Index Catalog // ScholarsArchive@OSU

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:: Genes in Sinorhizobium fredii and Bradyrhizobium japonicum Jeffrey A. Kimbrel1,2.¤, William J. Thomas1,2

StPIP1, a PAMP-induced peptide in potato, elicits plant defenses and is associated with disease symptom severity in a compatible interaction with potato virus Y

Creator:: Combest, Max M., Moroz, Natalia, Tanaka, Kiwamu, Rogan, Conner J., Anderson, Jeffrey C., Thura, Lin, Rakotondrafara, Aurélie M., and Goyer, Aymeric
Abstract:: The role of small secreted peptides in plant defense responses to viruses has been seldom investigated. Here, we report a role for potato (Solanum tuberosum) PIP1, a gene predicted to encode a member of the PAMP-induced peptide (PIP) family, in the response of potato to potato virus Y infection (PVY)....
Resource Type:: Article
Full Text:: 1 StPIP1, a PAMP-induced peptide in potato, elicits plant defenses and is associated 1 with

Biology and Demographics of Phylloxera in Western Oregon

Creator:: Strik, Bernadine C., Connelly, Anne, Fisher, Glenn, and Granett, Jeffrey
Abstract:: Since phylloxera's discovery in a commercial vineyard in August of 1990, nine infestations have been verified in Oregon. With over 95% of Oregon's vineyards planted with ownrooted, Vitis vinifera, non-resistant vines, understanding the insect's biology under our conditions has become important for determining management strategies that minimize rate of spread....
Resource Type:: Technical Report
Full Text:: of Horticulture Glenn Fisher, Department of Entomology, Oregon State University Jeffrey Granett

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

Creator:: Ha, Misook, Lu, Jie, Ramachandran, Vanitharani, Kasschau, Krisitin D., Chapman, Elisabeth J., Carrington, James C., Chen, Xuemei, Wang, Xue-Jei, and Chen, Z. Jeffrey
Abstract:: Small RNAs, including microRNAs (miRNAs), small interfering RNAs (siRNAs), and trans-acting siRNAs (tasiRNAs), control gene expression and epigenetic regulation. Although the roles of miRNAs and siRNAs have been extensively studied, their expression diversity and evolution in closely related species and interspecific hybrids are poorly understood. Here, we show comprehensive analyses...
Resource Type:: Article
Full Text:: Small RNAs serve as a genetic buffer against genomic shock

Sequencing and De Novo Transcriptome Assembly of Brachypodium sylvaticum (Poaceae)

Creator:: Fox, Samuel E., Preece, Justin, Kimbrel, Jeffrey A., Marchini, Gina L., Sage, Abigail, Youens-Clark, Ken, Cruzan, Mitchell B., and Jaiswal, Pankaj
Abstract:: PREMISE OF THE STUDY: We report the de novo assembly and characterization of the transcriptomes of Brachypodium sylvaticum (slender false-brome) accessions from native populations of Spain and Greece, and an invasive population west of Corvallis, Oregon, USA. METHODS AND RESULTS: More than 350 million sequence reads from the mRNA libraries...
Resource Type:: Article
Full Text:: 2 , JEFFREY A. KIMBREL 3 , GINA L. MARCHINI 4 , ABIGAIL SAGE 2

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:: . Kasschau1, Elisabeth J. Chapman1,2, Christopher M. Sullivan1, Jason S. Cumbie1, Scott A. Givan1, Theresa F

Emerging semantics to link phenotype and environment

Creator:: Thessen, Anne E., Bunkers, Daniel E., Buttigieg, Pier Luigi, Cooper, Laurel D., Dahdul, Wasila M., Domisch, Sami, Franz, Nico M., Jaiswal, Pankaj, Lawrence-Dill, Carolyn J., Midford, Peter E., Mungall, Christopher J., Ramírez, Martín J., Specht, Chelsea D., Vogt, Lars, Aldo Vos, Rutger, Walls, Ramona L., White, Jeffrey W., Zhang, Guanyang, Deans, Andrew R., Huala, Eva, Lewis, Suzanna E., and Mabee, Paula M.
Abstract:: Understanding the interplay between environmental conditions and phenotypes is a fundamental goal of biology. Unfortunately, data that include observations on phenotype and environment are highly heterogeneous and thus difficult to find and integrate. One approach that is likely to improve the status quo involves the use of ontologies to standardize...
Resource Type:: Article
Full Text:: environment Emerging semantics to link phenotype and environment Thessen, A. E., Bunker, D. E., Buttigieg

The Generation Challenge Programme Platform: Semantic Standards and Workbench for Crop Science

Creator:: Bruskiewich, Richard, Senger, Martin, Davenport, Guy, Ruiz, Manuel, Rouard, Mathieu, Hazekamp, Tom, Takeya, Masaru, Doi, Koji, Satoh, Kouji, Costa, Marcos, Simon, Reinhard, Balaji, Jayashree, Akintunde, Akinnola, Mauleon, Ramil, Wanchana, Samart, Shah, Trushar, Anacleto, Mylah, Portugal, Arllet, Ulat, Victor Jun, Thongjuea, Supat, Braak, Kyle, Ritter, Sebastian, Dereeper, Alexis, Skofic, Milko, Rojas, Edwin, Martins, Natalia, Pappas, Georgios, Alamban, Ryan, Almodiel, Roque, Barboza, Lord Hendrix, Detras, Jeffrey, Manansala, Kevin, Mendoza, Michael Jonathan, Morales, Jeffrey, Peralta, Barry, Valerio, Rowena, Zhang, Yi, Gregorio, Sergio, Hermocilla, Joseph, Echavez, Michael, Yap, Jan Michael, Farmer, Andrew, Schiltz, Gary, Lee, Jennifer, Casstevens, Terry, Jaiswal, Pankaj, Meintjes, Ayton, Wilkinson, Mark, Good, Benjamin, Wagner, James, Morris, Jane, Marshall, David, Collins, Anthony, Kikuchi, Shoshi, Metz, Thomas, McLaren, Graham, and van Hintum, Theo
Abstract:: The Generation Challenge programme (GCP) is a global crop research consortium directed toward crop improvement through the application of comparative biology and genetic resources characterization to plant breeding. A key consortium research activity is the development of a GCP crop bioinformatics platform to support GCP research. This platform includes the...
Resource Type:: Article
Full Text:: Pappas,6 Ryan Alamban,1 Roque Almodiel,1 Lord Hendrix Barboza,1 Jeffrey Detras,1 Kevin Manansala,1

Fluorescence and nonphotochemical quenching responses to simulated vertical mixing in the marine diatom Thalassiosira weissflogii

Creator:: Milligan, Allen J., Aparicio, Uriel A., and Behrenfeld, Michael J.
Abstract:: The fluorescence signal emitted from phytoplankton exposed to natural sunlight has been considered a potentially useful tool to examine phytoplankton physiology from in situ radiometers and satellites, but variability in the fluorescence signal is confounded by non-photochemical quenching (NPQ). This pathway dissipates excitation energy as heat rather than fluorescence. It...
Resource Type:: Article
Full Text:: photo- system II (PSII) and photosystem I (PSI). A small fraction (~2%) of the solar energy absorbed by

The Effect of Iron Limitation on the Transcriptome and Proteome of Pseudomonas fluorescens Pf-5

Creator:: Lim, Chee Kent, Hassan, Karl A., Tetu, Sasha G., Loper, Joyce E., and Paulsen, Ian T.
Abstract:: One of the most important micronutrients for bacterial growth is iron, whose bioavailability in soil is limited. Consequently, rhizospheric bacteria such as Pseudomonas fluorescens employ a range of mechanisms to acquire or compete for iron. We investigated the transcriptomic and proteomic effects of iron limitation on P. fluorescens Pf-5 by...
Resource Type:: Article
Full Text:: Transcriptome and Proteome of Pseudomonas fluorescens Pf-5 Chee Kent Lim1, Karl A. Hassan1, Sasha G. Tetu1

ScholarsArchive@OSU

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

StPIP1, a PAMP-induced peptide in potato, elicits plant defenses and is associated with disease symptom severity in a compatible interaction with potato virus Y

Biology and Demographics of Phylloxera in Western Oregon

Small RNAs serve as a genetic buffer against genomic shock in Arabidopsis interspecific hybrids and allopolyploids

Sequencing and De Novo Transcriptome Assembly of Brachypodium sylvaticum (Poaceae)

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

Emerging semantics to link phenotype and environment

The Generation Challenge Programme Platform: Semantic Standards and Workbench for Crop Science

Fluorescence and nonphotochemical quenching responses to simulated vertical mixing in the marine diatom Thalassiosira weissflogii

The Effect of Iron Limitation on the Transcriptome and Proteome of Pseudomonas fluorescens Pf-5

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