Index Catalog // ScholarsArchive@OSU

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress

Creator:: Dharmawardhana, Palitha, Ren, Liya, Amarasinghe, Vindhya, Monaco, Marcela, Thomason, Jim, Ravenscroft, Dean, McCouch, Susan, Ware, Doreen, and Jaiswal, Pankaj
Abstract:: Background: Functional annotations of large plant genome projects mostly provide information on gene function and gene families based on the presence of protein domains and gene homology, but not necessarily in association with gene expression or metabolic and regulatory networks. These additional annotations are necessary to understand the physiology, development...
Resource Type:: Article
Full Text:: expression at 0 h, 8 h, 12 h and 20 h respectively. Boxed pathways: (1) phenylpropanoid (lignin) metabolism

Footprint of Positive Selection in Treponema pallidum subsp. pallidum Genome Sequences Suggests Adaptive Microevolution of the Syphilis Pathogen

Creator:: Giacani, Lorenzo, Chattopadhyay, Sujay, Centurion-Lara, Arturo, Jeffrey, BrendanM., Le, Hoavan T., Molini, Barbara J., Lukehart, Sheila A., Sokurenko, Evgeni V., and Rockey, Daniel D.
Abstract:: In the rabbit model of syphilis, infection phenotypes associated with the Nichols and Chicago strains of Treponema pallidum (T. pallidum), though similar, are not identical. Between these strains, significant differences are found in expression of, and antibody responses to some candidate virulence factors, suggesting the existence of functional genetic differences...
Resource Type:: Article
Full Text:: , Sea 81-3, Sea 81-8, Sea 86-1, Sea 87-1, Mexico A, UW231B, UW236B, and UW249C), was used to identify

Inferring phytoplankton carbon and eco-physiological rates from diel cycles of spectral particulate beam-attenuation coefficient

Creator:: Dall'Olmo, G., Boss, E., Behrenfeld, M. J., Westberry, T. K., Courties, C., Prieur, L., Pujo-Pay, M., Hardman-Mountford, N., and Moutin, T.
Abstract:: The diurnal fluctuations in solar irradiance impose a fundamental frequency on ocean biogeochemistry. Observations of the ocean carbon cycle at these frequencies are rare, but could be considerably expanded by measuring and interpreting the inherent optical properties. A method is presented to analyze diel cycles in particulate beam-attenuation coefficient (c[subscript...
Resource Type:: Article
Full Text:: Biogeosciences, 8, 3423–3440, 2011 www.biogeosciences.net/8/3423

A Multi-Year Longitudinal Study of Water Quality Parameters in Four Salmon-Bearing and Recreational Streams on Mount Hood, Oregon

Creator:: Wasowski, Ronald, Alexander, David, Kolmes, Steven, Banet, Nathan, Card, Amy, Haines, Morgan, Kolmes, Elijah, Northcutt, Kelly, Roemer, Derek, and Webber, Sarah
Abstract:: Four streams-Clear Fork, Lost Creek, Camp Creek and Still Creek-in northwestern Oregon's Sandy River Basin were monitored for temperature, dissolved oxygen levels, and fecal bacterial concentrations in a multi-year analysis examining stream health for recreational users and anchor habitat for Pacific Salmon. Temperatures were recorded using micro -T temperature loggers...
Resource Type:: Article
Full Text:: , United States of America, 7 St. Mary’s School, Medford, Oregon, United States of America, 8 Oregon Health

High-Throughput Sequencing of Arabidopsis microRNAs : Evidence for Frequent Birth and Death of MIRNA Genes

Creator:: Fahlgren, Noah, Howell, Miya D., Kasschau, Kristin D., Sullivan, Christopher M., Cumbie, Jason S., Givan, Scott A., Law, Theresa F., Grant, Sarah R., Dangl, Jeffrey L., and Carrington, James C.
Abstract:: In plants, microRNAs (miRNAs) comprise one of two classes of small RNAs that function primarily as negative regulators at the posttranscriptional level. Several MIRNA genes in the plant kingdom are ancient, with conservation extending between angiosperms and the mosses, whereas many others are more recently evolved. Here, we use deep...
Resource Type:: Article
Full Text:: , including DNA methylation and histone modification enzymes [6–8]. Posttranscriptional silencing effector

Genetic Susceptible Locus in NOTCH2 Interacts with Arsenic in Drinking Water on Risk of Type 2 Diabetes

Creator:: Pan, Wen-Chi, Kile, Molly L., Seow, Wei Jie, Lin, Xihong, Quamruzzaman, Quazi, Rahman, Mahmuder, Mahiuddin, Golam, Mostofa, Golam, Lu, Quan, and Christiani, David C.
Abstract:: Abstract: Background: Chronic exposure to arsenic in drinking water is associated with increased risk of type 2 diabetes mellitus (T2DM) but the underlying molecular mechanism remains unclear. Objectives: This study evaluated the interaction between single nucleotide polymorphisms (SNPs) in genes associated with diabetes and arsenic exposure in drinking water on...
Resource Type:: Article
Full Text:: Type 2 Diabetes. PLoS ONE 8(8): e70792. doi:10.1371/journal.pone.0070792 Editor: J. Christopher States

How Effective Are DNA Barcodes in the Identification of African Rainforest Trees?

Creator:: Parmentier, Ingrid, Duminil, Jérôme, Kuzmina, Maria, Philippe, Morgane, Thomas, Duncan W., Kenfack, David, Chuyong, George B., Cruaud, Corinne, and Hardy, Olivier J.
Abstract:: Background: DNA barcoding of rain forest trees could potentially help biologists identify species and discover new ones. However, DNA barcodes cannot always distinguish between closely related species, and the size and completeness of barcode databases are key parameters for their successful application. We test the ability of rbcL, matK and...
Resource Type:: Article
Full Text:: Identification of African Rainforest Trees? PLoS ONE 8(4): e54921. doi:10.1371/journal.pone.0054921 Editor: M

Initiation of Genome Instability and Preneoplastic Processes through Loss of Fhit Expression

Creator:: Saldivar, Joshua C., Miuma, Satoshi, Bene, Jessica, Hosseini, Seyed Ali, Shibata, Hidetaka, Sun, Jin, Wheeler, Linda J., Mathews, Christopher K., and Huebner, Kay
Abstract:: Genomic instability drives tumorigenesis, but how it is initiated in sporadic neoplasias is unknown. In early preneoplasias, alterations at chromosome fragile sites arise due to DNA replication stress. A frequent, perhaps earliest, genetic alteration in preneoplasias is deletion within the fragile FRA3B/FHIT locus, leading to loss of Fhit protein expression....
Resource Type:: Article
Full Text:: Instability and Preneoplastic Processes through Loss of Fhit Expression. PLoS Genet 8(11): e1003077. doi

Effect of Feeding Selenium-Fertilized Alfalfa Hay on Performance of Weaned Beef Calves

Creator:: Hall, Jean A., Bobe, Gerd, Hunter, Janice K., Vorachek, William R., Stewart, Whitney C., Vanegas, Jorge A., Estill, Charles T., Mosher, Wayne D., and Pirelli, Gene J.
Abstract:: Selenium (Se) is an essential micronutrient in cattle, and Se-deficiency can affect morbidity and mortality. Calves may have greater Se requirements during periods of stress, such as during the transitional period between weaning and movement to a feedlot. Previously, we showed that feeding Se-fertilized forage increases whole-blood (WB) Se concentrations...
Resource Type:: Article
Full Text:: deb_pone.0058188 1..8 Effect of Feeding Selenium-Fertilized

A Phylogenetic Perspective on the Individual Species- Area Relationship in Temperate and Tropical Tree Communities

Creator:: Yang, Jie, Swenson, Nathan G., Cao, Min, Chuyong, George B., Ewango, Corneille E. N., Howe, Robert, Kenfack, David, Thomas, Duncan, Wolf, Amy, and Lin, Luxiang
Abstract:: Ecologists have historically used species-area relationships (SARs) as a tool to understand the spatial distribution of species. Recent work has extended SARs to focus on individual-level distributions to generate individual species area relationships (ISARs). The ISAR approach quantifies whether individuals of a species tend have more or less species richness...
Resource Type:: Article
Full Text:: Individual Species-Area Relationship in Temperate and Tropical Tree Communities. PLoS ONE 8(5): e63192. doi

ScholarsArchive@OSU

A genome scale metabolic network for rice and accompanying analysis of tryptophan, auxin and serotonin biosynthesis regulation under biotic stress

Footprint of Positive Selection in Treponema pallidum subsp. pallidum Genome Sequences Suggests Adaptive Microevolution of the Syphilis Pathogen

Inferring phytoplankton carbon and eco-physiological rates from diel cycles of spectral particulate beam-attenuation coefficient

A Multi-Year Longitudinal Study of Water Quality Parameters in Four Salmon-Bearing and Recreational Streams on Mount Hood, Oregon

High-Throughput Sequencing of Arabidopsis microRNAs : Evidence for Frequent Birth and Death of MIRNA Genes

Genetic Susceptible Locus in NOTCH2 Interacts with Arsenic in Drinking Water on Risk of Type 2 Diabetes

How Effective Are DNA Barcodes in the Identification of African Rainforest Trees?

Initiation of Genome Instability and Preneoplastic Processes through Loss of Fhit Expression

Effect of Feeding Selenium-Fertilized Alfalfa Hay on Performance of Weaned Beef Calves

A Phylogenetic Perspective on the Individual Species- Area Relationship in Temperate and Tropical Tree Communities

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