Index Catalog // ScholarsArchive@OSU

Viewing forests through the lens of complex systems science

Creator:: Filotas, Elise, Parrott, Lael, Burton, Philip J., Chazdon, Robin L., Coates, K. David, Coll, Lluis, Haeussler, Sybille, Martin, Kathy, Nocentini, Susanna, Puettmann, Klaus J., Putz, Francis E., Simard, Suzanne W., and Messier, Christian
Abstract:: Complex systems science provides a transdisciplinary framework to study systems characterized by (1) heterogeneity, (2) hierarchy, (3) self‐organization, (4) openness, (5) adaptation, (6) memory, (7) non‐linearity, and (8) uncertainty. Complex systems thinking has inspired both theory and applied strategies for improving ecosystem resilience and adaptability, but applications in forest ecology...
Resource Type:: Article
Full Text:: HAEUSSLER,8 KATHY MARTIN,9 SUSANNA NOCENTINI,10 KLAUS J. PUETTMANN,11 FRANCIS E. PUTZ,12 SUZANNE W. SIMARD

High-Density SNP Genotyping of Tomato (Solanum lycopersicum L.) Reveals Patterns of Genetic Variation Due to Breeding

Creator:: Sim, Sung-Chur, Van Deynze, Allen, Stoffel, Kevin, Douches, David S., Zarka, Daniel, Ganal, Martin W., Chetelat, Roger T., Hutton, Samuel F., Scott, John W., Gardner, Randolph G., Panthee, Dilip R., Mutschler, Martha, Myers, James R., and Francis, David M.
Abstract:: The effects of selection on genome variation were investigated and visualized in tomato using a high-density single nucleotide polymorphism (SNP) array. 7,720 SNPs were genotyped on a collection of 426 tomato accessions (410 inbreds and 16 hybrids) and over 97% of the markers were polymorphic in the entire collection. Principal...
Resource Type:: Article
Full Text:: Deynze2, Kevin Stoffel2, David S. Douches3, Daniel Zarka3, Martin W. Ganal4, Roger T. Chetelat5, Samuel F

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:: Programme Platform: Semantic Standards andWorkbench for Crop Science Richard Bruskiewich,1 Martin Senger,1

Complete genome sequence of Nitrosomonas sp. Is79, an ammonia oxidizing bacterium adapted to low ammonium concentrations

Creator:: Bollmann, Annette, Sedlacek, Christopher J., Norton, Jeanette, Laanbroek, Hendrikus J., Suwa, Yuichi, Stein, Lisa Y., Klotz, Martin G., Arp, Daniel J., Sayavedra-Soto, Luis, Lu, Megan, Bruce, David, Detter, Chris, Tapia, Roxanne, Han, James, Woyke, Tanja, Pitluck, Sam, Pennacchio, Len, Nolan, Matt, Land, Miriam L., Huntemann, Marcel, Deshpande, Shweta, Han, Cliff, Chen, Amy, Kyrpides, Nikos, Movromatis, Konstantinos, Markowitz, Victor, Szeto, Ernest, Ivonova, Natalia, Mikhailova, Natalia, Pagani, Ioanna, Pati, Amrita, Peters, Lin, Ovchinnikova, Galina, Goodwin, Lynne A., and Lucas, Susan M.
Abstract:: Nitrosomonas sp. Is79 is a chemolithoautotrophic ammonia-oxidizing bacterium that belongs to the family Nitrosomonadaceae within the phylum Proteobacteria. Ammonia oxidation is the first step of nitrification, an important process in the global nitrogen cycle ultimately resulting in the production of nitrate. Nitrosomonas sp. Is79 is an ammonia oxidizer of high...
Resource Type:: Article
Full Text:: , Lisa Y. Stein5, Martin G. Klotz6, Daniel Arp7, Luis Sayavedra-Soto7, Megan Lu8, David Bruce8, Chris

Modeling the Winter–to–Summer Transition of Prokaryotic and Viral Abundance in the Arctic Ocean

Creator:: Winter, Christian, Payet, Jérôme P., and Suttle, Curtis A.
Abstract:: One of the challenges in oceanography is to understand the influence of environmental factors on the abundances of prokaryotes and viruses. Generally, conventional statistical methods resolve trends well, but more complex relationships are difficult to explore. In such cases, Artificial Neural Networks (ANNs) offer an alternative way for data analysis....
Resource Type:: Article
Full Text:: imply that temperature is the main factor explaining most of the variation in the abundances of high

Genes Related to Ion-Transport and Energy Production Are Upregulated in Response to CO₂-Driven pH Decrease in Corals: New Insights from Transcriptome Analysis

Creator:: Vidal-Dupiol, Jeremie, Zoccola, Didier, Tambutté, Eric, Grunau, Christoph, Cosseau, Céline, Smith, Kristina M., Freitag, Michael, Dheilly, Nolwenn M., Allemand, Denis, and Tambutté, Sylvie
Abstract:: Since the preindustrial era, the average surface ocean pH has declined by 0.1 pH units and is predicted to decline by an additional 0.3 units by the year 2100. Although subtle, this decreasing pH has profound effects on the seawater saturation state of carbonate minerals and is thus predicted to...
Resource Type:: Article
Full Text:: are the scleractinian corals, which are the main builders of tropical coral reefs. Several recent

Performance of Linear and Nonlinear Two-Leaf Light Use Efficiency Models at Different Temporal Scales

Creator:: Wu, Xiaocui, Ju, Weimin, Zhou, Yanlian, He, Mingzhu, Law, Beverly E., Black, T. Andrew, Margolis, Hank A., Cescatti, Alessandro, Gu, Lianhong, Montagnani, Leonardo, Noormets, Asko, Griffis, Timothy J., Pilegaard, Kim, Varlagin, Andrej, Valentini, Riccardo, Blanken, Peter D., Wang, Shaoqiang, Wang, Huimin, Han, Shijie, Yan, Junhua, Li, Yingnian, Zhou, Bingbing, and Liu, Yibo
Abstract:: The reliable simulation of gross primary productivity (GPP) at various spatial and temporal scales is of significance to quantifying the net exchange of carbon between terrestrial ecosystems and the atmosphere. This study aimed to verify the ability of a nonlinear two-leaf model (TL-LUEn), a linear two-leaf model (TL-LUE), and a...
Resource Type:: Article
Full Text:: main goals of this study are: (1) to compare the performance of the MOD17, linear and nonlinear two

Where to find 1.5 million yr old ice for the IPICS “Oldest-Ice” ice core

Creator:: Fischer, H., Severinghaus, J., Brook, Edward J., Wolff, E., Albert, M., Alemany, O., Arthern, R., Bentley, C., Blankenship, D., Chappellaz, J., Creyts, T., Dahl-Jensen, D., Dinn, M., Frezzotti, M., Fujita, S., Gallee, H., Hindmarsh, R., Hudspeth, D., Jugie, G., Kawamura, K., Lipenkov, V., Miller, H., Mulvaney, R., Parrenin, F., Pattyn, F., Ritz, C., Schwander, J., Steinhage, D., van Ommen, T., and Wilhelms, F.
Abstract:: The recovery of a 1.5 million yr long ice core from Antarctica represents a keystone of our understanding of Quaternary climate, the progression of glaciation over this time period and the role of greenhouse gas cycles in this progression. Here we tackle the question of where such ice may still...
Resource Type:: Article
Full Text:: -Grenoble, CNRS, St Martin d’Hères, France 7University of Wisconsin Madison, Madison, Wisconsin, USA

A bioenergetics model to evaluate demographic consequences of disturbance in marine mammals applied to gray whales

Creator:: Villegas-Amtmann, S., Schwarz, L. K., Sumich, J. L., and Costa, D. P.
Abstract:: While sophisticated tools are used to monitor behavioral changes of large marine vertebrates, determining whether these changes are meaningful for management and conservation is challenging. The Population Consequences of Disturbance model proposed a bioenergetics model to detect biologically meaningful population responses, where disturbance costs are linked to lost energy. The...
Resource Type:: Article
Full Text:: between calf caloric value at birth (Eq. 6 main text) and at seven months old. The caloric value for seven

Interactive visual analysis promotes exploration of long-term ecological data

Creator:: Pham, Tuan, Jones, Julia A., Metoyer, Ronald, Swanson, Frederick, and Pabst, Robert
Abstract:: Long-term ecological data are crucial in helping ecologists understand ecosystem function and environmental change. Nevertheless, these kinds of data sets are difficult to analyze because they are usually large, multivariate, and spatiotemporal. Although existing analysis tools such as statistical methods and spreadsheet software permit rigorous tests of pre-conceived hypotheses and...
Resource Type:: Article
Full Text:: variety of data sets and hypotheses, but the analysis usually follows three main steps: (1) collect

ScholarsArchive@OSU

Viewing forests through the lens of complex systems science

High-Density SNP Genotyping of Tomato (Solanum lycopersicum L.) Reveals Patterns of Genetic Variation Due to Breeding

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

Complete genome sequence of Nitrosomonas sp. Is79, an ammonia oxidizing bacterium adapted to low ammonium concentrations

Modeling the Winter–to–Summer Transition of Prokaryotic and Viral Abundance in the Arctic Ocean

Genes Related to Ion-Transport and Energy Production Are Upregulated in Response to CO₂-Driven pH Decrease in Corals: New Insights from Transcriptome Analysis

Performance of Linear and Nonlinear Two-Leaf Light Use Efficiency Models at Different Temporal Scales

Where to find 1.5 million yr old ice for the IPICS “Oldest-Ice” ice core

A bioenergetics model to evaluate demographic consequences of disturbance in marine mammals applied to gray whales

Interactive visual analysis promotes exploration of long-term ecological data

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