Index Catalog // ScholarsArchive@OSU

A G-type Lectin Receptor-like Kinase Associated with Septoria Canker Resistance and Susceptibility Described using Multi-omics and Biotechnology

Creator:: Lenz, Ryan R.
Abstract:: Managers of forest and plantation ecosystems are encountering growing problems involving plant pathogens and the expanding geographic ranges of these pathogens. Historically unexposed stands are exceptionally vulnerable when a non-native pathogen is introduced because these pathogens can cause devastating disease in a host population that lacks co-evolved resistance mechanisms. One...
Resource Type:: Dissertation

Overexpression of thiamin biosynthesis genes increase leaf and seed thiamin content but not resistance to Xanthomonas oryzae in rice

Creator:: Dong, Wei, Thomas, Nicholas, Ronald, Pamela C., and Goyer, Aymeric
Abstract:: Thiamin diphosphate (ThDP), also known as vitamin B1, serves as an enzymatic cofactor in glucose metabolism, the Krebs cycle, and branched-chain amino acid biosynthesis in all living organisms. Unlike plants and microorganisms, humans are not able to synthesize ThDP de novo and must obtain it from their diet. Staple crops...
Resource Type:: Article
Full Text:: Arabidopsis thaliana by metabolic engineering. Plant Cell Physiol. 56, 2285–2296. doi: 10.1093/pcp/pcv148

Role of GacSA Two-component System and Bacterial Surface Attachment in Pseudomonas syringae Virulence

Creator:: O'Malley, Megan R.
Abstract:: Pseudomonas syringae are plant pathogenic bacteria that cause disease by rapidly multiplying within the aboveground tissues of host plants. Growth of P. syringae within plant host tissues requires the disarmament of host immune defenses that limit microbial growth. To combat host defenses, P. syringae deploys a type III secretion system...
Resource Type:: Dissertation
Full Text:: triggered by microbial molecular signatures. Molecular plant, 3(5), 783–793. https://doi.org/10.1093/mp

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

Creator:: Smita, Shuchi, Lenka, Sangram Keshari, Katiyar, Amit, Jaiswal, Pankaj, Preece, Justin, and Bansal, Kailash Chander
Abstract:: The QlicRice database is designed to host publicly accessible, abiotic stress responsive quantitative trait loci (QTLs) in rice (Oryza sativa) and their corresponding sequenced gene loci. It provides a platform for the data mining of abiotic stress responsive QTLs, as well as browsing and annotating associated traits, their location on...
Resource Type:: Article
Full Text:: ) Database, Vol. 2011, Article ID bar037, doi:10.1093/database/bar037

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task

Creator:: Arighi, Cecilia N., Carterette, Ben, Cohen, K. Bretonnel, Krallinger, Martin, Wilbur, W. John, Fey, Petra, Dodson, Robert, Cooper, Laurel, Van Slyke, Ceri E., Dahdul, Wasila, Mabee, Paula, Li, Donghui, Harris, Bethany, Gillespie, Marc, Jimenez, Silvia, Roberts, Phoebe, Matthews, Lisa, Becker, Kevin, Drabkin, Harold, Bello, Susan, Licata, Luana, Chatr-aryamontri, Andrew, Schaeffer, Mary L., Park, Julie, Haendel, Melissa, Van Auken, Kimberly, Li, Yuling, Chan, Juancarlos, Muller, Hans-Michael, Cui, Hong, Balhoff, James P., Wu, Johnny Chi-Yang, Lu, Zhiyong, Wei, Chih-Hsuan, Tudor, Catalina O., Raja, Kalpana, Subramani, Suresh, Natarajan, Jeyakumar, Cejuela, Juan Miguel, Dubey, Pratibha, and Wu, Cathy
Abstract:: In many databases, biocuration primarily involves literature curation, which usually involves retrieving relevant articles, extracting information that will translate into annotations and identifying new incoming literature. As the volume of biological literature increases, the use of text mining to assist in biocuration becomes increasingly relevant. A number of groups have...
Resource Type:: Article
Full Text:: ; doi:10.1093/database/bas056 Submitted 10 July 2012; Revised 27 November 2012; Accepted 28 November

Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR

Creator:: Van Auken, Kimberly, Fey, Petra, Berardini, Tanya Z., Dodson, Robert, Cooper, Laurel, Li, Donghui, Chan, Juancarlos, Li, Yuling, Basu, Siddhartha, Muller, Hans-Michael, Chisholm, Rex, Huala, Eva, Sternberg, Paul W., and WormBase Consortium
Abstract:: WormBase, dictyBase and The Arabidopsis Information Resource (TAIR) are model organism databases containing information about Caenorhabditis elegans and other nematodes, the social amoeba Dictyostelium discoideum and related Dictyostelids and the flowering plant Arabidopsis thaliana, respectively. Each database curates multiple data types from the primary research literature. In this article, we...
Resource Type:: Article
Full Text:: of 13 (page number not for citation purposes) Database, Vol. 2012, Article ID bas040, doi:10.1093

A Putative PAMP-Induced Peptide Family Member is Associated with Symptom Severity to the Necrotic Strain NTN of Potato Virus Y in Potato

Creator:: Combest, Max M.
Abstract:: Potato Virus Y (PVY) is an enduring problem for potato production worldwide. Potato varieties that resist the “ordinary” strain PVYO were developed by breeders, but in recent years, recombinant strains of PVY have been able to circumvent this strain-specific resistance and evade growers and seed certification officials by causing fewer...
Resource Type:: Masters Thesis

Maize Metabolic Network Construction and Transcriptome Analysis

Creator:: Monaco, Marcela K., Sen, Taner Z., Dharmawardhana, Palitha D., Ren, Liya, Schaeffer, Mary, Naithani, Sushma, Amarasinghe, Vindhya, Thomason, Jim, Harper, Lisa, Gardiner, Jack, Cannon, Ethalinda K.S., Lawrence, Carolyn J., Ware, Doreen, and Jaiswal, Pankaj
Abstract:: A framework for understanding the synthesis and catalysis of metabolites and other biochemicals by proteins is crucial for unraveling the physiology of cells. To create such a framework for Zea mays L. subsp. mays (maize), we developed MaizeCyc, a metabolic network of enzyme catalysts, proteins, carbohydrates, lipids, amino acids, secondary...
Resource Type:: Article
Full Text:: . Nucleic Acids Res. 40:D742–D753. doi:10.1093/nar/gkr1014 Cooper, L., R.L. Walls, J. Elser, M.A. Gandolfo

The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses

Creator:: Cooper, Laurel, Walls, Ramona L., Elser, Justin, Gandolfo, Maria A., Stevenson, Dennis W., Smith, Barry, Preece, Justin, Athreya, Balaji, Mungall, Christopher J., Rensing, Stefan, Hiss, Manuel, Lang, Daniel, Reski, Ralf, Berardini, Tanya Z., Li, Donghui, Huala, Eva, Schaeffer, Mary, Menda, Naama, Arnaud, Elizabeth, Shrestha, Rosemary, Yamazaki, Yukiko, and Jaiswal, Pankaj
Abstract:: The Plant Ontology (PO;http://www.plantontology.org/" is a publicly available, collaborative effort to develop and maintain a controlled, structured vocabulary ('ontology') of terms to describe plant anatomy, morphology and the stages of plant development. The goals of the PO are to link (annotate) gene expression and phenotype data to plant structures and...
Resource Type:: Article
Full Text:: and Plant Cell Physiol. 54(2): e1(1–23) (2013) doi:10.1093/pcp/pcs163, available online at

Phytophthora Have Distinct Endogenous Small RNA Populations That Include Short Interfering and microRNAs

Creator:: Fahlgren, Noah, Bollmann, Stephanie R., Kasschau, Kristin D., Cuperus, Josh T., Press, Caroline M., Sullivan, Christopher M., Chapman, Elisabeth J., Hoyer, J. Steen, Gilbert, Kerrigan B., Grunwald, Niklaus J., and Carrington, James C.
Abstract:: In eukaryotes, RNA silencing pathways utilize 20-30-nucleotide small RNAs to regulate gene expression, specify and maintain chromatin structure, and repress viruses and mobile genetic elements. RNA silencing was likely present in the common ancestor of modern eukaryotes, but most research has focused on plant and animal RNA silencing systems. Phytophthora...
Resource Type:: Article

ScholarsArchive@OSU

A G-type Lectin Receptor-like Kinase Associated with Septoria Canker Resistance and Susceptibility Described using Multi-omics and Biotechnology

Overexpression of thiamin biosynthesis genes increase leaf and seed thiamin content but not resistance to Xanthomonas oryzae in rice

Role of GacSA Two-component System and Bacterial Surface Attachment in Pseudomonas syringae Virulence

QlicRice: a web interface for abiotic stress responsive QTL and loci interaction channels in rice

An overview of the BioCreative 2012 Workshop Track III: interactive text mining task

Text mining in the biocuration workflow: applications for literature curation at WormBase, dictyBase and TAIR

A Putative PAMP-Induced Peptide Family Member is Associated with Symptom Severity to the Necrotic Strain NTN of Potato Virus Y in Potato

Maize Metabolic Network Construction and Transcriptome Analysis

The Plant Ontology as a Tool for Comparative Plant Anatomy and Genomic Analyses

Phytophthora Have Distinct Endogenous Small RNA Populations That Include Short Interfering and microRNAs

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