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Articles 121 - 127 of 127
Full-Text Articles in Entire DC Network
Sediment Transport Model For Seepage Erosion Of Streambank Sediment, G. A. Fox, G. V. Wilson, R. K. Periketi, R. F. Cullum
Sediment Transport Model For Seepage Erosion Of Streambank Sediment, G. A. Fox, G. V. Wilson, R. K. Periketi, R. F. Cullum
United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications
Erosion by lateral, subsurface flow is known to erode streambank sediment in numerous geographical locations; however, the role of seepage erosion on mass failure of streambanks is not well understood. In the absence of an established sediment transport model for seepage erosion, the objectives of this research were to investigate the mechanisms of erosion due to concentrated, lateral subsurface flow and develop an empirical sediment transport model for seepage erosion of noncohesive sediment on near-vertical streambanks. Laboratory experiments were performed using a two-dimensional soil lysimeter of a reconstructed streambank profile packed with three different soil layers to mimic seepage erosion …
Separation And Identification Of Soybean Leaf Proteins By Two-Dimensional Gel Electrophoresis And Mass Spectrometry, Chenping Xu, Wesley M. Garrett, Joseph Sullivan, Thomas J. Caperna, Savithiry Natarajan
Separation And Identification Of Soybean Leaf Proteins By Two-Dimensional Gel Electrophoresis And Mass Spectrometry, Chenping Xu, Wesley M. Garrett, Joseph Sullivan, Thomas J. Caperna, Savithiry Natarajan
United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications
To establish a proteomic reference map for soybean leaves, we separated and identified leaf proteins using two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) and mass spectrometry (MS). Tryptic digests of 260 spots were subjected to peptide mass fingerprinting (PMF) by matrix-assisted laser desorption/ionization-time of flight (MALDI-TOF) MS. Fifty-three of these protein spots were identified by searching NCBInr and SwissProt databases using the Mascot search engine. Sixty-seven spots that were not identified by MALDI-TOF-MS analysis were analyzed with liquid chromatography tandem mass spectrometry (LC-MS/MS), and 66 of these spots were identified by searching against the NCBInr, SwissProt and expressed sequence tag (EST) databases. …
Science-Based Organic Farming 2006: Toward Local And Secure Food Systems, Charles A. Francis, Katja Koehler-Cole, Twyla Hansen, Peter Skelton
Science-Based Organic Farming 2006: Toward Local And Secure Food Systems, Charles A. Francis, Katja Koehler-Cole, Twyla Hansen, Peter Skelton
Publications from the Center for Applied Rural Innovation (CARI)
Organic farming includes growing food and fiber—animals, agronomic crops, horticultural fruits and vegetables, related products—as one dynamic and rapidly evolving component of our complex U.S. food system. Even as more farmers are moving toward organic certification and participation in an environmentally sound and economically lucrative market, questions arise about the long-term social impacts and sustainability of a set of practices that has gone from a movement to an industry. Consolidations in the organic trade have brought multinational corporations to the table, as they have observed a grassroots activity that has grown by 20% per year for the past two decades, …
Snp-Phage – High Throughput Snp Discovery Pipeline, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curt P. Van Tassell
Snp-Phage – High Throughput Snp Discovery Pipeline, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curt P. Van Tassell
Department of Agronomy and Horticulture: Faculty Publications
Background: Single nucleotide polymorphisms (SNPs) as defined here are single base sequence changes or short insertion/deletions between or within individuals of a given species. As a result of their abundance and the availability of high throughput analysis technologies SNP markers have begun to replace other traditional markers such as restriction fragment length polymorphisms (RFLPs), amplified fragment length polymorphisms (AFLPs) and simple sequence repeats (SSRs or microsatellite) markers for fine mapping and association studies in several species. For SNP discovery from chromatogram data, several bioinformatics programs have to be combined to generate an analysis pipeline. Results have to be stored in …
Application Of Machine Learning In Snp Discovery, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curtis P. Van Tassell
Application Of Machine Learning In Snp Discovery, Lakshmi K. Matukumalli, John J. Grefenstette, David L. Hyten, Ik-Young Choi, Perry B. Cregan, Curtis P. Van Tassell
Department of Agronomy and Horticulture: Faculty Publications
Background: Single nucleotide polymorphisms (SNP) constitute more than 90% of the genetic variation, and hence can account for most trait differences among individuals in a given species. Polymorphism detection software PolyBayes and PolyPhred give high false positive SNP predictions even with stringent parameter values. We developed a machine learning (ML) method to augment PolyBayes to improve its prediction accuracy. ML methods have also been successfully applied to other bioinformatics problems in predicting genes, promoters, transcription factor binding sites and protein structures. Results: The ML program C4.5 was applied to a set of features in order to build a SNP classifier …
Impacts Of Genetic Bottlenecks On Soybean Genome Diversity, D. L. Hyten, Qijian Song, Youlin Zhu, Ik-Young Choi, Randall L. Nelson, Jose M. Costa, James E. Specht, Randy C. Shoemaker, Perry B. Cregan
Impacts Of Genetic Bottlenecks On Soybean Genome Diversity, D. L. Hyten, Qijian Song, Youlin Zhu, Ik-Young Choi, Randall L. Nelson, Jose M. Costa, James E. Specht, Randy C. Shoemaker, Perry B. Cregan
Department of Agronomy and Horticulture: Faculty Publications
Soybean has undergone several genetic bottlenecks. These include domestication in Asia to produce numerous Asian landraces, introduction of relatively few landraces to North America, and then selective breeding over the past 75 years. It is presumed that these three human-mediated events have reduced genetic diversity. We sequenced 111 fragments from 102 genes in four soybean populations representing the populations before and after genetic bottlenecks. We show that soybean has lost many rare sequence variants and has undergone numerous allele frequency changes throughout its history. Although soybean genetic diversity has been eroded by human selection after domestication, it is notable that …
Ethylene Could Influence Ferric Reductase, Iron Transporter, And H+-Atpase Gene Expression By Affecting Fer (Or Fer-Like) Gene Activity, Carlos Lucera, Brian M. Waters, Francisco Javier Romera, María José García, María Morales, Esteban Alcántara, Rafael Pérez-Vicente
Ethylene Could Influence Ferric Reductase, Iron Transporter, And H+-Atpase Gene Expression By Affecting Fer (Or Fer-Like) Gene Activity, Carlos Lucera, Brian M. Waters, Francisco Javier Romera, María José García, María Morales, Esteban Alcántara, Rafael Pérez-Vicente
Department of Agronomy and Horticulture: Faculty Publications
In previous works, it has been shown, by using ethylene inhibitors and precursors, that ethylene could participate in the regulation of the enhanced ferric reductase activity of Fe-deficient Strategy I plants. However, it was not known whether ethylene regulates the ferric reductase gene expression or other aspects related to this activity. This paper is a study of the effects of ethylene inhibitors and precursors on the expression of the genes encoding the ferric reductases and iron transporters of Arabidopsis thaliana (FRO2 and IRT1) and Lycopersicon esculentum (= Solanum lycopersicum) (FRO1 and IRT1) plants. The effects …