Genome-Wide Analysis of Tar Spot Complex Resistance in Maize Using Genotyping-by-Sequencing SNPs and Whole-Genome Prediction
Shiliang Cao,Alexander Loladze,Yibing Yuan,Yongsheng Wu,Ao Zhang,Jiafa Chen,Gordon Huestis,Jingsheng Cao,Vijay Chaikam,Michael Olsen,Boddupalli M. Prasanna,Felix San Vicente,Xuecai Zhang +12 more
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TLDR
Major QTL on bin 8.03 confirmed by association and linkage mapping indicates TSC resistance in tropical maize could be improved by MAS and GS individually or stepwise.Abstract:
Tar spot complex (TSC) is one of the most destructive foliar diseases of maize ( L) in tropical and subtropical areas of Central and South America, causing significant grain yield losses when weather conditions are conducive To dissect the genetic architecture of TSC resistance in maize, association mapping, in conjunction with linkage mapping, was conducted on an association-mapping panel and three biparental doubled-haploid (DH) populations using genotyping-by-sequencing (GBS) single-nucleotide polymorphisms (SNPs) Association mapping revealed four quantitative trait loci (QTL) on chromosome 2, 3, 7, and 8 All the QTL, except for the one on chromosome 3, were further validated by linkage mapping in different genetic backgrounds Additional QTL were identified by linkage mapping alone A major QTL located on bin 803 was consistently detected with the largest phenotypic explained variation: 13% in association-mapping analysis and 1318 to 4331% in linkage-mapping analysis These results indicated that TSC resistance in maize was controlled by a major QTL located on bin 803 and several minor QTL with smaller effects on other chromosomes Genomic prediction results showed moderate-to-high prediction accuracies in different populations using various training population sizes and marker densities Prediction accuracy of TSC resistance was >050 when half of the population was included into the training set and 500 to 1,000 SNPs were used for prediction Information obtained from this study can be used for developing functional molecular markers for marker-assisted selection (MAS) and for implementing genomic selection (GS) to improve TSC resistance in tropical maizeread more
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Genomic Selection in Plant Breeding: Methods, Models, and Perspectives
José Crossa,Paulino Pérez-Rodríguez,Jaime Cuevas,Osval A. Montesinos-López,Diego Jarquin,Gustavo de los Campos,Juan Burgueño,Juan Manuel González-Camacho,Sergio Pérez-Elizalde,Yoseph Beyene,Susanne Dreisigacker,Ravi P. Singh,Xuecai Zhang,Manje Gowda,Manish Roorkiwal,Jessica Rutkoski,Rajeev K. Varshney +16 more
TL;DR: Based on GP results, it is speculated how GS in germplasm enhancement programs could accelerate the flow of genes from gene bank accessions to elite lines and recent advances in hyperspectral image technology could be combined with GS and pedigree-assisted breeding.
Journal ArticleDOI
Effect of Trait Heritability, Training Population Size and Marker Density on Genomic Prediction Accuracy Estimation in 22 bi-parental Tropical Maize Populations.
Ao Zhang,Ao Zhang,Hongwu Wang,Yoseph Beyene,Kassa Semagn,Yubo Liu,Yubo Liu,Shiliang Cao,Zhenhai Cui,Yanye Ruan,Juan Burgueño,Felix San Vicente,Michael Olsen,Boddupalli M. Prasanna,José Crossa,Haiqiu Yu,Xuecai Zhang +16 more
TL;DR: This study provides useful information to maize breeders to design genomic selection workflow in their breeding programs by evaluating the genomic prediction accuracy (rMG) of the six trait-environment combinations under various levels of training population size (TPS) and marker density (MD).
Journal ArticleDOI
Enhancing Genetic Gain through Genomic Selection: From Livestock to Plants.
Yunbi Xu,Yunbi Xu,Xiaogang Liu,Junjie Fu,Hongwu Wang,Jiankang Wang,Changling Huang,Boddupalli M. Prasanna,Michael Olsen,Guoying Wang,Aimin Zhang +10 more
TL;DR: Large-scale application of genomic selection in plants can be achieved by refining field management to improve heritability estimation and prediction accuracy and developing optimum GS models with the consideration of genotype-by-environment interaction and non-additive effects, along with significant cost reduction.
Journal ArticleDOI
Molecular Breeding for Nutritionally Enriched Maize: Status and Prospects
Boddupalli M. Prasanna,Natalia Palacios-Rojas,Firoz Hossain,Vignesh Muthusamy,Abebe Menkir,Thanda Dhliwayo,Thokozile Ndhlela,Felix San Vicente,Sudha K. Nair,Bindiganavile S. Vivek,Xuecai Zhang,Michael Olsen,Xingming Fan +12 more
TL;DR: The status and prospects of developing nutritionally enriched maize by successfully harnessing conventional and molecular marker-assisted breeding are outlined, highlighting the need for intensification of efforts to create greater impacts on malnutrition in maize-consuming populations, especially in the low- and middle-income countries.
Journal ArticleDOI
Phenotypic and genetic analysis of spike and kernel characteristics in wheat reveals long-term genetic trends of grain yield components.
Tobias Würschum,Willmar L. Leiser,Simon M. Langer,Simon M. Langer,Matthew R. Tucker,Longin Cfh +5 more
TL;DR: Some of the examined traits were already the basis of grain yield progress in wheat in the past decades, and a more targeted exploitation of the available variation, potentially coupled with genomic approaches, may assist wheat breeding in continuing to increase yield levels globally.
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