Agricultural Science Commons^™

Detection And Validation Of Single Feature Polymorphisms Using Rna Expression Data From A Rice Genome Array, Sung-Hyun Kim, Prasanna R. Bhat, Xinping Cui, Harkamal Walia, Jin Xu, Steve Wanamaker, Abdelbagi M. Ismail, Clyde Wilson, Timothy J. Close

Department of Agronomy and Horticulture: Faculty Publications

Background: A large number of genetic variations have been identified in rice. Such variations must in many cases control phenotypic differences in abiotic stress tolerance and other traits. A single feature polymorphism (SFP) is an oligonucleotide array-based polymorphism which can be used for identification of SNPs or insertion/deletions (INDELs) for high throughput genotyping and high density mapping. Here we applied SFP markers to a lingering question about the source of salt tolerance in a particular rice recombinant inbred line (RIL) derived from a salt tolerant and salt sensitive parent. Results: Expression data obtained by hybridizing RNA to an oligonucleotide array …

Antibiotic Use In Animal Production: Environmental Concerns, Teshome H. Regassa, Richard K. Koelsch, Charles S. Wortmann, Richard F. Randle, Akwasi A. Abunyewa

Department of Agronomy and Horticulture: Faculty Publications

Introduction

Antibiotic1 use in animal production has led to improved feed use efficiency and increased growth rates. In turn, these resulted in reduced food production costs and reduced excrement of manure nutrients which may cause pollution problems.

On the other hand, antibiotic use leads to antibiotic resistance and a possible reduction in effectiveness of treatment options for both animals and humans. This publication addresses these issues.

Disease-causing microorganisms2, including bacteria,are the most diverse and numerous organisms on earth. Diverse in their habitat, environmental adaptation, and mechanisms of reproduction, they have short generations with high multiplication rates. Such characteristics help develop …

Plan To Support Grains Industry Development 2009-2012, Department Of Agriculture And Food, Western Australia

Grain and other field crops published reports

The Plan to Support Grains Industry Development (‘the Plan’) recognises that Western Australian agricultural industries are integral to the economic wellbeing of regional and rural communities. The Plan promotes a progressive and profitable grains industry through modern best practice services and research to enhance continuous improvement in farming and supply chain practices.

The Plan has been developed to align with the Government of Western Australia’s initiatives, strategies and tactics for ‘making every hectare count’ (see Appendix 1) and with grains industry needs as identified by industry stakeholders during a series of consultation forums. These industry needs will be addressed in …

A High-Oleic-Acid And Low-Palmitic-Acid Soybean: Agronomic Performance And Evaluation As A Feedstock For Biodiesel, George L. Graef, Bradley J. Lavallee, Patrick Tenopir, Mustafa Tat, Bruce Schweiger, Anthony J. Kinney, Jon H. Van Gerpen, Thomas E. Clemente

Department of Agronomy and Horticulture: Faculty Publications

Phenotypic characterization of soybean event 335-13, which possesses oil with an increased oleic acid content (> 85%) and reduced palmitic acid content (< 5%), was conducted across multiple environments during 2004 and 2005. Under these conditions, the stability of the novel fatty acid profile of the oil was not influenced by environment. Importantly, the novel soybean event 335-13 was not compromised in yield in both irrigated and non-irrigated production schemes. Moreover, seed characteristics, including total oil and protein, as well as amino acid profile, were not altered as a result of the large shift in the fatty acid profile. The novel oil trait was inherited in a simple Mendelian fashion. The event 335-13 was also evaluated as a feedstock for biodiesel. Extruded oil from event 335-13 produced a biodiesel with improved cold flow and enhanced oxidative stability, two critical fuel parameters that can limit the utility of this renewable transportation fuel.

In Vitro And In Vivo Techniques For Screening New Natural Product-Based Fungicides For Control Of Strawberry Anthracnose, Maritza Abril

Dissertations

Seven plant pathogenic fungi (Botrytis cinerea, Colletotrichum acutatum, C. fragariae, C. gloeosporioides, Fusarium oxysporum, Phomopsis obscurans, and P. viticola) valuable in screening fungicide efficacy were tested. Optimal and reproducible conditions for germination of these selected fungi were established by incorporating Roswell Park Memorial Institute 1640 (RPMI) as a medium of known composition and washing conidia to remove innate germination inhibitors. This step reduced average fungal germination times between 3.5 h and 21.2 h. The natural product-based fungicide, sampangine, seven sampangine analogs (4-bromo-sampangine, 4-methoxysampangine, benzo[4,5]sampangine, liriodenine Mel AMC-XIII-103, onychine, cryptolepine, and liriodenine CDH-II-37), plus seven conventional fungicides (benomyl, captan, cyprodinil, fenbuconazole, …

Adding Value To Swine Manure Through Accurate Prediction Of Organic Nitrogen Availability, Charles S. Wortman, Charles Shapiro, Aaron Nygren

Department of Agronomy and Horticulture: Faculty Publications

Animal manure contains organic and inorganic nitrogen. The inorganic N, which is mostly ammonium-N but nitrate-N can be significant in composted manure, is typically considered to be 100% plant available if there are not significant losses, especially due to volatilization of ammonia-N. The availability of organic N, which is mostly from undigested and partially digested plant material needs to be mineralized to become plant available, is less predictable. Field research was conducted in eastern Nebraska to improve the basis for estimating organic N availability from injected or incorporated swine manure and from surface applied composted and stockpiled FM. The factors …

Proceedings Of The 35th Annual Meeting, Southern Soybean Disease Workers (March 12-13, 2008, Pensacola, Florida), Allen Wrather, Daniel H. Poston, Clayton A. Hollier, Jason Bond, Steve R. Koenning

Southern Soybean Disease Workers: Conference Proceedings

Contents

Southern United States Soybean Disease Loss Estimate for 2007. Compiled by SR Koenning

Contributed papers (Clayton Hollier, moderator)

Effects of Row Spacing and Leaf Wetness on the Temporal and Spatial Spread of Soybean Rust within Soybean Canopies. DF Narváez, JJ Marois, DL Wright, and S Isard

Effects of Potassium, Chloride, and Minor Elements Nutrition on Asian Soybean Rust. RW Schneider, EP Mumma, CL Clark, and CG Giles

The Impact of Selected Fungicide Treatments on Disease Progress of Asian Soybean Rust and Other Diseases of Soybean. GB Padgett, MA Purvis, A Hogan, and S Martin

Soybean Sudden Death Syndrome Variety …

Small Pasture Management Guide, James Barnhill, Scott Mckendrick

All Archived Publications

As more people select rural settings for their homes, traditional farms are being divided into small acreage home lots. Many small acreage owners would like to have lush green pastures where they can raise horses, cattle, or sheep. The purpose of this booklet is to provide the educational guidance these owners need to successfully establish and maintain a healthy grazing system.

Wheat Invest. A Compelling Business Case For Investment In The Western Australian Wheat Industry, Department Of Agriculture And Food, Western Australia

Farm Systems and Economics published reports

Western Australia (WA) is an ideal location for wheat production. It has competitive advantages including:

• A proven track record in wheat production accounting for approximately 50 per cent of Australia's production. Based on a five year average from 2003/04 to 2007/08*, WA produces around 7.7 million tonnes of wheat per year.

• Over the past five years, the top 25 per cent of farmers averaged 10 per cent return on capital excluding changes in land value.

• Export focussed due to WA's small population. 90 per cent of WA's wheat is exported

• Abundant land at competitive prices and …

Mullewa Research Annexe Spring Field Day Future Farming Systems For North-Eastern Districts 21 August 2008, Department Of Agriculture, Western Australia

Grain and other field crops research reports

Papers:

• Mullewa Research Annexe activities 2008

• Wheat for today and the future

• Consequences of strongly acidic and alkaline soils

• Break crop influence on low rainfall heavy soil

• Chemical fallow options for the north-east agricultural region

• Herbicide tolerance of new wheat varieties

• Lowrainfall oilseed crops for food and biofuel

• Utilising stock to reduce business risk in Binnu! A case study

Tillage Effects On Soil Quality Indicators And Nematode Abundance In Loessial Soil Under Long- Term No-Till Production, R. B. Mendoza, T. G. Franti, John W. Doran, Thomas O. Powers, C. W. Zanner

United States Department of Agriculture-Agricultural Research Service / University of Nebraska-Lincoln: Faculty Publications

Soil quality indicators and nematode abundance were characterized in a loessial soil under long-term conservation tillage to evaluate the effects of no-till, double-disk, chisel, and moldboard plow treatments. Indicators included soil electrical conductivity (EC), soil texture, soil organic matter (SOM), and total particulate organic matter (tPOM). Nematode abundance was positively correlated with EC, silt content, and total POM and negatively correlated with clay content. Clay content was the main source of variation among soil quality indicators and was negatively correlated with nematode abundance and most indicators. The gain in SOM in the no-till system amounted to 10887 kg over the …

Microbial Community Structure Dynamics In Ohio River Sediments During Reductive Dechlorination Of Pcbs, Andres Enrique Nunez

University of Kentucky Doctoral Dissertations

The entire stretch of the Ohio River is under fish consumption advisories due to contamination with polychlorinated biphenyls (PCBs). In this study, natural attenuation and biostimulation of PCBs and microbial communities responsible for PCB transformations were investigated in Ohio River sediments.

Natural attenuation of PCBs was negligible in sediments, which was likely attributed to low temperature conditions during most of the year, as well as low amounts of available nitrogen, phosphorus, and organic carbon. Moreover, surface sediments were relatively oxidized, as indicated by the prevalence of aerobic bacteria such as beta- Proteobacteria, alpha-Proteobacteria, Sphingobacteria, and Nitrospira in 16S rRNA sediment …

Registration Of ‘Darrell’ Wheat, A. M. H. Ibrahim, S. D. Haley, P. S. Baenziger, Y. Jin, M. A. C. Langham, J. Rickertsen, S. Kalsbeck, R. Little, J. Ingemansen, O. K. Chung, B. W. Seabourn, G. H. Bai, Ming-Shun Chen, D. V. Mcvey

Department of Agronomy and Horticulture: Faculty Publications

‘Darrell’ (Reg. No. CV-1024, PI 644224) hard red winter wheat (Triticum aestivum L.) was developed by the South Dakota State University–Agricultural Experiment Station and released in 2006 to seed producers by the South Dakota State University–Agricultural Experiment Station and the University of Nebraska Agricultural Experiment Station. Darrell was selected from the cross 2076-W12-11/‘Karl 92’ (PI 564245)//NE89526. NE89526 is an experimental line from the University of Nebraska with the pedigree ‘Lancota’ (CI 17389) selection/’Siouxland’ (PI 483469)//TX792729. 2076-W12-11 is an unreleased experimental line that originated from a population with an unidentified pedigree. Darrell was selected as an F3:4 line in 1998 …

The Effect Of Residue C:N Ratio On The Turnover Of N And C In Various Soil Organic Matter Fractions, Ana B. Wingeyer

Department of Agronomy and Horticulture: Dissertations, Theses, and Student Research

Identifying soil organic matter (SOM) fractions that contribute to soil indigenous nitrogen (N) supply and understanding their turnover under different management constitute necessary tools toward an efficient N use. The objectives of this study were: i) trace the endpoint of carbon (C) flux from residue inputs into SOM; and ii) asses the role of the light fraction (LF), mobile humic acid (MHA) fraction and calcium humate (CaHA) fraction as N sources for heterotrophic decomposition of fresh plant residues with contrasting C:N ratio. A long-term aerobic soil incubation was carried out on ¹⁵N-labeled soil samples from Lincoln and Mead, NE. …

Ua66/5/2 Newsletter, Wku Department Of Agriculture

WKU Administration Documents

Newsletter regarding programs, events, students and alumni of the WKU Agriculture department.

Proceedings Of The 34th Annual Meeting Of The Southern Soybean Disease Workers (February 18-19, 2007, St. Louis, Missouri), Daniel H. Poston, Michael E. Schmidt, J. Allen Wrather, Jason Bond, Stephen R. Koenning

Southern Soybean Disease Workers: Conference Proceedings

Southern United States Soybean Disease Loss Estimates for 2006. SR Koenning

Stratego 250 EC, Broad Spectrum Disease Control in Soybeans. JR Bloomberg, RA Myers, and R Kraus

Asian Soybean Rust: Efficacy of Selected Fungicides and Observations on Their Use. RW Schneider, CL Clark, EP Mumma, and CG Giles

Effects of Light Intensity and Darkness Period on Infection of Soybean Rust in Controlled Conditions. J Mo, T Guo, X Li, and XB Yang

Identification of Maturity Group 3 and 4 Soybean Cultivars and Lines Resistant to Cercospora sojina by Field Screening and Molecular Markers. A Wrather, R Mian, G Shannon, J …

Enhancing Fertiliser Use Efficiency For Transplanted Vegetables, Dennis Phillips, Aileen Reid, Gavin D'Adhemar

Horticulture research reports

Horticulture Australia (HAL) Project No. VG04018.

Project VG 04018 ‘Enhancing fertiliser use efficiency for transplanted vegetables’ showed that spraying highly concentrated solutions containing nitrogen over newly transplanted vegetable seedlings for between 14 and 21 days after planting can increase marketable yields by as much as 300% compared to other methods of fertiliser application. Crops that this method has been successfully tested on in this study by the W.A. Department of Agriculture and Food include iceberg and Cos lettuce, broccoli, cauliflower, Chinese cabbage (wombok), celery and cabbage.

The research was conducted on virgin sandy soils of the Swan Coastal Plain near …

Australian Temperate Strawberry Breeding Program (Western Australia) Selection Of New And Advanced Short Day Breeding Lines And Cultivars In Western Australia - 2006/2007, Aileen Reid, Dennis Phillips, Hal

Horticulture research reports

Thirty-two ‘Stage 4’ numbered selections (2004 crosses) from the Australian Temperate Strawberry Breeding Program were evaluated in unreplicated plots on a commercial property in Wanneroo for their potential under WA conditions. Seven of these have been selected as worthy of further testing. The priority selection among these was 04- 021-263, and the other six included 04-021-467, 04-037-102, 04-021-241, 04-021-172, 04-021-475 and 04-029-211.

In addition, 21 advanced numbered selections (Stages 5, 6 and 7) were also evaluated on the same grower’s property. Three of those were substantially larger plots and a later planting date. Of the first group of 18 selections, …

Ua66/5/2 Newsletter, Wku Department Of Agriculture

WKU Administration Documents

Newsletter regarding programs, events, students and alumni of the WKU Agriculture department.

Highly Variable Patterns Of Linkage Disequilibrium In Multiple Soybean Populations, D. L. Hyten, Ik-Young Choi, Qijian Song, Randy C. Shoemaker, Randall L. Nelson, Jose M. Costa, James E. Specht, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

Prospects for utilizing whole-genome association analysis in autogamous plant populations appear promising due to the reported high levels of linkage disequilibrium (LD). To determine the optimal strategies for implementing association analysis in soybean (Glycine max L. Merr.), we analyzed the structure of LD in three regions of the genome varying in length from 336 to 574 kb. This analysis was conducted in four distinct groups of soybean germplasm: 26 accessions of the wild ancestor of soybean (Glycine soja Seib. et Zucc.); 52 Asian G. max Landraces, the immediate results of domestication from G. soja; 17 Asian Landrace …

Fertility Restoration Of The Sorghum A3 Male-Sterile Cytoplasm Through A Sporophytic Mechanism Derived From Sudangrass, Hoang V. Tang, Jeffrey F. Pedersen, Christine D. Chase, Daryl R. Pring

Department of Agronomy and Horticulture: Faculty Publications

Fertility restoration of sorghum [Sorghum bicolor (L.) Moench] lines carrying the IS1112C (A3 group) male-sterile cytoplasm has been documented as a two-gene gametophytic mechanism involving complementary action of restoring alleles designated Rf3 and Rf4, as derived from IS1112C. Fertility restoration capability has also been reported from sudangrass (S. bicolor subsp. drummondii) populations. We describe characteristics of a fertility restoration system derived from sudangrass, in which male-sterile individuals were observed at high frequency in backcross and F₂-F₃ segregating populations. Segregation analyses were consistent with a sporophytic restoration system involving two complementary genes. Pollen iodine …

Landholder Information For The Safe Use And Management Of Strychnine For Emu Control, Renee Donovan, David Goodall

Biosecurity published reports

Farmnote 34/2003 - Guide to safe use of strychnine poison for emu control included.

Strychnine is a highly poisonous substance that is used in Western Australia for the control of Wild Dogs and Emus. Its use is restricted by law.

This manual outlines your roles and responsibilities in regard to Strychnine use for emu control. In particular this manual outlines the essential information you need to know in regard to:

• The legislative requirements for Strychnine control in Western Australia
• The properties and mode of action of Strychnine
• How to apply to have a strychnine emu baiting program carried out on …

Landholder Information For The Safe Use And Management Of 1080, Renee Donovan, David Goodall

Biosecurity published reports

This manual outlines your roles and responsibilities for using and managing 1080. In particular this manual outlines the essential information you need to know in regard to:

• The legislative requirements for 1080 control in Western Australia
• The properties and mode of action of 1080
• How to lodge an application to lay 1080 baits How to safely store and transport 1080
• The procedures and notification required to carry out a baiting proposal
• Personal safety, identifying signs of poisoning & effecting appropriate first aid treatment
• Your responsibilities for notifying DAFWA and the Police of any accidents or incidents
• Methods for evaluating the …

Publishing Ltd Whole-Plant Mineral Partitioning Throughout The Life Cycle In Arabidopsis Thaliana Ecotypes Columbia, Landsberg Erecta, Cape Verde Islands, And The Mutant Line Ysl1ysl3, Brian M. Waters, Michael A. Grusak

Department of Agronomy and Horticulture: Faculty Publications

• Minimal information exists on whole-plant dynamics of mineral flow through Arabidopsis thaliana or on the source tissues responsible for mineral export to developing seeds. Understanding these phenomena in a model plant could help in the development of nutritionally enhanced crop cultivars. • A whole-plant partitioning study, using sequential harvests, was conducted to characterize growth and mineral concentrations and contents of rosettes, cauline leaves, stems, immature fruit, mature fruit hulls, and seeds of three WT lines (Col-0, Ler, and Cvi) and one mutant line (Col-0::ysl1ysl3). • Shoot mineral content increased throughout the life cycle for all minerals, although tissue-specific mineral …

A Soybean Transcript Map: Gene Distribution, Haplotype And Single-Nucleotide Polymorphism Analysis, Ik-Young Choi, D. L. Hyten, Lakshmi K. Matukumalli, Qijian Song, Julian M. Chaky, Charles V. Quigley, Kevin Chase, K. Gordon Lark, Robert S. Reiter, Mun-Sup Yoon, Eun-Young Hwang, Seung-In Yi, Nevin D. Young, Randy C. Shoemaker, Curtis P. Van Tassell, James E. Specht, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

The first genetic transcript map of the soybean genome was created by mapping one SNP in each of 1141 genes in one or more of three recombinant inbred line mapping populations, thus providing a picture of the distribution of genic sequences across the mapped portion of the genome. Singlenucleotide polymorphisms (SNPs) were discovered via the resequencing of sequence-tagged sites (STSs) developed from expressed sequence tag (EST) sequence. From an initial set of 9459 polymerase chain reaction primer sets designed to a diverse set of genes, 4240 STSs were amplified and sequenced in each of six diverse soybean genotypes. In the …

Cell Wall Proteome In The Maize Primary Root Elongation Zone. Ii. Region-Specific Changes In Water Soluble And Lightly Ionically Bound Proteins Under Water Deficit1[W][Oa], Jinming Zhu, Sophie Alvarez, Ellen L. Marsh, Mary E. Lenoble, In-Jeong Cho, Mayandi Sivaguru, Sixue Chen, Henry T. Nguyen, Yajun Wu, Daniel P. Schachtman, Robert E. Sharp

Department of Agronomy and Horticulture: Faculty Publications

Previous work on the adaptation of maize (Zea mays) primary roots to water deficit showed that cell elongation is maintained preferentially toward the apex, and that this response involves modification of cell wall extension properties. To gain a comprehensive understanding of how cell wall protein (CWP) composition changes in association with the differential growth responses to water deficit in different regions of the elongation zone, a proteomics approach was used to examine water soluble and loosely ionically bound CWPs. The results revealed major and predominantly region-specific changes in protein profiles between well-watered and water-stressed roots. In total, 152 …

Map Location Of The Rpp1 Locus That Confers Resistance To Soybean Rust In Soybean, D. L. Hyten, G. L. Hartman, R. L. Nelson, R. D. Frederick, V. C. Concibido, J. M. Narvel, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

Soybean rust (SBR), caused by Phakopsora pachyrhizi, was first discovered in North America in 2004 and has the potential to become a major soybean [Glycine max (L.) Merr.] disease in the USA. Currently, four SBR resistance genes have been identifi ed but not mapped on the soybean genetic linkage map. One of these resistance genes is the Rpp1 gene, which is present in the soybean accession PI 200492. The availability of molecular markers associated with Rpp1 will permit marker-assisted selection and expedite the incorporation of this gene into U.S. cultivars. We compared simple sequence repeat (SSR) markers between …

Barcsoysnp23: A Panel Of 23 Selected Snps For Soybean Cultivar Identification, M. S. Yoon, Q.J. Song, I. Y. Choi, James E. Specht, D. L. Hyten, P. B. Cregan

Department of Agronomy and Horticulture: Faculty Publications

This report describes a set of 23 informative SNPs (BARCSoySNP23) distributed on 19 of the 20 soybean linkage groups that can be used for soybean cultivar identification. Selection of the SNPs to include in this set was made based upon the information provided by each SNP for distinguishing a diverse set of soybean genotypes as well as the linkage map position of each SNP. The genotypes included the ancestors of North American cultivars, modern North American cultivars and a group of Korean cultivars. The procedure used to identify this subset of highly informative SNP markers resulted in a significant increase …

Ethylene Involvement In The Regulation Of The H+-Atpase Csha1 Gene And Of The New Isolated Ferric Reductase Csfro1 And Iron Transporter Csirt1 Genes In Cucumber Plants, Brian M. Waters, Carlos Lucena, Francisco J. Romera, Gena G. Jester, April N. Wynn, Carmen L. Rojas, Esteban Alcántara, Rafael Pérez-Vicente

Department of Agronomy and Horticulture: Faculty Publications

In previous works using ethylene inhibitors and precursors, it has been shown that ethylene participates in the regulation of several Fe-deficiency stress responses by Strategy I plants, such as enhanced ferric reductase activity, rhizosphere acidification, and subapical root hair development. Furthermore, recent evidence suggests that ethylene could regulate the expression of both the ferric reductase and the iron transporter genes of Strategy I plants by affecting the FER (or FER-like) transcription factor. Recently, two H⁺-ATPase genes have been isolated from cucumber roots, CsHA1 and CsHA2. CsHA1 is up-regulated under Fe deficiency while CsHA2 is constitutively expressed. In …

Fertility Restoration Of The Sorghum A3 Male-Sterile Cytoplasm Through A Sporophytic Mechanism Derived From Sudangrass, Hoang V. Tang, Jeffrey F. Pedersen, Christine D. Chase, Daryl R. Pring

Department of Agronomy and Horticulture: Faculty Publications

Fertility restoration of sorghum [Sorghum bicolor (L.) Moench] lines carrying the IS1112C (A3 group) male-sterile cytoplasm has been documented as a two-gene gametophytic mechanism involving complementary action of restoring alleles designated Rf3 and Rf4, as derived from IS1112C. Fertility restoration capability has also been reported from sudangrass (S. bicolor subsp. drummondii) populations. We describe characteristics of a fertility restoration system derived from sudangrass, in which male-sterile individuals were observed at high frequency in backcross and F2-F3 segregating populations. Segregation analyses were consistent with a sporophytic restoration system involving two complementary genes. Pollen iodine staining in fertile …