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Genome-Wide Association Studies Of Doubled Haploid Exotic Introgression Lines For Root System Architecture Traits In Maize (Zea Mays L.), Darlene L. Sanchez, Sisi Liu, Rania Ibrahim, Michael Blanco, Thomas Lubberstedt 2018 Iowa State University

Genome-Wide Association Studies Of Doubled Haploid Exotic Introgression Lines For Root System Architecture Traits In Maize (Zea Mays L.), Darlene L. Sanchez, Sisi Liu, Rania Ibrahim, Michael Blanco, Thomas Lubberstedt

Agronomy Publications

Root system architecture (RSA) is becoming recognized as important for water and nutrient acquisition in plants. This study focuses on finding single nucleotide polymorphisms (SNPs) associated with seedling RSA traits from 300 doubled haploid (DH) lines derived from crosses between Germplasm Enhancement of Maize (GEM) accessions and inbred lines PHB47 and PHZ51. These DH lines were genotyped using 62,077 SNP markers, while root and shoot phenotype data were collected from 14-day old seedlings. Genome-wide association studies (GWAS) were conducted using three models to offset false positives/negatives. Multiple SNPs associated with seedling root traits were detected, some of which ...


Mac3a And Mac3b, Two Core Subunits Of The Mos4-Associated Complex, Positively Influence Mirna Biogenesis, Shengjun Li, Kan Liu, Bangjun Zhou, Mu Li, Shuxin Zhang, Lirong Zeng, Chi Zhang, Bin Yu 2018 University of Nebraska-Lincoln

Mac3a And Mac3b, Two Core Subunits Of The Mos4-Associated Complex, Positively Influence Mirna Biogenesis, Shengjun Li, Kan Liu, Bangjun Zhou, Mu Li, Shuxin Zhang, Lirong Zeng, Chi Zhang, Bin Yu

Faculty Publications from the Center for Plant Science Innovation

MAC3A and MAC3B are conserved U-box containing proteins in eukaryotes. They are subunits of the MOS4-associated complex (MAC) that plays essential roles in plant immunity and development in Arabidopsis. However, their functional mechanisms remain elusive. Here we show that Arabidopsis thaliana MAC3A and MAC3B act redundantly in microRNA (miRNA) biogenesis. Lack of both MAC3A and MAC3B in the mac3b mac3b double mutant reduces the accumulation of miRNAs, causing elevated transcript levels of miRNA targets. mac3a mac3b also decreases the levels of primary miRNA transcripts (pri-miRNAs). However, MAC3A and MAC3B do not affect the promoter activity of genes encoding miRNAs (MIR ...


Qtl Mapping In Three Connected Populations Reveals A Set Of Consensus Genomic Regions For Low Temperature Germination Ability In Zea Mays L., Xuhui Li, Guihua Wang, Junjie Fu, Li Li, Guangyao Jia, Lisha Ren, Thomas Lubberstedt, Guoying Wang, Jianhua Wang, Riliang Gu 2018 China Agricultural University

Qtl Mapping In Three Connected Populations Reveals A Set Of Consensus Genomic Regions For Low Temperature Germination Ability In Zea Mays L., Xuhui Li, Guihua Wang, Junjie Fu, Li Li, Guangyao Jia, Lisha Ren, Thomas Lubberstedt, Guoying Wang, Jianhua Wang, Riliang Gu

Agronomy Publications

Improving seed vigor in response to cold stress is an important breeding objective in maize that allows early sowing. Using two cold tolerant inbred lines 220 and P9-10 and two susceptible lines Y1518 and PH4CV, three connected F2:3 populations were generated for detecting quantitative trait locus (QTL) related to seed low-temperature germination ability. At 10°C, two germination traits (emergence rate and germination index) were collected from a sand bed and three seedling traits (seedling root length, shoot length, and total length) were extracted from paper rolls. Significant correlations were found among all traits in all populations. Via single-population ...


Generation Of Maize (Zea Mays) Doubled Haploids Via Traditional Methods, Kimberly Vanous, Adam Vanous, Ursula Frei, Thomas Lubberstedt 2018 Iowa State University

Generation Of Maize (Zea Mays) Doubled Haploids Via Traditional Methods, Kimberly Vanous, Adam Vanous, Ursula Frei, Thomas Lubberstedt

Thomas Lubberstedt

Commercial maize hybrid production has corroborated the usefulness of producing inbred lines; however, the delivery of new lines has always been a major time constraint in breeding programs. Traditional methods for developing inbred lines typically require 6 to 10 generations of self-pollination to obtain sufficient homozygosity. To bypass the time and costs associated with the development of inbred lines, doubled haploid (DH) systems have been widely adopted in the commercial production of maize. Within just two generations, DH systems can create completely homozygous and homogeneous lines. A typical maize DH system, utilizing anthocyanin markers R1-nj or Pl1 for haploid selection ...


Discrimination Of Haploid And Diploid Maize Kernels Via Multispectral Imaging, Gerald N. De La Fuente, Jens Michael Carstensen, Michael A. Edberg, Thomas Lubberstedt 2018 Iowa State University

Discrimination Of Haploid And Diploid Maize Kernels Via Multispectral Imaging, Gerald N. De La Fuente, Jens Michael Carstensen, Michael A. Edberg, Thomas Lubberstedt

Thomas Lubberstedt

The use of doubled haploids (DHs) in maize has become ubiquitous in maize breeding programmes as it allows breeders to go from cross to evaluation in as little as 2 years. Two important aspects of the in vivo DH system used in maize are as follows: (i) the identification of haploid progeny and (ii) doubling of the haploid genome to produce fertile inbred lines. This study is focused on the first step. Currently, identification of maize haploid progeny is performed manually using the R1-nj seed colour marker. This is a labour-intensive and time-consuming process; a method for automated sorting of ...


Aac Penhold Canada Prairie Spring Red Wheat, R. D. Cuthbert, R. M. DePauw, R. E. Knox, Asheesh K. Singh, T. N. McCaig, B. McCallum, T. Fetch, B. L. Beres 2018 Agriculture and Agri-Food Canada

Aac Penhold Canada Prairie Spring Red Wheat, R. D. Cuthbert, R. M. Depauw, R. E. Knox, Asheesh K. Singh, T. N. Mccaig, B. Mccallum, T. Fetch, B. L. Beres

Asheesh Singh

AAC Penhold, an awned hard red spring wheat (Triticum aestivum L.) cultivar, yielded significantly more grain than 5700PR while maturing 2 days earlier, and 7.5 cm shorter stature. The seed size was significantly larger than 5700PR and 5701PR, with a test weight significantly heavier than both checks. AAC Penhold expressed resistance to prevalent races of leaf rust and common bunt, and moderate resistance to fusarium head blight and stem rust. AAC Penhold had higher grain and flour protein than the checks and improved Hagberg Falling Number, amylograph viscosity, and water absorption. AAC Penhold is eligible for grades of the ...


Identifying New Sources Of Resistance To Brown Stem Rot In Soybean, Chantal E. McCabe, Asheesh K. Singh, Leonor F. Leandro, Silvia R. Cianzio, Michelle A. Graham 2018 Iowa State University

Identifying New Sources Of Resistance To Brown Stem Rot In Soybean, Chantal E. Mccabe, Asheesh K. Singh, Leonor F. Leandro, Silvia R. Cianzio, Michelle A. Graham

Asheesh Singh

Brown stem rot (BSR), caused by the fungus Phialophora gregata f. sp. sojae (Allington & D.W. Chamberlain) W. Gams (syn. Cadophora gregata), causes yield losses up to 38%. Three dominant BSR-resistant genes have been identified: Rbs1, Rbs2, and Rbs3. Additional BSR resistance loci will complement breeding efforts by expanding the soybean [Glycine max (L.) Merr.] genetic base. The objective of this research was to determine if PI 594637, PI 594638B, PI 594650A, and PI 594858B contained novel BSR resistance genes. The accessions were crossed to three genotypes with known BSR resistance genes and populations were developed for allelism studies. A ...


Leveraging Genomic Prediction To Scan Germplasm Collection For Crop Improvement, Leonardo de Azevedo Peixoto, Tara C. Moellers, Jiaoping Zhang, Aaron J. Lorenz, Leonardo L. Bhering, William D. Beavis, Asheesh K. Singh 2018 Federal University of Vicosa

Leveraging Genomic Prediction To Scan Germplasm Collection For Crop Improvement, Leonardo De Azevedo Peixoto, Tara C. Moellers, Jiaoping Zhang, Aaron J. Lorenz, Leonardo L. Bhering, William D. Beavis, Asheesh K. Singh

Asheesh Singh

The objective of this study was to explore the potential of genomic prediction (GP) for soybean resistance against Sclerotinia sclerotiorum (Lib.) de Bary, the causal agent of white mold (WM). A diverse panel of 465 soybean plant introduction accessions was phenotyped for WM resistance in replicated field and greenhouse tests. All plant accessions were previously genotyped using the SoySNP50K BeadChip. The predictive ability of six GP models were compared, and the impact of marker density and training population size on the predictive ability was investigated. Cross-prediction among environments was tested to determine the effectiveness of the prediction models. GP models ...


Advancing Our Understanding Of Charcoal Rot In Soybeans, Martha P. Romero Luna, Daren Mueller, Alemu Mengistu, Asheesh K. Singh, Glen L. Hartman, Kiersten A. Wise 2018 Purdue University

Advancing Our Understanding Of Charcoal Rot In Soybeans, Martha P. Romero Luna, Daren Mueller, Alemu Mengistu, Asheesh K. Singh, Glen L. Hartman, Kiersten A. Wise

Asheesh Singh

Charcoal rot [Macrophomina phaseolina (Tassi) Goid] of soybean [Glycine max (L.) Merr.] is an important but commonly misidentified disease, and very few summary articles exist on this pathosystem. Research conducted over the past 10 yr has improved our understanding of the environment conducive to disease development, host resistance, and improved disease diagnosis and management. This article summarizes the currently available research with an emphasis on disease management.


Main And Epistatic Loci Studies In Soybean For Sclerotinia Sclerotiorum Resistance Reveal Multiple Modes Of Resistance In Multi-Environments, Tara C. Moellers, Arti Singh, Jiaoping Zhang, Jae Brungardt, Mehdi Kabbage, Daren S. Mueller, Craig R. Grau, Ashish Ranjan, Damon L. Smith, R. V. Chowdy-Reddy, Asheesh K. Singh 2018 Iowa State University

Main And Epistatic Loci Studies In Soybean For Sclerotinia Sclerotiorum Resistance Reveal Multiple Modes Of Resistance In Multi-Environments, Tara C. Moellers, Arti Singh, Jiaoping Zhang, Jae Brungardt, Mehdi Kabbage, Daren S. Mueller, Craig R. Grau, Ashish Ranjan, Damon L. Smith, R. V. Chowdy-Reddy, Asheesh K. Singh

Asheesh Singh

Genome-wide association (GWAS) and epistatic (GWES) studies along with expression studies in soybean [Glycine max (L.) Merr.] were leveraged to dissect the genetics of Sclerotinia stem rot (SSR) [caused by Sclerotinia sclerotiorum (Lib.) de Bary], a significant fungal disease causing yield and quality losses. A large association panel of 466 diverse plant introduction accessions were phenotyped in multiple field and controlled environments to: (1) discover sources of resistance, (2) identify SNPs associated with resistance, and (3) determine putative candidate genes to elucidate the mode of resistance. We report 58 significant main effect loci and 24 significant epistatic interactions associated with ...


Genetic Architecture Of Charcoal Rot (Macrophomina Phaseolina) Resistance In Soybean Revealed Using A Diverse Panel, Sara M. Coser, R. V. Chowda Reddy, Jiaoping Zhang, Daren S. Mueller, Alemu Mengistu, Kiersten A. Wise, Tom W. Allen, Arti Singh, Asheesh K. Singh 2018 Iowa State University

Genetic Architecture Of Charcoal Rot (Macrophomina Phaseolina) Resistance In Soybean Revealed Using A Diverse Panel, Sara M. Coser, R. V. Chowda Reddy, Jiaoping Zhang, Daren S. Mueller, Alemu Mengistu, Kiersten A. Wise, Tom W. Allen, Arti Singh, Asheesh K. Singh

Asheesh Singh

Charcoal rot (CR) disease caused by Macrophomina phaseolina is responsible for significant yield losses in soybean production. Among the methods available for controlling this disease, breeding for resistance is the most promising. Progress in breeding efforts has been slow due to the insufficient information available on the genetic mechanisms related to resistance. Genome-wide association studies (GWAS) enable unraveling the genetic architecture of resistance and identification of causal genes. The aims of this study were to identify new sources of resistance to CR in a collection of 459 diverse plant introductions from the USDA Soybean Germplasm Core Collection using field and ...


A Foxtail Mosaic Virus Vector For Virus-Induced Gene Silencing In Maize, Yu Mei, Chunquan Zhang, Bliss M. Kernodle, John H. Hill, Steven A. Whitham 2018 Iowa State University

A Foxtail Mosaic Virus Vector For Virus-Induced Gene Silencing In Maize, Yu Mei, Chunquan Zhang, Bliss M. Kernodle, John H. Hill, Steven A. Whitham

Steven Whitham

Plant viruses have been widely used as vectors for foreign gene expression and virus-induced gene silencing (VIGS). A limited number of viruses have been developed into viral vectors for the purposes of gene expression or VIGS in monocotyledonous plants, and among these, the tripartite viruses Brome mosaic virus and Cucumber mosaic virus have been shown to induce VIGS in maize (Zea mays). We describe here a new DNA-based VIGS system derived from Foxtail mosaic virus (FoMV), a monopartite virus that is able to establish systemic infection and silencing of endogenous maize genes homologous to gene fragments inserted into the FoMV ...


Virus-Induced Gene Silencing And Transient Gene Expression In Soybean (Glycine Max) Using Bean Pod Mottle Virus Infectious Clones, Steven A. Whitham, Lori M. Lincoln, R. V. Chowda-Reddy, Jaime D. Dittman, Jamie A. O'Rourke, Michelle A. Graham 2018 Iowa State University

Virus-Induced Gene Silencing And Transient Gene Expression In Soybean (Glycine Max) Using Bean Pod Mottle Virus Infectious Clones, Steven A. Whitham, Lori M. Lincoln, R. V. Chowda-Reddy, Jaime D. Dittman, Jamie A. O'Rourke, Michelle A. Graham

Steven Whitham

Virus-induced gene silencing (VIGS) is a powerful and rapid approach for determining the functions of plant genes. The basis of VIGS is that a viral genome is engineered so that it can carry fragments of plant genes, typically in the 200 to 300 base pair size range. The recombinant viruses are used to infect experimental plants, and wherever the virus invades, the target gene or genes will be silenced. VIGS is thus transient, and in the span of a few weeks, it is possible to design VIGS constructs and then generate loss-of-function phenotypes through RNA silencing of the target genes ...


Soybean Functional Genomics: Bridging The Genotype-To-Phenotype Gap, Jamie A. O'Rourke, Michelle A. Graham, Steven A. Whitham 2018 United States Department of Agriculture

Soybean Functional Genomics: Bridging The Genotype-To-Phenotype Gap, Jamie A. O'Rourke, Michelle A. Graham, Steven A. Whitham

Steven Whitham

Technological advances coupled with the economic importance of soybean have led to increased efforts to understand gene function and associate genes with phenotypes of agronomic and fundamental interest. Functional genomics approaches aim to develop sufficient understanding needed to bridge the genotype-to-phenotype gap. In general terms, functional genomics approaches begin by using highly parallelized methods to analyze genomes, transcriptomes, proteomes, and metabolomes to generate hypotheses about genes that control phenotypes. Candidate genes are then tested for their contributions to phenotypes through various methods such as RNA silencing, genetic mutation, or overexpression. In this chapter, we review the current approaches, tools, and ...


Dynamic Transcriptome Profiling Of Bean Common Mosaic Virus (Bcmv) Infection In Common Bean (Phaseolus Vulgaris L.), Kathleen Martin, Jugpreet Singh, John H. Hill, Steven A. Whitham, Steven B. Cannon 2018 Kansas State University

Dynamic Transcriptome Profiling Of Bean Common Mosaic Virus (Bcmv) Infection In Common Bean (Phaseolus Vulgaris L.), Kathleen Martin, Jugpreet Singh, John H. Hill, Steven A. Whitham, Steven B. Cannon

Steven Whitham

Background

Bean common mosaic virus (BCMV) is widespread, with Phaseolus species as the primary host plants. Numerous BCMV strains have been identified on the basis of a panel of bean varieties that distinguish the pathogenicity types with respect to the viral strains. The molecular responses in Phaseolus to BCMV infection have not yet been well characterized.

Results

We report the transcriptional responses of a widely susceptible variety of common bean (Phaseolus vulgaris L., cultivar ‘Stringless green refugee’) to two BCMV strains, in a time-course experiment. We also report the genome sequence of a previously unreported BCMV strain. The interaction with ...


Description And Codification Of Miscanthus × Giganteus Growth Stages For Phenological Assessment, Mauricio D. Tejera, Emily A. Heaton 2018 Iowa State University

Description And Codification Of Miscanthus × Giganteus Growth Stages For Phenological Assessment, Mauricio D. Tejera, Emily A. Heaton

Emily Heaton

Triploid Miscanthus × giganteus (Greef et Deu. ex Hodkinson et Renvoize) is a sterile, perennial grass used for biomass production in temperate environments. While M. × giganteus has been intensively researched, a scale standardizing description of M. × giganteus morphological stages has not been developed. Here we provide such a scale by adapting the widely-used Biologische Bundesanstalt, Bundessortenamt, CHemische Industrie (BBCH) scale and its corresponding numerical code to describe stages of morphological development in M. × giganteus using observations of the “Freedom” and “Illinois” clone in Iowa, USA. Descriptive keys with images are also presented. Because M. × giganteus plants overlap in the field, the ...


Functions Of Maize Genes Encoding Pyruvate Phosphate Dikinase In Developing Endosperm, Ryan R. Lappe, John W. Baier, Susan K. Boehlein, Ryan Huffman, Qiaohui Lin, Fabrice Wattebled, A. Mark Settles, L. Curtis Hannah, Ljudmilla Borisjuk, Hardy Rolletschek, Jon D. Stewart, M. Paul Scott, Tracie A. Hennen-Bierwagen, Alan M. Myers 2018 Iowa State University

Functions Of Maize Genes Encoding Pyruvate Phosphate Dikinase In Developing Endosperm, Ryan R. Lappe, John W. Baier, Susan K. Boehlein, Ryan Huffman, Qiaohui Lin, Fabrice Wattebled, A. Mark Settles, L. Curtis Hannah, Ljudmilla Borisjuk, Hardy Rolletschek, Jon D. Stewart, M. Paul Scott, Tracie A. Hennen-Bierwagen, Alan M. Myers

Agronomy Publications

Maize opaque2 (o2) mutations are beneficial for endosperm nutritional quality but cause negative pleiotropic effects for reasons that are not fully understood. Direct targets of the bZIP transcriptional regulator encoded by o2 include pdk1 and pdk2 that specify pyruvate phosphate dikinase (PPDK). This enzyme reversibly converts AMP, pyrophosphate, and phosphoenolpyruvate to ATP, orthophosphate, and pyruvate and provides diverse functions in plants. This study addressed PPDK function in maize starchy endosperm where it is highly abundant during grain fill. pdk1 and pdk2 were inactivated individually by transposon insertions, and both genes were simultaneously targeted by endosperm-specific RNAi. pdk2 accounts for the ...


Tomato Cultivar Evaluation In High Tunnels, Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm 2018 Purdue University - Main Campus

Tomato Cultivar Evaluation In High Tunnels, Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm

Purdue Fruit and Vegetable Research Reports

Tomatoes are a common crop grown in unheated greenhouses, commonly called high tunnels. Production in these structures has increased in recent years. This trial was conducted to evaluate varieties for their performance as a summer-harvested crop in soil-based high tunnel production systems. Five hybrid determinate varieties or line, one hybrid indeterminate, and one open-pollinated indeterminate variety were compared for yield, earliness, fruit size, and quality.


Sugar-Enhanced And Synergistic Sweet Corn Cultivar Evaluation For Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm 2018 Purdue University - Main Campus

Sugar-Enhanced And Synergistic Sweet Corn Cultivar Evaluation For Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm

Purdue Fruit and Vegetable Research Reports

This paper reports on six bicolor sugar-enhanced or synergistic sweet corn entries that were evaluated at the Pinney-Purdue Agricultural Center in Wanatah, Indiana.


Supersweet Sweet Corn Cultivar Evaluation For Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm 2018 Purdue University - Main Campus

Supersweet Sweet Corn Cultivar Evaluation For Northern Indiana, 2017, Elizabeth Maynard, Erin A. Bluhm

Purdue Fruit and Vegetable Research Reports

This paper reports on fifteen bicolor, two yellow, and two white supersweet sweet corn entries that were evaluated at the Pinney-Purdue Agricultural Center in Wanatah, Indiana.


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