaluated for its role in vesicle secretion. Clustered regularly interspaced short palindromic repeat (CRISPR)/Cas9 knockout of the CD63 gene in HEK293 cells resulted in a decrease in small vesicle secretion, suggesting the importance of CD63 in exosome biogenesis. Conclusion These observations reveal new insights into genes involved in exosome and microvesicle formation, and may provide a means to distinguish EV sub-populations. This study offers a foundation for further exploration of targets involved in EV biogenesis and secretion. PMID:27421995

  14. EXPOSURE MODELING - SHEDS

    EPA Science Inventory

    This presentation provides a general overview of SHEDS model features, describes algorithms in the SHEDS-Air Toxics model that focus on mobile source exposures and multipathway exposures, and presents examples of results from application of the SHEDS-Air Toxics model to benzene i...

  15. 7. Fog signal house and shed, view south, north and ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    7. Fog signal house and shed, view south, north and west sides of fog signal house, northeast and northwest sides of shed - Whitehead Light Station, Whitehead Island, East northeast of Tenants Harbor, Spruce Head, Knox County, ME

  16. 23. CONTEXTUAL, RAIL CARS IN MU SHED Delaware, Lackawanna ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    23. CONTEXTUAL, RAIL CARS IN MU SHED - Delaware, Lackawanna & Western Railroad Freight & Rail Yard, Multiple Unit Light Inspection Shed, New Jersey Transit Hoboken Terminal Rail Yard, Hoboken, Hudson County, NJ

  17. Per-Pixel Lighting Data Analysis

    SciTech Connect

    Inanici, Mehlika

    2005-08-01

    This report presents a framework for per-pixel analysis of the qualitative and quantitative aspects of luminous environments. Recognizing the need for better lighting analysis capabilities and appreciating the new measurement abilities developed within the LBNL Lighting Measurement and Simulation Toolbox, ''Per-pixel Lighting Data Analysis'' project demonstrates several techniques for analyzing luminance distribution patterns, luminance ratios, adaptation luminance and glare assessment. The techniques are the syntheses of the current practices in lighting design and the unique practices that can be done with per-pixel data availability. Demonstrated analysis techniques are applicable to both computer-generated and digitally captured images (physically-based renderings and High Dynamic Range photographs).

  18. Control of rod shedding in the frog retina.

    PubMed

    Basinger, S F; Hollyfield, J G

    1980-01-01

    In all vertebrate species examined thus far, rod outer segment shedding follows a cyclic pattern in which the outer segment tips are shed shortly after the onset of light. Work in the rat retina suggests that rod shedding may follow a circadian rhythm which is controlled by one or more circadian oscillators. Our results in the frog retina are significantly different in that: rod shedding can be driven by the onset of light or other environmental cues; shedding does not persist in constant darkness; shedding is unaffected in frogs with chronic unilateral or bilateral optic nerve section; and shedding will rapidly phase shift to the time of light onset on a wide variety of diurnal cycles. Thus, rod shedding in the frog retina does not appear to be a classical circadian rhythm.

  19. Selective Substrates and Inhibitors for Kallikrein-Related Peptidase 7 (KLK7) Shed Light on KLK Proteolytic Activity in the Stratum Corneum.

    PubMed

    de Veer, Simon J; Furio, Laetitia; Swedberg, Joakim E; Munro, Christopher A; Brattsand, Maria; Clements, Judith A; Hovnanian, Alain; Harris, Jonathan M

    2017-02-01

    Proteases have pivotal roles in the skin's outermost layer, the epidermis. In the stratum corneum, serine proteases from the kallikrein-related peptidase (KLK) family have been implicated in several key homeostatic processes, including desquamation. However, the precise contribution of specific KLKs to each process remains unclear. To address this, we used a chemical biology approach and designed selective substrates and inhibitors for KLK7, the most abundant KLK protease in the stratum corneum. The resulting KLK7 inhibitor is the most potent inhibitor of this protease reported to date (Ki = 140 pM), and displays at least 1,000-fold selectivity over several proteases that are related by function (KLK5 and KLK14) or specificity (chymotrypsin). We then used substrates and inhibitors for KLK5, KLK7, and KLK14 to explore the activity of each protease in the stratum corneum using casein zymography and an ex vivo desquamation assay. These experiments provide the most detailed assessment of each KLK's contribution to corneocyte shedding in the plantar stratum corneum, revealing that inhibition of KLK7 alone is sufficient to block shedding, whereas KLK5 is also a major contributor. Collectively, these findings unveil chemical tools for studying KLK activity and demonstrate their potential for characterizing KLK biological functions in epidermal homeostasis. Copyright © 2016 The Authors. Published by Elsevier Inc. All rights reserved.

  20. A GRB tool shed

    NASA Astrophysics Data System (ADS)

    Haglin, David J.; Roiger, Richard J.; Hakkila, Jon; Pendleton, Geoffrey; Mallozzi, Robert

    2000-09-01

    We describe the design of a suite of software tools to allow users to query Gamma Ray Burst (GRB) data and perform data mining expeditions. We call this suite of tools a shed (SHell for Expeditions using Datamining). Our schedule is to have a completed prototype (funded via the NASA AISRP) by February, 2002. Meanwhile, interested users will find a partially functioning tool shed at http:/grb.mankato.msus.edu. .

  1. View from underneath umbrella shed at rear of Train Shed ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    View from underneath umbrella shed at rear of Train Shed looking W. - Central of Georgia Railway, Passenger Station & Train Shed, Corner of Louisville (Railroad) Road & West Broad Street, Savannah, Chatham County, GA

  2. Local load shedding

    SciTech Connect

    Adibi, M.M.; Thorne, D.K. )

    1988-08-01

    Equipment overloads in an underground transmission network are caused by unscheduled outages. Repairs or replacements of damaged cables and/or transformers in urban areas are inherently difficult and time-consuming. Therefore, for overloads greatly in excess of short-time ratings, speed of load shedding is of paramount importance. Under such conditions, the system operator is faced with: recognizing the problem, determining the course of action and shedding the correct amount of load at the right locations. These tasks are difficult to perform, particularly under pressure of time. Reliance on pre-specified load shedding lists is not satisfactory since the load shedding lists do not necessarily match the amounts and locations of the required loads to be shed. Clearly, there has been a need for a local load shedding scheme, which in the first order of importance, would relieve the overloaded equipment within the time limits imposed by the equipment short-time ratings and in the second order of importance, would ''minimize'' the amount of load to be curtailed. This paper describes an approach which meets the dual objective, providing a practical solution to a difficult engineering/operating problem.

  3. Non-imaging Characterization Assessment of Shedding Events from Derelict Satellites near Geosynchronous Orbit (GEO)

    NASA Astrophysics Data System (ADS)

    Kelecy, T.; Skinner, M.

    2016-09-01

    There is plausible speculation that retired satellites near geosynchronous orbit are the source of a debris population that was passively shed over time due to environmental effects. Recent initiatives intended to characterize these defunct satellites via analysis of non-imaging observations have established the ability to derive some of their physical and dynamic attributes. For long term observing of objects, what kinds of changes might one be able to detect that might be attributed to shedding? Are there any attributes common to both the shed piece of debris and the parent object that might allow one to tie the two together? The work presented attempts to shed some light on these questions by establishing several plausible shedding scenarios which include appropriate dynamics, shapes and materials, and uses appropriate bi-directional reflectance distribution functions and Long Wave Infrared (LWIR) models to create a simulated time history of observations that can be examined to analyze the shedding phenomenon. The goal of this work is to provide some insight into what characterization changes one might attribute to shedding when observing a "parent" object over an extended period. The results show that astrometric, photometric, albedo-area product, and multi-wavelength brightness observations each provide unique characterization attributes which, when combined, allow one to infer shedding phenomena.

  4. A meta-analysis of the effect of dose and age at exposure on shedding of Mycobacterium avium subspecies paratuberculosis (MAP) in experimentally infected calves and cows.

    PubMed

    Mitchell, R M; Medley, G F; Collins, M T; Schukken, Y H

    2012-02-01

    A meta-analysis was performed using all published and one unpublished long-term infection-challenge experiments to quantify the age- and dose-dependence of early and late shedding of Mycobacterium avium subsp. paratuberculosis (MAP) in cattle. There were 194 animals from 17 studies that fulfilled the inclusion criteria, of which 173 received a known dose of MAP and 21 were exposed naturally. Results from parametric time-to-event models indicated that challenging older calves or using multiple-exposure experimental systems resulted in a smaller proportion and shorter duration of early shedding as well as slower transition to late shedding from latent compartments. Calves exposed naturally showed variable infection progression rates, not dissimilar to other infection routes. The log-normal distribution was most appropriate for modelling infection-progression events. The infection pattern revealed by the modelling allowed better understanding of low-grade endemicity of MAP in cattle, and the parameter estimates are the basis for future transmission dynamics modelling.

  5. Transcriptome Profiling of Petal Abscission Zone and Functional Analysis of an Aux/IAA Family Gene RhIAA16 Involved in Petal Shedding in Rose

    PubMed Central

    Gao, Yuerong; Liu, Chun; Li, Xiaodong; Xu, Haiqian; Liang, Yue; Ma, Nan; Fei, Zhangjun; Gao, Junping; Jiang, Cai-Zhong; Ma, Chao

    2016-01-01

    Roses are one of the most important cut flowers among ornamental plants. Rose flower longevity is largely dependent on the timing of petal shedding occurrence. To understand the molecular mechanism underlying petal abscission in rose, we performed transcriptome profiling of the petal abscission zone during petal shedding using Illumina technology. We identified a total of 2592 differentially transcribed genes (DTGs) during rose petal shedding. Gene ontology term enrichment and pathway analysis revealed that major biochemical pathways the DTGs were involved in included ethylene biosynthesis, starch degradation, superpathway of cytosolic glycolysis, pyruvate dehydrogenase and TCA cycle, photorespiration and the lactose degradation III pathway. This suggests that alterations in carbon metabolism are an important part of rose petal abscission. Among these DTGs, approximately 150 genes putatively encoding transcription factors were identified in rose abscission zone. These included zinc finger, WRKY, ERF, and Aux/IAA gene families, suggesting that petal abscission involves complex transcriptional reprogramming. Approximately 108 DTGs were related to hormone pathways, of which auxin and ethylene related DTGs were the largest groups including 52 and 41 genes, respectively. These also included 12 DTGs related to gibberellin and 6 DTGs in jasmonic acid pathway. Surprisingly, no DTGs involved in the biosynthesis/signaling of abscisic acid, cytokinin, brassinosteroid, and salicylic acid pathways were detected. Moreover, among DTGs related to auxin, we identified an Aux/IAA gene RhIAA16 that was up-regulated in response to petal shedding. Down-regulation of RhIAA16 by virus-induced gene silencing in rose promoted petal abscission, suggesting that RhIAA16 plays an important role in rose petal abscission. PMID:27695465

  6. Transcriptome Profiling of Petal Abscission Zone and Functional Analysis of an Aux/IAA Family Gene RhIAA16 Involved in Petal Shedding in Rose.

    PubMed

    Gao, Yuerong; Liu, Chun; Li, Xiaodong; Xu, Haiqian; Liang, Yue; Ma, Nan; Fei, Zhangjun; Gao, Junping; Jiang, Cai-Zhong; Ma, Chao

    2016-01-01

    Roses are one of the most important cut flowers among ornamental plants. Rose flower longevity is largely dependent on the timing of petal shedding occurrence. To understand the molecular mechanism underlying petal abscission in rose, we performed transcriptome profiling of the petal abscission zone during petal shedding using Illumina technology. We identified a total of 2592 differentially transcribed genes (DTGs) during rose petal shedding. Gene ontology term enrichment and pathway analysis revealed that major biochemical pathways the DTGs were involved in included ethylene biosynthesis, starch degradation, superpathway of cytosolic glycolysis, pyruvate dehydrogenase and TCA cycle, photorespiration and the lactose degradation III pathway. This suggests that alterations in carbon metabolism are an important part of rose petal abscission. Among these DTGs, approximately 150 genes putatively encoding transcription factors were identified in rose abscission zone. These included zinc finger, WRKY, ERF, and Aux/IAA gene families, suggesting that petal abscission involves complex transcriptional reprogramming. Approximately 108 DTGs were related to hormone pathways, of which auxin and ethylene related DTGs were the largest groups including 52 and 41 genes, respectively. These also included 12 DTGs related to gibberellin and 6 DTGs in jasmonic acid pathway. Surprisingly, no DTGs involved in the biosynthesis/signaling of abscisic acid, cytokinin, brassinosteroid, and salicylic acid pathways were detected. Moreover, among DTGs related to auxin, we identified an Aux/IAA gene RhIAA16 that was up-regulated in response to petal shedding. Down-regulation of RhIAA16 by virus-induced gene silencing in rose promoted petal abscission, suggesting that RhIAA16 plays an important role in rose petal abscission.

  7. CAF-like state in primary skin fibroblasts with constitutional BRCA1 epimutation sheds new light on tumor suppressor deficiency-related changes in healthy tissue

    PubMed Central

    Etzold, Anna; Galetzka, Danuta; Weis, Eva; Bartsch, Oliver; Haaf, Thomas; Spix, Claudia; Itzel, Timo; Schweiger, Susann; Strand, Dennis; Strand, Susanne; Zechner, Ulrich

    2016-01-01

    ABSTRACT Constitutive epimutations of tumor suppressor genes are increasingly considered as cancer predisposing factors equally to sequence mutations. In light of the emerging role of the microenvironment for cancer predisposition, initiation, and progression, we aimed to characterize the consequences of a BRCA1 epimutation in cells of mesenchymal origin. We performed a comprehensive molecular and cellular comparison of primary dermal fibroblasts taken from a monozygous twin pair discordant for recurrent cancers and BRCA1 epimutation, whose exceptional clinical case we previously reported in this journal. Comparative transcriptome analysis identified differential expression of extracellular matrix-related genes and pro-tumorigenic growth factors, such as collagens and CXC chemokines. Moreover, genes known to be key markers of so called cancer-associated fibroblasts (CAFs), such as ACTA2, FAP, PDPN, and TNC, were upregulated in fibroblasts of the affected twin (BRCA1mosMe) in comparison to those of the healthy twin (BRCA1wt). Further analyses detected CAF-typical cellular features, including an elevated growth rate, enhanced migration, altered actin architecture and increased production of ketone bodies in BRCA1mosMe fibroblasts compared to BRCA1wt fibroblasts. In addition, conditioned medium of BRCA1mosMe fibroblasts was more potent than conditioned medium of BRCA1wt fibroblasts to promote cell proliferation in an epithelial and a cancer cell line. Our data demonstrate, that a CAF-like state is not an exclusive feature of tumor-associated tissue but also exists in healthy tissue with tumor suppressor deficiency. The naturally occurring phenomenon of twin fibroblasts differing in their BRCA1 methylation status revealed to be a unique powerful tool for exploring tumor suppressor deficiency-related changes in healthy tissue, reinforcing their significance for cancer predisposition. PMID:26949839

  8. Rainfall simulation experiments and Water Drop Penetration Time measurements shed light on the impact of water repellency on soils under organic farming management in Eastern Spain

    NASA Astrophysics Data System (ADS)

    Cerdà, Artemi; González, Óscar; León, Javier; Jordán, Antonio

    2015-04-01

    Water repellency is a well-know soil property since the research of professor Stefan Helmut Doerr recovered and powered the research developed by professor DeBano (Atanassova and Doerr, 2011; ; Jordán et al., 2011; Bodí et al., 2012; González Peñaloza et al., 2012 Bodí et al., 2013; García Moreno et al., 2013; Jordán et al., 2013; Badía-Villas et al., 2014; Jordán et al., 2013; Jiménez Morillo et al., 2015). However, little is known about the impact of water repellency in surface runoff generation, although usually is accepted that when more soil water repellent is a soil, higher will be the surface runoff discharge (Stoff et al., 2011; Madsen et al., 2011; León et al., 2013; Lozano et al., 2013; Mataix-Solera et al., 2013; Santos et al., 2015). And the impact of the water repellency and then the higher surface wash discharge can trigger high erosion rates (Kröpfl et al., 2013; Mandal and Sharda 2013; Zhao et al., 2013). However these relationships were not demonstrated as the most water repellent soils are the one with high organic contents, and those soils do not have soil losses, probably due to the high infiltration rates due to the macropore flow. Rainfall simulation experiments can shed light in the runoff generation mechanism as they can control the rainfall intensity (Bodí et al., 2012; Iserloh et al., 2012; Iserloh et al., 2013), and inform about the main mechanism of the soil erosion process Cerdà and Jurgensen, 2011; Daugherty et al., 2011; Podwojewski et al., 2011; Dunkerley, 2012; Garel et al., 2012; Jouquet et al., 2012; Kibet et al., 2013; Butzen et al., 2014; Ma et al., 2014; Martínez Murillo et al., 2013). To determine the relationship between surface runoff generated under simulated rainfall (Cerdà, 1988a; 1988b; Cerdà et al., 1998; Ziadat and Taimeh, 2013) with a small rainfall simulator (0.25 m2) and water repellency measurements with the Water Drop Penetration time methods were done (Bodí et al., 2012). The results show that

  9. Analysis of light regime in continuous light distributions in photobioreactors.

    PubMed

    Brindley, Celeste; Fernández, F G Acién; Fernández-Sevilla, J M

    2011-02-01

    Maximum photobioreactor (PBR) efficiency is a must in applications such as the obtention of microalgae-derived fuels. Improving PBR performance requires a better understanding of the "light regime", the varying irradiance that microalgal cells moving in a dense culture are exposed to. We propose a definition of light regime that can be used consistently to describe the continuously varying light patterns in PBRs as well as in light/dark cycles. Equivalent continuous and light/dark regimes have been experimentally compared and the results show that continuous variations are not well represented by light/dark cycles, as had been widely accepted. It has been shown that a correct light regime allows obtaining photosynthetic rates higher than the corresponding to continuous light, the so-called "flashing light effect" and that this is possible in commercial PBRs. A correct PBR operation could result in photosynthetic efficiency close to the optimum eight quanta per O(2).

  10. Shedding Light on the 2016 World Health Organization Classification of Tumors of the Central Nervous System in the Era of Radiomics and Radiogenomics.

    PubMed

    Colen, Rivka R; Hassan, Islam; Elshafeey, Nabil; Zinn, Pascal O

    2016-11-01

    The new World Health Organization classification of brain tumors depends on combining the histologic light microscopy features of central nervous system (CNS) tumors with canonical genetic alterations. This integrated diagnosis is redrawing the pedigree chart of brain tumors with rearrangement of tumor groups on the basis of geno-phenotypical behaviors into meaningful groups. Multiple radiogenomic studies provide a bridge between imaging features and tumor microenvironment. An overlap that can be integrated within the genophenotypical classification of CNS tumors for a better understanding of different clinically relevant entities. Copyright © 2016 Elsevier Inc. All rights reserved.

  11. Lock-On Vortex Shedding Patterns and Bifurcation Analysis of the Forced Streamwise Oscillation of the Cylinder Wake

    NASA Astrophysics Data System (ADS)

    Nabatian, N.; Mureithi, N. W.

    The two-dimensional numerical simulation of the flow over a cylinder forced to oscillate in the streamwise direction for Re = 200 is performed in CFX ANSYS. The controlled-vibration comprises of prescribed inline vibration from displacement amplitude-to-cylinder diameter A/D = 0.05 up to 0.5 with the excitation frequency ratios of 1, 1.5 and 2 including the harmonic and superharmonic excitation regions. The immersed boundary method is used to model the cylinder oscillation. Modal decomposition of the transverse velocity field via the proper orthogonal decomposition (POD) method is applied to uncover the interaction of symmetric and antisymmetric modes of the near wake. A model using the first two POD modes is developed based on symmetry group equivariance. The model predicts the mode interactions and bifurcated solution branches for all cases, and is shown to be in good agreement with numerical as well as previous experimental results. Lock-on is determined for a range of values of the oscillation amplitudes and frequency ratios. It is shown that the lock-on range widens with increasing nondimensional oscillation amplitude. The asymmetric 2S, P + S and symmetric pattern S with symbol S for a single vortex and P for a vortex pair shed per cycle, as well as a regime in which vortex formation is not synchronized with cylinder motion are observed in the cylinder wake depending on the combination of oscillation amplitude and frequency ratio. The frequency ratio variation from 1 to 2 leads to the switching from asymmetric to symmetric modes. The symmetric flow pattern corresponds to a near zero lift coefficient on the cylinder.

  12. 13. Relationship of east tool shed, west tool shed, residence, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    13. Relationship of east tool shed, west tool shed, residence, claim house, and privy to each other and immediate surroundings, looking north - George Spangerberger Farmstead, 2012 West Illinois Avenue, South Hutchinson, Reno County, KS

  13. 12. Relationship of est tool shed, west tool shed, residence, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    12. Relationship of est tool shed, west tool shed, residence, claim house, and chicken house to each other and immediate surroundings, looking southeast - George Spangerberger Farmstead, 2012 West Illinois Avenue, South Hutchinson, Reno County, KS

  14. Kepler sheds new and unprecedented light on the variability of a blue supergiant: Gravity waves in the O9.5Iab star HD 188209

    NASA Astrophysics Data System (ADS)

    Aerts, C.; Símon-Díaz, S.; Bloemen, S.; Debosscher, J.; Pápics, P. I.; Bryson, S.; Still, M.; Moravveji, E.; Williamson, M. H.; Grundahl, F.; Fredslund Andersen, M.; Antoci, V.; Pallé, P. L.; Christensen-Dalsgaard, J.; Rogers, T. M.

    2017-06-01

    Stellar evolution models are most uncertain for evolved massive stars. Asteroseismology based on high-precision uninterrupted space photometry has become a new way to test the outcome of stellar evolution theory and was recently applied to a multitude of stars, but not yet to massive evolved supergiants.Our aim is to detect, analyse and interpret the photospheric and wind variability of the O9.5 Iab star HD 188209 from Kepler space photometry and long-term high-resolution spectroscopy. We used Kepler scattered-light photometry obtained by the nominal mission during 1460 d to deduce the photometric variability of this O-type supergiant. In addition, we assembled and analysed high-resolution high signal-to-noise spectroscopy taken with four spectrographs during some 1800 d to interpret the temporal spectroscopic variability of the star. The variability of this blue supergiant derived from the scattered-light space photometry is in full in agreement with the one found in the ground-based spectroscopy. We find significant low-frequency variability that is consistently detected in all spectral lines of HD 188209. The photospheric variability propagates into the wind, where it has similar frequencies but slightly higher amplitudes. The morphology of the frequency spectra derived from the long-term photometry and spectroscopy points towards a spectrum of travelling waves with frequency values in the range expected for an evolved O-type star. Convectively-driven internal gravity waves excited in the stellar interior offer the most plausible explanation of the detected variability. Based on photometric observations made with the NASA Kepler satellite and on spectroscopic observations made with four telescopes: the Nordic Optical Telescope operated by NOTSA and the Mercator Telescope operated by the Flemish Community, both at the Observatorio del Roque de los Muchachos (La Palma, Spain) of the Instituto de Astrofísica de Canarias, the T13 2.0 m Automatic Spectroscopic

  15. Analysis of light curve of LP Camelopardalis

    NASA Astrophysics Data System (ADS)

    Prudil, Z.; Skarka, M.; Zejda, M.

    2016-05-01

    We present photometric analysis of the RRab type pulsating star LP Cam. The star was observed at Brno Observatory and Planetarium during nine nights. Measurements were calibrated to the Johnson photometric system. Four captured and thirteen previously published maxima timings allowed us to refine the pulsation period and the zero epoch. The light curve was Fourier decomposed to estimate physical parameters using empirical relations. Our results suggest that LP Cam is a common RR Lyrae star with high, almost solar metallicity.

  16. Molecular and phylogenetic analyses reveal mammalian-like clockwork in the honey bee (Apis mellifera) and shed new light on the molecular evolution of the circadian clock.

    PubMed

    Rubin, Elad B; Shemesh, Yair; Cohen, Mira; Elgavish, Sharona; Robertson, Hugh M; Bloch, Guy

    2006-11-01

    The circadian clock of the honey bee is implicated in ecologically relevant complex behaviors. These include time sensing, time-compensated sun-compass navigation, and social behaviors such as coordination of activity, dance language communication, and division of labor. The molecular underpinnings of the bee circadian clock are largely unknown. We show that clock gene structure and expression pattern in the honey bee are more similar to the mouse than to Drosophila. The honey bee genome does not encode an ortholog of Drosophila Timeless (Tim1), has only the mammalian type Cryptochrome (Cry-m), and has a single ortholog for each of the other canonical "clock genes." In foragers that typically have strong circadian rhythms, brain mRNA levels of amCry, but not amTim as in Drosophila, consistently oscillate with strong amplitude and a phase similar to amPeriod (amPer) under both light-dark and constant darkness illumination regimes. In contrast to Drosophila, the honey bee amCYC protein contains a transactivation domain and its brain transcript levels oscillate at virtually an anti-phase to amPer, as it does in the mouse. Phylogenetic analyses indicate that the basal insect lineage had both the mammalian and Drosophila types of Cry and Tim. Our results suggest that during evolution, Drosophila diverged from the ancestral insect clock and specialized in using a set of clock gene orthologs that was lost by both mammals and bees, which in turn converged and specialized in the other set. These findings illustrate a previously unappreciated diversity of insect clockwork and raise critical questions concerning the evolution and functional significance of species-specific variation in molecular clockwork.

  17. Familial 4.3 Mb duplication of 21q22 sheds new light on the Down syndrome critical region

    PubMed Central

    Ronan, Anne; Fagan, Kerry; Christie, Louise; Conroy, Jeffrey; Nowak, Norma J; Turner, Gillian

    2007-01-01

    A 4.3 Mb duplication of chromosome 21 bands q22.13–q22.2 was diagnosed by interphase fluorescent in‐situ hybridisation (FISH) in a 31‐week gestational age baby with cystic hygroma and hydrops; the duplication was later found in the mother and in her 8‐year‐old daughter by the same method and confirmed by array comparative genomic hybridisation (aCGH). All had the facial gestalt of Down syndrome (DS). This is the smallest accurately defined duplication of chromosome 21 reported with a DS phenotype. The duplication encompasses the gene DYRK1 but not DSCR1 or DSCAM, all of which have previously been implicated in the causation of DS. Previous karyotype analysis and telomere screening of the mother, and karyotype analysis and metaphase FISH of a chorionic villus sample, had all failed to reveal the duplication. The findings in this family add to the identification and delineation of a “critical region” for the DS phenotype on chromosome 21. Cryptic chromosomal abnormalities can be missed on a routine karyotype for investigation of abnormal prenatal ultrasound findings, lending support to the use of aCGH analysis in this setting. PMID:17237124

  18. Draft Genome of Scalindua rubra, Obtained from the Interface Above the Discovery Deep Brine in the Red Sea, Sheds Light on Potential Salt Adaptation Strategies in Anammox Bacteria.

    PubMed

    Speth, Daan R; Lagkouvardos, Ilias; Wang, Yong; Qian, Pei-Yuan; Dutilh, Bas E; Jetten, Mike S M

    2017-07-01

    Several recent studies have indicated that members of the phylum Planctomycetes are abundantly present at the brine-seawater interface (BSI) above multiple brine pools in the Red Sea. Planctomycetes include bacteria capable of anaerobic ammonium oxidation (anammox). Here, we investigated the possibility of anammox at BSI sites using metagenomic shotgun sequencing of DNA obtained from the BSI above the Discovery Deep brine pool. Analysis of sequencing reads matching the 16S rRNA and hzsA genes confirmed presence of anammox bacteria of the genus Scalindua. Phylogenetic analysis of the 16S rRNA gene indicated that this Scalindua sp. belongs to a distinct group, separate from the anammox bacteria in the seawater column, that contains mostly sequences retrieved from high-salt environments. Using coverage- and composition-based binning, we extracted and assembled the draft genome of the dominant anammox bacterium. Comparative genomic analysis indicated that this Scalindua species uses compatible solutes for osmoadaptation, in contrast to other marine anammox bacteria that likely use a salt-in strategy. We propose the name Candidatus Scalindua rubra for this novel species, alluding to its discovery in the Red Sea.

  19. A gene-based map of the Nod factor-independent Aeschynomene evenia sheds new light on the evolution of nodulation and legume genomes

    PubMed Central

    Chaintreuil, Clémence; Rivallan, Ronan; Bertioli, David J.; Klopp, Christophe; Gouzy, Jérôme; Courtois, Brigitte; Leleux, Philippe; Martin, Guillaume; Rami, Jean-François; Gully, Djamel; Parrinello, Hugues; Séverac, Dany; Patrel, Delphine; Fardoux, Joël; Ribière, William; Boursot, Marc; Cartieaux, Fabienne; Czernic, Pierre; Ratet, Pascal; Mournet, Pierre; Giraud, Eric; Arrighi, Jean-François

    2016-01-01

    Aeschynomene evenia has emerged as a new model legume for the deciphering of the molecular mechanisms of an alternative symbiotic process that is independent of the Nod factors. Whereas most of the research on nitrogen-fixing symbiosis, legume genetics and genomics has so far focused on Galegoid and Phaseolid legumes, A. evenia falls in the more basal and understudied Dalbergioid clade along with peanut (Arachis hypogaea). To provide insights into the symbiotic genes content and the structure of the A. evenia genome, we established a gene-based genetic map for this species. Firstly, an RNAseq analysis was performed on the two parental lines selected to generate a F2 mapping population. The transcriptomic data were used to develop molecular markers and they allowed the identification of most symbiotic genes. The resulting map comprised 364 markers arranged in 10 linkage groups (2n = 20). A comparative analysis with the sequenced genomes of Arachis duranensis and A. ipaensis, the diploid ancestors of peanut, indicated blocks of conserved macrosynteny. Altogether, these results provided important clues regarding the evolution of symbiotic genes in a Nod factor-independent context. They provide a basis for a genome sequencing project and pave the way for forward genetic analysis of symbiosis in A. evenia. PMID:27298380

  20. A gene-based map of the Nod factor-independent Aeschynomene evenia sheds new light on the evolution of nodulation and legume genomes.

    PubMed

    Chaintreuil, Clémence; Rivallan, Ronan; Bertioli, David J; Klopp, Christophe; Gouzy, Jérôme; Courtois, Brigitte; Leleux, Philippe; Martin, Guillaume; Rami, Jean-François; Gully, Djamel; Parrinello, Hugues; Séverac, Dany; Patrel, Delphine; Fardoux, Joël; Ribière, William; Boursot, Marc; Cartieaux, Fabienne; Czernic, Pierre; Ratet, Pascal; Mournet, Pierre; Giraud, Eric; Arrighi, Jean-François

    2016-08-01

    Aeschynomene evenia has emerged as a new model legume for the deciphering of the molecular mechanisms of an alternative symbiotic process that is independent of the Nod factors. Whereas most of the research on nitrogen-fixing symbiosis, legume genetics and genomics has so far focused on Galegoid and Phaseolid legumes, A. evenia falls in the more basal and understudied Dalbergioid clade along with peanut (Arachis hypogaea). To provide insights into the symbiotic genes content and the structure of the A. evenia genome, we established a gene-based genetic map for this species. Firstly, an RNAseq analysis was performed on the two parental lines selected to generate a F2 mapping population. The transcriptomic data were used to develop molecular markers and they allowed the identification of most symbiotic genes. The resulting map comprised 364 markers arranged in 10 linkage groups (2n = 20). A comparative analysis with the sequenced genomes of Arachis duranensis and A. ipaensis, the diploid ancestors of peanut, indicated blocks of conserved macrosynteny. Altogether, these results provided important clues regarding the evolution of symbiotic genes in a Nod factor-independent context. They provide a basis for a genome sequencing project and pave the way for forward genetic analysis of symbiosis in A. evenia.

  1. The cost of post-operative shed blood salvage after total knee arthroplasty: an analysis of 1,093 consecutive procedures

    PubMed Central

    Muñoz, Manuel; Ariza, Daniel; Campos, Arturo; Martín-Montañez, Elisa; Pavía, José

    2013-01-01

    Background Requirements for allogeneic red cell transfusion after total knee arthroplasty are still high (20–50%), and salvage and reinfusion of unwashed, filtered post-operative shed blood is an established method for reducing transfusion requirements following this operation. We performed a cost analysis to ascertain whether this alternative is likely to be cost-effective. Materials and methods Data from 1,093 consecutive primary total knee arthroplasties, managed with (reinfusion group, n=763) or without reinfusion of unwashed salvaged blood (control group, n=330), were retrospectively reviewed. The costs of low-vacuum drains, shed blood collection canisters (Bellovac ABT®, Wellspect HealthCare and ConstaVac CBC II®, Stryker), shed blood reinfusion, acquisition and transfusion of allogeneic red cell concentrate, haemoglobin measurements, and prolonged length of hospital stay were used for the blood management cost analysis. Results Patients in the reinfusion group received 152±64 mL of red blood cells from postoperatively salvaged blood, without clinically relevant incidents, and showed a lower allogeneic transfusion rate (24.5% vs 8.5%, for the control and reinfusion groups, respectively; p =0.001). There were no differences in post-operative infection rates. Patients receiving allogeneic transfusions stayed in hospital longer (+1.9 days [95% CI: 1.2 to 2.6]). As reinfusion of unwashed salvaged blood reduced the allogeneic transfusion rate, both reinfusion systems may provide net savings in different cost scenarios (€ 4.6 to € 106/patient for Bellovac ABT, and € −51.9 to € 49.9/patient for ConstaVac CBCII). Discussion Return of unwashed salvaged blood after total knee arthroplasty seems to save costs in patients with pre-operative haemoglobin between 12 and 15 g/dL. It is not cost-saving in patients with a pre-operative haemoglobin >15 g/dL, whereas in those with a pre-operative haemoglobin <12 g/dL, although cost-saving, its efficacy could be

  2. The Chloroplast Genome of Utricularia reniformis Sheds Light on the Evolution of the ndh Gene Complex of Terrestrial Carnivorous Plants from the Lentibulariaceae Family

    PubMed Central

    Silva, Saura R.; Diaz, Yani C. A.; Penha, Helen Alves; Pinheiro, Daniel G.; Fernandes, Camila C.; Miranda, Vitor F. O.; Michael, Todd P.

    2016-01-01

    Lentibulariaceae is the richest family of carnivorous plants spanning three genera including Pinguicula, Genlisea, and Utricularia. Utricularia is globally distributed, and, unlike Pinguicula and Genlisea, has both aquatic and terrestrial forms. In this study we present the analysis of the chloroplast (cp) genome of the terrestrial Utricularia reniformis. U. reniformis has a standard cp genome of 139,725bp, encoding a gene repertoire similar to essentially all photosynthetic organisms. However, an exclusive combination of losses and pseudogenization of the plastid NAD(P)H-dehydrogenase (ndh) gene complex were observed. Comparisons among aquatic and terrestrial forms of Pinguicula, Genlisea, and Utricularia indicate that, whereas the aquatic forms retained functional copies of the eleven ndh genes, these have been lost or truncated in terrestrial forms, suggesting that the ndh function may be dispensable in terrestrial Lentibulariaceae. Phylogenetic scenarios of the ndh gene loss and recovery among Pinguicula, Genlisea, and Utricularia to the ancestral Lentibulariaceae cladeare proposed. Interestingly, RNAseq analysis evidenced that U. reniformis cp genes are transcribed, including the truncated ndh genes, suggesting that these are not completely inactivated. In addition, potential novel RNA-editing sites were identified in at least six U. reniformis cp genes, while none were identified in the truncated ndh genes. Moreover, phylogenomic analyses support that Lentibulariaceae is monophyletic, belonging to the higher core Lamiales clade, corroborating the hypothesis that the first Utricularia lineage emerged in terrestrial habitats and then evolved to epiphytic and aquatic forms. Furthermore, several truncated cp genes were found interspersed with U. reniformis mitochondrial and nuclear genome scaffolds, indicating that as observed in other smaller plant genomes, such as Arabidopsis thaliana, and the related and carnivorous Genlisea nigrocaulis and G. hispidula, the

  3. The Chloroplast Genome of Utricularia reniformis Sheds Light on the Evolution of the ndh Gene Complex of Terrestrial Carnivorous Plants from the Lentibulariaceae Family.

    PubMed

    Silva, Saura R; Diaz, Yani C A; Penha, Helen Alves; Pinheiro, Daniel G; Fernandes, Camila C; Miranda, Vitor F O; Michael, Todd P; Varani, Alessandro M

    2016-01-01

    Lentibulariaceae is the richest family of carnivorous plants spanning three genera including Pinguicula, Genlisea, and Utricularia. Utricularia is globally distributed, and, unlike Pinguicula and Genlisea, has both aquatic and terrestrial forms. In this study we present the analysis of the chloroplast (cp) genome of the terrestrial Utricularia reniformis. U. reniformis has a standard cp genome of 139,725bp, encoding a gene repertoire similar to essentially all photosynthetic organisms. However, an exclusive combination of losses and pseudogenization of the plastid NAD(P)H-dehydrogenase (ndh) gene complex were observed. Comparisons among aquatic and terrestrial forms of Pinguicula, Genlisea, and Utricularia indicate that, whereas the aquatic forms retained functional copies of the eleven ndh genes, these have been lost or truncated in terrestrial forms, suggesting that the ndh function may be dispensable in terrestrial Lentibulariaceae. Phylogenetic scenarios of the ndh gene loss and recovery among Pinguicula, Genlisea, and Utricularia to the ancestral Lentibulariaceae cladeare proposed. Interestingly, RNAseq analysis evidenced that U. reniformis cp genes are transcribed, including the truncated ndh genes, suggesting that these are not completely inactivated. In addition, potential novel RNA-editing sites were identified in at least six U. reniformis cp genes, while none were identified in the truncated ndh genes. Moreover, phylogenomic analyses support that Lentibulariaceae is monophyletic, belonging to the higher core Lamiales clade, corroborating the hypothesis that the first Utricularia lineage emerged in terrestrial habitats and then evolved to epiphytic and aquatic forms. Furthermore, several truncated cp genes were found interspersed with U. reniformis mitochondrial and nuclear genome scaffolds, indicating that as observed in other smaller plant genomes, such as Arabidopsis thaliana, and the related and carnivorous Genlisea nigrocaulis and G. hispidula, the

  4. The genome sequence of Dioscorea bacilliform TR virus, a member of the genus Badnavirus infecting Dioscorea spp., sheds light on the possible function of endogenous Dioscorea bacilliform viruses.

    PubMed

    Umber, Marie; Gomez, Rose-Marie; Gélabale, Suzia; Bonheur, Lydiane; Pavis, Claudie; Teycheney, Pierre-Yves

    2017-02-01

    The complete genome sequence of Dioscorea bacilliform TR virus (DBTRV) was determined. The closest relatives of DBTRV are Dioscorea bacilliform AL virus (DBALV) and Dioscorea bacilliform RT virus 1 (DBRTV1). Specific primers were designed and used to determine the prevalence of DBTRV in a yam germplasm collection. It was found that this virus infects Dioscorea alata and D. trifida plants in Guadeloupe and French Guyana. DTRBV was not detected in any of the tested D. cayenensis-rotundata accessions. In silico analysis provided evidence for the presence of DBTRV-like endogenous sequences in the genome of D. cayenensis-rotundata, pointing to a possible role of these sequences in antiviral defense.

  5. 15. GENERAL VIEW OF NORTHWEST SIDE OF SHED, WITH AN ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    15. GENERAL VIEW OF NORTHWEST SIDE OF SHED, WITH AN OBLIQUE VIEW OF THE STEP-DOWN ROOF AND TWO BANKS OF CLEARSTORY LIGHTS - Oakland Army Base, Transit Shed, East of Dunkirk Street & South of Burma Road, Oakland, Alameda County, CA

  6. Diffusion-Controlled Rotation of Triptycene in a Metal–Organic Framework (MOF) Sheds Light on the Viscosity of MOF-Confined Solvent

    PubMed Central

    2016-01-01

    Artificial molecular machines are expected to operate under conditions of very low Reynolds numbers with inertial forces orders of magnitude smaller than viscous forces. While these conditions are relatively well understood in bulk fluids, opportunities to assess the role of viscous forces in confined crystalline media are rare. Here we report one such example of diffusion-controlled rotation in crystals and its application as a probe for viscosity of MOF-confined solvent. We describe the preparation and characterization of three pillared paddlewheel MOFs, with 9,10-bis(4-pyridylethynyl)triptycene 3 as a pillar and molecular rotator, and three axially substituted dicarboxylate linkers with different lengths and steric bulk. The noncatenated structure with a bulky dicarboxylate linker (UCLA-R3) features a cavity filled by 10 molecules of N,N-dimethylformamide (DMF). Solid-state 2H NMR analysis performed between 293 and 343 K revealed a fast 3-fold rotation of the pillar triptycene group with the temperature dependence consistent with a site exchange process determined by rotator-solvent interactions. The dynamic viscosity of the MOF-confined solvent was estimated to be 13.3 N·s/m2 (or Pa·s), which is 4 orders of magnitude greater than that of bulk DMF (8.2 × 10–4 N·s/m2), and comparable to that of honey. PMID:27725958

  7. Ca²⁺ images obtained in different experimental conditions shed light on the spatial distribution of IP₃ receptors that underlie Ca²⁺ puffs.

    PubMed

    Piegari, Estefanía; Sigaut, Lorena; Ponce Dawson, Silvina

    2015-02-01

    Many intracellular Ca(2+) signals involve Ca(2+) release from the endoplasmic reticulum through inositol 1,4,5-trisphosphate receptors (IP3Rs). The open probability of IP3Rs depends on cytosolic Ca(2+) so that these signals involve Ca(2+)-induced Ca(2+)-release (CICR). IP3Rs are organized in clusters. The signals they mediate are observed using single-wavelength dyes and, often, a slow Ca(2+) buffer (EGTA) is added to disrupt CICR between clusters and keep the signals spatially restricted. It is assumed that the presence of the dye or of EGTA does not alter the intra-cluster Ca(2+) dynamics. In this paper we analyze this issue combining experiments and numerical simulations. We compare the properties of local signals known as puffs observed with different dyes and EGTA concentrations. We determine that although the dye or EGTA does not alter the intra-cluster dynamics, the set of observable events is different depending on the degree of inter-cluster uncoupling of the experiment. An analysis of the observations shows that the events that are missed for insufficient inter-cluster uncoupling are those of fastest amplitude growth rate. This agrees with a spatial organization in which the largest amplitude events correspond to clusters with densely packed active IP3Rs. Copyright © 2015 Elsevier Ltd. All rights reserved.

  8. Structure of HsdS Subunit from Thermoanaerobacter tengcongensis Sheds Lights on Mechanism of Dynamic Opening and Closing of Type I Methyltransferase

    PubMed Central

    Gao, Pu; Tang, Qun; An, XiaoMin; Yan, XiaoXue; Liang, DongCai

    2011-01-01

    Type I DNA methyltransferases contain one specificity subunit (HsdS) and two modification subunits (HsdM). The electron microscopy model of M.EcoKI-M2S1 methyltransferase shows a reasonable closed state of this clamp-like enzyme, but the structure of the open state is still unclear. The 1.95 Å crystal structure of the specificity subunit from Thermoanaerobacter tengcongensis (TTE-HsdS) shows an unreported open form inter-domain orientation of this subunit. Based on the crystal structure of TTE-HsdS and the closed state model of M.EcoKI-M2S1, we constructed a potential open state model of type I methyltransferase. Mutational studies indicated that two α-helices (aa30-59 and aa466-495) of the TTE-HsdM subunit are important inter-subunit interaction sites in the TTE-M2S1 complex. DNA binding assays also highlighted the importance of the C-terminal region of TTE-HsdM for DNA binding by the TTE-M2S1 complex. On the basis of structural analysis, biochemical experiments and previous studies, we propose a dynamic opening and closing mechanism for type I methyltransferase. PMID:21399684

  9. Combination of transient 2D-IR experiments and ab initio computations sheds light on the formation of the charge-transfer state in photoexcited carbonyl carotenoids.

    PubMed

    Di Donato, Mariangela; Segado Centellas, Mireia; Lapini, Andrea; Lima, Manuela; Avila, Francisco; Santoro, Fabrizio; Cappelli, Chiara; Righini, Roberto

    2014-08-14

    The excited state dynamics of carbonyl carotenoids is very complex because of the coupling of single- and doubly excited states and the possible involvement of intramolecular charge-transfer (ICT) states. In this contribution we employ ultrafast infrared spectroscopy and theoretical computations to investigate the relaxation dynamics of trans-8'-apo-β-carotenal occurring on the picosecond time scale, after excitation in the S2 state. In a (slightly) polar solvent like chloroform, one-dimensional (T1D-IR) and two-dimensional (T2D-IR) transient infrared spectroscopy reveal spectral components with characteristic frequencies and lifetimes that are not observed in nonpolar solvents (cyclohexane). Combining experimental evidence with an analysis of CASPT2//CASSCF ground and excited state minima and energy profiles, complemented with TDDFT calculations in gas phase and in solvent, we propose a photochemical decay mechanism for this system where only the bright single-excited 1Bu(+) and the dark double-excited 2Ag(-) states are involved. Specifically, the initially populated 1Bu(+) relaxes toward 2Ag(-) in 200 fs. In a nonpolar solvent 2Ag(-) decays to the ground state (GS) in 25 ps. In polar solvents, distortions along twisting modes of the chain promote a repopulation of the 1Bu(+) state which then quickly relaxes to the GS (18 ps in chloroform). The 1Bu(+) state has a high electric dipole and is the main contributor to the charge-transfer state involved in the dynamics in polar solvents. The 2Ag(-) → 1Bu(+) population transfer is evidenced by a cross peak on the T2D-IR map revealing that the motions along the same stretching of the conjugated chain on the 2Ag(-) and 1Bu(+) states are coupled.

  10. Characterization of the cod (Gadus morhua) steroidogenic acute regulatory protein (StAR) sheds light on StAR gene structure in fish.

    PubMed

    Goetz, Frederick W; Norberg, Birgitta; McCauley, Linda A R; Iliev, Dimitar B

    2004-03-01

    The full-length cDNA for the cod (Gadus morhua) StAR was cloned by RT-PCR and library screening using ovarian RNA. From the library screening, 2 size classes of cDNA were obtained; a 1577 bp cDNA (cStAR1) and a 2851 bp cDNA (cStAR2). The cStAR1 cDNA presumably encodes a protein of 286 amino acids. The cStAR2 cDNA was composed of 6 separated sequences that contained all of the coding regions of cStAR1 when added together, but also contained 5 noncoding regions not observed in cStAR1. Polymerase chain reactions of cod genomic DNA produced products slightly larger than cStAR2. The sequence of these products were the same as cStAR2 but revealed one additional noncoding region (intron). Thus, the fish StAR gene contains the same number of exons (7) and introns (6) as observed in mammals, but is approximately half the size of the mammalian gene. Using Northern analysis and RT-PCR, cStAR1 expression was observed only in testes, ovaries and head kidneys. Polymerase chain reaction products were also observed using cDNA from steroidogenic tissues and primers designed to regions specific for cStAR2, indicating that cStAR2 is expressed in tissues and may account for the presence of larger transcripts observed on Northern blots.

  11. Arthroaspis n. gen., a common element of the Sirius Passet Lagerstätte (Cambrian, North Greenland), sheds light on trilobite ancestry

    PubMed Central

    2013-01-01

    Background Exceptionally preserved Palaeozoic faunas have yielded a plethora of trilobite-like arthropods, often referred to as lamellipedians. Among these, Artiopoda is supposed to contain taxa united by a distinctive appendage structure. This includes several well supported groups, Helmetiida, Nektaspida, and Trilobita, as well as a number of problematic taxa. Interrelationships remain unclear, and the position of the lamellipedian arthropods as a whole also remains the subject of debate. Results Arthroaspis bergstroemi n. gen. n. sp., a new arthropod from the early Cambrian Sirius Passet Lagerstätte of North Greenland shows a striking combination of both dorsal and ventral characters of Helmetiida, Nektaspida, and Trilobita. Cladistic analysis with a broad taxon sampling of predominantly early Palaeozoic arthropods yields a monophyletic Lamellipedia as sister taxon to the Crustacea or Tetraconata. Artiopoda is resolved as paraphyletic, giving rise to the Marrellomorpha. Within Lamellipedia, a clade of pygidium bearing taxa is resolved that can be shown to have a broadly helmetiid-like tergite morphology in its ground pattern. This morphology is plesiomorphically retained in Helmetiida and in Arthroaspis, which falls basally into a clade containing Trilobita. The trilobite appendages, though similar to those of other lamellipedians in gross morphology, have a unique outward rotation of the anterior trunk appendages, resulting in a ‘hard wired’ lateral splay, different to that observed in other Lamellipedia. Conclusions The combination of helmetiid, trilobite, and nektaspid characters in Arthroaspis gives important hints concerning character polarisation within the trilobite-like arthropods. The distinctive tergite morphology of trilobites, with its sophisticated articulating devices, is derived from flanged edge-to-edge articulating tergites forming a shield similar to the helmetiids, previously considered autapomorphic for that group. The stereotypical

  12. Shedding light into the black box: A prospective longitudinal study identifying the CanMEDS roles of final year medical students' on-ward activities.

    PubMed

    Bugaj, Till Johannes; Schmid, Carolin; Koechel, Ansgar; Stiepak, Jan; Groener, Jan B; Herzog, Wolfgang; Nikendei, Christoph

    2017-08-01

    To our best knowledge, a rigorous prospective analysis of final year medical students' (FY medical students) activity profiles during workplace learning is lacking. The present study investigated the CanMEDS characteristics of all on-ward activities performed by internal medicine FY medical students. We tested the hypotheses that during FY medical student workplace training (I) routine activities are predominantly performed, while supervised, more complex activities are underrepresented with (II) FY medical students performing an insufficient number of autonomous activities and that (III) the CanMEDS roles of the Communicator and the Professional prevail. During the second and the sixth week of their final year trimester at the University of Heidelberg Medical Hospital, N = 34 FY medical students (73% female; mean age 26.4 ± 2.4) were asked to keep a detailed record of all their on-ward activities and to document the duration, mode of action (active versus passive; independent versus supervised), estimated relevance for later practice, and difficulty-level in specially designed activity logbooks. CanMEDS roles were assigned to the documented activities via post-hoc expert consensus. About 4308 activities lasting a total of 2211.4 h were documented. Drawing blood (20.8%) was the most frequently documented medical activity followed by full admission procedures (9.6%). About 14.9% of the time was spent with non-medical activities. About 82.1% of all medical activities performed went unsupervised. The Communicator (42%), the Professional (38%), and the Collaborator (7%) were assigned as the top three CanMEDS roles. The results call for increased efforts in creating more authentic learning experiences for FY medical students shifting towards more complex, supervised tasks, and improved team integration.

  13. Synchrotron-Based Techniques Shed Light on Mechanisms of Plant Sensitivity and Tolerance to High Manganese in the Root Environment1[OPEN

    PubMed Central

    Blamey, F. Pax C.; Hernandez-Soriano, Maria C.; Cheng, Miaomiao; Tang, Caixian; Paterson, David J.; Lombi, Enzo; Wang, Wei Hong; Scheckel, Kirk G.; Kopittke, Peter M.

    2015-01-01

    Plant species differ in response to high available manganese (Mn), but the mechanisms of sensitivity and tolerance are poorly understood. In solution culture, greater than or equal to 30 µm Mn decreased the growth of soybean (Glycine max), but white lupin (Lupinus albus), narrow-leafed lupin (Lupin angustifolius), and sunflower (Helianthus annuus) grew well at 100 µm Mn. Differences in species’ tolerance to high Mn could not be explained simply by differences in root, stem, or leaf Mn status, being 8.6, 17.1, 6.8, and 9.5 mmol kg–1 leaf fresh mass at 100 µm Mn. Furthermore, x-ray absorption near edge structure analyses identified the predominance of Mn(II), bound mostly to malate or citrate, in roots and stems of all four species. Rather, differences in tolerance were due to variations in Mn distribution and speciation within leaves. In Mn-sensitive soybean, in situ analysis of fresh leaves using x-ray fluorescence microscopy combined with x-ray absorption near edge structure showed high Mn in the veins, and manganite [Mn(III)] accumulated in necrotic lesions apparently through low Mn sequestration in vacuoles or other vesicles. In the two lupin species, most Mn accumulated in vacuoles as either soluble Mn(II) malate or citrate. In sunflower, Mn was sequestered as manganite at the base of nonglandular trichomes. Hence, tolerance to high Mn was ascribed to effective sinks for Mn in leaves, as Mn(II) within vacuoles or through oxidation of Mn(II) to Mn(III) in trichomes. These two mechanisms prevented Mn accumulation in the cytoplasm and apoplast, thereby ensuring tolerance to high Mn in the root environment. PMID:26395840

  14. Agerinia marandati sp. nov., a new early Eocene primate from the Iberian Peninsula, sheds new light on the evolution of the genus Agerinia.

    PubMed

    Femenias-Gual, Joan; Minwer-Barakat, Raef; Marigó, Judit; Poyatos-Moré, Miquel; Moyà-Solà, Salvador

    2017-01-01

    notharctids like Periconodon. The analysis of the three described species of the genus, A. smithorum, A. marandati and A. roselli, reveals a progressive change in several morphological traits such as the number of roots and the position of the P1 and P2, the molarization of the P4, the reduction of the paraconid on the lower molars and the displacement of the mental foramina. These gradual modifications allow for the interpretation that these three species, described from the early Eocene of the Iberian Peninsula, are part of a single evolutionary lineage. The stratigraphical position of Masia de l'Hereuet and Casa Retjo-1 (type locality of A. smithorum) and the phylogenetic analyses developed in this work support this hypothesis.

  15. Agerinia marandati sp. nov., a new early Eocene primate from the Iberian Peninsula, sheds new light on the evolution of the genus Agerinia

    PubMed Central

    Minwer-Barakat, Raef; Marigó, Judit; Poyatos-Moré, Miquel; Moyà-Solà, Salvador

    2017-01-01

    the distinction of Agerinia from other notharctids like Periconodon. The analysis of the three described species of the genus, A. smithorum, A. marandati and A. roselli, reveals a progressive change in several morphological traits such as the number of roots and the position of the P1 and P2, the molarization of the P4, the reduction of the paraconid on the lower molars and the displacement of the mental foramina. These gradual modifications allow for the interpretation that these three species, described from the early Eocene of the Iberian Peninsula, are part of a single evolutionary lineage. The stratigraphical position of Masia de l’Hereuet and Casa Retjo-1 (type locality of A. smithorum) and the phylogenetic analyses developed in this work support this hypothesis. PMID:28462042

  16. Causes of failure of airship shed

    NASA Technical Reports Server (NTRS)

    Sonntag, R; Hoff, W

    1922-01-01

    The causes of the collapse of airship shed, which was being taken down at Niediergorsdorf, are discussed. This shed, which was built of iron, was 184 m long, 28 m high, and 35 m wide. The demolition of the shed had been assigned to unskilled men who proceeded to remove certain key structural supports, leaving the structure in such a condition that relatively small eccentricities of the columns or spans or of lateral forces could easily have caused the columns or spans to break down. A small gust of wind would have perhaps sufficed to bring the building down. An analysis is also given of the suction effects on the roof of an air shed in Staaken. The damage to this shed, which occurred during a storm, was due to the fact that the shed had no opening in its top for equalizing the air pressure within and without. The location of the plates blown off the roof correspond to the point of greatest suction.

  17. Thermodynamic analysis of quantum light purification

    NASA Astrophysics Data System (ADS)

    Boukobza, E.; Tannor, D. J.

    2008-07-01

    We studied the thermodynamics of quantum light amplification in Phys. Rev. A 74, 063822 (2006). In this work we extend our analysis to include quantum light attenuation, as well as saturated amplification. We show that, for a given excitation of the two reservoirs, different field states converge to the same final stationary state. We provide a full analytic solution of the 3⊗n matter-light density matrix at steady state. The final steady state has three remarkable properties: (i) it is in fact an equilibrium state, (ii) it is an independent (single tensor product) matter-field state (as seen by the vanishing thermodynamic fluxes), and (iii) the final field state assumes a bithermal distribution (as seen by a wide Gaussian Q function centered around the origin). By partially tracing over the field, we obtain the Scovil Schulz-DuBois atomic inversion formula [Phys. Rev. Lett. 2, 262 (1959)] analytically. We compare the quantum model with its semiclassical analog. Unlike the amplification scenario discussed in Phys. Rev. A 74, 063822 (2006), the quantum and the semiclassical models differ dramatically under the conditions discussed in this paper.

  18. Structural analysis of light aircraft using NASTRAN

    NASA Technical Reports Server (NTRS)

    Wilkinson, M. T.; Bruce, A. C.

    1973-01-01

    An application of NASTRAN to the structural analysis of light aircraft was conducted to determine the cost effectiveness. A model of the Baby Ace D model homebuilt aircraft was used. The NASTRAN model of the aircraft consists of 193 grid points connected by 352 structural members. All members are either rod or beam elements, including bending of unsymmetrical cross sections and torsion of noncircular cross sections. The aerodynamic loads applied to the aircraft were in accordance with FAA regulations governing the utility category aircraft.

  19. A phylogenetic analysis of the British flora sheds light on the evolutionary and ecological factors driving plant invasions.

    PubMed

    Lim, Junying; Crawley, Mick J; De Vere, Natasha; Rich, Tim; Savolainen, Vincent

    2014-11-01

    Darwin's naturalization hypothesis predicts that invasive species should perform better in their novel range in the absence of close relatives in the native flora due to reduced competition. Evidence from recent taxonomic and phylogenetic-based studies, however, is equivocal. We test Darwin's naturalization hypothesis at two different spatial scales using a fossil-dated molecular phylogenetic tree of the British native and alien flora (ca. 1600 species) and extensive, fine-scale survey data from the 1998 Countryside Survey. At both landscape and local scales, invasive species were neither significantly more nor less related to the native flora than their non-invasive alien counterparts. Species invasiveness was instead correlated with higher nitrogen and moisture preference, but not other life history traits such as life-form and height. We argue that invasive species spread in Britain is hence more likely determined by changes in land use and other anthropogenic factors, rather than evolutionary history. Synthesis. The transition from non-invasive to invasive is not related to phylogenetic distinctiveness to the native community, but instead to their environmental preferences. Therefore, combating biological invasions in the Britain and other industrialized countries need entirely different strategies than in more natural environments.

  20. A phylogenetic analysis of the British flora sheds light on the evolutionary and ecological factors driving plant invasions

    PubMed Central

    Lim, Junying; Crawley, Mick J; De Vere, Natasha; Rich, Tim; Savolainen, Vincent

    2014-01-01

    Darwin's naturalization hypothesis predicts that invasive species should perform better in their novel range in the absence of close relatives in the native flora due to reduced competition. Evidence from recent taxonomic and phylogenetic-based studies, however, is equivocal. We test Darwin's naturalization hypothesis at two different spatial scales using a fossil-dated molecular phylogenetic tree of the British native and alien flora (ca. 1600 species) and extensive, fine-scale survey data from the 1998 Countryside Survey. At both landscape and local scales, invasive species were neither significantly more nor less related to the native flora than their non-invasive alien counterparts. Species invasiveness was instead correlated with higher nitrogen and moisture preference, but not other life history traits such as life-form and height. We argue that invasive species spread in Britain is hence more likely determined by changes in land use and other anthropogenic factors, rather than evolutionary history. Synthesis. The transition from non-invasive to invasive is not related to phylogenetic distinctiveness to the native community, but instead to their environmental preferences. Therefore, combating biological invasions in the Britain and other industrialized countries need entirely different strategies than in more natural environments. PMID:25540688

  1. Multi-omics Analysis Sheds Light on the Evolution and the Intracellular Lifestyle Strategies of Spotted Fever Group Rickettsia spp.

    PubMed Central

    El Karkouri, Khalid; Kowalczewska, Malgorzata; Armstrong, Nicholas; Azza, Said; Fournier, Pierre-Edouard; Raoult, Didier

    2017-01-01

    Arthropod-borne Rickettsia species are obligate intracellular bacteria which are pathogenic for humans. Within this genus, Rickettsia slovaca and Rickettsia conorii cause frequent and potentially severe infections, whereas Rickettsia raoultii and Rickettsia massiliae cause rare and milder infections. All four species belong to spotted fever group (SFG) rickettsiae. However, R. slovaca and R. raoultii cause scalp eschar and neck lymphadenopathy (SENLAT) and are mainly associated with Dermacentor ticks, whereas the other two species cause Mediterranean spotted fever (MSF) and are mainly transmitted by Rhipicephalus ticks. To identify the potential genes and protein profiles and to understand the evolutionary processes that could, comprehensively, relate to the differences in virulence and pathogenicity observed between these four species, we compared their genomes and proteomes. The virulent and milder agents displayed divergent phylogenomic evolution in two major clades, whereas either SENLAT or MSF disease suggests a discrete convergent evolution of one virulent and one milder agent, despite their distant genetic relatedness. Moreover, the two virulent species underwent strong reductive genomic evolution and protein structural variations, as well as a probable loss of plasmid(s), compared to the two milder species. However, an abundance of mobilome genes was observed only in the less pathogenic species. After infecting Xenopus laevis cells, the virulent agents displayed less up-regulated than down-regulated proteins, as well as less number of identified core proteins. Furthermore, their similar and distinct protein profiles did not contain some genes (e.g., ompA/B and rickA) known to be related to rickettsial adhesion, motility and/or virulence, but may include other putative virulence-, antivirulence-, and/or disease-related proteins. The identified evolutionary forces herein may have a strong impact on intracellular expressions and strategies in these rickettsiae, and that may contribute to the emergence of distinct virulence and diseases in humans. Thus, the current multi-omics data provide new insights into the evolution and fitness of SFG virulence and pathogenicity, and intracellular pathogenic bacteria. PMID:28775717

  2. Shedding Light on Alopecia Areata in Pediatrics: A Retrospective Analysis of Comorbidities in Children in the National Alopecia Areata Registry.

    PubMed

    Sorrell, Jennifer; Petukhova, Lynn; Reingold, Rachel; Christiano, Angela; Garzon, Maria

    2017-09-01

    Alopecia areata (AA) is a common autoimmune disease and it is challenging to predict which patients will have severe disease. The purpose of this retrospective study was to identify comorbidities in children enrolled in the National Alopecia Areata Registry. Atopic dermatitis was more common in patients with severe AA than in those with mild disease. The most common autoimmune comorbidities were vitiligo, psoriasis, thyroid disease, and juvenile idiopathic arthritis. © 2017 Wiley Periodicals, Inc.

  3. A new phylogenetic analysis sheds new light on the relationships in the Calanthe alliance (Orchidaceae) in China.

    PubMed

    Zhai, Jun-Wen; Zhang, Guo-Qiang; Li, Lin; Wang, Meina; Chen, Li-Jun; Chung, Shih-Wen; Rodríguez, Francisco Jiménez; Francisco-Ortega, Javier; Lan, Si-Ren; Xing, Fu-Wu; Liu, Zhong-Jian

    2014-08-01

    The taxonomy of the Calanthe alliance (Epidendroideae, Orchidaceae), consisting of Calanthe, Cephalantheropsis, and Phaius, has been difficult for orchidologists to understand because of the presence of common morphological features. In this study, in addition to morphological and geographical analyses, maximum parsimony and Bayesian inference analyses were performed based on nucleotide sequences of the nuclear internal transcribed spacer and cpDNA genes of 88 taxa representing the major clades of the Calanthe alliance in China. The results indicated that Cephalantheropsis is monophyletic, while both Phaius and Calanthe are polyphyletic. In Phaius, a total of three species, P. flavus, P. columnaris, and P. takeoi, were segregated to form a new genus, Paraphaius. In Calanthe, subgenus Preptanthe and sect. Styloglossum were both categorized as distinct genera from Calanthe. Our results also confirm that Calanthe delavayi and C. calanthoides are members of Calanthe. Previous studies assigned C. delavayi to Phaius and C. calanthoides to Ghiesbrechtia. Five sections, namely, Alpinocalanthe, Puberula, Ghiesbrechtia, Tricarinata, and Calanthe, three of which are new taxa, were recognized in Calanthe. Therefore, we propose that the Calanthe alliance is composed of six genera: Calanthe, Cephalantheropsis, Paraphaius, Phaius, Preptanthe and Styloglossum. Copyright © 2014 Elsevier Inc. All rights reserved.

  4. New Instruments Shed Light On Astronomy's Future.

    PubMed

    Travis, J

    1994-04-15

    KONA, HAWAII-The snowy 14,000-foot summit of Mauna Kea, with its bevy of powerful telescopes including the just-completed Keck, provided an appropriate backdrop for a recent ocean-side gathering of astronomers and engineers to discuss "Astronomical Telescopes and Instrumentation for the 21st Century." Last month's meeting was organized by the Society of Photo-Optical Instrumentation Engineers, and included a status report on liquid mirror telescopes, discussion of a space observatory that may make optical and x-ray astronomers best friends, and a modest proposal to cover the globe with a network of small, automated telescopes.

  5. Clinical Trials Shed Light on Minority Health

    MedlinePlus

    ... Devices Radiation-Emitting Products Vaccines, Blood & Biologics Animal & Veterinary Cosmetics Tobacco Products For Consumers Home For Consumers ... Info You Need More in Consumer Updates Animal & Veterinary Children's Health Cosmetics Dietary Supplements Drugs Food Medical ...

  6. New light shed on the oldest insect.

    PubMed

    Engel, Michael S; Grimaldi, David A

    2004-02-12

    Insects are the most diverse lineage of all life in numbers of species, and ecologically they dominate terrestrial ecosystems. However, how and when this immense radiation of animals originated is unclear. Only a few fossils provide insight into the earliest stages of insect evolution, and among them are specimens in chert from Rhynie, Scotland's Old Red Sandstone (Pragian; about 396-407 million years ago), which is only slightly younger than formations harbouring the earliest terrestrial faunas. The most well-known animal from Rhynie is the springtail Rhyniella praecursor (Entognatha; Collembola), long considered to be the oldest hexapod. For true insects (Ectognatha), the oldest records are two apparent wingless insects from later in the Devonian period of North America. Here we show, however, that a fragmentary fossil from Rhynie, Rhyniognatha hirsti, is not only the earliest true insect but may be relatively derived within basal Ectognatha. In fact, Rhyniognatha has derived characters shared with winged insects, suggesting that the origin of wings may have been earlier than previously believed. Regardless, Rhyniognatha indicates that insects originated in the Silurian period and were members of some of the earliest terrestrial faunas.

  7. Shedding a new light on hazardous waste

    SciTech Connect

    Reece, N.

    1991-02-01

    The sun's ability to detoxify waterborne chemicals has long been known; polluted streams, for example, become cleaner as they flow through sunlit areas. Solar detoxification harnesses this natural degradation process for beneficial ends, producing simple, nonhazardous substances from hazardous organic chemicals. Solar detoxification systems now being developed break down these chemicals without using the fossil fuels required by conventional technologies. Sunlight destroys hazardous waste because of the distinctive properties of photons, the packets of energy that make up sunlight. Low-energy photons add thermal energy that will heat toxic chemicals; high-energy photons add the energy needed to break the chemical bonds of these chemicals. The detoxification process discussed here takes advantage of this latter group of photons found in the ultraviolet portion of the solar spectrum. 4 figs.

  8. Shedding new light on gas dynamics

    NASA Technical Reports Server (NTRS)

    Mckenzie, Robert L.; Hanson, Ronald K.; Eckbreth, Alan C.

    1992-01-01

    Modern laser-spectroscopic techniques usually incorporate one or more laser beams and depend on their radiative interaction with some spectroscopic feature of the gas. Attention is given to laser absorption, laser-induced fluorescence, Rayleigh scattering, and Raman scattering. Consideration is given to UV Rayleigh scattering applied to aerodynamic flows to obtain images of a supersonic boundary layer that show instantaneous turbulent structures at a level of detail not achieved by any other practical method.

  9. Ethics Workshop Sheds Light on Gray Areas

    NASA Astrophysics Data System (ADS)

    Townsend, Randy; Williams, Billy

    2014-02-01

    AGU's Scientific Integrity and Professional Ethics Workshop at the 2013 Fall Meeting, held on 9 December, highlighted the courageous conversations necessary to navigate through questions of scientific integrity and professional ethics. Participants debated real-world scenarios surrounding authorship, data management, plagiarism, and conflicts of interest. These discussions emphasized the importance of preserving scientific integrity and the responsibility of each member to uphold the standards of scientific conduct.

  10. Black Holes Shed Light on Galaxy Formation

    NASA Technical Reports Server (NTRS)

    2000-01-01

    This videotape is comprised of several segments of animations on black holes and galaxy formation, and several segments of an interview with Dr. John Kormendy. The animation segments are: (1) a super massive black hole, (2) Centarus A active black hole found in a collision, (3) galaxy NGC-4261 (active black hole and jet model), (4) galaxy M-32 (orbits of stars are effected by the gravity of the black hole), (5) galaxy M-37 (motion of stars increases as mass of black hole increases), (6) Birth of active galactic nuclei, (7) the collision of two galaxy leads to merger of the black holes, (8) Centarus A and simulation of the collision of 2 galaxies. There are also several segments of an interview with John Kormendy. In these segments he discusses the two most important aspects of his recent black hole work: (1) the correlations between galaxies speed and the mass of the black holes, and (2) the existence of black holes and galactic formation. He also discusses the importance of the Hubble Space Telescope and the Space Telescope Imaging Spectrograph to the study of black holes. He also shows the methodology of processing images from the spectrograph in his office.

  11. Shedding light on pilot-wave phenomena

    NASA Astrophysics Data System (ADS)

    Brun, P.-T.; Harris, Daniel M.; Prost, Victor; Quintela, Julio; Bush, John W. M.

    2016-09-01

    This paper is associated with a video winner of a 2015 APS/DFD Gallery of Fluid Motion Award. The original video is available from the Gallery of Fluid Motion, http://dx.doi.org/10.1103/APS.DFD.2015.GFM.V0064

  12. Shedding light on insight: Priming bright ideas

    PubMed Central

    Slepian, Michael L.; Weisbuch, Max; Rutchick, Abraham M.; Newman, Leonard S.; Ambady, Nalini

    2010-01-01

    Previous research has characterized insight as the product of internal processes, and has thus investigated the cognitive and motivational processes that immediately precede it. In this research, however, we investigate whether insight can be catalyzed by a cultural artifact, an external object imbued with learned meaning. Specifically, we exposed participants to an illuminating lightbulb – an iconic image of insight – prior to or during insight problem-solving. Across four studies, exposing participants to an illuminating lightbulb primed concepts associated with achieving an insight, and enhanced insight problem-solving in three different domains (spatial, verbal, and mathematical), but did not enhance general (non-insight) problem-solving. PMID:20652087

  13. Shedding light on insight: Priming bright ideas.

    PubMed

    Slepian, Michael L; Weisbuch, Max; Rutchick, Abraham M; Newman, Leonard S; Ambady, Nalini

    2010-07-01

    Previous research has characterized insight as the product of internal processes, and has thus investigated the cognitive and motivational processes that immediately precede it. In this research, however, we investigate whether insight can be catalyzed by a cultural artifact, an external object imbued with learned meaning. Specifically, we exposed participants to an illuminating lightbulb - an iconic image of insight - prior to or during insight problem-solving. Across four studies, exposing participants to an illuminating lightbulb primed concepts associated with achieving an insight, and enhanced insight problem-solving in three different domains (spatial, verbal, and mathematical), but did not enhance general (non-insight) problem-solving.

  14. Black Holes Shed Light on Galaxy Formation

    NASA Technical Reports Server (NTRS)

    2000-01-01

    This videotape is comprised of several segments of animations on black holes and galaxy formation, and several segments of an interview with Dr. John Kormendy. The animation segments are: (1) a super massive black hole, (2) Centarus A active black hole found in a collision, (3) galaxy NGC-4261 (active black hole and jet model), (4) galaxy M-32 (orbits of stars are effected by the gravity of the black hole), (5) galaxy M-37 (motion of stars increases as mass of black hole increases), (6) Birth of active galactic nuclei, (7) the collision of two galaxy leads to merger of the black holes, (8) Centarus A and simulation of the collision of 2 galaxies. There are also several segments of an interview with John Kormendy. In these segments he discusses the two most important aspects of his recent black hole work: (1) the correlations between galaxies speed and the mass of the black holes, and (2) the existence of black holes and galactic formation. He also discusses the importance of the Hubble Space Telescope and the Space Telescope Imaging Spectrograph to the study of black holes. He also shows the methodology of processing images from the spectrograph in his office.

  15. Shedding New Light on Diversity Training.

    ERIC Educational Resources Information Center

    Johnson, Ronita B.; O'Mara, Julie

    1992-01-01

    The challenge at Pacific Gas & Electric was to train 27,000 employees to create an environment in which cultural diversity improves the company's competitive advantage. The solution was to train and certify 110 employees as diversity awareness trainers. (JOW)

  16. Shedding light on baryonic dark matter

    NASA Technical Reports Server (NTRS)

    Silk, Joseph

    1991-01-01

    Halo dark matter, if it is baryonic, may plausibly consist of compact stellar remnants. Jeans mass clouds containing 10 to the 6th to 10 to the 8th solar masses could have efficiently formed stars in the early universe and could plausibly have generated, for a suitably top-heavy stellar initial mass function, a high abundance of neutron stars as well as a small admixture of long-lived low mass stars. Within the resulting clusters of dark remnants, which eventually are tidally disrupted when halos eventually form, captures of neutron stars by nondegenerate stars resulted in formation of close binaries. These evolve to produce, by the present epoch, an observable X-ray signal associated with dark matter aggregations in galaxy cluster cores.

  17. Research sheds light on lymph node mystery.

    PubMed

    1996-01-01

    Researchers explain why so much HIV is found in the lymph nodes. The follicular dendritic cells act like flypaper to HIV and other pathogens. Once attracted, HIV is able to ambush critical immune cells, even in the presence of a vast excess of neutralizing antibodies. In the absence of follicular dendritic cells, similar quantities of neutralizing antibodies block HIV infectivity.

  18. 29. View of oil storage shed, looking northeast. Photo by ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    29. View of oil storage shed, looking northeast. Photo by Brian C. Morris, Puget Power, 1989. - Puget Sound Power & Light Company, White River Hydroelectric Project, 600 North River Avenue, Dieringer, Pierce County, WA

  19. 25. View of storage shed and motor house for tramway, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    25. View of storage shed and motor house for tramway, looking southwest. Photo by Brian C. Morris, Puget Power, 1989. - Puget Sound Power & Light Company, White River Hydroelectric Project, 600 North River Avenue, Dieringer, Pierce County, WA

  20. 1. View west, east sides of shed, lighthouse, keeper's house ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    1. View west, east sides of shed, lighthouse, keeper's house and boat house - Squirrel Point Light Station, Off Highway 127, Steen Road to end of Bald Head Road, .8 mile down footpath, Arrowsic, Sagadahoc County, ME

  1. 7. View southwest, east and north sides of shed and ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    7. View southwest, east and north sides of shed and keeper's house - Squirrel Point Light Station, Off Highway 127, Steen Road to end of Bald Head Road, .8 mile down footpath, Arrowsic, Sagadahoc County, ME

  2. 7. Outhouse and shed, view west northwest, south and east ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    7. Outhouse and shed, view west northwest, south and east sides - Ram Island Light Station, Ram Island, south of Ocean Point & just north of Fisherman Island, marking south side of Fisherman Island Passage, Ocean Point, Lincoln County, ME

  3. 7. Shed and keeper' house with helicopter pad in foreground, ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    7. Shed and keeper' house with helicopter pad in foreground, view east, southwest and northwest sides - Goat Island Light Station, Goat Island, next to entrance to Cape Porpoise Harbor, just south of Trott Island, Cape Porpoise, York County, ME

  4. Learning templates for artistic portrait lighting analysis.

    PubMed

    Chen, Xiaowu; Jin, Xin; Wu, Hongyu; Zhao, Qinping

    2015-02-01

    Lighting is a key factor in creating impressive artistic portraits. In this paper, we propose to analyze portrait lighting by learning templates of lighting styles. Inspired by the experience of artists, we first define several novel features that describe the local contrasts in various face regions. The most informative features are then selected with a stepwise feature pursuit algorithm to derive the templates of various lighting styles. After that, the matching scores that measure the similarity between a testing portrait and those templates are calculated for lighting style classification. Furthermore, we train a regression model by the subjective scores and the feature responses of a template to predict the score of a portrait lighting quality. Based on the templates, a novel face illumination descriptor is defined to measure the difference between two portrait lightings. Experimental results show that the learned templates can well describe the lighting styles, whereas the proposed approach can assess the lighting quality of artistic portraits as human being does.

  5. DISTANT VIEW, BLM TACK SHED ON LEFT, BLM SEED SHED ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    DISTANT VIEW, BLM TACK SHED ON LEFT, BLM SEED SHED AT LEFT CENTER, FIRE DISPATCH OFFICES 1 AND 2 AT RIGHT CENTER, UTILITY BUILDING "B" ON RIGHT. VIEW TO SOUTHWEST. - Cedar City Automotive Repair Shop, 820 North Main Street, Cedar City, Iron County, UT

  6. Light water reactor lower head failure analysis

    SciTech Connect

    Rempe, J.L.; Chavez, S.A.; Thinnes, G.L.

    1993-10-01

    This document presents the results from a US Nuclear Regulatory Commission-sponsored research program to investigate the mode and timing of vessel lower head failure. Major objectives of the analysis were to identify plausible failure mechanisms and to develop a method for determining which failure mode would occur first in different light water reactor designs and accident conditions. Failure mechanisms, such as tube ejection, tube rupture, global vessel failure, and localized vessel creep rupture, were studied. Newly developed models and existing models were applied to predict which failure mechanism would occur first in various severe accident scenarios. So that a broader range of conditions could be considered simultaneously, calculations relied heavily on models with closed-form or simplified numerical solution techniques. Finite element techniques-were employed for analytical model verification and examining more detailed phenomena. High-temperature creep and tensile data were obtained for predicting vessel and penetration structural response.

  7. Shear driven droplet shedding and coalescence on a superhydrophobic surface

    NASA Astrophysics Data System (ADS)

    Moghtadernejad, S.; Tembely, M.; Jadidi, M.; Esmail, N.; Dolatabadi, A.

    2015-03-01

    The interest on shedding and coalescence of sessile droplets arises from the importance of these phenomena in various scientific problems and industrial applications such as ice formation on wind turbine blades, power lines, nacelles, and aircraft wings. It is shown recently that one of the ways to reduce the probability of ice accretion on industrial components is using superhydrophobic coatings due to their low adhesion to water droplets. In this study, a combined experimental and numerical approach is used to investigate droplet shedding and coalescence phenomena under the influence of air shear flow on a superhydrophobic surface. Droplets with a size of 2 mm are subjected to various air speeds ranging from 5 to 90 m/s. A numerical simulation based on the Volume of Fluid method coupled with the Large Eddy Simulation turbulent model is carried out in conjunction with the validating experiments to shed more light on the coalescence of droplets and detachment phenomena through a detailed analysis of the aerodynamics forces and velocity vectors on the droplet and the streamlines around it. The results indicate a contrast in the mechanism of two-droplet coalescence and subsequent detachment with those related to the case of a single droplet shedding. At lower speeds, the two droplets coalesce by attracting each other with successive rebounds of the merged droplet on the substrate, while at higher speeds, the detachment occurs almost instantly after coalescence, with a detachment time decreasing exponentially with the air speed. It is shown that coalescence phenomenon assists droplet detachment from the superhydrophobic substrate at lower air speeds.

  8. Diffraction light analysis method for a diffraction grating imaging lens.

    PubMed

    Ando, Takamasa; Korenaga, Tsuguhiro; Suzuki, Masa-aki; Tanida, Jun

    2014-04-10

    We have developed a new method to analyze the amount and distribution of diffraction light for a diffraction grating lens. We have found that diffraction light includes each-order diffraction light and striped diffraction light. In this paper, we describe characteristics of striped diffraction light and suggest a way to analyze diffraction light. Our analysis method, which considers the structure of diffraction grating steps, can simulate the aberrations of an optical system, each-order diffraction light, and striped diffraction light simultaneously with high accuracy. A comparison between the simulation and experimental results is presented, and we also show how our analysis method can be used to optimize a diffraction grating lens with low flare light.

  9. LED intense headband light source for fingerprint analysis

    DOEpatents

    Villa-Aleman, Eliel

    2005-03-08

    A portable, lightweight and high-intensity light source for detecting and analyzing fingerprints during field investigation. On-site field analysis requires long hours of mobile analysis. In one embodiment, the present invention comprises a plurality of light emitting diodes; a power source; and a personal attachment means; wherein the light emitting diodes are powered by the power source, and wherein the power source and the light emitting diodes are attached to the personal attachment means to produce a personal light source for on-site analysis of latent fingerprints. The present invention is available for other applications as well.

  10. Shipboard LED Lighting: A Business Case Analysis

    DTIC Science & Technology

    2009-12-01

    warm” quality of light provided by incandescent bulbs (and sunlight). For LEDs, useful life is defined as the amount of time until 70% of the...original light output is reached. Unlike incandescent bulbs , they do not burn out completely, but do suffer diminished output as individual LED packages...another area where LEDs offer benefits. Incandescent bulbs produce light by passing an electrical current through a metal filament until it glows

  11. Transcranial light-tissue interaction analysis

    NASA Astrophysics Data System (ADS)

    Aulakh, Kavleen; Zakaib, Scott; Willmore, William G.; Ye, Winnie N.

    2016-03-01

    The penetration depth of light plays a crucial role in therapeutic medical applications. In order to design effective medical photonic devices, an in-depth understanding of light's ability to penetrate tissues (including bone, skin, and fat) is necessary. The amount of light energy absorbed or scattered by tissues affects the intensity of light reaching an intended target in vivo. In this study, we examine the transmittance of light through a variety of cranial tissues for the purpose of determining the efficacy of neuro stimulation using a transcranial laser. Tissue samples collected from a pig were irradiated with a pulsed laser. We first determine the optimal irradiation wavelength of the laser to be 808nm. With varying peak and average power of the laser, we found an inverse and logarithmic relationship between the penetration depth and the intensity of the light. After penetrating the skin and skull of the pig, the light decreases in intensity at a rate of approximately 90.8 (+/-0.4) percent for every 5 mm of brain tissue penetrated. We also found the correlation between the irradiation time and dosage, using three different lasers (with peak power of 500, 1000, and 1500mW respectively). These data will help deduce what laser power is required to achieve a clinically-realistic model for a given irradiation time. This work is fundamental and the experimental data can be used to supplement existing and future research on the effects of laser light on brain tissue for the design of medical devices.

  12. Transcriptome profiling of petal abscission zone and functional analysis of AUX/IAA family genes reveal that RhIAA16 is involved in petal shedding in rose

    USDA-ARS?s Scientific Manuscript database

    Rose is one of the most important cut flowers among ornamental plants. Rose flower longevity is largely dependent on the timing of petal shedding occurrence. To understand the molecular mechanism underlying petal abscission in rose, we performed transcriptome profiling of the petal abscission zone d...

  13. LED Shipboard Lighting: A Comparative Analysis

    DTIC Science & Technology

    2009-12-01

    phosphors emitting white light and other colors, that LEDs took off. The benefits of LEDs over incandescent bulbs are that LEDs use less power to...is radiated from an LED” (Tanaka et al., 2003). 1. LED Advantages LEDs have several advantages over incandescent bulbs . LEDs do not have a...Diagram (From How Stuff Works, 2009) The main advantage that LEDs have over incandescent bulbs is efficiency. Producing light also involves generating

  14. Circadian disc shedding in Xenopus retina in vitro

    SciTech Connect

    Flannery, J.G.; Fisher, S.K.

    1984-02-01

    To further examine the endogenous rhythm of disc shedding and phagocytosis observed in several species, adult Xenopus were entrained to a 12 hr light/12 hr dark cycle and then placed in constant darkness. At various times during a 3-day period of constant darkness, eyes were explanted and placed into culture medium, then processed for light and electron microscopy. A clear rhythmicity of disc shedding was observed, with pronounced peaks at the times light onset occurred in the original entrainment cycle. Modification of the HCO/sub 3/- ion concentration in the medium was found to raise the amplitude of the peak of endogenous disc shedding. Explants maintained in culture medium containing deuterium oxide (a compound known to perturb circadian oscillators) were found to shed with a longer interval between peaks. The addition of the protein synthesis inhibitor, anisomycin, to this preparation suppressed the shedding rhythm. The action of anisomycin was investigated by autoradiographic examination of the pattern of /sup 3/H-leucine uptake and protein synthesis by the explant. The findings suggest the presence of a circadian oscillator for rhythmic disc shedding within the amphibian eye.

  15. A new light on caloric test--what was disclosed by three dimensional analysis of caloric nystagmus?

    NASA Technical Reports Server (NTRS)

    Arai, Y.

    2001-01-01

    For better understanding of caloric nystagmus, this phenomenon will be reviewed historically in three stages. 1) The first light on caloric nystagmus was thrown by Barany 1906. Through direct observation of eye movements, Barany established the caloric test as an important tool to determine the side of lesion for vertigo. 2) The second light is shed by electrooculogram (EOG) from the late 1950th. EOG enabled qualitative analysis of caloric nystagmus, and proved Barany's convection theory, but resulted in neglect of vertical and roll eye movements. 3) The third light is gained by 3D recording of eye movements started from the late 1980th. 3D recordings of eye movements enabled us to analyze the spatial orientation of caloric nystagmus, and disclose the close correlation of the nystagmus components in the head vertical and the space vertical planes, suggesting a contribution of the velocity storage integrator. The 3D property of caloric nystagmus will be explained in detail.

  16. A new light on caloric test--what was disclosed by three dimensional analysis of caloric nystagmus?

    NASA Technical Reports Server (NTRS)

    Arai, Y.

    2001-01-01

    For better understanding of caloric nystagmus, this phenomenon will be reviewed historically in three stages. 1) The first light on caloric nystagmus was thrown by Barany 1906. Through direct observation of eye movements, Barany established the caloric test as an important tool to determine the side of lesion for vertigo. 2) The second light is shed by electrooculogram (EOG) from the late 1950th. EOG enabled qualitative analysis of caloric nystagmus, and proved Barany's convection theory, but resulted in neglect of vertical and roll eye movements. 3) The third light is gained by 3D recording of eye movements started from the late 1980th. 3D recordings of eye movements enabled us to analyze the spatial orientation of caloric nystagmus, and disclose the close correlation of the nystagmus components in the head vertical and the space vertical planes, suggesting a contribution of the velocity storage integrator. The 3D property of caloric nystagmus will be explained in detail.

  17. A new light on caloric test--what was disclosed by three dimensional analysis of caloric nystagmus?

    PubMed

    Arai, Y

    2001-12-01

    For better understanding of caloric nystagmus, this phenomenon will be reviewed historically in three stages. 1) The first light on caloric nystagmus was thrown by Barany 1906. Through direct observation of eye movements, Barany established the caloric test as an important tool to determine the side of lesion for vertigo. 2) The second light is shed by electrooculogram (EOG) from the late 1950th. EOG enabled qualitative analysis of caloric nystagmus, and proved Barany's convection theory, but resulted in neglect of vertical and roll eye movements. 3) The third light is gained by 3D recording of eye movements started from the late 1980th. 3D recordings of eye movements enabled us to analyze the spatial orientation of caloric nystagmus, and disclose the close correlation of the nystagmus components in the head vertical and the space vertical planes, suggesting a contribution of the velocity storage integrator. The 3D property of caloric nystagmus will be explained in detail.

  18. Analysis of frequency dependent pump light absorption

    NASA Astrophysics Data System (ADS)

    Wohlmuth, Matthias; Pflaum, Christoph

    2011-03-01

    Simulations have to accurately model thermal lensing in order to help improving resonator design of diode pumped solid state lasers. To this end, a precise description of the pump light absorption is an important prerequisite. In this paper, we discuss the frequency dependency of the pump light absorption in the laser crystal and its influence on the simulated laser performance. The results show that the pump light absorption has to include the spectral overlap of the emitting pump source and the absorbing laser material. This information can either be used for a fully frequency dependent absorption model or, at least in the shown examples, to compute an effective value for an exponential Beer-Lambert law of absorption. This is particularly significant at pump wavelengths coinciding with a peak of absorption. Consequences for laser stability and performance are analyzed for different pump wavelengths in a Nd:YAG laser.

  19. Evaluating office lighting environments: Second-level analysis

    SciTech Connect

    Collins, B.L.; Fisher, W.S.; Gillette, G.L.; Marans, R.W.

    1989-04-01

    Data from a post-occupancy evaluation (POE) of 912 work stations with lighting power density (LPD), photometric, and occupant-response measures were examined in a detailed, second-level analysis. Seven types of lighting systems were identified with different combinations of direct and indirect ambient lighting, and task lighting and daylight. The mean illuminances at the primary task location were within the IES target values for office task with a range of mean illuminances from 32 to 75 fc, depending on the lighting system. The median LPD was about 2.36 watts/sq ft, with about one-third the work stations having LPD's at or below 2.0 watts/sq ft. Although a majority of the occupants (69%) were satisfied about their lighting, the highest percentage of those expressing dissatisfaction (37%) with lighting had an indirect fluorescent furniture-mounted (IFFM) system. The negative reaction of so many people to the IFFM system suggests that the combination of task lighting with an indirect ambient system had an important influence on lighting satisfaction, even though task illuminances tended to be higher with the IFFM system. Concepts of lighting quality, visual health, and control were explored, as well as average luminance to explain the negative reactions to the combination of indirect lighting with furniture-mounted lighting.

  20. Laser-Based Lighting: Experimental Analysis and Perspectives.

    PubMed

    Trivellin, Nicola; Yushchenko, Maksym; Buffolo, Matteo; De Santi, Carlo; Meneghini, Matteo; Meneghesso, Gaudenzio; Zanoni, Enrico

    2017-10-11

    This paper presents an extensive analysis of the operating principles, theoretical background, advantages and limitations of laser-based lighting systems. In the first part of the paper we discuss the main advantages and issues of laser-based lighting, and present a comparison with conventional LED-lighting technology. In the second part of the paper, we present original experimental data on the stability and reliability of phosphor layers for laser lighting, based on high light-intensity and high-temperature degradation tests. In the third part of the paper (for the first time) we present a detailed comparison between three different solutions for laser lighting, based on (i) transmissive phosphor layers; (ii) a reflective/angled phosphor layer; and (iii) a parabolic reflector, by discussing the advantages and drawbacks of each approach. The results presented within this paper can be used as a guideline for the development of advanced lighting systems based on laser diodes.

  1. Photoreceptor disc shedding in the living human eye

    PubMed Central

    Kocaoglu, Omer P.; Liu, Zhuolin; Zhang, Furu; Kurokawa, Kazuhiro; Jonnal, Ravi S.; Miller, Donald T.

    2016-01-01

    Cone photoreceptors undergo a daily cycle of renewal and shedding of membranous discs in their outer segments (OS), the portion responsible for light capture. These physiological processes are fundamental to maintaining photoreceptor health, and their dysfunction is associated with numerous retinal diseases. While both processes have been extensively studied in animal models and postmortem eyes, little is known about them in the living eye, in particular human. In this study, we report discovery of the optical signature associated with disc shedding using a method based on adaptive optics optical coherence tomography (AO-OCT) in conjunction with post-processing methods to track and monitor individual cone cells in 4D. The optical signature of disc shedding is characterized by an abrupt transient loss in the cone outer segment tip (COST) reflection followed by its return that is axially displaced anteriorly. Using this signature, we measured the temporal and spatial properties of shedding events in three normal subjects. Average duration of the shedding event was 8.8 ± 13.4 minutes, and average length loss of the OS was 2.1 μm (7.0% of OS length). Prevalence of cone shedding was highest in the morning (14.3%) followed by the afternoon (5.7%) and evening (4.0%), with load distributed across the imaged patch. To the best of our knowledge these are the first images of photoreceptor disc shedding in the living retina. PMID:27895995

  2. SS433 Trek 2: light curve analysis.

    NASA Astrophysics Data System (ADS)

    Fukue, J.; Obana, Y.; Okugami, M.

    The authors have calculated theoretical light curves of SS433 during eclipse and precession, using a model in which SS433 consists of a geometrically thick torus around a compact star and a companion star filling the Roche lobe. The favorite combination is that the mass ratio is about 2 (a compact star is a black hole) and the surface temperature of the companion is around 17000K.

  3. PSD analysis of optical QSO light curves

    NASA Astrophysics Data System (ADS)

    Simm, Torben; Salvato, M.; Saglia, R.; Ponti, G.; Lanzuisi, G.; Trakhtenbrot, B.; Nandra, K.; Bender, R.

    2016-08-01

    One of the elementary properties of quasar activity is continuous variability in the UV/optical bands. The power spectral density (PSD) potentially contains information about the underlying processes connected to variability. We applied a novel method based on continuous-time autoregressive moving average (CARMA) models (Kelly et al. 2014) to derive the PSD even for irregularly sampled light curves. Using a sample of ~100 X-ray selected non-local QSOs from the XMM-COSMOS catalog and optical light curves provided by the Pan-STARRS1 MDF survey we find that the PSD resembles a broken power-law with a high-frequency slope significantly steeper than observed in X-ray studies. The PSD normalization is observed to scale inversely with bolometric luminosity and Eddington ratio, whereas there is no correlation between the characteristic bend timescale and black hole mass. We find a weak tendency for QSOs with higher black hole mass to have steeper high-frequency PSD slopes. In an ongoing work we extend these studies employing a sample of ~700 variable broad-line QSOs with high-quality black hole mass estimates and well-sampled light curves from the SDSS-RM project.

  4. Lighting Condition Analysis for Mars Moon Phobos

    NASA Technical Reports Server (NTRS)

    Li, Zu Qun; Crues, Edwin Z.; Bielski, Paul; De Carufel, Guy

    2016-01-01

    A manned mission to Phobos may be an important precursor and catalyst for the human exploration of Mars, as it will fully demonstrate the technologies for a successful Mars mission. A comprehensive understanding of Phobos' environment such as lighting condition and gravitational acceleration are essential to the mission success. The lighting condition is one of many critical factors for landing zone selection, vehicle power subsystem design, and surface mobility vehicle path planning. Due to the orbital characteristic of Phobos, the lighting condition will change dramatically from one Martian season to another. This study uses high fidelity computer simulation to investigate the lighting conditions, specifically the solar radiation flux over the surface, on Phobos. Ephemeris data from the Jet Propulsion Laboratory (JPL) DE405 model was used to model the state of the Sun, the Earth, and Mars. An occultation model was developed to simulate Phobos' self-shadowing and its solar eclipses by Mars. The propagated Phobos' state was compared with data from JPL's Horizon system to ensure the accuracy of the result. Results for Phobos lighting condition over one Martian year are presented in this paper, which include length of solar eclipse, average solar radiation intensity, surface exposure time, total maximum solar energy, and total surface solar energy (constrained by incident angle). The results show that Phobos' solar eclipse time changes throughout the Martian year with the maximum eclipse time occurring during the Martian spring and fall equinox and no solar eclipse during the Martian summer and winter solstice. Solar radiation intensity is close to minimum at the summer solstice and close to maximum at the winter solstice. Total surface exposure time is longer near the north pole and around the anti- Mars point. Total maximum solar energy is larger around the anti-Mars point. Total surface solar energy is higher around the anti-Mars point near the equator. The

  5. Genetic makeup of Shiga toxin-producing Escherichia coli in relation to clinical symptoms and duration of shedding: a microarray analysis of isolates from Swedish children.

    PubMed

    Matussek, A; Jernberg, C; Einemo, I-M; Monecke, S; Ehricht, R; Engelmann, I; Löfgren, S; Mernelius, S

    2017-08-01

    Shiga toxin (Stx)-producing Escherichia coli (STECs) cause non-bloody diarrhea, hemorrhagic colitis, and hemolytic uremic syndrome, and are the primary cause of acute renal failure in children worldwide. This study investigated the correlation of genetic makeup of STEC strains as revealed by DNA microarray to clinical symptoms and the duration of STEC shedding. All STEC isolated (n = 96) from patients <10 years of age in Jönköping County, Sweden from 2003 to 2015 were included. Isolates were characterized by DNA microarray, including almost 280 genes. Clinical data were collected through a questionnaire and by reviewing medical records. Of the 96 virulence genes (including stx) in the microarray, 62 genes were present in at least one isolate. Statistically significant differences in prevalence were observed for 21 genes when comparing patients with bloody diarrhea (BD) and with non-bloody stool (18 of 21 associated with BD). Most genes encode toxins (e.g., stx2 alleles, astA, toxB), adhesion factors (i.e. espB_O157, tir, eae), or secretion factors (e.g., espA, espF, espJ, etpD, nleA, nleB, nleC, tccP). Seven genes were associated with prolonged stx shedding; the presence of three genes (lpfA, senB, and stx1) and the absence of four genes (espB_O157, espF, astA, and intI1). We found STEC genes that might predict severe disease outcome already at diagnosis. This can be used to develop diagnostic tools for risk assessment of disease outcome. Furthermore, genes associated with the duration of stx shedding were detected, enabling a possible better prediction of length of STEC carriage after infection.

  6. View Shed - Version 1.0

    SciTech Connect

    2014-09-18

    The View Shed library is a collection of Umbra modules that are used to calculate areas of visual coverage (view sheds). It maps high and low visibility areas and calculates sensor (camera placement for maximum coverage and performance. This assertion includes a managed C++ wrapper code (ViewShedWrapper) to enable C# applications, such as OpShed, to incorporate this library.

  7. Lighting Condition Analysis for Mars' Moon Phobos

    NASA Technical Reports Server (NTRS)

    Li, Zu Qun; de Carufel, Guy; Crues, Edwin Z.; Bielski, Paul

    2016-01-01

    This study used high fidelity computer simulation to investigate the lighting conditions, specifically the solar radiation flux over the surface, on Phobos. Ephemeris data from the Jet Propulsion Laboratory (JPL) DE405 model was used to model the state of the Sun, Earth, Moon, and Mars. An occultation model was developed to simulate Phobos' self-shadowing and its solar eclipses by Mars. The propagated Phobos state was compared with data from JPL's Horizon system to ensure the accuracy of the result. Results for Phobos lighting conditions over one Martian year are presented, which include the duration of solar eclipses, average solar radiation intensity, surface exposure time, and radiant exposure for both sun tracking and fixed solar arrays. The results show that: Phobos' solar eclipse time varies throughout the Martian year, with longer eclipse durations during the Martian northern spring and fall seasons and no eclipses during the Martian northern summer and winter seasons; solar radiation intensity is close to minimum in late spring and close to maximum in late fall; exposure time per orbit is relatively constant over the surface during the spring and fall but varies with latitude during the summer and winter; and Sun tracking solar arrays generate more energy than a fixed solar array. A usage example of the result is also present in this paper to demonstrate the utility.

  8. Lighting Condition Analysis for Mars' Moon Phobos

    NASA Technical Reports Server (NTRS)

    Li, Zu Qun; de Carufel, Guy; Crues, Edwin Z.; Bielski, Paul

    2016-01-01

    This study used high fidelity computer simulation to investigate the lighting conditions, specifically the solar radiation flux over the surface, on Phobos. Ephemeris data from the Jet Propulsion Laboratory (JPL) DE405 model was used to model the state of the Sun, Earth, Moon, and Mars. An occultation model was developed to simulate Phobos' self-shadowing and its solar eclipses by Mars. The propagated Phobos state was compared with data from JPL's Horizon system to ensure the accuracy of the result. Results for Phobos lighting conditions over one Martian year are presented, which include the duration of solar eclipses, average solar radiation intensity, surface exposure time, available energy per unit area for sun tracking arrays, and available energy per unit area for fixed arrays (constrained by incident angle). The results show that: Phobos' solar eclipse time varies throughout the Martian year, with longer eclipse durations during the Martian spring and fall seasons and no eclipses during the Martian summer and winter seasons; solar radiation intensity is close to minimum at the summer solstice and close to maximum at the winter solstice; exposure time per orbit is relatively constant over the surface during the spring and fall but varies with latitude during the summer and winter; and Sun tracking solar arrays generate more energy than a fixed solar array. A usage example of the result is also present in this paper to demonstrate the utility.

  9. Study of erythrocyte membrane fluctuation using light scattering analysis

    NASA Astrophysics Data System (ADS)

    Lee, Hoyoon; Lee, Sangyun; Park, YongKeun; Shin, Sehyun

    2016-03-01

    It is commonly known that alteration of erythrocyte deformability lead to serious microcirculatory diseases such as retinopathy, nephropathy, etc. Various methods and technologies have been developed to diagnose such membrane properties of erythrocytes. In this study, we developed an innovative method to measure hemorheological characteristics of the erythrocyte membrane using a light scattering analysis with simplified optic setting and multi-cell analysis as well. Light scattering intensity through multiple erythrocytes and its power density spectrum were obtained. The results of light scattering analyses were compared in healthy control and artificially hardened sample which was treated with glutaraldehyde. These results were further compared with conventional assays to measure deformable property in hemorheology. We found that light scattering information would reflect the disturbance of membrane fluctuation in artificially damaged erythrocytes. Therefore, measuring fluctuation of erythrocyte membrane using light scattering signal could facilitate simple and precise diagnose of pathological state on erythrocyte as well as related complications.

  10. An analysis of the light curve of Pluto.

    NASA Technical Reports Server (NTRS)

    Lacis, A. A.; Fix, J. D.

    1972-01-01

    The light curve of Pluto is analyzed in terms of a geometrical model consisting of bright and dark areas which are assumed to exhibit either a diffuse or a geometrical type of reflectivity. A Fourier analysis method is used to invert the observed light curve to obtain the longitudinal distribution of bright and dark areas for any combination of albedos selected for the two types of terrain. The analysis indicates that the light curve of Pluto can be readily understood in terms of a surface consisting of bright and dark areas. However, on the basis of the presently available photometric data, the existence or absence of limb-darkened material cannot be established.

  11. Atmospheric particulate analysis using angular light scattering

    NASA Technical Reports Server (NTRS)

    Hansen, M. Z.

    1980-01-01

    Using the light scattering matrix elements measured by a polar nephelometer, a procedure for estimating the characteristics of atmospheric particulates was developed. A theoretical library data set of scattering matrices derived from Mie theory was tabulated for a range of values of the size parameter and refractive index typical of atmospheric particles. Integration over the size parameter yielded the scattering matrix elements for a variety of hypothesized particulate size distributions. A least squares curve fitting technique was used to find a best fit from the library data for the experimental measurements. This was used as a first guess for a nonlinear iterative inversion of the size distributions. A real index of 1.50 and an imaginary index of -0.005 are representative of the smoothed inversion results for the near ground level atmospheric aerosol in Tucson.

  12. PAPR analysis for OFDM visible light communication.

    PubMed

    Wang, Jiaheng; Xu, Yang; Ling, Xintong; Zhang, Rong; Ding, Zhi; Zhao, Chunming

    2016-11-28

    Orthogonal frequency-division multiplexing (OFDM) is a practical technology in visible light communication (VLC) for high-speed transmissions. However, one of its operational limitations is the peak-to-average power ratio (PAPR) of the transmitted signal. In this paper, we analyze the PAPR distributions of four VLC OFDM schemes, namely DC-biased optical OFDM (DCO-OFDM), asymmetrically clipped optical OFDM (ACO-OFDM), pulse amplitude modulated discrete multitone (PAM-DMT), and Flip-OFDM. Both lower and upper clippings are considered. We analytically derive the complementary cumulative distribution functions (CCDFs) of the PAPRs of the clipped VLC OFDM signals, and investigate the impact of lower and upper clippings on PAPR distributions. Our analytical results, as verified by numerical simulations, provide useful insights and guidelines for VLC OFDM system designs.

  13. Lighting.

    SciTech Connect

    United States. Bonneville Power Administration.

    1992-09-01

    Since lighting accounts for about one-third of the energy used in commercial buildings, there is opportunity to conserve. There are two ways to reduce lighting energy use: modify lighting systems so that they used less electricity and/or reduce the number of hours the lights are used. This booklet presents a number of ways to do both. Topics covered include: reassessing lighting levels, reducing lighting levels, increasing bulb & fixture efficiency, using controls to regulate lighting, and taking advantage of daylight.

  14. Shed syndecan-2 inhibits angiogenesis

    PubMed Central

    De Rossi, Giulia; Evans, Alun R.; Kay, Emma; Woodfin, Abigail; McKay, Tristan R.; Nourshargh, Sussan; Whiteford, James R.

    2014-01-01

    ABSTRACT Angiogenesis is essential for the development of a normal vasculature, tissue repair and reproduction, and also has roles in the progression of diseases such as cancer and rheumatoid arthritis. The heparan sulphate proteoglycan syndecan-2 is expressed on mesenchymal cells in the vasculature and, like the other members of its family, can be shed from the cell surface resulting in the release of its extracellular core protein. The purpose of this study was to establish whether shed syndecan-2 affects angiogenesis. We demonstrate that shed syndecan-2 regulates angiogenesis by inhibiting endothelial cell migration in human and rodent models and, as a result, reduces tumour growth. Furthermore, our findings show that these effects are mediated by the protein tyrosine phosphatase receptor CD148 (also known as PTPRJ) and this interaction corresponds with a decrease in active β1 integrin. Collectively, these data demonstrate an unexplored pathway for the regulation of new blood vessel formation and identify syndecan-2 as a therapeutic target in pathologies characterised by angiogenesis. PMID:25179601

  15. Mitochondrial genomes of the jungle crow Corvus macrorhynchos (Passeriformes: Corvidae) from shed feathers and a phylogenetic analysis of genus Corvus using mitochondrial protein-coding genes.

    PubMed

    Krzeminska, Urszula; Wilson, Robyn; Rahman, Sadequr; Song, Beng Kah; Seneviratne, Sampath; Gan, Han Ming; Austin, Christopher M

    2016-07-01

    The complete mitochondrial genomes of two jungle crows (Corvus macrorhynchos) were sequenced. DNA was extracted from tissue samples obtained from shed feathers collected in the field in Sri Lanka and sequenced using the Illumina MiSeq Personal Sequencer. Jungle crow mitogenomes have a structural organization typical of the genus Corvus and are 16,927 bp and 17,066 bp in length, both comprising 13 protein-coding genes, 22 transfer RNA genes, 2 ribosomal subunit genes, and a non-coding control region. In addition, we complement already available house crow (Corvus spelendens) mitogenome resources by sequencing an individual from Singapore. A phylogenetic tree constructed from Corvidae family mitogenome sequences available on GenBank is presented. We confirm the monophyly of the genus Corvus and propose to use complete mitogenome resources for further intra- and interspecies genetic studies.

  16. Light curve demography via Bayesian functional data analysis

    NASA Astrophysics Data System (ADS)

    Loredo, Thomas; Budavari, Tamas; Hendry, Martin A.; Kowal, Daniel; Ruppert, David

    2015-08-01

    Synoptic time-domain surveys provide astronomers, not simply more data, but a different kind of data: large ensembles of multivariate, irregularly and asynchronously sampled light curves. We describe a statistical framework for light curve demography—optimal accumulation and extraction of information, not only along individual light curves as conventional methods do, but also across large ensembles of related light curves. We build the framework using tools from functional data analysis (FDA), a rapidly growing area of statistics that addresses inference from datasets that sample ensembles of related functions. Our Bayesian FDA framework builds hierarchical models that describe light curve ensembles using multiple levels of randomness: upper levels describe the source population, and lower levels describe the observation process, including measurement errors and selection effects. Schematically, a particular object's light curve is modeled as the sum of a parameterized template component (modeling population-averaged behavior) and a peculiar component (modeling variability across the population), subsequently subjected to an observation model. A functional shrinkage adjustment to individual light curves emerges—an adaptive, functional generalization of the kind of adjustments made for Eddington or Malmquist bias in single-epoch photometric surveys. We are applying the framework to a variety of problems in synoptic time-domain survey astronomy, including optimal detection of weak sources in multi-epoch data, and improved estimation of Cepheid variable star luminosities from detailed demographic modeling of ensembles of Cepheid light curves.

  17. Automated dimensional analysis using a light-sectioning microscope

    SciTech Connect

    Loomis, J.; Lightman, A.; Poe, A.; Caldwell, R.

    1988-12-31

    A computer vision system has been integrated with a modified light-sectioning microscope for quality control and inspection of a machined part whose critical dimensions are 30 to 300 {mu}m. Height measurements were determined by analysis of the projected light-section line. Transverse measurements were made using the microscope in a traditional configuration with illumination from selected elements of an external LED ring array. The light section irradiance was under computer control to accommodate the spatial variations in surface reflectance whose dynamic range exceeded that of the vision system. Part features are located by the vision system. Edges and line centers are then measured to sub-pixel resolution with a gray-level analysis algorithm. This paper describes the design and operation of this system. Details of the measurement process and analysis algorithms are provided.

  18. Gamma Detector Response and Analysis Software - Light

    SciTech Connect

    Mitchell, Dean J.

    2004-06-14

    GADRAS is used to analyze gamma-ray spectra, which may be augmented by neutron count rate information. The fundamental capabilities of GADRAS are imparted by physics-based detector response functions for a variety of gamma ray and neufron detectors. The software has provisions for characterizing detector response parameters so that specta can be computed accurately over the range 30keV key to II MeV. Associated neutron detector count rates can also be computed for characterized detectors. GADRAS incorporates a variety of analysis algorithms that utilize the computed spectra. The full version of GADRAS incorporates support for computation of radiation leakages from complex source models, but this capability is not supported by GADRAS-LT. GADRAS has been and will continue to be disseminated free of charge to government agencies and National Laboratories as OUO software. GADRAS-LT is a limited software version that was prepared for exclusive use of our Technology Transfer parnter Thermo Electron (TE). TE will use the software to characterize and test radiation detectors that are fabricated under the terms of our partnership. The development of these sensors has been defined as a National Security priority by our sponsor, NNSA/NA-20, by DHS/S&T, and by SNL president Paul Robinson. Although GADRAS-LT is OUO, features that are not essential to the detector development have been removed. TE will not be licensed to commercialize GADRAS-LT or to distribute it to third parties.

  19. SHEDS-Dietary Technical Manual Appendices

    EPA Pesticide Factsheets

    The appendices for the SHEDS-Dietary Technical Manual include a sample food diary, backgorund information on the water concentration data used in SHEDS-Dietary, a food list, food definitions and sample code.

  20. Cepheid light curve demography via Bayesian functional data analysis

    NASA Astrophysics Data System (ADS)

    Loredo, Thomas J.; Hendry, Martin; Kowal, Daniel; Ruppert, David

    2016-01-01

    Synoptic time-domain surveys provide astronomers, not simply more data, but a different kind of data: large ensembles of multivariate, irregularly and asynchronously sampled light curves. We describe a statistical framework for light curve demography—optimal accumulation and extraction of information, not only along individual light curves as conventional methods do, but also across large ensembles of related light curves. We build the framework using tools from functional data analysis (FDA), a rapidly growing area of statistics that addresses inference from datasets that sample ensembles of related functions. Our Bayesian FDA framework builds hierarchical models that describe light curve ensembles using multiple levels of randomness: upper levels describe the source population, and lower levels describe the observation process, including measurement errors and selection effects. Roughly speaking, a particular object's light curve is modeled as the sum of a parameterized template component (modeling population-averaged behavior) and a peculiar component (modeling variability across the population), subsequently subjected to an observation model. A functional shrinkage adjustment to individual light curves emerges—an adaptive, functional generalization of the kind of adjustments made for Eddington or Malmquist bias in single-epoch photometric surveys. We describe ongoing work applying the framework to improved estimation of Cepheid variable star luminosities via FDA-based refinement and generalization of the Cepheid period-luminosity relation.

  1. Light-induced voltage alteration for integrated circuit analysis

    DOEpatents

    Cole, Jr., Edward I.; Soden, Jerry M.

    1995-01-01

    An apparatus and method are described for analyzing an integrated circuit (IC), The invention uses a focused light beam that is scanned over a surface of the IC to generate a light-induced voltage alteration (LIVA) signal for analysis of the IC, The LIVA signal may be used to generate an image of the IC showing the location of any defects in the IC; and it may be further used to image and control the logic states of the IC. The invention has uses for IC failure analysis, for the development of ICs, for production-line inspection of ICs, and for qualification of ICs.

  2. Light-induced voltage alteration for integrated circuit analysis

    DOEpatents

    Cole, E.I. Jr.; Soden, J.M.

    1995-07-04

    An apparatus and method are described for analyzing an integrated circuit (IC). The invention uses a focused light beam that is scanned over a surface of the IC to generate a light-induced voltage alteration (LIVA) signal for analysis of the IC. The LIVA signal may be used to generate an image of the IC showing the location of any defects in the IC; and it may be further used to image and control the logic states of the IC. The invention has uses for IC failure analysis, for the development of ICs, for production-line inspection of ICs, and for qualification of ICs. 18 figs.

  3. Low flow vortex shedding flowmeter

    NASA Technical Reports Server (NTRS)

    Waugaman, Charles J.

    1989-01-01

    The purpose was to continue a development project on a no moving parts vortex shedding flowmeter used for flow measurement of hypergols. The project involved the design and construction of a test loop to evaluate the meter for flow of Freon which simulates the hypergol fluids. Results were obtained on the output frequency characteristics of the flow meter as a function of flow rate. A family of flow meters for larger size lines and ranges of flow was sized based on the results of the tested meter.

  4. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle Three of PEARL program during the period of October 2002 to April 2003, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. The products tested are 20 models of screw-based compact fluorescent lamps (CFL) of various types and various wattages made or marketed by 12 different manufacturers, and ten models of residential lighting fixtures from eight different manufacturers.

  5. Phenomenon of Alfvenic Vortex Shedding

    SciTech Connect

    Gruszecki, M.; Nakariakov, V. M.; Van Doorsselaere, T.; Arber, T. D.

    2010-07-30

    Generation of Alfvenic (magnetohydrodynamic) vortices by the interaction of compressible plasma flows with magnetic-field-aligned blunt obstacles is modeled in terms of magnetohydrodynamics. It is found that periodic shedding of vortices with opposite vorticity is a robust feature of the interaction in a broad range of plasma parameters: for plasma beta from 0.025 to 0.5, and for the flow speeds from 0.1 to 0.99 of the fast magnetoacoustic speed. The Strouhal number is the dimensionless ratio of the blunt body diameter to the product of the period of vortex shedding and the inflow speed. It is found to be consistently in the range 0.15-0.25 in the whole range of parameters. The induced Alfvenic vortices are compressible and contain spiral-armed perturbations of the magnetic field strength and plasma mass density up to 50%-60% of the background values. The generated electric current also has the spiral-armed structuring.

  6. 77 FR 53884 - Automatic Underfrequency Load Shedding and Load Shedding Plans Reliability Standards; Notice of...

    Federal Register 2010, 2011, 2012, 2013, 2014

    2012-09-04

    ... Energy Regulatory Commission Automatic Underfrequency Load Shedding and Load Shedding Plans Reliability...\\ Automatic Underfrequency Load Shedding and Load Shedding Plans Reliability Standards, 139 FERC ] 61,098... 20426. This filing is accessible on-line at http://www.ferc.gov , using the ``eLibrary'' link and...

  7. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle Three and Cycle Four of PEARL program during the period of April 2003 to October 2003, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. The parameter tested for Cycle three is lumen maintenance at 40% rated life, and parameters tested for Cycle Four are all parameters required in Energy Star specifications except lumen maintenance at 40% rated life.

  8. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle Four and Cycle Five of PEARL program during the period of October 2003 to April 2004, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. The parameter tested for Cycle Four is lumen maintenance at 40% rated life, and parameters tested for Cycle Five are all parameters required in Energy Star specifications except lumen maintenance at 40% rated life.

  9. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle Five and Cycle Six of PEARL program during the period of April 2004 to October 2004, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. The parameter tested for Cycle Five is lumen maintenance at 40% rated life, and parameters tested for Cycle Six are Efficacy, CCT, CRI, Power Factor, Start Time, Warm-up Time, and Rapid Cycle Stress Test for CFLs.

  10. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-05-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure of Cycle 7 of PEARL program during the period of October 2005 to March 2006, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. LRC administered the purchasing of CFL samples to test in Cycle 7, performed 100-hour seasoning for most of the CFL samples received by March 2006, and performed sphere testing for some of the CFL samples at 100 hours of life (initial measurement).

  11. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle Six of PEARL program during the period of October 2004 to April 2005, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. The parameters tested for CFL models in Cycle Six are 1000-hour Lumen Maintenance, Lumen Maintenance at 40% Rated Life, and Interim Life Test, along with a series of parameters verified, such as ballast electrical parameters and Energy Star label.

  12. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2006-03-01

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This report includes the experimental procedure and data results of Cycle 6 and Reflector CFL In-situ Testing of PEARL program during the period of April 2005 to October 2005, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. LRC performed testing for the fixture samples in Cycle 6 against Energy Star residential fixture specifications during this period of time. LRC subcontracted the Reflector CFL In-situ Testing to Luminaire Testing Laboratories located at Allentown PA, and supervised this test.

  13. Vortex shedding and Maxwell's problem

    NASA Astrophysics Data System (ADS)

    Michelin, Sebastien; Smith, Stefan Llewellyn

    2006-11-01

    The coupled problem of a flow around a solid body has applications from the fall of objects in a fluid to the computation of forces on wind-exposed structures. A simplified 2D model is proposed here for the interaction between solid bodies and potential flows. Potential flows over sharp edges generate singular velocities at the edges. To satisfy the Kutta condition, vorticity sheets must be shed from the edges to remove these singularities. Here 2D vorticity sheets are represented as discrete point-vortices with monotically varying intensity. From the fluid momentum conservation, an equation of motion for these vortices, the Brown and Michael equation, is derived and mechanical efforts applied by the fluid on the body are computed. The set of dynamical equations obtained for the fluid-body system is closed and is applied to Maxwell's problem of the 2D fall of a plate in an inviscid fluid initially at rest.

  14. Light

    NASA Astrophysics Data System (ADS)

    Vernon, C. G.

    2016-09-01

    Preface; 1. Historical; 2. Waves and wave-motion; 3. The behaviour of ripples; 4. The behaviour of light; 5. Refraction through glass blocks and prisms; 6. The imprinting of curvatures; 7. Simple mathematical treatment; 8. More advanced mathematical treatment; 9. The velocity of light; 10. The spectrum and colour; 11. Geometrical optics; 12. The eye and optical instruments; 13. Sources of light; 14. Interference, diffraction and polarisation; 15. Suggestions for class experiments; Index.

  15. Performance Analysis of Visible Light Communication Using CMOS Sensors.

    PubMed

    Do, Trong-Hop; Yoo, Myungsik

    2016-02-29

    This paper elucidates the fundamentals of visible light communication systems that use the rolling shutter mechanism of CMOS sensors. All related information involving different subjects, such as photometry, camera operation, photography and image processing, are studied in tandem to explain the system. Then, the system performance is analyzed with respect to signal quality and data rate. To this end, a measure of signal quality, the signal to interference plus noise ratio (SINR), is formulated. Finally, a simulation is conducted to verify the analysis.

  16. Prevalence of hair shedding among women.

    PubMed

    Kovacevic, Maja; Goren, Andy; Shapiro, Jerry; Sinclair, Rodney; Lonky, Neal M; Situm, Mirna; Bulat, Vedrana; Bolanca, Zeljana; McCoy, John

    2017-01-01

    Hair shedding in female patients is a frequent complaint in dermatological, endocrinological, and gynecological consults. Previously, the Sinclair Hair Shedding Scale was developed to assess normal versus excessive hair shedding in female pattern hair loss (FPHL) subjects. However, the prevalence of hair shedding in females not suffering from FPHL is unknown. To gain better understanding of hair shedding in the general population, we recruited 300 subjects visiting a public hospital for conditions other than alopecia. Of the 300 subjects recruited, 263 did not suffer from FPHL. Among those subjects, approximately 40% reported experiencing excessive hair shedding (as defined by the Sinclair Hair Shedding Scale) on hair washing days. In comparison, in our subject population, approximately 60% of subjects with FPHL reported excessive hair shedding on hair washing days. To best of our knowledge, this is the first study to quantify the prevalence of hair shedding in women. While, no treatment currently exists for this condition, we hope that this study would encourage physicians and researchers to address this frequent concern.

  17. Development of an image-analysis light-scattering technique

    NASA Astrophysics Data System (ADS)

    Algarni, Saad; Kashuri, Hektor; Iannacchione, Germano

    2013-03-01

    We describe the progress in developing a versatile image-analysis approach for a light-scattering experiment. Recent advances in image analysis algorithms, computational power, and CCD image capture has allowed for the complete digital recording of the scattering of coherent laser light by a wide variety of samples. This digital record can then yield both static and dynamic information about the scattering events. Our approach is described using a very simple and in-expensive experimental arrangement for liquid samples. Calibration experiments were performed on aqueous suspensions of latex spheres having 0.5 and 1.0 micrometer diameter for three concentrations of 2 X 10-6, 1 X 10-6, and 5 X 10-7 % w/w at room temperature. The resulting data span a wave-vector range of q = 102 to 105 cm-1 and time averages over 0.05 to 1200 sec. The static analysis yield particle sizes in good agreement with expectations and a simple dynamic analysis yields an estimate of the characteristic time scale of the particle dynamics. Further developments in image corrections (laser stability, vibration, curvature, etc.) as well as time auto-correlation analysis will also be discussed.

  18. Economic analysis of greenhouse lighting: light emitting diodes vs. high intensity discharge fixtures.

    PubMed

    Nelson, Jacob A; Bugbee, Bruce

    2014-01-01

    Lighting technologies for plant growth are improving rapidly, providing numerous options for supplemental lighting in greenhouses. Here we report the photosynthetic (400-700 nm) photon efficiency and photon distribution pattern of two double-ended HPS fixtures, five mogul-base HPS fixtures, ten LED fixtures, three ceramic metal halide fixtures, and two fluorescent fixtures. The two most efficient LED and the two most efficient double-ended HPS fixtures had nearly identical efficiencies at 1.66 to 1.70 micromoles per joule. These four fixtures represent a dramatic improvement over the 1.02 micromoles per joule efficiency of the mogul-base HPS fixtures that are in common use. The best ceramic metal halide and fluorescent fixtures had efficiencies of 1.46 and 0.95 micromoles per joule, respectively. We also calculated the initial capital cost of fixtures per photon delivered and determined that LED fixtures cost five to ten times more than HPS fixtures. The five-year electric plus fixture cost per mole of photons is thus 2.3 times higher for LED fixtures, due to high capital costs. Compared to electric costs, our analysis indicates that the long-term maintenance costs are small for both technologies. If widely spaced benches are a necessary part of a production system, the unique ability of LED fixtures to efficiently focus photons on specific areas can be used to improve the photon capture by plant canopies. Our analysis demonstrates, however, that the cost per photon delivered is higher in these systems, regardless of fixture category. The lowest lighting system costs are realized when an efficient fixture is coupled with effective canopy photon capture.

  19. Economic Analysis of Greenhouse Lighting: Light Emitting Diodes vs. High Intensity Discharge Fixtures

    PubMed Central

    Nelson, Jacob A.; Bugbee, Bruce

    2014-01-01

    Lighting technologies for plant growth are improving rapidly, providing numerous options for supplemental lighting in greenhouses. Here we report the photosynthetic (400–700 nm) photon efficiency and photon distribution pattern of two double-ended HPS fixtures, five mogul-base HPS fixtures, ten LED fixtures, three ceramic metal halide fixtures, and two fluorescent fixtures. The two most efficient LED and the two most efficient double-ended HPS fixtures had nearly identical efficiencies at 1.66 to 1.70 micromoles per joule. These four fixtures represent a dramatic improvement over the 1.02 micromoles per joule efficiency of the mogul-base HPS fixtures that are in common use. The best ceramic metal halide and fluorescent fixtures had efficiencies of 1.46 and 0.95 micromoles per joule, respectively. We also calculated the initial capital cost of fixtures per photon delivered and determined that LED fixtures cost five to ten times more than HPS fixtures. The five-year electric plus fixture cost per mole of photons is thus 2.3 times higher for LED fixtures, due to high capital costs. Compared to electric costs, our analysis indicates that the long-term maintenance costs are small for both technologies. If widely spaced benches are a necessary part of a production system, the unique ability of LED fixtures to efficiently focus photons on specific areas can be used to improve the photon capture by plant canopies. Our analysis demonstrates, however, that the cost per photon delivered is higher in these systems, regardless of fixture category. The lowest lighting system costs are realized when an efficient fixture is coupled with effective canopy photon capture. PMID:24905835

  20. Laser light scan analysis of the “anticonvulsant face”

    PubMed Central

    Orup, H. Ivan; Deutsch, Curtis K.; Holmes, Lewis B.

    2014-01-01

    BACKGROUND The “anticonvulsant face”, comprised of a short nose, low nasal bridge, epicanthal folds, and wide mouth, was suggested in the 1970s to indicate teratogenesis caused by the anticonvulsant drugs phenytoin and phenobarbital. However, these were based on subjective clinical observations. In the present study we have applied objective and reliable quantitative measures to the operational definitions of craniofacial features in anticonvulant-exposed cases. We have adopted anthropometric analysis based on image analysis of laser light scans. Using morphometric methods, we established the positions of physical features and objectively determined the changes in the size and shape of affected soft tissues of the faces of children exposed to those anticonvulsant drugs during pregnancy. METHODS Thirteen individuals, exposed throughout pregnancy to phenytoin as either monotherapy or polytherapy, were identified in a previous analysis as having significant changes in their craniofacial features based on measurements of cephalometric radiographs, changes associated with “the anticonvulsant face”.. The soft tissues of their faces were imaged by 3D laser (structured light) scanning. RESULTS The notable changes in soft tissues identified by laser light scans were a wide philtrum (between the left and right cristae philtri), narrow mouth (between the left and right cheilions), short nasal bridge (between nasale and pronasale), short nose height (between the nasale and subnasale), and flat orbits (based on the orbital protrusion index). CONCLUSIONS This analysis of phenytoin-exposed individuals is the first anthropometric analysis of the craniofacial surface, designed to render the identification of abnormal features both objective and realiable. These analyses demonstrated that there were several significant changes in the soft tissue of the face, corroborating earlier studies of alterations of the craniofacial skeleton in the anticonvulsant face. Two of the

  1. Laser light scan analysis of the "anticonvulsant face".

    PubMed

    Orup, H Ivan; Deutsch, Curtis K; Holmes, Lewis B

    2014-12-01

    The "anticonvulsant face," with a short nose, broad nasal bridge, epicanthal folds, and wide mouth, was described in the 1970s in children who had been exposed during pregnancy to the anticonvulsant drugs phenytoin and phenobarbital. The laser light scan makes it possible to establish three-dimensional positions of physical features and to determine more objectively the changes in the size and shape of the affected soft tissues of the faces of children exposed to these anticonvulsant drugs during pregnancy. Thirteen individuals, exposed throughout pregnancy to phenytoin as either monotherapy or polytherapy, were identified in a previous analysis as having significant changes in their craniofacial features based on measurements of cephalometric radiographs. Those changes were associated with midface hypoplasia and a short nose, features of the "anticonvulsant face." The soft tissues of their faces have been evaluated with laser light scans. The notable changes in soft tissues identified by laser light scans were a wide philtrum (cph-cph), narrow mouth (ch-ch), short nasal bridge (n-prn), shortened nose height (n-sn), and flattened orbits (orbital protrusion index). This analysis of the facial features of phenytoin-exposed individuals, selected because of changes in their craniofacial bony structures, showed that there were several significant changes, two of which, widening of the philtrum and a small mouth, have not been described previously as part of this phenotype. © 2014 Wiley Periodicals, Inc.

  2. Differential transcriptomic analysis reveals hidden light response in Streptomyces lividans.

    PubMed

    Koepff, Joachim; Morschett, Holger; Busche, Tobias; Winkler, Anika; Kalinowski, Jörn; Wiechert, Wolfgang; Oldiges, Marco

    2017-09-27

    Recently, a comprehensive screening workflow for the filamentous bacterium Streptomyces lividans, a highly performant source for pharmaceutically active agents was introduced. This framework used parallelized cultivation in microtiter plates to efficiently accelerate early upstream process development. Focusing on growth performance, cultivation was successfully scaled-up to 1 liter stirred tank reactors. However, metabolic adaptation was observed on the transcriptomic level as among others, several genes incorporated in light response were up-regulated during bioreactor cultivation. Despite it was assumed that this was attributed to the fact that reactor cultivations were carried out in glass vessels exposed to daylight and artificial room light, this setup did not allow distinguishing exclusively between light and other effects. Upon that, the present study directly investigates the influence of light by defined illumination of microtiter plate cultures. Almost identical growth performance was observed for cultures grown in the dark or with illumination. Transcriptomics revealed the up-regulation of seven genes of which 6 have previously been described to be relevant for carotenoid synthesis and its regulation. These pigments are effective quenchers of reactive oxygen species. The seventh transcript coded for a photo-lyase incorporated in UV-damage repair of DNA further confirming induced light response. However, this was fully compensated by metabolic adaptation on the transcriptomic level and overall process performance was maintained. Consequently, environmental conditions need extremely careful control and evaluation during in-depth omics analysis of bioprocesses. Otherwise metabolic adaptation induced by such issues can easily be misinterpreted, especially during studies addressing cultivation system comparisons. This article is protected by copyright. All rights reserved. © 2017 American Institute of Chemical Engineers.

  3. Multi-wavelength analysis of Ellerman Bomb Light Curves

    NASA Astrophysics Data System (ADS)

    Herlender, M.; Berlicki, A.

    We present the results of a multi-wavelength photometric analysis of Ellerman Bomb (EB) observations obtained from the Dutch Open Telescope. In our data we have found 6 EBs located in the super-penumbra of the main spot in the active region NOAA 10781. We present light curves of EB observed in the Hα line centre and wing +0.7 Å, in the Ca II H line centre and wing~+2.35 Å, in the G-band and in the TRACE 1600 Å filter. We have shown that EBs were visible in the G-band and moreover, there was a good correlation between the light curves in the G-band and in the Hα line wings. We also found quasi-periodic oscillations of EBs brightness in the G-band, CaII H line and TRACE 1600 Å filter.

  4. Two-dimensional electronic spectroscopy using incoherent light: theoretical analysis.

    PubMed

    Turner, Daniel B; Howey, Dylan J; Sutor, Erika J; Hendrickson, Rebecca A; Gealy, M W; Ulness, Darin J

    2013-07-25

    Electronic energy transfer in photosynthesis occurs over a range of time scales and under a variety of intermolecular coupling conditions. Recent work has shown that electronic coupling between chromophores can lead to coherent oscillations in two-dimensional electronic spectroscopy measurements of pigment-protein complexes measured with femtosecond laser pulses. A persistent issue in the field is to reconcile the results of measurements performed using femtosecond laser pulses with physiological illumination conditions. Noisy-light spectroscopy can begin to address this question. In this work we present the theoretical analysis of incoherent two-dimensional electronic spectroscopy, I((4)) 2D ES. Simulations reveal diagonal peaks, cross peaks, and coherent oscillations similar to those observed in femtosecond two-dimensional electronic spectroscopy experiments. The results also expose fundamental differences between the femtosecond-pulse and noisy-light techniques; the differences lead to new challenges and new opportunities.

  5. SU4 light stop signature analysis at ATLAS

    SciTech Connect

    Krstic, Jelena; Milosavljevic, Marija; Popovic, Dragan

    2007-04-23

    A possibility to observe light stop signal above the Standard Model background was analysed for SU4 low mass SUSY model. With a production cross section of 270 pb, SU4 seems to be a promising target for SUSY searches with early ATLAS data. In order to extract a light stop signal from the decay g-tilde {yields} t-tilde{sub 1}t {yields} {chi}-tilde{sub 1}{sup {+-}}tb the final state tb invariant mass distribution was reconstructed. A kinematic endpoint was observed at a position close to the expected value for this decay chain which is 300 GeV. By establishing proper event selection criteria SM backgrounds can be suppressed to the level S/B > 4 with only 200 pb-1 of data. The analysis was performed on fully simulated ATLAS data.

  6. Analysis of a harmonic overvoltage due to transformer saturation following load shedding on Hydro-Quebec - NYPA 765 kV interconnection

    SciTech Connect

    Bourgault, O.; Morin, G. )

    1990-01-01

    This paper presents an analysis of the harmonic overvoltage recorded on the interconnection between Hydro-Quebec and the New York Power Authority (NYPA) in the Chateauguay area. The overvoltage was caused by transformer saturation, following tripping of the 765-kV transmission line linking both systems. The EMTP simulation yielded good agreement with field measurements and was valuable in re-evaluating operating practices at the Chateauguay station.

  7. Shedding patterns of Daubaylia potomaca (Nematoda: Rhabditida).

    PubMed

    Zimmermann, Michael R; Luth, Kyle E; Esch, Gerald W

    2013-12-01

    Daubaylia potomaca is a nematode parasite that exhibits an unusual direct life cycle in planorbid snails in which adult females are the infective stage, after being shed from a definitive host. The present study examined the shedding patterns of this nematode to determine what cues or mechanisms might lead to the parasite leaving its host. A correlation was found between host death and the frequency and number of D. potomaca shed, suggesting that the nematodes can detect that the host is dying and may leave in search of a new host. Furthermore, elevated intensities of D. potomaca in the snail induce shedding earlier, suggesting that competition for space and resources may also play a role in the shedding patterns of the nematode, but not when time to death is controlled. Finally, nematodes shed a longer time before host death were significantly longer and more likely to be gravid than those shed as time to snail death approached, implying that the nematode reaching maturity or being inseminated might also be cues for D. potomaca to leave its snail host. In summary, the shedding patterns of D. potomaca appear to be a complex mix of host death detection, competition, and nematode maturation.

  8. 24. 'HANGAR SHEDS ELEVATIONS DETAILS; ARCHITECTURAL PLANS ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    24. 'HANGAR SHEDS - ELEVATIONS - DETAILS; ARCHITECTURAL PLANS - PLANT AREA; MODIFICATION CENTER NO. 1, DAGGETT, CALIFORNIA.' Partial elevations, and details of sliding doors and ventilator flaps, as built. Contract no. W509 Eng. 2743; File no. 555/81, revision B, dated April 6, 1943. No sheet number. - Barstow-Daggett Airport, Hangar Shed No. 4, 39500 National Trails Highway, Daggett, San Bernardino County, CA

  9. Non-linear analysis in Light Water Reactor design

    SciTech Connect

    Rashid, Y.R.; Sharabi, M.N.; Nickell, R.E.; Esztergar, E.P.; Jones, J.W.

    1980-03-01

    The results obtained from a scoping study sponsored by the US Department of Energy (DOE) under the Light Water Reactor (LWR) Safety Technology Program at Sandia National Laboratories are presented. Basically, this project calls for the examination of the hypothesis that the use of nonlinear analysis methods in the design of LWR systems and components of interest include such items as: the reactor vessel, vessel internals, nozzles and penetrations, component support structures, and containment structures. Piping systems are excluded because they are being addressed by a separate study. Essentially, the findings were that nonlinear analysis methods are beneficial to LWR design from a technical point of view. However, the costs needed to implement these methods are the roadblock to readily adopting them. In this sense, a cost-benefit type of analysis must be made on the various topics identified by these studies and priorities must be established. This document is the complete report by ANATECH International Corporation.

  10. An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes.

    PubMed

    Bertioli, David J; Moretzsohn, Marcio C; Madsen, Lene H; Sandal, Niels; Leal-Bertioli, Soraya C M; Guimarães, Patricia M; Hougaard, Birgit K; Fredslund, Jakob; Schauser, Leif; Nielsen, Anna M; Sato, Shusei; Tabata, Satoshi; Cannon, Steven B; Stougaard, Jens

    2009-01-23

    Most agriculturally important legumes fall within two sub-clades of the Papilionoid legumes: the Phaseoloids and Galegoids, which diverged about 50 Mya. The Phaseoloids are mostly tropical and include crops such as common bean and soybean. The Galegoids are mostly temperate and include clover, fava bean and the model legumes Lotus and Medicago (both with substantially sequenced genomes). In contrast, peanut (Arachis hypogaea) falls in the Dalbergioid clade which is more basal in its divergence within the Papilionoids. The aim of this work was to integrate the genetic map of Arachis with Lotus and Medicago and improve our understanding of the Arachis genome and legume genomes in general. To do this we placed on the Arachis map, comparative anchor markers defined using a previously described bioinformatics pipeline. Also we investigated the possible role of transposons in the patterns of synteny that were observed. The Arachis genetic map was substantially aligned with Lotus and Medicago with most synteny blocks presenting a single main affinity to each genome. This indicates that the last common whole genome duplication within the Papilionoid legumes predated the divergence of Arachis from the Galegoids and Phaseoloids sufficiently that the common ancestral genome was substantially diploidized. The Arachis and model legume genomes comparison made here, together with a previously published comparison of Lotus and Medicago allowed all possible Arachis-Lotus-Medicago species by species comparisons to be made and genome syntenies observed. Distinct conserved synteny blocks and non-conserved regions were present in all genome comparisons, implying that certain legume genomic regions are consistently more stable during evolution than others. We found that in Medicago and possibly also in Lotus, retrotransposons tend to be more frequent in the variable regions. Furthermore, while these variable regions generally have lower densities of single copy genes than the more conserved regions, some harbor high densities of the fast evolving disease resistance genes. We suggest that gene space in Papilionoids may be divided into two broadly defined components: more conserved regions which tend to have low retrotransposon densities and are relatively stable during evolution; and variable regions that tend to have high retrotransposon densities, and whose frequent restructuring may fuel the evolution of some gene families.

  11. An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes

    PubMed Central

    Bertioli, David J; Moretzsohn, Marcio C; Madsen, Lene H; Sandal, Niels; Leal-Bertioli, Soraya CM; Guimarães, Patricia M; Hougaard, Birgit K; Fredslund, Jakob; Schauser, Leif; Nielsen, Anna M; Sato, Shusei; Tabata, Satoshi; Cannon, Steven B; Stougaard, Jens

    2009-01-01

    Background Most agriculturally important legumes fall within two sub-clades of the Papilionoid legumes: the Phaseoloids and Galegoids, which diverged about 50 Mya. The Phaseoloids are mostly tropical and include crops such as common bean and soybean. The Galegoids are mostly temperate and include clover, fava bean and the model legumes Lotus and Medicago (both with substantially sequenced genomes). In contrast, peanut (Arachis hypogaea) falls in the Dalbergioid clade which is more basal in its divergence within the Papilionoids. The aim of this work was to integrate the genetic map of Arachis with Lotus and Medicago and improve our understanding of the Arachis genome and legume genomes in general. To do this we placed on the Arachis map, comparative anchor markers defined using a previously described bioinformatics pipeline. Also we investigated the possible role of transposons in the patterns of synteny that were observed. Results The Arachis genetic map was substantially aligned with Lotus and Medicago with most synteny blocks presenting a single main affinity to each genome. This indicates that the last common whole genome duplication within the Papilionoid legumes predated the divergence of Arachis from the Galegoids and Phaseoloids sufficiently that the common ancestral genome was substantially diploidized. The Arachis and model legume genomes comparison made here, together with a previously published comparison of Lotus and Medicago allowed all possible Arachis-Lotus-Medicago species by species comparisons to be made and genome syntenies observed. Distinct conserved synteny blocks and non-conserved regions were present in all genome comparisons, implying that certain legume genomic regions are consistently more stable during evolution than others. We found that in Medicago and possibly also in Lotus, retrotransposons tend to be more frequent in the variable regions. Furthermore, while these variable regions generally have lower densities of single copy genes than the more conserved regions, some harbor high densities of the fast evolving disease resistance genes. Conclusion We suggest that gene space in Papilionoids may be divided into two broadly defined components: more conserved regions which tend to have low retrotransposon densities and are relatively stable during evolution; and variable regions that tend to have high retrotransposon densities, and whose frequent restructuring may fuel the evolution of some gene families. PMID:19166586

  12. Shedding light on betL*: pPL2-lux mediated real-time analysis of betL* expression in Listeria monocytogenes.

    PubMed

    Keane, Shauna M; Culligan, Eamonn P; Hoffmann, Roland F; Gahan, Cormac G M; Hill, Colin; Snelling, William J; Sleator, Roy D

    2016-04-02

    We propose a mechanism of action for the betL* mutation which is based on DNA topology. Removing a single thymine residue from the betL σ(A) promoter's -10 and -35 spacer results in a 'twist'-mediated activation of transcription which accounts for the osmotolerance phenotype observed for strains expressing betL*.

  13. An analysis of synteny of Arachis with Lotus and Medicago sheds new light on the structure, stability and evolution of legume genomes

    USDA-ARS?s Scientific Manuscript database

    Most agriculturally important legumes fall within the phaseoloids (containing beans) and galegoids (containing peas and clovers). A notable exception is peanut (Arachis hypogaea) which comes from a basally diverged tropical lineage. To improve our understanding of the Arachis genome, single-copy g...

  14. Shedding light on betL*: pPL2-lux mediated real-time analysis of betL* expression in Listeria monocytogenes

    PubMed Central

    Keane, Shauna M.; Culligan, Eamonn P.; Hoffmann, Roland F.; Gahan, Cormac G.M.; Hill, Colin; Snelling, William J.; Sleator, Roy D.

    2016-01-01

    ABSTRACT We propose a mechanism of action for the betL* mutation which is based on DNA topology. Removing a single thymine residue from the betL σA promoter's −10 and −35 spacer results in a ‘twist’-mediated activation of transcription which accounts for the osmotolerance phenotype observed for strains expressing betL*. PMID:27212260

  15. Issues affecting advanced passive light-water reactor safety analysis

    SciTech Connect

    Beelman, R.J.; Fletcher, C.D.; Modro, S.M.

    1992-08-01

    Next generation commercial reactor designs emphasize enhanced safety through improved safety system reliability and performance by means of system simplification and reliance on immutable natural forces for system operation. Simulating the performance of these safety systems will be central to analytical safety evaluation of advanced passive reactor designs. Yet the characteristically small driving forces of these safety systems pose challenging computational problems to current thermal-hydraulic systems analysis codes. Additionally, the safety systems generally interact closely with one another, requiring accurate, integrated simulation of the nuclear steam supply system, engineered safeguards and containment. Furthermore, numerical safety analysis of these advanced passive reactor designs wig necessitate simulation of long-duration, slowly-developing transients compared with current reactor designs. The composite effects of small computational inaccuracies on induced system interactions and perturbations over long periods may well lead to predicted results which are significantly different than would otherwise be expected or might actually occur. Comparisons between the engineered safety features of competing US advanced light water reactor designs and analogous present day reactor designs are examined relative to the adequacy of existing thermal-hydraulic safety codes in predicting the mechanisms of passive safety. Areas where existing codes might require modification, extension or assessment relative to passive safety designs are identified. Conclusions concerning the applicability of these codes to advanced passive light water reactor safety analysis are presented.

  16. Issues affecting advanced passive light-water reactor safety analysis

    SciTech Connect

    Beelman, R.J.; Fletcher, C.D.; Modro, S.M.

    1992-01-01

    Next generation commercial reactor designs emphasize enhanced safety through improved safety system reliability and performance by means of system simplification and reliance on immutable natural forces for system operation. Simulating the performance of these safety systems will be central to analytical safety evaluation of advanced passive reactor designs. Yet the characteristically small driving forces of these safety systems pose challenging computational problems to current thermal-hydraulic systems analysis codes. Additionally, the safety systems generally interact closely with one another, requiring accurate, integrated simulation of the nuclear steam supply system, engineered safeguards and containment. Furthermore, numerical safety analysis of these advanced passive reactor designs wig necessitate simulation of long-duration, slowly-developing transients compared with current reactor designs. The composite effects of small computational inaccuracies on induced system interactions and perturbations over long periods may well lead to predicted results which are significantly different than would otherwise be expected or might actually occur. Comparisons between the engineered safety features of competing US advanced light water reactor designs and analogous present day reactor designs are examined relative to the adequacy of existing thermal-hydraulic safety codes in predicting the mechanisms of passive safety. Areas where existing codes might require modification, extension or assessment relative to passive safety designs are identified. Conclusions concerning the applicability of these codes to advanced passive light water reactor safety analysis are presented.

  17. Light stable isotope analysis of meteorites by ion microprobe

    NASA Technical Reports Server (NTRS)

    Mcsween, Harry Y., Jr.

    1994-01-01

    The main goal was to develop the necessary secondary ion mass spectrometer (SIMS) techniques to use a Cameca ims-4f ion microprobe to measure light stable isotope ratios (H, C, O and S) in situ and in non-conducting mineral phases. The intended application of these techniques was the analysis of meteorite samples, although the techniques that have been developed are equally applicable to the investigation of terrestrial samples. The first year established techniques for the analysis of O isotope ratios (delta O-18 and delta O-17) in conducting mineral phases and the measurement of S isotope ratios (delta S-34) in a variety of sulphide phases. In addition, a technique was developed to measure delta S-34 values in sulphates, which are insulators. Other research undertaken in the first year resulted in SIMS techniques for the measurement of wide variety of trace elements in carbonate minerals, with the aim of understanding the nature of alteration fluids in carbonaceous chondrites. In the second year we developed techniques for analyzing O isotope ratios in nonconducting mineral phases. These methods are potentially applicable to the measurement of other light stable isotopes such as H, C and S in insulators. Also, we have further explored the analytical techniques used for the analysis of S isotopes in sulphides by analyzing troilite in a number of L and H ordinary chondrites. This was done to see if there was any systematic differences with petrological type.

  18. Enumeration of islets by nuclei counting and light microscopic analysis

    PubMed Central

    Pisania, Anna; Papas, Klearchos K.; Powers, Daryl E.; Rappel, Michael J.; Omer, Abdulkadir; Bonner-Weir, Susan; Weir, Gordon C.; Colton, Clark K.

    2010-01-01

    Islet enumeration in impure preparations by conventional dithizone staining and visual counting is inaccurate and operator dependent. We examined nuclei counting for measuring the total number of cells in islet preparations, and we combined it with morphological analysis by light microscopy (LM) for estimating the volume fraction of islets in impure preparations. Cells and islets were disrupted with lysis solution and shear, and accuracy of counting successively diluted nuclei suspensions was verified with: (1) visual counting in a hemacytometer after staining with crystal violet, and automatic counting by (2) aperture electrical resistance measurement and (3) flow cytometer measurement after staining with 7-aminoactinomycin-D. DNA content averaged 6.5 and 6.9 pg DNA/cell for rat and human islets, respectively, in agreement with literature estimates. With pure rat islet preparations, precision improved with increasing counts, and samples with about 160 or more islets provided a coefficient of variation of about 6%. Aliquots of human islet preparations were processed for LM analysis by stereological point counting. Total nuclei counts and islet volume fraction from LM analysis were combined to obtain the number of islet equivalents (IE). Total number of IE by the standard method of dithizone staining/manual counting was overestimated by about 90% compared to LM/nuclei counting for 12 freshly isolated human islet research preparations. Nuclei counting combined with islet volume fraction measurements from light microscopy is a novel method for achieving accurate islet enumeration. PMID:20697375

  19. Structured light profilometry for designated breast surface coordinate variation analysis

    NASA Astrophysics Data System (ADS)

    Vairavan, Rajendaran; Retnasamy, Vithyacharan; Mohamad Shahimin, Mukhzeer; Sauli, Zaliman; Leng, Lai Siang; Wan Norhaimi, Wan Mokhzani; Retnasamy, Prema Boshani; Abdullah, Othman; Kirtsaeng, Supap

    2017-02-01

    Early detection of breast carcinoma is vital for effective treatment option and to enhance the survival rate. Existing breast imaging systems such as ultrasound, mammography, and magnetic resonance imaging (MRI) have been utilized for early detection of breast carcinoma which requires contact with the breast surface. However, these existing methods require contact to the breast surface, which causes discomfort to the test subject. Hence, there is a need for alternative modality, which exhibits a total non-contact nature. Structured light profilometry has developed into a vital system with its application in diverse fields of surface metrology analysis. Therefore, in this work structured light profilometry based on phase shift technique is setup to analyze the surface variation of the breast due to the presence of a lesion in the context of surface tension. The sinusoidal fringe pattern is projected through three step phase shift onto the surface of the breast, and a resulting phase map is produced. Pixel tracing was performed to evaluate the variation of surface changes on the breast based on surface marker coordinates. The comparison was made between breast with lump and breast without a lump. Maiden results have established that the structured light profilometry is capable of detecting breast surface changes at various locations on the breast.

  20. Light Curve and Orbital Period Analysis of VX Lac

    NASA Astrophysics Data System (ADS)

    Yılmaz, M.; Nelson, R. H.; Şenavcı, H. V.; İzci, D.; Özavcı, İ.; Gümüş, D.

    2017-04-01

    In this study, we performed simultaneously light curve and radial velocity, and also period analyses of the eclipsing binary system VX Lac. Four color (BVRI) light curves of the system were analysed using the W-D code. The results imply that VX Lac is a classic Algol-type binary with a mass ratio of q=0.27, of which the less massive secondary component fills its Roche lobe. The orbital period behaviour of the system was analysed by assuming the light time effect (LITE) from a third body. The O-C analysis yielded a mass transfer rate of dM/dt=1.86×10-8M⊙yr-1 and the minimal mass of the third body to be M3=0.31M⊙. The residuals from mass transfer and the third body were also analysed because another cyclic variation is seen in O-C diagram. This periodic variation was examined under the hypotheses of stellar magnetic activity and fourth body.

  1. Metabolomic analysis indicates a pivotal role of the hepatotoxin microcystin in high light adaptation of Microcystis.

    PubMed

    Meissner, Sven; Steinhauser, Dirk; Dittmann, Elke

    2015-05-01

    Microcystis is a freshwater cyanobacterium frequently forming nuisance blooms in the summer months. The genus belongs to the predominant producers of the potent hepatotoxin microcystin. The success of Microcystis and its remarkable resistance to high light conditions are not well understood. Here, we have compared the metabolic response of Microcystis aeruginosa PCC7806, its microcystin-deficient ΔmcyB mutant (Mut) and the cyanobacterial model organism Synechocystis PCC6803 to high light exposure of 250 μmol photons m(-2)  s(-1) using GC/MS-based metabolomics. Microcystis wild type and Mut show pronounced differences in their metabolic reprogramming upon high light. Seventeen per cent of the detected metabolites showed significant differences between the two genotypes after high light exposure. Whereas the microcystin-producing wild type shows a faster accumulation of glycolate upon high light illumination, loss of microcystin leads to an accumulation of general stress markers such as trehalose and sucrose. The study further uncovers differences in the high light adaptation of the bloom-forming cyanobacterium Microcystis and the model cyanobacterium Synechocystis. Most notably, Microcystis invests more into carbon reserves such as glycogen after high light exposure. Our data shed new light on the lifestyle of bloom-forming cyanobacteria, the role of the widespread toxin microcystin and the metabolic diversity of cyanobacteria.

  2. Thermodynamics of Binding of Structurally Similar Ligands to Histone Deacetylase 8 Sheds Light on Challenges in the Rational Design of Potent and Isozyme-Selective Inhibitors of the Enzyme

    PubMed Central

    2015-01-01

    Among the different histone deacetylase (HDAC) isozymes, HDAC8 is the most highly malleable enzyme, and it exhibits the potential to accommodate structurally diverse ligands (albeit with moderate binding affinities) in its active site pocket. To probe the molecular basis of this feature, we performed detailed thermodynamic studies of the binding of structurally similar ligands, which differed with respect to the “cap”, “linker”, and “metal-binding” regions of the suberoylanilide hydroxamic acid (SAHA) pharmacophore, to HDAC8. The experimental data revealed that although the enthalpic (ΔH°) and entropic (ΔS°) changes for the binding of individual SAHA analogues to HDAC8 were substantially different, their binding free energies (ΔG°) were markedly similar, conforming to a strong enthalpy–entropy compensation effect. This effect was further observed in the temperature-dependent thermodynamics of binding of all SAHA analogues to the enzyme. Notably, in contrast to other metalloenzymes, our isothermal titration calorimetry experiments (performed in different buffers of varying ionization enthalpies) suggest that depending on the ligand, its zinc-binding group may or may not be deprotonated upon the binding to HDAC8. Furthermore, the heat capacity changes (ΔCp°) associated with the ligand binding to HDAC8 markedly differed from one SAHA analogue to the other, and such features could primarily be rationalized in light of the dynamic flexibility in the enzyme structure in conjunction with the reorganization of the active site resident water molecules. Arguments are presented that although the binding thermodynamic features described above would facilitate identification of weak to moderately tight-binding HDAC8 inhibitors (by a high-throughput and/or virtual screening of libraries of small molecules), they would pose major challenges for the structure-based rational design of highly potent and isozyme-selective inhibitors of human HDAC8. PMID:25407689

  3. RNA Interference-Mediated Repression of MtCCD1 in Mycorrhizal Roots of Medicago truncatula Causes Accumulation of C27 Apocarotenoids, Shedding Light on the Functional Role of CCD11[W][OA

    PubMed Central

    Floss, Daniela S.; Schliemann, Willibald; Schmidt, Jürgen; Strack, Dieter; Walter, Michael H.

    2008-01-01

    Tailoring carotenoids by plant carotenoid cleavage dioxygenases (CCDs) generates various bioactive apocarotenoids. Recombinant CCD1 has been shown to catalyze symmetrical cleavage of C40 carotenoid substrates at 9,10 and 9′,10′ positions. The actual substrate(s) of the enzyme in planta, however, is still unknown. In this study, we have carried out RNA interference (RNAi)-mediated repression of a Medicago truncatula CCD1 gene in hairy roots colonized by the arbuscular mycorrhizal (AM) fungus Glomus intraradices. As a consequence, the normal AM-mediated accumulation of apocarotenoids (C13 cyclohexenone and C14 mycorradicin derivatives) was differentially modified. Mycorradicin derivatives were strongly reduced to 3% to 6% of the controls, while the cyclohexenone derivatives were only reduced to 30% to 47%. Concomitantly, a yellow-orange color appeared in RNAi roots. Based on ultraviolet light spectra and mass spectrometry analyses, the new compounds are C27 apocarotenoic acid derivatives. These metabolic alterations did not lead to major changes in molecular markers of the AM symbiosis, although a moderate shift to more degenerating arbuscules was observed in RNAi roots. The unexpected outcome of the RNAi approach suggests C27 apocarotenoids as the major substrates of CCD1 in mycorrhizal root cells. Moreover, literature data implicate C27 apocarotenoid cleavage as the general functional role of CCD1 in planta. A revised scheme of plant carotenoid cleavage in two consecutive steps is proposed, in which CCD1 catalyzes only the second step in the cytosol (C27 → C14 + C13), while the first step (C40 → C27 + C13) may be catalyzed by CCD7 and/or CCD4 inside plastids. PMID:18790999

  4. RNA interference-mediated repression of MtCCD1 in mycorrhizal roots of Medicago truncatula causes accumulation of C27 apocarotenoids, shedding light on the functional role of CCD1.

    PubMed

    Floss, Daniela S; Schliemann, Willibald; Schmidt, Jürgen; Strack, Dieter; Walter, Michael H

    2008-11-01

    Tailoring carotenoids by plant carotenoid cleavage dioxygenases (CCDs) generates various bioactive apocarotenoids. Recombinant CCD1 has been shown to catalyze symmetrical cleavage of C(40) carotenoid substrates at 9,10 and 9',10' positions. The actual substrate(s) of the enzyme in planta, however, is still unknown. In this study, we have carried out RNA interference (RNAi)-mediated repression of a Medicago truncatula CCD1 gene in hairy roots colonized by the arbuscular mycorrhizal (AM) fungus Glomus intraradices. As a consequence, the normal AM-mediated accumulation of apocarotenoids (C(13) cyclohexenone and C(14) mycorradicin derivatives) was differentially modified. Mycorradicin derivatives were strongly reduced to 3% to 6% of the controls, while the cyclohexenone derivatives were only reduced to 30% to 47%. Concomitantly, a yellow-orange color appeared in RNAi roots. Based on ultraviolet light spectra and mass spectrometry analyses, the new compounds are C(27) apocarotenoic acid derivatives. These metabolic alterations did not lead to major changes in molecular markers of the AM symbiosis, although a moderate shift to more degenerating arbuscules was observed in RNAi roots. The unexpected outcome of the RNAi approach suggests C(27) apocarotenoids as the major substrates of CCD1 in mycorrhizal root cells. Moreover, literature data implicate C(27) apocarotenoid cleavage as the general functional role of CCD1 in planta. A revised scheme of plant carotenoid cleavage in two consecutive steps is proposed, in which CCD1 catalyzes only the second step in the cytosol (C(27)-->C(14)+C(13)), while the first step (C(40)-->C(27)+C(13)) may be catalyzed by CCD7 and/or CCD4 inside plastids.

  5. A new approach to the analysis of Mira light curves

    NASA Technical Reports Server (NTRS)

    Mennessier, M. O.; Barthes, D.; Mattei, J. A.

    1990-01-01

    Two different but complementary methods for predicting Mira luminosities are presented. One method is derived from a Fourier analysis, it requires performing deconvolution, and its results are not certain due to the inherent instability of deconvolution problems. The other method is a learning method utilizing artificial intelligence techniques where a light curve is presented as an ordered sequence of pseudocycles, and rules are learned by linking the characteristics of several consecutive pseudocycles to one characteristic of the future cycle. It is observed that agreement between these methods is obtainable when it is possible to eliminate similar false frequencies from the preliminary power spectrum and to improve the degree of confidence in the rules.

  6. A new approach to the analysis of Mira light curves

    NASA Technical Reports Server (NTRS)

    Mennessier, M. O.; Barthes, D.; Mattei, J. A.

    1990-01-01

    Two different but complementary methods for predicting Mira luminosities are presented. One method is derived from a Fourier analysis, it requires performing deconvolution, and its results are not certain due to the inherent instability of deconvolution problems. The other method is a learning method utilizing artificial intelligence techniques where a light curve is presented as an ordered sequence of pseudocycles, and rules are learned by linking the characteristics of several consecutive pseudocycles to one characteristic of the future cycle. It is observed that agreement between these methods is obtainable when it is possible to eliminate similar false frequencies from the preliminary power spectrum and to improve the degree of confidence in the rules.

  7. Light-dependent magnetoreception in birds: analysis of the behaviour under red light after pre-exposure to red light.

    PubMed

    Wiltschko, Wolfgang; Möller, Andrea; Gesson, Marcus; Noll, Catrin; Wiltschko, Roswitha

    2004-03-01

    In previous experiments, migratory birds had been disoriented under 635 nm red light, apparently unable to use their magnetic compass. The present study with European robins, Erithacus rubecula, confirms these findings for red light at the levels of 6 x 10(15) quanta s(-1) m(-2) and 43 x 10(15) quanta s(-1) m(-2), suggesting that the disorientation under red light was not caused by the test light being below the threshold for magnetoreception. However, pre-exposure to red light for 1 h immediately before the critical tests under red light of 6-7 x 10(15) quanta s(-1) m(-2) enabled robins to orient in their seasonally appropriate migratory direction in spring as well as in autumn. Pre-exposure to darkness, by contrast, failed to induce orientation under red light. Under green light of 7 x 10(15) quanta s(-1) m(-2), the birds were oriented in their migratory orientation after both types of pre-exposure. These findings suggest that the newly gained ability to orient under red light might be based on learning to interpret a novel pattern of activation of the magnetoreceptors and hence may represent a parallel to the previously described enlargement of the functional window to new magnetic intensities. Mechanisms involving two types of spectral mechanisms with different absorbance maxima and their possible interactions are discussed.

  8. Energy Star Lighting Verification Program (Program for the Evaluation and Analysis of Residential Lighting)

    SciTech Connect

    Conan O'Rourke; Yutao Zhou

    2007-12-31

    The Program for the Evaluation and Analysis of Residential Lighting (PEARL) is a watchdog program. It was created in response to complaints received by utility program managers about the performance of certain Energy Star lighting products being promoted within their service territories and the lack of a self-policing mechanism within the lighting industry that would ensure the reliability of these products and their compliance with ENERGY STAR specifications. To remedy these problems, PEARL purchases and tests products that are available to the consumers in the marketplace. The Lighting Research Center (LRC) tests the selected products against the corresponding Energy Star specifications. This final report summarizes the experimental procedure and results of all cycles (Cycles 1 through 8) of PEARL program from the beginning of year 2000 to the end of 2007, along with the description of apparatus used, equipment calibration process, experimental methodology, and research findings from the testing. In each cycle of PEARL program, PEARL Board selects a list of Compact Fluorescent Lamp (CFL) and Residential Lighting Fixture (RLF) models that are Energy Star qualified. In Cycle 5, Cycle 7, and Cycle 8, no fixture models were selected. After that PEARL sponsors procure product samples for each selected model from different stores and locations in the retail market and send them to LRC for testing. LRC then receive and select the samples, and test them against Energy Star specifications. After the testing LRC analyze and report the results to PEARL Board. Totally 185 models of CFL and 52 models of RLF were tested in PEARL program. Along with the evolution of the Energy Star specifications from year 2000 to 2003, parameters that were required by Energy Star changed during the eight years of PEARL program. The testing parameters and number of samples tested in PEARL program also changed during this time. For example, in Cycle 1, three samples of each models were tested

  9. Comparison of Blue Light-Filtering IOLs and UV Light-Filtering IOLs for Cataract Surgery: A Meta-Analysis

    PubMed Central

    Zhu, Xiao-feng; Zou, Hai-dong; Yu, Yong-fu; Sun, Qian; Zhao, Nai-qing

    2012-01-01

    Background A number of published randomized controlled trials have been conducted to evaluate visual performance of blue light-filtering intraocular lenses (IOL) and UV light-filtering intraocular lenses (IOL) after cataract phacoemulsification surgery. However, results have not always been consistent. Therefore, we carried out a meta-analysis to compare the effectiveness of blue light-filtering IOLs versus UV light-filtering IOLs in cataract surgery. Methods and Findings Comprehensive searches of PubMed, Embase, Cochrane Library and the Chinese BioMedical literature databases were performed using web-based search engines. Fifteen trials (1690 eyes) were included for systematic review, and 11 of 15 studies were included in this meta-analysis. The results showed that there were no significant differences in postoperative mean best corrected visual acuity, contrast sensitivity, overall color vision, or in the blue light spectrum under photopic light conditions between blue light-filtering IOLs and UV light-filtering IOLs [WMD = −0.01, 95%CI (−0.03, 0.01), P = 0.46; WMD = 0.07, 95%CI (−0.04, 0.19), P = 0.20; SMD = 0.14, 95%CI (−0.33, 0.60), P = 0.566; SMD = 0.20, 95%CI (−0.04, 0.43), P = 0.099]. However, color vision with blue light-filtering IOLs was significantly reduced in the blue light spectrum under mesopic light conditions [SMD = 0.74, 95%CI (0.29, 1.18), P = 0.001]. Conclusion This meta-analysis demonstrates that postoperative visual performance with blue light-filtering IOLs is approximately equal to that of UV light-filtering IOLs after cataract surgery, but color vision with blue light-filtering IOLs demonstrated some compromise in the blue light spectrum under mesopic light conditions. PMID:22412976

  10. Remnant lipoprotein size distribution profiling via dynamic light scattering analysis.

    PubMed

    Chandra, Richa; Mellis, Birgit; Garza, Kyana; Hameed, Samee A; Jurica, James M; Hernandez, Ana V; Nguyen, Mia N; Mittal, Chandra K

    2016-11-01

    Remnant lipoproteins (RLP) are a metabolically derived subpopulation of triglyceride-rich lipoproteins (TRL) in human blood that are involved in the metabolism of dietary fats or triglycerides. RLP, the smaller and denser variants of TRL particles, are strongly correlated with cardiovascular disease (CVD) and were listed as an emerging atherogenic risk factor by the AHA in 2001. Varying analytical techniques used in clinical studies in the size determination of RLP contribute to conflicting hypotheses in regard to whether larger or smaller RLP particles contribute to CVD progression, though multiple pathways may exist. We demonstrated a unique combinatorial bioanalytical approach involving the preparative immunoseparation of RLP, and dynamic light scattering for size distribution analysis. This is a new facile and robust methodology for the size distribution analysis of RLP that in conjunction with clinical studies may reveal the mechanisms by which RLP cause CVD progression. Copyright © 2016 Elsevier B.V. All rights reserved.

  11. Imaging spectroscopic analysis at the Advanced Light Source

    SciTech Connect

    MacDowell, A. A.; Warwick, T.; Anders, S.; Lamble, G.M.; Martin, M.C.; McKinney, W.R.; Padmore, H.A.

    1999-05-12

    One of the major advances at the high brightness third generation synchrotrons is the dramatic improvement of imaging capability. There is a large multi-disciplinary effort underway at the ALS to develop imaging X-ray, UV and Infra-red spectroscopic analysis on a spatial scale from. a few microns to 10nm. These developments make use of light that varies in energy from 6meV to 15KeV. Imaging and spectroscopy are finding applications in surface science, bulk materials analysis, semiconductor structures, particulate contaminants, magnetic thin films, biology and environmental science. This article is an overview and status report from the developers of some of these techniques at the ALS. The following table lists all the currently available microscopes at the. ALS. This article will describe some of the microscopes and some of the early applications.

  12. Computerized mouse pupil size measurement for pupillary light reflex analysis.

    PubMed

    Lu, Wei; Tan, Jinglu; Zhang, Keqing; Lei, Bo

    2008-06-01

    Accurate measurement of pupil size is essential for pupillary light reflex (PLR) analysis in clinical diagnosis and vision research. Low pupil-iris contrast, corneal reflection, artifacts and noises in infrared eye imaging pose challenges for automated pupil detection and measurement. This paper describes a computerized method for pupil detection or identification. After segmentation by a region-growing algorithm, pupils are detected by an iterative randomized Hough transform (IRHT) with an elliptical model. The IRHT iteratively suppresses the effects of extraneous structures and noise, yielding reliable measurements. Experimental results with 72 images showed a mean absolute difference of 3.84% between computerized and manual measurements. The inter-run variation for the computerized method (1.24%) was much smaller than the inter-observer variation for the manual method (7.45%), suggesting a higher level of consistency of the former. The computerized method could facilitate PLR analysis and other non-invasive functional tests that require pupil size measurements.

  13. The rise and fall of a genus: Complete mtDNA genomes shed light on the phylogenetic position of yellow-tailed woolly monkeys, Lagothrix flavicauda, and on the evolutionary history of the family Atelidae (Primates: Platyrrhini).

    PubMed

    Di Fiore, Anthony; Chaves, Paulo B; Cornejo, Fanny M; Schmitt, Christopher A; Shanee, Sam; Cortés-Ortiz, Liliana; Fagundes, Valéria; Roos, Christian; Pacheco, Víctor

    2015-01-01

    Using complete mitochondrial genome sequences, we provide the first molecular analysis of the phylogenetic position of the yellow-tailed woolly monkey, Lagothrix flavicauda (a.k.a. Oreonax flavicauda), a critically endangered neotropical primate endemic to northern Perú. The taxonomic status and phylogenetic position of yellow-tailed woolly monkeys have been debated for many years, but in this study both Bayesian and maximum likelihood phylogenetic reconstructions unequivocally support a monophyletic woolly monkey clade that includes L. flavicauda as the basal taxon within the radiation. Bayesian dating analyses using several alternative calibrations suggest that the divergence of yellow-tailed woolly monkeys from other Lagothrix occurred in the Pleistocene, ∼2.1Ma, roughly 6.5 my after the divergence of woolly monkeys from their sister genus, Brachyteles. Additionally, comparative analysis of the cytochrome oxidase subunit 2 (COX2) gene shows that genetic distances between yellow-tailed woolly monkeys and other Lagothrix from across the genus' geographic distribution fall well within the range of between-species divergences seen in a large number of other platyrrhine primate genera at the same locus and outside the range of between-genus divergences. Our results thus confirm a position within Lagothrix for the yellow-tailed woolly monkey and strongly suggest that the name Oreonax be formally considered a synonym for this genus. This revision in taxonomic status does not change the dire conservation threats facing the yellow-tailed woolly monkey in Perú, where the remaining wild population is estimated at only ∼10,000 individuals living in a highly fragmented landscape.

  14. Combined high resolution NMR and 1H and 17O relaxometric study sheds light on the solution structure and dynamics of the lanthanide(III) complexes of HPDO3A.

    PubMed

    Delli Castelli, Daniela; Caligara, Maria C; Botta, Mauro; Terreno, Enzo; Aime, Silvio

    2013-06-17

    GdHPDO3A is one of the most used MRI contrast agents (CAs) for clinical use. However, unlike most of the other commercially available Gd-based CAs, only limited information is available on its solution structure and dynamics. 600 MHz high resolution (1)H NMR spectra of nine LnHPDO3A complexes (Ln = Pr, Nd, Eu, Tb, Dy, Ho, Er, Tm, and Yb) have been recorded at 298 K and neutral pH. Because of the low symmetry of the Ln-chelates, each proton gives rise to a different peak. Despite the very crowded spectra, it is possible to detect the presence of two sets of resonances associated with different isomers in solution in slow exchange in the NMR time scale. In principle, the LnHPDO3A complexes may be present in solution as eight isomeric forms (four enantiomeric pairs) differing in the layout of the acetate arms (Δ or Λ), in the conformation of the macrocyclic ring (δδδδ or λλλλ) and in the configuration of the chiral center (R or S). 1D- and 2D proton NMR spectra were measured as a function of temperature across the Lanthanide series. The data allow identifying the nature of the most abundant isomeric species in solution (e.g., Λ(λλλλ)-R/Λ(δδδδ)-R and their enantiomeric forms Δ(δδδδ)-S/Δ(λλλλ)-S) and their interconversion process. Analysis of the data led us to identify the presence in solution of a third isomeric species, lacking the coordinated water molecule (q = 0), whose population becomes more relevant for the heavier lanthanides (Ln = Er-Lu). Moreover, we have introduced an innovative way of modeling the thermodynamic equilibrium between the various isomeric forms of LnHPDO3A that can be extended to a number of other systems. This analysis enabled us to calculate the molar fractions of the two isomeric forms for GdHPDO3A (χ = 0.7 and 0.30, for SAP and TSAP, respectively). This information has allowed interpreting the slightly anomalous relaxometric properties of GdHPDO3A. In particular, we observed that the temperature dependence of

  15. Vortex shedding by a Savonius rotor

    NASA Astrophysics Data System (ADS)

    Botrini, M.; Beguier, C.; Chauvin, A.; Brun, R.

    1984-05-01

    A series of flow visualizations was performed to characterize the wake vortices of a Savonius rotor. The trials were undertaken in an attempt to account for discrepancies between theoretical and experimentally-derived power coefficients. The Savonius examined was two-bladed with a center offset. All tests were made in a water tunnel. Dye injection provided the visualization, and average velocities and velocity fluctuations were measured using a laser Doppler anemometer. A system of three vortices was found to be periodically shed by the rotor. Flow velocity fluctuation intensity peaked as a vortex was shed. The vortex shedding alternated from blade to blade, so that one was shed from a blade moving upstream.

  16. The chloroplast genomes of the green algae Pyramimonas, Monomastix, and Pycnococcus shed new light on the evolutionary history of prasinophytes and the origin of the secondary chloroplasts of euglenids.

    PubMed

    Turmel, Monique; Gagnon, Marie-Christine; O'Kelly, Charley J; Otis, Christian; Lemieux, Claude

    2009-03-01

    Because they represent the earliest divergences of the Chlorophyta and include the smallest known eukaryotes (e.g., the coccoid Ostreococcus), the morphologically diverse unicellular green algae making up the Prasinophyceae are central to our understanding of the evolutionary patterns that accompanied the radiation of chlorophytes and the reduction of cell size in some lineages. Seven prasinophyte lineages, four of which exhibit a coccoid cell organization (no flagella nor scales), were uncovered from analysis of nuclear-encoded 18S rDNA data; however, their order of divergence remains unknown. In this study, the chloroplast genome sequences of the scaly quadriflagellate Pyramimonas parkeae (clade I), the coccoid Pycnococcus provasolii (clade V), and the scaly uniflagellate Monomastix (unknown affiliation) were determined, annotated, and compared with those previously reported for green algae/land plants, including two prasinophytes (Nephroselmis olivacea, clade III and Ostreococcus tauri, clade II). The chlorarachniophyte Bigelowiella natans and the euglenid Euglena gracilis, whose chloroplasts originate presumably from distinct green algal endosymbionts, were also included in our comparisons. The three newly sequenced prasinophyte genomes differ considerably from one another and from their homologs in overall structure, gene content, and gene order, with the 80,211-bp Pycnococcus and 114,528-bp Monomastix genomes (98 and 94 conserved genes, respectively) resembling the 71,666-bp Ostreococcus genome (88 genes) in featuring a significantly reduced gene content. The 101,605-bp Pyramimonas genome (110 genes) features two conserved genes (rpl22 and ycf65) and ancestral gene linkages previously unrecognized in chlorophytes as well as a DNA primase gene putatively acquired from a virus. The Pyramimonas and Euglena cpDNAs revealed uniquely shared derived gene clusters. Besides providing unequivocal evidence that the green algal ancestor of the euglenid chloroplasts

  17. High-resolution record of sea ice conditions in Fram Strait sheds new light on ice-ocean interactions and climate variability during the late glacial and Termination 1

    NASA Astrophysics Data System (ADS)

    Müller, Juliane; Stein, Ruediger

    2014-05-01

    Abrupt shifts in the palaeoceanographic setting in the subpolar North Atlantic and a hence significant climate variability characterised the transition from last glacial to deglacial and current interglacial conditions. Knowledge about the crucial role of sea ice coverage during these rapid climate reversals, however, is still limited. Herein we present a high-resolution reconstruction of the sea ice conditions that prevailed in eastern Fram Strait - the only deepwater passage permitting a substantial exchange of water and ice masses between the Arctic and the Atlantic Ocean - during the late glacial and deglacial period (i.e. from 29 ka to 9 ka BP). The joint analysis of the sea ice biomarker IP25 (Belt et al., 2007) and phytoplankton derived biomarkers allows to distinguish between different sea ice conditions and we further provide an even semi-quantitative assessment of the sea ice cover by means of the PIP25 index (Müller et al., 2011). Information about relative sea surface temperature changes is derived from the so-called DIP25 index (Cabedo-Sanz et al., 2013; Fahl & Stein, 2012). Importantly, the exceptional high temporal resolution of the studied sediment core permits the identification of a hitherto unknown variability in the sea ice coverage throughout the late glacial, which finally culminates in a permanent sea ice cover at the end of the Last Glacial Maximum (LGM). We suggest that the heat flow to the Nordic Seas during this critical time interval of Northern Hemisphere ice-sheet growth was rather pulse-like than continuous as is commonly assumed. This new observation of late glacial short-term fluctuations in the sea ice cover has considerable implications for palaeoceanographic proxy and model studies that focus on the LGM. Furthermore, we consider that the abrupt breakup of the perennial sea ice cover in Fram Strait at about 18 ka BP directly contributed to the weakening of the Atlantic Meridional Overturning Circulation (AMOC) during Heinrich

  18. The system analysis of light field information collection based on the light field imaging

    NASA Astrophysics Data System (ADS)

    Wang, Ye; Li, Wenhua; Hao, Chenyang

    2016-10-01

    Augmented reality(AR) technology is becoming the study focus, and the AR effect of the light field imaging makes the research of light field camera attractive. The micro array structure was adopted in most light field information acquisition system(LFIAS) since emergence of light field camera, micro lens array(MLA) and micro pinhole array(MPA) system mainly included. It is reviewed in this paper the structure of the LFIAS that the Light field camera commonly used in recent years. LFIAS has been analyzed based on the theory of geometrical optics. Meanwhile, this paper presents a novel LFIAS, plane grating system, we call it "micro aperture array(MAA." And the LFIAS are analyzed based on the knowledge of information optics; This paper proves that there is a little difference in the multiple image produced by the plane grating system. And the plane grating system can collect and record the amplitude and phase information of the field light.

  19. WASP-14 b: transit timing analysis of 19 light curves

    NASA Astrophysics Data System (ADS)

    Raetz, St.; Maciejewski, G.; Seeliger, M.; Marka, C.; Fernández, M.; Güver, T.; Göğüş, E.; Nowak, G.; Vaňko, M.; Berndt, A.; Eisenbeiss, T.; Mugrauer, M.; Trepl, L.; Gelszinnis, J.

    2015-08-01

    Although WASP-14 b is one of the most massive and densest exoplanets on a tight and eccentric orbit, it has never been a target of photometric follow-up monitoring or dedicated observing campaigns. We report on new photometric transit observations of WASP-14 b obtained within the framework of Transit Timing Variations @ Young Exoplanet Transit Initiative (TTV@YETI). We collected 19 light curves of 13 individual transit events using six telescopes located in five observatories distributed in Europe and Asia. From light-curve modelling, we determined the planetary, stellar, and geometrical properties of the system and found them in agreement with the values from the discovery paper. A test of the robustness of the transit times revealed that in case of a non-reproducible transit shape the uncertainties may be underestimated even with a wavelet-based error estimation methods. For the timing analysis, we included two publicly available transit times from 2007 and 2009. The long observation period of seven years (2007-2013) allowed us to refine the transit ephemeris. We derived an orbital period 1.2 s longer and 10 times more precise than the one given in the discovery paper. We found no significant periodic signal in the timing-residuals and, hence, no evidence for TTV in the system.

  20. Lighting

    SciTech Connect

    Audin, L.

    1994-12-31

    EPAct covers a vast territory beyond lighting and, like all legislation, also contains numerous {open_quotes}favors,{close_quotes} compromises, and even some sleight-of-hand. Tucked away under Title XIX, for example, is an increase from 20% to 28% tax on gambling winnings, effective January 1, 1993 - apparently as a way to help pay for new spending listed elsewhere in the bill. Overall, it is a landmark piece of legislation, about a decade overdue. It remains to be seen how the Federal Government will enforce upgrading of state (or even their own) energy codes. There is no mention of funding for {open_quotes}energy police{close_quotes} in EPAct. Merely creating such a national standard, however, provides a target for those who sincerely wish to create an energy-efficient future.

  1. Lineshape analysis of coherent multidimensional optical spectroscopy using incoherent light

    SciTech Connect

    Ulness, Darin J.; Turner, Daniel B.

    2015-06-07

    Coherent two-dimensional electronic spectroscopy using incoherent (noisy) light, I{sup (4)} 2D ES, holds intriguing challenges and opportunities. One challenge is to determine how I{sup (4)} 2D ES compares to femtosecond 2D ES. Here, we merge the sophisticated energy-gap Hamiltonian formalism that is often used to model femtosecond 2D ES with the factorized time-correlation formalism that is needed to describe I{sup (4)} 2D ES. The analysis reveals that in certain cases the energy-gap Hamiltonian is insufficient to model the spectroscopic technique correctly. The results using a modified energy-gap Hamiltonian show that I{sup (4)} 2D ES can reveal detailed lineshape information, but, contrary to prior reports, does not reveal dynamics during the waiting time.

  2. A simple white noise analysis of neuronal light responses.

    PubMed

    Chichilnisky, E J

    2001-05-01

    A white noise technique is presented for estimating the response properties of spiking visual system neurons. The technique is simple, robust, efficient and well suited to simultaneous recordings from multiple neurons. It provides a complete and easily interpretable model of light responses even for neurons that display a common form of response nonlinearity that precludes classical linear systems analysis. A theoretical justification of the technique is presented that relies only on elementary linear algebra and statistics. Implementation is described with examples. The technique and the underlying model of neural responses are validated using recordings from retinal ganglion cells, and in principle are applicable to other neurons. Advantages and disadvantages of the technique relative to classical approaches are discussed.

  3. Thermal-Hydraulic Analysis of Supercritical Pressure Light Water Reactors

    SciTech Connect

    Cheng, X.; Schulenberg, T.; Koshizuka, S.; Oka, Y.; Souyri, A.

    2002-07-01

    In the frame of the European project HPLWR, joined by European research institutions, industrial partners and the University of Tokyo, thermal-hydraulic analysis of supercritical pressure light water reactors has been carried out. A thorough literature survey on heat transfer of supercritical fluids indicates a large deficiency in the prediction of the heat transfer coefficient and the onset of heat transfer deterioration under the reactor condition. A CFD code for analysing the thermal-hydraulic behaviour of supercritical fluids was developed. Numerical results show that the heat transfer coefficient, including the heat transfer deterioration region, can be well predicted using this CFD code, at least for circular tube geometries. Such a CFD code is well suitable for understanding the heat transfer mechanism. Based on the numerical results, a new heat transfer correlation has been proposed. For the thermal-hydraulic design of an HPLWR fuel assembly, the subchannel analysis code STAR-SC has been developed with a high numerical efficiency and a high applicability to different kinds of fuel assembly configurations. The results show clearly that design of a HPLWR fuel assembly is a highly challenging task. At the same time, sub-channel analysis provides some important guidelines for the design of a HPLWR fuel assembly. (authors)

  4. Principles of Food Science Class Sheds Light on Chemistry

    ERIC Educational Resources Information Center

    Ward, Janet

    2004-01-01

    Many students are curious about the steps in food preparation. As a result of such experiences, the author of this article began to incorporate science demonstrations into food preparation classes. She conducted research, developed resources, and piloted the "Principles of Food Science" class over the next 6 years. "Principles of Food Science"…

  5. Experiments shed new light on nickel-fluorine reactions

    NASA Technical Reports Server (NTRS)

    Fischer, J.; Gunther, W.; Jarry, R. L.

    1967-01-01

    Isotopic tracer experiments and scale-impingement experiments show fluorine to be the migrating species through the nickel fluoride scale formed during the fluorination of nickel. This is in contrast to nickel oxide scales, where nickel is the migrating species.

  6. Raman spectroscopy of natron: shedding light on ancient Egyptian mummification.

    PubMed

    Edwards, Howell G M; Currie, Katherine J; Ali, Hassan R H; Jorge Villar, Susana E; David, A Rosalie; Denton, John

    2007-06-01

    The mummification ritual in ancient Egypt involved the evisceration of the corpse and its desiccation using natron, a naturally occurring evaporitic mineral deposit from the Wadi Natrun, Egypt. The deposit typically contains sodium carbonate, sodium bicarbonate and impurities of chloride and sulfate as its major elemental components. It is believed that the function of the natron was to rapidly remove the water from the cadaver to prevent microbial attack associated with subsequent biological tissue degradation and putrefaction. Several specimens of natron that were recently collected from the Wadi Natrun contained coloured zones interspersed with the mineral matrix that are superficially reminiscent of extremophilic cyanobacterial colonisation found elsewhere in hot and cold deserts. Raman spectroscopy of these specimens using visible and near-infrared laser excitation has revealed not only the mineral composition of the natron, but also evidence for the presence of cyanobacterial colonies in several coloured zones observed in the mineral matrix. Key Raman biosignatures of carotenoids, scytonemin and chlorophyll have been identified.

  7. Shedding Light on Shingles: The Power of Prevention.

    PubMed

    Herman, Lawrence; Levin, Myron J; Rehm, Susan

    2016-10-01

    Shingles, or herpes zoster (HZ), is a common secondary infection caused by a reactivated varicella zoster virus (VZV). More than 95% of immunocompetent individuals aged at least 50 years are seropositive for VZV and are therefore at risk for developing HZ. Age-related increased incidence of HZ and its complications are thought to be related to the decline in cell-mediated immunity. Complications of HZ, which create a significant patient and economic burden, may be neurological, ophthalmological, dermatological, or visceral. HZ vaccination is essential for the prevention of HZ and its consequences. This CME activity reviews the clinical presentations and complications of HZ as well as discusses strategies for prevention (Online access: http://courses.elseviercme.com/shingles/626).

  8. Proteomics approaches shed new light on hibernation physiology.

    PubMed

    Grabek, Katharine R; Martin, Sandra L; Hindle, Allyson G

    2015-08-01

    The broad phylogenetic distribution and rapid phenotypic transitions of mammalian hibernators imply that hibernation is accomplished by differential expression of common genes. Traditional candidate gene approaches have thus far explained little of the molecular mechanisms underlying hibernation, likely due to (1) incomplete and imprecise sampling of a complex phenotype, and (2) the forming of hypotheses about which genes might be important based on studies of model organisms incapable of such dynamic physiology. Unbiased screening approaches, such as proteomics, offer an alternative means to discover the cellular underpinnings that permit successful hibernation and may reveal previously overlooked, important pathways. Here, we review the findings that have emerged from proteomics studies of hibernation. One striking feature is the stability of the proteome, especially across the extreme physiological shifts of torpor-arousal cycles during hibernation. This has led to subsequent investigations of the role of post-translational protein modifications in altering protein activity without energetically wasteful removal and rebuilding of protein pools. Another unexpected finding is the paucity of universal proteomic adjustments across organ systems in response to the extreme metabolic fluctuations despite the universality of their physiological challenges; rather each organ appears to respond in a unique, tissue-specific manner. Additional research is needed to extend and synthesize these results before it will be possible to address the whole body physiology of hibernation.

  9. Innovative Visualizations Shed Light on Avian Nocturnal Migration

    PubMed Central

    Farnsworth, Andrew; Aelterman, Bart; Alves, Jose A.; Azijn, Kevin; Bernstein, Garrett; Branco, Sérgio; Desmet, Peter; Dokter, Adriaan M.; Horton, Kyle; Kelling, Steve; Kelly, Jeffrey F.; Leijnse, Hidde; Rong, Jingjing; Sheldon, Daniel; Van den Broeck, Wouter; Van Den Meersche, Jan Klaas; Van Doren, Benjamin Mark; van Gasteren, Hans

    2016-01-01

    Globally, billions of flying animals undergo seasonal migrations, many of which occur at night. The temporal and spatial scales at which migrations occur and our inability to directly observe these nocturnal movements makes monitoring and characterizing this critical period in migratory animals’ life cycles difficult. Remote sensing, therefore, has played an important role in our understanding of large-scale nocturnal bird migrations. Weather surveillance radar networks in Europe and North America have great potential for long-term low-cost monitoring of bird migration at scales that have previously been impossible to achieve. Such long-term monitoring, however, poses a number of challenges for the ornithological and ecological communities: how does one take advantage of this vast data resource, integrate information across multiple sensors and large spatial and temporal scales, and visually represent the data for interpretation and dissemination, considering the dynamic nature of migration? We assembled an interdisciplinary team of ecologists, meteorologists, computer scientists, and graphic designers to develop two different flow visualizations, which are interactive and open source, in order to create novel representations of broad-front nocturnal bird migration to address a primary impediment to long-term, large-scale nocturnal migration monitoring. We have applied these visualization techniques to mass bird migration events recorded by two different weather surveillance radar networks covering regions in Europe and North America. These applications show the flexibility and portability of such an approach. The visualizations provide an intuitive representation of the scale and dynamics of these complex systems, are easily accessible for a broad interest group, and are biologically insightful. Additionally, they facilitate fundamental ecological research, conservation, mitigation of human–wildlife conflicts, improvement of meteorological products, and public outreach, education, and engagement. PMID:27557096

  10. CIA sheds new light on nuclear control in CIS

    SciTech Connect

    Lockwood, D.

    1993-03-01

    In a wide-ranging presentation to the Senate Governmental Affairs Committee February 24, 1993, newly installed CIA director James Woolsey and one of his senior aides provided a great deal of new information on nuclear weapons issues and how they are controlled in the former USSR. The main topics covered in the briefing are briefly discussed.

  11. Mutation directional selection sheds light on prion pathogenesis

    SciTech Connect

    Shen, Liang; Ji, Hong-Fang

    2011-07-01

    Highlights: {yields} Most pathogenic mutations possess strong directional selection, i.e., enhancing hydrophobicity or decreasing negative and increasing positive charge. {yields} Mutation-induced changes may strengthen the interactions between PrP and facilitating factors. {yields} The findings also have significant implications for exploring potential regions involved in the conformational transition from PrP{sup C} to PrP{sup Sc}. -- Abstract: As mutations in the PRNP gene account for human hereditary prion diseases (PrDs), it is crucial to elucidating how these mutations affect the central pathogenic conformational transition of normal cellular prion protein (PrP{sup C}) to abnormal scrapie isoform (PrP{sup Sc}). Many studies proposed that these pathogenic mutations may make PrP more susceptible to conformational change through altering its structure stability. By evaluating the most recent observations regarding pathogenic mutations, it was found that the pathogenic mutations do not exert a uniform effect on the thermodynamic stability of the human PrP's structure. Through analyzing the reported PrDs-related mutations, we found that 25 out of 27 mutations possess strong directional selection, i.e., enhancing hydrophobicity or decreasing negative and increasing positive charge. Based on the triggering role reported by previous studies of facilitating factors in PrP{sup C} conversion, e.g., lipid and polyanion, we proposed that the mutation-induced changes may strengthen the interaction between PrP and facilitating factors, which will accelerate PrP conversion and cause PrDs.

  12. Principles of Food Science Class Sheds Light on Chemistry

    ERIC Educational Resources Information Center

    Ward, Janet

    2004-01-01

    Many students are curious about the steps in food preparation. As a result of such experiences, the author of this article began to incorporate science demonstrations into food preparation classes. She conducted research, developed resources, and piloted the "Principles of Food Science" class over the next 6 years. "Principles of Food Science"…

  13. Shed a Little Light: Eight Illuminating Axioms of Market Research.

    ERIC Educational Resources Information Center

    Ryan, G. Jeremiah

    1993-01-01

    Principles for college market research include (1) only ask relevant questions; (2) ask key questions often; (3) compare responses; (4) ask important questions of many people; (4) keep the research simple; (5) don't cut corners; (6) listen to the customer through focus groups and complaint systems; and (7) share the information with people who can…

  14. Genomic Dark Matter Sheds Light on EVI1-driven Leukemia

    PubMed Central

    Koche, Richard; Armstrong, Scott A.

    2014-01-01

    The orchestration of transcriptional programs depends on proper gene-enhancer pairing. While much remains to be learned about this process in normal development, two recent studies in Cell and Cancer Cell highlight how the genomic rearrangement of an enhancer plays a causal role in the onset of a leukemogenic program. PMID:24735919

  15. Innovative Visualizations Shed Light on Avian Nocturnal Migration.

    PubMed

    Shamoun-Baranes, Judy; Farnsworth, Andrew; Aelterman, Bart; Alves, Jose A; Azijn, Kevin; Bernstein, Garrett; Branco, Sérgio; Desmet, Peter; Dokter, Adriaan M; Horton, Kyle; Kelling, Steve; Kelly, Jeffrey F; Leijnse, Hidde; Rong, Jingjing; Sheldon, Daniel; Van den Broeck, Wouter; Van Den Meersche, Jan Klaas; Van Doren, Benjamin Mark; van Gasteren, Hans

    2016-01-01

    Globally, billions of flying animals undergo seasonal migrations, many of which occur at night. The temporal and spatial scales at which migrations occur and our inability to directly observe these nocturnal movements makes monitoring and characterizing this critical period in migratory animals' life cycles difficult. Remote sensing, therefore, has played an important role in our understanding of large-scale nocturnal bird migrations. Weather surveillance radar networks in Europe and North America have great potential for long-term low-cost monitoring of bird migration at scales that have previously been impossible to achieve. Such long-term monitoring, however, poses a number of challenges for the ornithological and ecological communities: how does one take advantage of this vast data resource, integrate information across multiple sensors and large spatial and temporal scales, and visually represent the data for interpretation and dissemination, considering the dynamic nature of migration? We assembled an interdisciplinary team of ecologists, meteorologists, computer scientists, and graphic designers to develop two different flow visualizations, which are interactive and open source, in order to create novel representations of broad-front nocturnal bird migration to address a primary impediment to long-term, large-scale nocturnal migration monitoring. We have applied these visualization techniques to mass bird migration events recorded by two different weather surveillance radar networks covering regions in Europe and North America. These applications show the flexibility and portability of such an approach. The visualizations provide an intuitive representation of the scale and dynamics of these complex systems, are easily accessible for a broad interest group, and are biologically insightful. Additionally, they facilitate fundamental ecological research, conservation, mitigation of human-wildlife conflicts, improvement of meteorological products, and public outreach, education, and engagement.

  16. Shed a Little Light: Eight Illuminating Axioms of Market Research.

    ERIC Educational Resources Information Center

    Ryan, G. Jeremiah

    1993-01-01

    Principles for college market research include (1) only ask relevant questions; (2) ask key questions often; (3) compare responses; (4) ask important questions of many people; (4) keep the research simple; (5) don't cut corners; (6) listen to the customer through focus groups and complaint systems; and (7) share the information with people who can…

  17. Shedding light on the growth of gold nanoshells.

    PubMed

    Sauerbeck, Christian; Haderlein, Michael; Schürer, Benedikt; Braunschweig, Björn; Peukert, Wolfgang; Klupp Taylor, Robin N

    2014-03-25

    Nanostructured particles containing noble metals can have highly tunable localized surface plasmon resonances and are therefore of particular interest for numerous applications. Nanoshells comprising a dielectric core and gold or silver shell are a widely researched systems because of the strong dependence of their optical properties on the ratio of core diameter to shell thickness. Although seeded-growth procedures have been developed to produce these particles, the many reported studies show significant variation in the nanoshell morphologies and hence optical properties. In order to establish processes that reproducibly synthesize nanoshells with high optical quality, it is necessary to develop techniques that monitor changes at the core particle surface during shell growth. For that purpose, we have carried out in situ nonlinear second-harmonic scattering (SHS) and linear vis-NIR extinction spectroscopy simultaneously during the seeded growth of gold nanoshells on silica core particles. Our SHS measurements show a striking variation in the nonlinear optical properties of the growing gold nanoshells. In comparison with linear optical measurements and with scanning electron microscopy (SEM) images made of gold nanoshells produced with varying shell completenesses, the SHS signal was observed to reach a peak intensity at a stage prior to shell closure. We attribute this high sensitivity of the SHS signal to the incomplete nanoshell surface morphology to the generation and subsequent degeneration of regions of electric field enhancement at gaps between isolated gold islands, which grow and coalesce. This conclusion is corroborated by finite-difference time-domain simulations of incomplete nanoshells. We suggest that the in situ analytical approach demonstrated here offers significant promise for future activities regarding the in-process optimization of the morphology and optical properties of metal nanoshells and other nanostructured plasmonic particles.

  18. Shedding light on the matter of Abell 781

    NASA Astrophysics Data System (ADS)

    Wittman, D.; Dawson, William; Benson, Bryant

    2014-02-01

    The galaxy cluster Abell 781 West has been viewed as a challenge to weak gravitational lensing mass calibration, as Cook & dell'Antonio found that the weak lensing signal-to-noise ratio in three independent sets of observations was consistently lower than expected from mass models based on X-ray and dynamical measurements. We correct some errors in statistical inference in Cook & dell'Antonio and show that their own results agree well with the dynamical mass and exhibit at most 2.2-2.9σ low compared to the X-ray mass, similar to the tension between the dynamical and X-ray masses. Replacing their simple magnitude cut with weights based on source photometric redshifts eliminates the tension between lensing and X-ray masses; in this case the weak lensing mass estimate is actually higher than, but still in agreement with, the dynamical estimate. A comparison of lensing analyses with and without photometric redshifts shows that a 1-2σ chance alignment of low-redshift sources lowers the signal-to-noise ratio observed by all previous studies which used magnitude cuts rather than photometric redshifts. The fluctuation is unexceptional, but appeared to be highly significant in Cook & dell'Antonio due to the errors in statistical interpretation.

  19. Shedding Light on Students' Technology Preferences: Implications for Academic Development

    ERIC Educational Resources Information Center

    Mirriahi, Negin; Alonzo, Dennis

    2015-01-01

    This study built on previous research in 2010 to determine changes to students' current use of and expectations for future integration of technologies in their learning experience. The findings reveal a continued trend of conservative technology use amongst students but with a growing demand for more integration of technologies for assessment and…

  20. Shedding light on the evolution of plasticity in natural populations.

    PubMed

    Hyma, Katie E; Caicedo, Ana L

    2011-09-01

    Plasticity allows for changes in phenotype in response to environmental cues, often facilitating local adaptation to seasonal environments. Phenotypic plasticity alone, however, may not always be sufficient to ensure adaptation to new localities. In particular, changing cues associated with shifting seasonal regimes may no longer induce appropriate phenotypic responses in new environments (Nicotra et al. 2010). Plastic responses must thus evolve to avoid being maladaptive. To date, the extent to which plastic responses can change and the genetic mechanisms by which this can happen have remained elusive. In this issue of Molecular Ecology, Blackman et al. (2011a) harness natural variation in flowering time among populations of the wild sunflower, Helianthus annuus, to demonstrate that plasticity has indeed evolved in this species. Remarkably, they are able to detect changes in gene expression that are associated with both a loss of plasticity and a reversal of the plastic response. These changes occur in two separate, but integrated, regulatory pathways controlling the transition to flowering, suggesting that complex regulatory networks that incorporate multiple environmental and developmental cues may facilitate the evolution of plastic responses. This study leverages knowledge from plant genetic models to provide a surprising level of insight into the evolution of an adaptive trait in a non-model species. Through discoveries of the roles of gene duplication and network modularity in the evolution of plastic responses, the study raises questions about the degree to which species-specific network architectures may act as a constraint to the potential of adaptation. © 2011 Blackwell Publishing Ltd.

  1. Shedding light on the 'dark side' of phylogenetic comparative methods.

    PubMed

    Cooper, Natalie; Thomas, Gavin H; FitzJohn, Richard G

    2016-06-01

    Phylogenetic comparative methods are becoming increasingly popular for investigating evolutionary patterns and processes. However, these methods are not infallible - they suffer from biases and make assumptions like all other statistical methods.Unfortunately, although these limitations are generally well known in the phylogenetic comparative methods community, they are often inadequately assessed in empirical studies leading to misinterpreted results and poor model fits. Here, we explore reasons for the communication gap dividing those developing new methods and those using them.We suggest that some important pieces of information are missing from the literature and that others are difficult to extract from long, technical papers. We also highlight problems with users jumping straight into software implementations of methods (e.g. in r) that may lack documentation on biases and assumptions that are mentioned in the original papers.To help solve these problems, we make a number of suggestions including providing blog posts or videos to explain new methods in less technical terms, encouraging reproducibility and code sharing, making wiki-style pages summarising the literature on popular methods, more careful consideration and testing of whether a method is appropriate for a given question/data set, increased collaboration, and a shift from publishing purely novel methods to publishing improvements to existing methods and ways of detecting biases or testing model fit. Many of these points are applicable across methods in ecology and evolution, not just phylogenetic comparative methods.

  2. Subsurface Images Shed Light on Past Tsunamis in India

    NASA Astrophysics Data System (ADS)

    Nair, Rajesh R.; Buynevich, Ilya; Goble, Ronald J.; Srinivasan, P.; Murthy, S. G. N.; Kandpal, S. C.; Lakshmi, C. S. Vijaya; Trivedi, D.

    2010-12-01

    The 2004 Indian Ocean tsunami caused massive devastation and left a lasting impact along many of the major coastal regions in South Asia, including the coast of Tamil Nadu, a state in the southeastern tip of India. Following the event, sand deposits draped the low-lying areas and buried the muddy sediments of the coastal plain [Babu et al., 2007; Srinivasalu et al., 2007]. In addition, erosional features related to the tsunami, such as channels and scarps, have been observed along many parts of the coast (Figure 1a). This tsunami, along with a recorded history of intense monsoons, has highlighted the need for focused research on the role of extreme events in shaping the geological character of India's coastal plains.

  3. A Book Club Sheds Light on Boys and Reading

    ERIC Educational Resources Information Center

    Weih, Timothy G.

    2008-01-01

    This article is about a book club for middle school boys. The idea of a book club for boys came from the author's concern about what he had been hearing and reading about boys falling behind in their reading abilities. The purpose of establishing the club was to discover from the boys themselves what could be done to support them in their reading.…

  4. Shedding Light on the Battlefield: Tactical Applications of Photonic Technology

    DTIC Science & Technology

    2004-11-01

    15 Electronic Alternatives .......................................................................................................16...Electronic Alternatives It is our contention that the significant signal loss and degradation that occur in electrical interconnects as signal speeds...transmission losses and degradation, one can, alternatively , distort data prior to transmission and process it after detection. Further, the bandwidth

  5. Shedding Light on the Inverse-Square Law

    ERIC Educational Resources Information Center

    Uthe, Richard E.

    2004-01-01

    Many students in introductory science courses at both the secondary and tertiary levels learn science as a miscellaneous collection of facts, concepts, and equations that must be memorized to pass examinations. One way to show students that they actually can "do" science is to have them use an observable event to generate a relationship that can…

  6. Shedding light on paraspeckle structure by super-resolution microscopy

    PubMed Central

    Hu, Shi-Bin; Yao, Run-Wen

    2016-01-01

    The nuclear body paraspeckle is built on the lncRNA Neat1 and plays important roles in gene regulation. In this issue, West et al. (2016. J. Cell Biol. http://dx.doi.org/10.1083/jcb.201601071) use super-resolution structured illumination microscopy to show that paraspeckles are organized in a core-shell spheroidal structure composed of Neat1 and seven proteins. PMID:27646270

  7. Shedding Light on the Formation of Gold Nanorods

    NASA Astrophysics Data System (ADS)

    Lopez, Orlando; Hudry, Damien; Nykypanchuk, Dmytro

    A significant interest in the study and synthesis of one-dimensional materials such as nanorods or nanowires is sparked by their potential application in electronics, photonics and biodetection. However, the synthesis of these low dimensional materials is not always reliable due to kinetic effects in symmetry breaking and high sensitivity to impurities. In this work we discuss the synthesis of gold nanorods and new ways to achieve symmetry breaking during the growth from seed solution, hence maximizing the yield of nanorods. We discuss the mechanism involved in symmetry breaking and general strategies to improve the nanorod morphology and synthetic yield. This work can serve as a starting point to design reproducible synthetic strategies for preparing high quality gold nanorods. This project was supported by the U.S. Department of Energy, Office of Science, under the Science Undergraduate Laboratory Internships Program and used resources of the C.F.N., which is a U.S. DOE Facility, at B.N.L., Contract No. DE-SC0012704.

  8. Lidar: shedding new light on habitat characterization and modeling.

    Treesearch

    Kerri T. Vierling; Lee A. Vierling; William A. Gould; Sebastian Martinuzzi; Rick M. Clawges

    2008-01-01

    Ecologists need data on animal–habitat associations in terrestrial and aquatic environments to design and implement effective conservation strategies. Habitat characteristics used in models typically incorporate (1) field data of limited spatial extent and/or (2) remote sensing data that do not characterize the vertical habitat structure. Remote sensing tools that...

  9. Phosphoglucan phosphatase function sheds light on starch degradation.

    PubMed

    Silver, Dylan M; Kötting, Oliver; Moorhead, Greg B G

    2014-07-01

    Phosphoglucan phosphatases are novel enzymes that remove phosphates from complex carbohydrates. In plants, these proteins are vital components in the remobilization of leaf starch at night. Breakdown of starch is initiated through reversible glucan phosphorylation to disrupt the semi-crystalline starch structure at the granule surface. The phosphoglucan phosphatases starch excess 4 (SEX4) and like-SEX4 2 (LSF2) dephosphorylate glucans to provide access for amylases that release maltose and glucose from starch. Another phosphatase, LSF1, is a putative inactive scaffold protein that may act as regulator of starch degradative enzymes at the granule surface. Absence of these phosphatases disrupts starch breakdown, resulting in plants accumulating excess starch. Here, we describe recent advances in understanding the biochemical and structural properties of each of these starch phosphatases.

  10. Laminar Soot Processes Experiment Shedding Light on Flame Radiation

    NASA Technical Reports Server (NTRS)

    Urban, David L.

    1998-01-01

    The Laminar Soot Processes (LSP) experiment investigated soot processes in nonturbulent, round gas jet diffusion flames in still air. The soot processes within these flames are relevant to practical combustion in aircraft propulsion systems, diesel engines, and furnaces. However, for the LSP experiment, the flames were slowed and spread out to allow measurements that are not tractable for practical, Earth-bound flames.

  11. Chlamydial genes shed light on the evolution of photoautotrophic eukaryotes.

    PubMed

    Becker, Burkhard; Hoef-Emden, Kerstin; Melkonian, Michael

    2008-07-15

    Chlamydiae are obligate intracellular bacteria of protists, invertebrates and vertebrates, but have not been found to date in photosynthetic eukaryotes (algae and embryophytes). Genes of putative chlamydial origin, however, are present in significant numbers in sequenced genomes of photosynthetic eukaryotes. It has been suggested that such genes were acquired by an ancient horizontal gene transfer from Chlamydiae to the ancestor of photosynthetic eukaryotes. To further test this hypothesis, an extensive search for proteins of chlamydial origin was performed using several recently sequenced algal genomes and EST databases, and the proteins subjected to phylogenetic analyses. A total of 39 proteins of chlamydial origin were retrieved from the photosynthetic eukaryotes analyzed and their identity verified through phylogenetic analyses. The distribution of the chlamydial proteins among four groups of photosynthetic eukaryotes (Viridiplantae, Rhodoplantae, Glaucoplantae, Bacillariophyta) was complex suggesting multiple acquisitions and losses. Evidence is presented that all except one of the chlamydial genes originated from an ancient endosymbiosis of a chlamydial bacterium into the ancestor of the Plantae before their divergence into Viridiplantae, Rhodoplantae and Glaucoplantae, i.e. more than 1.1 BYA. The chlamydial proteins subsequently spread through secondary plastid endosymbioses to other eukaryotes. Of 20 chlamydial proteins recovered from the genomes of two Bacillariophyta, 10 were of rhodoplant, and 10 of viridiplant origin suggesting that they were acquired by two different secondary endosymbioses. Phylogenetic analyses of concatenated sequences demonstrated that the viridiplant secondary endosymbiosis likely occurred before the divergence of Chlorophyta and Streptophyta. We identified 39 proteins of chlamydial origin in photosynthetic eukaryotes signaling an ancient invasion of the ancestor of the Plantae by a chlamydial bacterium accompanied by horizontal gene transfer. Subsequently, chlamydial proteins spread through secondary endosymbioses to other eukaryotes. We conclude that intracellular chlamydiae likely persisted throughout the early history of the Plantae donating genes to their hosts that replaced their cyanobacterial/plastid homologs thus shaping early algal/plant evolution before they eventually vanished.

  12. Modern vitiligo genetics sheds new light on an ancient disease

    PubMed Central

    SPRITZ, Richard A.

    2013-01-01

    Vitiligo is a complex disorder in which autoimmune destruction of melanocytes results in white patches of skin and overlying hair. Over the past several years, extensive genetic studies have outlined a biological framework of vitiligo pathobiology that underscores its relationship to other autoimmune diseases. This biological framework offers insight into both vitiligo pathogenesis and perhaps avenues towards more effective approaches to treatment and even disease prevention. PMID:23668538

  13. Newly discovered sister lineage sheds light on early ant evolution

    PubMed Central

    Rabeling, Christian; Brown, Jeremy M.; Verhaagh, Manfred

    2008-01-01

    Ants are the world's most conspicuous and important eusocial insects and their diversity, abundance, and extreme behavioral specializations make them a model system for several disciplines within the biological sciences. Here, we report the discovery of a new ant that appears to represent the sister lineage to all extant ants (Hymenoptera: Formicidae). The phylogenetic position of this cryptic predator from the soils of the Amazon rainforest was inferred from several nuclear genes, sequenced from a single leg. Martialis heureka (gen. et sp. nov.) also constitutes the sole representative of a new, morphologically distinct subfamily of ants, the Martialinae (subfam. nov.). Our analyses have reduced the likelihood of long-branch attraction artifacts that have troubled previous phylogenetic studies of early-diverging ants and therefore solidify the emerging view that the most basal extant ant lineages are cryptic, hypogaeic foragers. On the basis of morphological and phylogenetic evidence we suggest that these specialized subterranean predators are the sole surviving representatives of a highly divergent lineage that arose near the dawn of ant diversification and have persisted in ecologically stable environments like tropical soils over great spans of time. PMID:18794530

  14. Seronegative celiac disease: Shedding light on an obscure clinical entity.

    PubMed

    Volta, Umberto; Caio, Giacomo; Boschetti, Elisa; Giancola, Fiorella; Rhoden, Kerry J; Ruggeri, Eugenio; Paterini, Paola; De Giorgio, Roberto

    2016-09-01

    Although serological tests are useful for identifying celiac disease, it is well established that a minority of celiacs are seronegative. To define the prevalence and features of seronegative compared to seropositive celiac disease, and to establish whether celiac disease is a common cause of seronegative villous atrophy. Starting from 810 celiac disease diagnoses, seronegative patients were retrospectively characterized for clinical, histological and laboratory findings. Of the 810 patients, fourteen fulfilled the diagnostic criteria for seronegative celiac disease based on antibody negativity, villous atrophy, HLA-DQ2/-DQ8 positivity and clinical/histological improvement after gluten free diet. Compared to seropositive, seronegative celiac disease showed a significantly higher median age at diagnosis and a higher prevalence of classical phenotype (i.e., malabsorption), autoimmune disorders and severe villous atrophy. The most frequent diagnosis in the 31 cases with seronegative flat mucosa was celiac disease (45%), whereas other diagnoses were Giardiasis (20%), common variable immunodeficiency (16%) and autoimmune enteropathy (10%). Although rare seronegative celiac disease can be regarded as the most frequent cause of seronegative villous atrophy being characterized by a high median age at diagnosis; a close association with malabsorption and flat mucosa; and a high prevalence of autoimmune disorders. Copyright © 2016 Editrice Gastroenterologica Italiana S.r.l. Published by Elsevier Ltd. All rights reserved.

  15. Study Sheds New Light on Postmenopausal Breast Cancer Risk | Poster

    Cancer.gov

    A collaborative study conducted at the Frederick National Lab and published in Cancer Research has provided new insight as to why elevated estrogen levels are associated with an increased risk of breast cancer.

  16. The last diadectomorph sheds light on Late Palaeozoic tetrapod biogeography

    PubMed Central

    Liu, Jun; Bever, G. S.

    2015-01-01

    Diadectomorpha is a clade of Late Palaeozoic vertebrates widely recognized as the sister group of crown-group Amniota and the first tetrapod lineage to evolve high-fibre herbivory. Despite their evolutionary importance, diadectomorphs are restricted stratigraphically and geographically, with all records being from the Upper Carboniferous and Lower Permian of North America and Germany. We describe a new diadectomorph, Alveusdectes fenestralis, based on a partial skull from the Upper Permian of China. The new species exhibits the derived mechanism for herbivory and is recovered phylogenetically as a deeply nested diadectid. Approximately 16 Myr younger than any other diadectomorph, Alveusdectes is the product of at least a 46 Myr ghost lineage. How much of this time was probably spent in Russia and/or central Asia will remain unclear until a specimen is described that subdivides this cryptic history, but the lineage assuredly crossed this region before entering the relatively isolated continent of North China. The discovery of Alveusdectes raises important questions regarding diadectomorph extinction dynamics including what, if any, ecological factors limited the diversity of this group in eastern Pangea. It also suggests that increased sampling in Asia will likely significantly affect our views of clade and faunal insularity leading up to the Permo-Triassic extinction. PMID:25948572

  17. Study Sheds Light on Effects of Hate Crimes.

    ERIC Educational Resources Information Center

    Moore, Megan, N.; Harper, Shaun R.; Hildebrand, Emily S.; Burns, Shannon L.

    2000-01-01

    Discussion of effects of hate crime on college campuses reports findings of a survey taken three months after a fatal hate crime. The study found that students in the targeted group, especially females and organizational leaders, had increased extracurricular involvement in campus organizations. Also provides statistics on racist acts on campus…

  18. Cassini sheds light on Titan's second largest lake, Ligeia Mare

    NASA Astrophysics Data System (ADS)

    Wendel, JoAnna

    2014-04-01

    Saturn's largest moon, Titan, is known for its dense, planet-like atmosphere and large lakes most likely made of methane and ethane. It has been suggested that Titan's atmosphere and surface are a model of early Earth. Since the early 2000s, NASA's Cassini space probe has been unlocking secrets of the distant moon.

  19. Study Sheds Light on Effects of Hate Crimes.

    ERIC Educational Resources Information Center

    Moore, Megan, N.; Harper, Shaun R.; Hildebrand, Emily S.; Burns, Shannon L.

    2000-01-01

    Discussion of effects of hate crime on college campuses reports findings of a survey taken three months after a fatal hate crime. The study found that students in the targeted group, especially females and organizational leaders, had increased extracurricular involvement in campus organizations. Also provides statistics on racist acts on campus…

  20. Shedding light on ovothiol biosynthesis in marine metazoans

    PubMed Central

    Castellano, Immacolata; Migliaccio, Oriana; D’Aniello, Salvatore; Merlino, Antonello; Napolitano, Alessandra; Palumbo, Anna

    2016-01-01

    Ovothiol, isolated from marine invertebrate eggs, is considered one of the most powerful antioxidant with potential for drug development. However, its biological functions in marine organisms still represent a matter of debate. In sea urchins, the most accepted view is that ovothiol protects the eggs by the high oxidative burst at fertilization. In this work we address the role of ovothiol during sea urchin development to give new insights on ovothiol biosynthesis in metazoans. The gene involved in ovothiol biosynthesis OvoA was identified in Paracentrotus lividus genome (PlOvoA). PlOvoA embryo expression significantly increased at the pluteus stage and was up-regulated by metals at concentrations mimicking polluted sea-water and by cyclic toxic algal blooms, leading to ovothiol biosynthesis. In silico analyses of the PlOvoA upstream region revealed metal and stress responsive elements. Structural protein models highlighted conserved active site residues likely responsible for ovothiol biosynthesis. Phylogenetic analyses indicated that OvoA evolved in most marine metazoans and was lost in bony vertebrates during the transition from the aquatic to terrestrial environment. These results highlight the crucial role of OvoA in protecting embryos released in seawater from environmental cues, thus allowing the survival under different conditions. PMID:26916575

  1. The last diadectomorph sheds light on Late Palaeozoic tetrapod biogeography.

    PubMed

    Liu, Jun; Bever, G S

    2015-05-01

    Diadectomorpha is a clade of Late Palaeozoic vertebrates widely recognized as the sister group of crown-group Amniota and the first tetrapod lineage to evolve high-fibre herbivory. Despite their evolutionary importance, diadectomorphs are restricted stratigraphically and geographically, with all records being from the Upper Carboniferous and Lower Permian of North America and Germany. We describe a new diadectomorph, Alveusdectes fenestralis, based on a partial skull from the Upper Permian of China. The new species exhibits the derived mechanism for herbivory and is recovered phylogenetically as a deeply nested diadectid. Approximately 16 Myr younger than any other diadectomorph, Alveusdectes is the product of at least a 46 Myr ghost lineage. How much of this time was probably spent in Russia and/or central Asia will remain unclear until a specimen is described that subdivides this cryptic history, but the lineage assuredly crossed this region before entering the relatively isolated continent of North China. The discovery of Alveusdectes raises important questions regarding diadectomorph extinction dynamics including what, if any, ecological factors limited the diversity of this group in eastern Pangea. It also suggests that increased sampling in Asia will likely significantly affect our views of clade and faunal insularity leading up to the Permo-Triassic extinction.

  2. Shedding light on vitamin D and integrative oncology.

    PubMed

    Cantor, Ira

    2008-06-01

    Studies show an important relationship between vitamin D and malignancies, both in prevention and treatment. The extraskeletal actions of vitamin D relevant to oncology include being proapoptotic, antimetastatic, antiangiogenic, antiinflammatory, prodifferentiating, and immunomodulating. Widespread and severe vitamin D deficiencies exist worldwide. Decreased sun exposure, caused by lifestyle changes, as well as fear of skin cancers, is the main cause of these deficiencies. Recommended daily oral intakes, as well as suggested blood levels, are below optimal levels suggested by studies. Improvement in vitamin D status, through lifestyle changes and supplementation, can be of profound benefit regarding the occurrence and mortality of malignancies.

  3. PRISM: Shedding Light on NCTM's Recommendations for the 1980s.

    ERIC Educational Resources Information Center

    Suydam, Marilyn N; Higgins, Jon L.

    1980-01-01

    Information from the Priorities in School Mathematics (PRISM) project, designed as a systematic attempt to assess preferences and priorities for mathematics curriculum change, are presented in relation to eight NCTM recommendations. (MP)

  4. Studies Shed Light on How Cheating Impedes Learning

    ERIC Educational Resources Information Center

    Sparks, Sarah D.

    2011-01-01

    This article reports on new research which shows that, when students succeed at cheating on tests, they get duped into thinking they're smarter than they really are. In four experiments detailed in the March "Proceedings of the National Academy of Sciences", researchers from the Harvard Business School and Duke University found that cheaters pay…

  5. Diamond: shedding light on structure-based drug discovery.

    PubMed

    Brown, David G; Shotton, Elizabeth J

    2015-03-06

    Structure-based drug design has become a key tool for the development of novel drugs. The process involves elucidating the three-dimensional structure of the potential drug molecule bound to the target protein that has been identified as playing a key role in the disease state. Using this three-dimensional information facilitates the process of making improvements to the potential drug molecule by highlighting existing and possible new interactions within the binding site. This knowledge is used to inform increases in potency and selectivity of the molecules as well as to help improve other drug-like properties. The speed and numbers of samples that can be studied, combined with the improved resolution of the structures that can be obtained using synchrotron radiation, have had a significant impact on the utilization of crystallography in the drug discovery process.

  6. Melatonin and human reproduction: shedding light on the darkness hormone.

    PubMed

    Srinivasan, Venkatramanujam; Spence, Warren D; Pandi-Perumal, Seithikurippu R; Zakharia, Rahima; Bhatnagar, Kunwar P; Brzezinski, Amnon

    2009-12-01

    Melatonin, N-acetyl-5-methoxytryptamine, is a molecule with diverse physiological functions. This neuro-hormone affects reproductive performance in a wide variety of species. In most animals, but not exclusively all, melatonin has an antigonadotrophic effect. The seasonal changes in the number of hours per day that melatonin is secreted mediate the temporal coupling of reproductive activity to seasonal changes in day-length. These observations stimulated a search for a role for the pineal gland and melatonin in human reproduction. Clinical experience related to this issue has yielded inconclusive and sometimes conflicting results. This article reviews the current available evidence concerning the effects of melatonin on human reproductive processes (e.g., puberty, ovulation, pregnancy, and fertility). Possible reasons for the vagueness and elusiveness of the clinical effects are discussed.

  7. Shedding light on fish otolith biomineralization using a bioenergetic approach.

    PubMed

    Fablet, Ronan; Pecquerie, Laure; de Pontual, Hélène; Høie, Hans; Millner, Richard; Mosegaard, Henrik; Kooijman, Sebastiaan A L M

    2011-01-01

    Otoliths are biocalcified bodies connected to the sensory system in the inner ears of fish. Their layered, biorhythm-following formation provides individual records of the age, the individual history and the natural environment of extinct and living fish species. Such data are critical for ecosystem and fisheries monitoring. They however often lack validation and the poor understanding of biomineralization mechanisms has led to striking examples of misinterpretations and subsequent erroneous conclusions in fish ecology and fisheries management. Here we develop and validate a numerical model of otolith biomineralization. Based on a general bioenergetic theory, it disentangles the complex interplay between metabolic and temperature effects on biomineralization. This model resolves controversial issues and explains poorly understood observations of otolith formation. It represents a unique simulation tool to improve otolith interpretation and applications, and, beyond, to address the effects of both climate change and ocean acidification on other biomineralizing organisms such as corals and bivalves.

  8. Absorbent Mind Update: Research Sheds New Light on Montessori Theory.

    ERIC Educational Resources Information Center

    Haines, Annette M.

    1993-01-01

    Explores Maria Montessori's notion that a young child's brain is significantly different from an adult's and that young children develop according to a series of predictable "sensitive periods." Cites numerous empirical studies that support these and other ideas Montessori postulated without the advantage of sophisticated scientific…

  9. Proteomics shed light on the brassinosteroid signaling mechanisms

    PubMed Central

    Tang, Wenqiang; Deng, Zhiping; Wang, Zhi-Yong

    2009-01-01

    Large numbers of receptor-like kinases (RLKs) play key roles in plant development and defense by perceiving extracellular signals. The mechanisms of ligand-induced kinase activation and downstream signal transduction have been studied for only a few RLK pathways, among which the brassinosteroid (BR) pathway is the best characterized. Recently, proteomics studies identified new components that bridge the last gap in the genetically defined BR-signaling pathway, establishing the first complete pathway from an RLK to transcription factors in plants. Furthermore, analyses of phosphorylation events, mostly by mass spectrometry, provided insights into the mechanistic details of receptor kinase activation and regulation of downstream components by phosphorylation. This review focuses on recent progress in understanding BR signal transduction made by proteomics studies. PMID:20004136

  10. Phylogeographical patterns shed light on evolutionary process in South America.

    PubMed

    Turchetto-Zolet, A C; Pinheiro, F; Salgueiro, F; Palma-Silva, C

    2013-03-01

    The South American continent is composed of several biogeographical regions harbouring the highest biodiversity on the globe, encompassing five of the world's biodiversity 'hot spots'. Nonetheless, the patterns and processes responsible for shaping its astonishing species diversity are largely unknown. Here, we present a review of current South American phylogeographical knowledge based on published articles on this topic. An appraisal of the literature reveals emerging phylogeographical patterns in the biota of South America. The striking phylogeographical divergence observed among organism lineages in South American studies is suggestive of high levels of undocumented species diversity. The interplay between Pleistocene climatic oscillations and Pliocene/Miocene orogenic events has contributed to shaping the current diversity and distribution of modern lineages in both the tropical and temperate regions of South America. Although older divergence times were observed for a range of species, most herpetofauna underwent an intraspecific lineage split much earlier than other organisms. The geographical ranges of species associated with forest habitats were reduced mainly during glacial cycles, whereas species associated with open vegetation domains have shown variable responses to climatic oscillations. The results suggest a highly complex mosaic of phylogeographical patterns in South America. We suggest future research directions to promote a better understanding of the origin and maintenance of the South American biota. © 2012 Blackwell Publishing Ltd.

  11. Studies Shed Light on How Cheating Impedes Learning

    ERIC Educational Resources Information Center

    Sparks, Sarah D.

    2011-01-01

    This article reports on new research which shows that, when students succeed at cheating on tests, they get duped into thinking they're smarter than they really are. In four experiments detailed in the March "Proceedings of the National Academy of Sciences", researchers from the Harvard Business School and Duke University found that cheaters pay…

  12. Shedding light on the black hole mass spectrum.

    NASA Astrophysics Data System (ADS)

    Spera, M.; Giacobbo, N.; Mapelli, M.

    The mass spectrum of stellar black holes (BHs) is highly uncertain. Theoretical models of BH formation strongly depend on the efficiency of stellar winds of the progenitor stars and on the supernova (SN) explosion mechanism. We discuss the BH mass spectrum we obtain using SEVN{}, a new public population-synthesis code that includes up-to-date stellar-wind prescriptions and several SN explosion models. Our models have been used by the LIGO and Virgo collaboration to constrain the properties of the gravitational wave (GW) source GW150914, indicating a sub-solar metallicity environment for its progenitors. We show that our models predict substantially larger BH masses (up to ˜ 100 M⊙) than other population synthesis codes, at low metallicity. In this proceeding, we also discuss the impact of pair-instability SNe on our previously published models.

  13. Shedding Light on the Nature of Seminal Round Cells

    PubMed Central

    Palermo, Gianpiero D.; Neri, Queenie V.; Cozzubbo, Tyler; Cheung, Stephanie; Pereira, Nigel; Rosenwaks, Zev

    2016-01-01

    Introduction In this investigation we assess the incidence of round cells (RCs) in semen samples in our infertile patient population and their significance on intracytoplasmic sperm injection (ICSI) cycle outcomes. We also evaluate the usefulness of RCs as indicators of bacterial infection and highlight the origin of this cell-type, as well as its role in the human ejaculate. Patients and Methods In a prospective fashion, a total of 4,810 ejaculated samples were included in the study during a period of 24 months. RCs were characterized for white blood cell (WBC) components versus exfoliated germ cells by testing for multiple markers of ploidy as well as protamine assays. Cases displaying ≥ 2 x 106/ml RCs were screened for bacteria. Raw specimens containing RC were processed by peroxidase and other leukocyte assays, specific stains for protamines were used to identify spermiogenic stage, aneuploidy (FISH) assessment was carried out, and the presence of various Sertoli-cell cytoplasmic remnants was analyzed to identify and characterize immature germ cells. The effect of RC on clinical outcome was assessed in specimens used for ICSI. Results The average age of the men involved was 39.2 ± 7 years. Semen samples had a mean concentration of 40.7 ± 31 x 106/ml, motility of 42.6 ± 35%, and morphology of 2.3 ± 2%. RCs were identified in 261 specimens, representing a proportion of 5.4%. Men with RCs had comparable age but lower sperm concentration and morphology than the control group (P<0.001). The aneuploidy rate of 4.3% in RCs group was remarkably higher than the control group (2.3%; P<0.001). Sperm aneuploidy rate positively correlated with the number of RCs (P<0.001). Of 44 men, 17 of them in 18 cycles had up to 1.9 x 106/ml RCs without affecting fertilization and clinical pregnancy rates when compared to controls (n = 365 cycles). In 27 men undergoing 33 ICSI cycles with ≥ 2 x 106/ml RCs, the fertilization rate trended lower and the miscarriage rate was significantly increased (P = 0.05). There was lack of correlation between RC and bacteriological growth. Specific markers indicated that seminal RCs are mostly immature germ cells encased in the remnants of Sertoli cell cytoplasm. Moreover, their modest protamine content and their haploid status confirm that they are post-meiotic. Sequential observation in the same man showed that RC episodes were followed by an amelioration of semen parameters, and interestingly, the episodic occurrence of RCs often coincides with flu season peaks. Conclusions Seminal RCs are not a marker of infectiousness but rather a transient indicator of spermatogenic insult that possibly occurs in most men following a mild and transient ailment such as the flu. PMID:26982590

  14. Shedding light on ovothiol biosynthesis in marine metazoans

    NASA Astrophysics Data System (ADS)

    Castellano, Immacolata; Migliaccio, Oriana; D'Aniello, Salvatore; Merlino, Antonello; Napolitano, Alessandra; Palumbo, Anna

    2016-02-01

    Ovothiol, isolated from marine invertebrate eggs, is considered one of the most powerful antioxidant with potential for drug development. However, its biological functions in marine organisms still represent a matter of debate. In sea urchins, the most accepted view is that ovothiol protects the eggs by the high oxidative burst at fertilization. In this work we address the role of ovothiol during sea urchin development to give new insights on ovothiol biosynthesis in metazoans. The gene involved in ovothiol biosynthesis OvoA was identified in Paracentrotus lividus genome (PlOvoA). PlOvoA embryo expression significantly increased at the pluteus stage and was up-regulated by metals at concentrations mimicking polluted sea-water and by cyclic toxic algal blooms, leading to ovothiol biosynthesis. In silico analyses of the PlOvoA upstream region revealed metal and stress responsive elements. Structural protein models highlighted conserved active site residues likely responsible for ovothiol biosynthesis. Phylogenetic analyses indicated that OvoA evolved in most marine metazoans and was lost in bony vertebrates during the transition from the aquatic to terrestrial environment. These results highlight the crucial role of OvoA in protecting embryos released in seawater from environmental cues, thus allowing the survival under different conditions.

  15. Analysis of light guiding property in light piped based solar concentrator

    NASA Astrophysics Data System (ADS)

    Whang, Allen J.; Chuang, Chun-Hsien, Jr.; Chen, Yi-Yung

    2008-02-01

    Recently, many researchers have tried to design a system for indoor illumination because the benefits of solar systems. A simple parabolic reflector is often used to collect sunlight but the efficiency is poor when sunlight isn't incident normally. Therefore, an accurate machine to track sun has to be used. In order to get better tolerance, a light pipe based solar concentrator (LPBSC) which comprises a parabolic reflector and a hollow reflective light pipe is proposed. We develop a math model which combines the reflection times of sunlight in light pipe and the candela data of parabolic reflector to analyze the efficiency. And then, straight light pipe is replaced by tapered light pipe to improve the tolerance. Optical simulation software, TracePro, and mathematical software, MATLAB, are used to prove the model is correct and feasible. In the results, LPBSC can improve the tolerance to get good efficiency.

  16. 5. SOUTHERN END OF INTERIOR OF STEEL FRAMEWORK TRAIN SHED ...

    Library of Congress Historic Buildings Survey, Historic Engineering Record, Historic Landscapes Survey

    5. SOUTHERN END OF INTERIOR OF STEEL FRAMEWORK TRAIN SHED LOOKING SE TO CAVED IN SHED, CENTER, AND BRICK AND STEEL SHED. - Western Railway of Alabama Montgomery Rail Shops, 701 North Perry Street, Montgomery, Montgomery County, AL

  17. Improved evaporative light scattering detection for carbohydrate analysis.

    PubMed

    Condezo-Hoyos, Luis; Pérez-López, Elena; Rupérez, Pilar

    2015-08-01

    Optimization and validation of evaporative light scattering detector (ELSD), aided by response surface methodology (RSM), has been developed for the liquid chromatography analysis of a wide molecular weight (MW) range of carbohydrates, including polysaccharides and oligosaccharides. Optimal experimental parameters for the ELSD detection were: 88.8°C evaporator temperature, 77.9°C nebulizer temperature and 1.1 standard litres per minute nitrogen flow rate. Optimal ELSD detection, used together with high performance size exclusion chromatography (HPSEC) of carbohydrates, gave a linear range from 250 to 1000 mg L(-1) (R(2)>0.998), with limits of detection and quantitation of 4.83-11.67 and 16.11-38.91 mg L(-1), respectively. Relative standard deviation was lower than 1.8% for intra-day and inter-day repeatability for apple pectin, inulin, verbascose, stachyose and raffinose. Recovery ranged from 103.7% to 118.3% for fructo-oligosaccharides, α-galacto-oligosaccharides and disaccharides. Optimized and validated ELSD detection is proposed for the analysis of high- to low-MW carbohydrates with high sensitivity, precision and accuracy. Copyright © 2015 Elsevier Ltd. All rights reserved.

  18. Vortex Shedding Inside a Baffled Air Duct

    NASA Technical Reports Server (NTRS)

    Davis, Philip; Kenny, R. Jeremy

    2010-01-01

    Common in the operation of both segmented and un-segmented large solid rocket motors is the occurrence of vortex shedding within the motor chamber. A portion of the energy within a shed vortex is converted to acoustic energy, potentially driving the longitudinal acoustic modes of the motor in a quasi-discrete fashion. This vortex shedding-acoustic mode excitation event occurs for every Reusable Solid Rocket Motor (RSRM) operation, giving rise to subsequent axial thrust oscillations. In order to better understand this vortex shedding/acoustic mode excitation phenomena, unsteady CFD simulations were run for both a test geometry and the full scale RSRM geometry. This paper covers the results from the subscale geometry runs, which were based on work focusing on the RSRM hydrodynamics. Unsteady CFD simulation parameters, including boundary conditions and post-processing returns, are reviewed. The results were further post-processed to identify active acoustic modes and vortex shedding characteristics. Probable locations for acoustic energy generation, and subsequent acoustic mode excitation, are discussed.

  19. Replication and shedding of MERS-CoV in Jamaican fruit bats (Artibeus jamaicensis)

    PubMed Central

    Munster, Vincent J.; Adney, Danielle R.; van Doremalen, Neeltje; Brown, Vienna R.; Miazgowicz, Kerri L.; Milne-Price, Shauna; Bushmaker, Trenton; Rosenke, Rebecca; Scott, Dana; Hawkinson, Ann; de Wit, Emmie; Schountz, Tony; Bowen, Richard A.

    2016-01-01

    The emergence of Middle East respiratory syndrome coronavirus (MERS-CoV) highlights the zoonotic potential of Betacoronaviruses. Investigations into the origin of MERS-CoV have focused on two potential reservoirs: bats and camels. Here, we investigated the role of bats as a potential reservoir for MERS-CoV. In vitro, the MERS-CoV spike glycoprotein interacted with Jamaican fruit bat (Artibeus jamaicensis) dipeptidyl peptidase 4 (DPP4) receptor and MERS-CoV replicated efficiently in Jamaican fruit bat cells, suggesting there is no restriction at the receptor or cellular level for MERS-CoV. To shed light on the intrinsic host-virus relationship, we inoculated 10 Jamaican fruit bats with MERS-CoV. Although all bats showed evidence of infection, none of the bats showed clinical signs of disease. Virus shedding was detected in the respiratory and intestinal tract for up to 9 days. MERS-CoV replicated transiently in the respiratory and, to a lesser extent, the intestinal tracts and internal organs; with limited histopathological changes observed only in the lungs. Analysis of the innate gene expression in the lungs showed a moderate, transient induction of expression. Our results indicate that MERS-CoV maintains the ability to replicate in bats without clinical signs of disease, supporting the general hypothesis of bats as ancestral reservoirs for MERS-CoV. PMID:26899616

  20. Replication and shedding of MERS-CoV in Jamaican fruit bats (Artibeus jamaicensis).

    PubMed

    Munster, Vincent J; Adney, Danielle R; van Doremalen, Neeltje; Brown, Vienna R; Miazgowicz, Kerri L; Milne-Price, Shauna; Bushmaker, Trenton; Rosenke, Rebecca; Scott, Dana; Hawkinson, Ann; de Wit, Emmie; Schountz, Tony; Bowen, Richard A

    2016-02-22

    The emergence of Middle East respiratory syndrome coronavirus (MERS-CoV) highlights the zoonotic potential of Betacoronaviruses. Investigations into the origin of MERS-CoV have focused on two potential reservoirs: bats and camels. Here, we investigated the role of bats as a potential reservoir for MERS-CoV. In vitro, the MERS-CoV spike glycoprotein interacted with Jamaican fruit bat (Artibeus jamaicensis) dipeptidyl peptidase 4 (DPP4) receptor and MERS-CoV replicated efficiently in Jamaican fruit bat cells, suggesting there is no restriction at the receptor or cellular level for MERS-CoV. To shed light on the intrinsic host-virus relationship, we inoculated 10 Jamaican fruit bats with MERS-CoV. Although all bats showed evidence of infection, none of the bats showed clinical signs of disease. Virus shedding was detected in the respiratory and intestinal tract for up to 9 days. MERS-CoV replicated transiently in the respiratory and, to a lesser extent, the intestinal tracts and internal organs; with limited histopathological changes observed only in the lungs. Analysis of the innate gene expression in the lungs showed a moderate, transient induction of expression. Our results indicate that MERS-CoV maintains the ability to replicate in bats without clinical signs of disease, supporting the general hypothesis of bats as ancestral reservoirs for MERS-CoV.