Index Catalog // ScholarsArchive@OSU

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments

Creator:: Zhalnina, Kateryna, de Quadros, Patricia D., Gano, Kelsey A., Davis-Richardson, Austin, Fagen, Jennie R., Brown, Christopher T., Giongo, Adriana, Drew, Jennifer C., Sayavedra-Soto, Luis A., Arp, Daniel J., Camargo, Flavio A. O., Daroub, Samira H., Clark, Ian M., McGrath, Steve P., Hirsch, Penny R., and Triplett, Eric W.
Abstract:: Agricultural land management, such as fertilization, liming, and tillage affects soil properties, including pH, organic matter content, nitrification rates, and the microbial community. Three different study sites were used to identify microorganisms that correlate with agricultural land use and to determine which factors regulate the relative abundance of the microbial...
Resource Type:: Article
Full Text:: D. de Quadros 1,2†, Kelsey A. Gano1†, Austin Davis-Richardson1, Jennie R. Fagen 1, Christopher T

Finding Our Way through Phenotypes

Creator:: Deans, Andrew R., Lewis, Suzanna E., Huala, Eva, Anzaldo, Salvatore S., Ashburner, Michael, Balhoff, James P., Blackburn, David C., Blake, Judith A., Burleigh, J. Gordon, Chanet, Bruno, Cooper, Lauren D., Courtot, Mélanie, Csösz, Sándor, Cul, Hong, Dahdul, Wasila, Das, Sandip, Dececchi, T. Alexander, Dettal, Agnes, Diogo, Rui, Druzinsky, Robert E., Dumontier, Michel, Franz, Nico M., Friedrich, Frank, Gkoutos, George V., Haendel, Melissa, Harmon, Luke J., Hayamizu, Terry F., He, Yongqun, Hines, Heather M., Ibrahim, Nizar, Jackson, Laura M., Jaiswal, Pankaj, James-Zorn, Christina, Köhler, Sebastian, Lecointre, Guillaume, Lapp, Hilmar, Lawrence, Carolyn J., Le Novère, Nicolas, Lundberg, John G., Macklin, James, Mast, Austin R., Midford, Peter E., Mikó, István, Mungall, Christopher J., Oellrich, Anika, Osumi-Sutherland, David, Parkinson, Helen, Ramírez, Martín J., Richter, Stefan, Robinson, Peter N., Ruttenberg, Alan, Schulz, Katja S., Segerdell, Erik, Seltmann, Katja C., Sharkey, Michael J., Smith, Aaron D., Smith, Barry, Specht, Chelsea D., Squires, R. Burke, Thacker, Robert W., Thessen, Anne, Fernandez-Triana, Jose, Vihinen, Mauno, Vize, Peter D., Vogt, Lars, Wall, Christine E., Walls, Ramona L., Westerfeld, Monte, Wharton, Robert A., Wirkner, Christian S., Woolley, James B., Yoder, Matthew J., Zorn, Aaron M., and Mabee, Paula
Abstract:: Despite a large and multifaceted effort to understand the vast landscape of phenotypic data, their current form inhibits productive data analysis. The lack of a community-wide, consensus-based, human- and machine-interpretable language for describing phenotypes and their genomic and environmental contexts is perhaps the most pressing scientific bottleneck to integration across...
Resource Type:: Article
Full Text:: , Austin R. Mast34, Peter E. Midford35, István Mikó1, Christopher J. Mungall2, Anika Oellrich36, David

Taking the Next Step: Building an Arabidopsis Information Portal

Creator:: International Arabidopsis Informatics Consortium, Bastow, Ruth, Beynon, Jim, Brendel, Volker, Dooley, Rion, Friesner, Joanna, Grotewold, Erich, Huala, Eva, Loraine, Ann, Meyers, Blake, Pires, J. Chris, Provart, Nicholas, Stanzione, Dan, Town, Chris, and Ware, Doreen
Abstract:: The Arabidopsis Information Portal (AIP), a resource expected to provide access to all community data and combine outputs into a single user-friendly interface, has emerged from community discussions over the last 23 months. These discussions began during two closely linked workshops in early 2010 that established the International Arabidopsis Informatics...
Resource Type:: Article
Full Text:: , and adaptation to the environment. Plant Cell 24: 2257–2261. Toufighi, K., Brady, S.M., Austin, R

Non-parametric habitat models with automatic interactions

Creator:: McCune, Bruce
Abstract:: Questions: Can a statistical model be designed to represent more directly the nature of organismal response to multiple interacting factors? Can multiplicative ernel smoothers be used for this purpose? What advantages does this approach have over more traditional habitat modelling methods? Methods: Non-parametric multiplicative regression (NPMR)was developed from the premises...
Resource Type:: Article
Full Text:: central to any predictive parametric model (Austin 2002). NPMR cir- cumvents this; predictive modeling can

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:: gSection of Integrative Biology, The University of Texas, Austin, TX 78712; dDepartment of Botany and Plant

The genome of the xerotolerant mold Wallemia sebi reveals adaptations to osmotic stress and suggests cryptic sexual reproduction

Creator:: Padamsee, Mahajabeen, Kumar, T. K. Arun, Riley, Robert, Binder, Manfred, Boyd, Alex, Calvo, Ana M., Furukawa, Kentaro, Hesse, Cedar, Hohmann, Stefan, James, Tim Y., LaButti, Kurt, Lapidus, Alla, Lindquist, Erika, Lucas, Susan, Miller, Kari, Shantappa, Sourabha, Grigoriev, Igor V., Hibbett, David S., McLaughlin, David J., Spatafora, Joseph W., and Aime, M. Catherine
Abstract:: Wallemia (Wallemiales, Wallemiomycetes) is a genus of xerophilic Fungi of uncertain phylogenetic position within Basidiomycota. Most commonly found as food contaminants, species of Wallemia have also been isolated from hypersaline environments. The ability to tolerate environments with reduced water activity is rare in Basidiomycota. We sequenced the genome of W....
Resource Type:: Article
Full Text:: Biology, University of Michigan, Ann Arbor, MI 48109, United States a r t i c l e i n f o a b s t r a c t

Phylogenetic insights into the correlates of dioecy in meadow-rues (Thalictrum, Ranunculaceae)

Creator:: Soza, Valerie L., Brunet, Johanne, Liston, Aaron, Smith, Patricia Salles, and Di Stilio, Veronica S.
Abstract:: Numerous studies have examined the evolution of sexual systems in angiosperms, but few explore the interaction between these and the evolution of pollination mode. Wind pollination is often associated with unisexual flowers, but which evolved first and played a causative role in the evolution of the other is unclear. Thalictrum,...
Resource Type:: Article
Full Text:: , Corvallis, OR 97331-2902, USA a r t i c l e i n f o Article history: Received 13 June 2011 Revised 19

Expression Levels of the γ-Glutamyl Hydrolase I Gene Predict Vitamin B9 Content in Potato Tubers

Creator:: Goyer, Aymeric
Abstract:: Biofortification of folates in staple crops is an important strategy to help eradicate human folate deficiencies. Folate biofortification using genetic engineering has shown great success in rice grain, tomato fruit, lettuce, and potato tuber. However, consumers’ skepticism, juridical hurdles, and lack of economic model have prevented the widespread adoption of...
Resource Type:: Article
Full Text:: Hydrolase I Gene Predict Vitamin B9 Content in Potato Tubers Bruce R. Robinson 1,2, Carolina Garcia Salinas

Separating the wheat from the chaff: mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae)

Creator:: Parks, Matthew, Cronn, Richard, and Liston, Aaron
Abstract:: Background: Through next-generation sequencing, the amount of sequence data potentially available for phylogenetic analyses has increased exponentially in recent years. Simultaneously, the risk of incorporating ‘noisy’ data with misleading phylogenetic signal has also increased, and may disproportionately influence the topology of weakly supported nodes and lineages featuring rapid radiations and/or...
Resource Type:: Article

Reconciling Conflicting Phylogenies in the Origin of Sweet Potato and Dispersal to Polynesia

Creator:: Muñoz-Rodríguez, Pablo, Carruthers, Tom, Wood, John R.I., Williams, Bethany R.M., Weitemier, Kevin, Kronmiller, Brent, Ellis, David, Anglin, Noelle L., Longway, Lucas, Harris, Stephen A., Rausher, Mark D., Kelly, Steven, Liston, Aaron, and Scotland, Robert W.
Abstract:: The sweet potato is one of the world’s most widely consumed crops, yet its evolutionary history is poorly understood. In this paper, we present a comprehensive phylogenetic study of all species closely related to the sweet potato and address several questions pertaining to the sweet potato that remained unanswered. Our...
Resource Type:: Article
Full Text:: . 561–568. 9. Austin, D.F. (1988). The taxonomy, evolution, and genetic diversity of the sweet potato

ScholarsArchive@OSU

Ca. Nitrososphaera and Bradyrhizobium are inversely correlated and related to agricultural practices in long-term field experiments

Finding Our Way through Phenotypes

Taking the Next Step: Building an Arabidopsis Information Portal

Non-parametric habitat models with automatic interactions

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

The genome of the xerotolerant mold Wallemia sebi reveals adaptations to osmotic stress and suggests cryptic sexual reproduction

Phylogenetic insights into the correlates of dioecy in meadow-rues (Thalictrum, Ranunculaceae)

Expression Levels of the γ-Glutamyl Hydrolase I Gene Predict Vitamin B9 Content in Potato Tubers

Separating the wheat from the chaff: mitigating the effects of noise in a plastome phylogenomic data set from Pinus L. (Pinaceae)

Reconciling Conflicting Phylogenies in the Origin of Sweet Potato and Dispersal to Polynesia

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