Index Catalog // ScholarsArchive@OSU

Adaptive genetic markers discriminate migratory runs of Chinook salmon (Oncorhynchus tshawytscha) amid continued gene flow

Creator:: O'Malley, Kathleen G., Jacobson, Dave P., Kurth, Ryon, Dill, Allen J., and Banks, Michael A.
Abstract:: Neutral genetic markers are routinely used to define distinct units within species that warrant discrete management. Human-induced changes to gene flow however may reduce the power of such an approach. We tested the efficiency of adaptive versus neutral genetic markers in differentiating temporally divergent migratory runs of Chinook salmon (Oncorhynchus...
Resource Type:: Article
Full Text:: gene flow Kathleen G. O’Malley,1 Dave P. Jacobson,1 Ryon Kurth,2 Allen J. Dill3 and Michael A. Banks1

The Genome of Tolypocladium inflatum: Evolution, Organization, and Expression of the Cyclosporin Biosynthetic Gene Cluster

Creator:: Bushley, Kathryn E., Raja, Rajani, Jaiswal, Pankaj, Cumbie, Jason S., Nonogaki, Mariko, Boyd, Alexander E., Owensby, C. Alisha, Knaus, Brian J., Elser, Justin, Miller, Daniel, Di, Yanming, McPhail, Kerry L., and Spatafora, Joseph W.
Abstract:: The ascomycete fungus Tolypocladium inflatum, a pathogen of beetle larvae, is best known as the producer of the immunosuppressant drug cyclosporin. The draft genome of T. inflatum strain NRRL 8044 (ATCC 34921), the isolate from which cyclosporin was first isolated, is presented along with comparative analyses of the biosynthesis of...
Resource Type:: Article
Full Text:: addition to genes necessary for cyclosporin biosynthesis, it harbors a gene for a cyclophilin, which is a

What the Inbred Scandinavian Wolf Population Tells Us about the Nature of Conservation

Creator:: Räikkönen, Jannikke, Vucetich, John A., Vucetich, Leah M., Peterson, Rolf O., and Nelson, Michael P.
Abstract:: The genetic aspects of population health are critical, but frequently difficult to assess. Of concern has been the genetic constitution of Scandinavian wolves (Canis lupus), which represent an important case in conservation. We examined the incidence of different congenital anomalies for 171 Scandinavian wolves, including the immigrant founder female, born...
Resource Type:: Article
Full Text:: further rise of the inbreeding rate the population must increase and a continuous gene flow must be

Malonate Inhibits Virulence Gene Expression in Vibrio cholerae

Creator:: Minato, Yusuke, Fassio, Sara R., and Häse, Claudia C.
Abstract:: We previously found that inhibition of the TCA cycle, either through mutations or chemical inhibition, increased toxT transcription in Vibrio cholerae. In this study, we found that the addition of malonate, an inhibitor of succinate dehydrogenase (SDH), decreased toxT transcription in V. cholerae, an observation inconsistent with the previous pattern...
Resource Type:: Article
Full Text:: results suggest that metabolizing malonate as a nutrient source negatively affects virulence gene

Mutualistic Co-evolution of Type III Effector Genes in Sinorhizobium fredii and Bradyrhizobium japonicum

Creator:: Kimbrel, Jeffrey A., Thomas, William J., Jiang, Yuan, Creason, Allison L., Thireault, Caitlin A., Sachs, Joel L., and Chang, Jeff H.
Abstract:: Two diametric paradigms have been proposed to model the molecular co-evolution of microbial mutualists and their eukaryotic hosts. In one, mutualist and host exhibit an antagonistic arms race and each partner evolves rapidly to maximize their own fitness from the interaction at potential expense of the other. In the opposing...
Resource Type:: Article
Full Text:: bolstered by the observation that P. syringae deleted of a T3E gene gains the Figure 3. Distribution of

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:: ) and miR161.1 (At1g63130, a PPR gene). (B) Numbers of gene family members for conserved and non

Selenium Supplementation Restores Innate and Humoral Immune Responses in Footrot-Affected Sheep

Creator:: Hall, Jean A., Vorachek, William R., Stewart, Whitney C., Gorman, M. Elena, Mosher, Wayne D., Pirelli, Gene J., and Bobe, Gerd
Abstract:: Dietary selenium (Se) alters whole-blood Se concentrations in sheep, dependent upon Se source and dosage administered, but little is known about effects on immune function. We used footrot (FR) as a disease model to test the effects of supranutritional Se supplementation on immune function. To determine the effect of Se-source...
Resource Type:: Article
Full Text:: and Humoral Immune Responses in Footrot-Affected Sheep Jean A. Hall1*, William R. Vorachek1, Whitney C

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits

Creator:: Megraw, Molly, Mukherjee, Sayan, and Ohler, Uwe
Abstract:: WaRSwap is a randomization algorithm that for the first time provides a practical network motif discovery method for large multi-layer networks, for example those that include transcription factors, microRNAs, and non-regulatory protein coding genes. The algorithm is applicable to systems with tens of thousands of genes, while accounting for critical...
Resource Type:: Article
Full Text:: pat- terns in the gene-circuitry structure and generation of hypotheses in a large genetic system

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

Creator:: Mi, Gu, Di, Yanming, Emerson, Sarah, Cumbie, Jason S., and Chang, Jeff H.
Abstract:: When assessing differential gene expression from RNA sequencing data, commonly used statistical tests tend to have greater power to detect differential expression of genes encoding longer transcripts. This phenomenon, called "length bias", will influence subsequent analyses such as Gene Ontology enrichment analysis. In the presence of length bias, Gene Ontology...
Resource Type:: Article
Full Text:: bias in Gene Ontology analysis by including transcript length as a covariate in a logistic regression

The ERI-6/7 Helicase Acts at the First Stage of an siRNA Amplification Pathway That Targets Recent Gene Duplications

Creator:: Fischer, Sylvia E. J., Montgomery, Taiowa A., Zhang, Chi, Fahlgren, Noah, Breen, Peter C., Hwang, Alexia, Sullivan, Christopher M., Carrington, James C., and Ruvkun, Gary
Abstract:: Endogenous small interfering RNAs (siRNAs) are a class of naturally occuring regulatory RNAs found in fungi, plants, and animals. Some endogenous siRNAs are required to silence transposons or function in chromosome segregation; however, the specific roles of most endogenous siRNAs are unclear. The helicase gene eri-6/7 was identified in the...
Resource Type:: Article
Full Text:: cotranscriptional gene silencing in the nucleus [25,26]. ERI-6/7 is a Superfamily I helicase homologous to Mov10

ScholarsArchive@OSU

Adaptive genetic markers discriminate migratory runs of Chinook salmon (Oncorhynchus tshawytscha) amid continued gene flow

The Genome of Tolypocladium inflatum: Evolution, Organization, and Expression of the Cyclosporin Biosynthetic Gene Cluster

What the Inbred Scandinavian Wolf Population Tells Us about the Nature of Conservation

Malonate Inhibits Virulence Gene Expression in Vibrio cholerae

Mutualistic Co-evolution of Type III Effector Genes in Sinorhizobium fredii and Bradyrhizobium japonicum

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

Selenium Supplementation Restores Innate and Humoral Immune Responses in Footrot-Affected Sheep

Sustained-input switches for transcription factors and microRNAs are central building blocks of eukaryotic gene circuits

Length Bias Correction in Gene Ontology Enrichment Analysis Using Logistic Regression

The ERI-6/7 Helicase Acts at the First Stage of an siRNA Amplification Pathway That Targets Recent Gene Duplications

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