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Article
Open AccessSimulations of rate of genetic gain in dry bean breeding programs
A reference study for breeders aiming at maximizing genetic gain in common bean. Depending on trait heritability and genetic architecture, conventional approaches may provide an advantage over other frameworks.
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Article
Open AccessAuthor Correction: A chickpea genetic variation map based on the sequencing of 3,366 genomes
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Article
Genome-based prediction of agronomic traits in spring wheat under conventional and organic management systems
Using phenotype data of three spring wheat populations evaluated at 6–15 environments under two management systems, we found moderate to very high prediction accuracies across seven traits. The phenotype data ...
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Protocol
Overview of Genomic Prediction Methods and the Associated Assumptions on the Variance of Marker Effect, and on the Architecture of the Target Trait
Genomic selection (GS) is a methodology that revolutionized the process of breeding improved genetic materials in plant and animal breeding programs. It uses predicted genomic values of the potential of untest...
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Protocol
Statistical Methods for the Quantitative Genetic Analysis of High-Throughput Phenoty** Data
The advent of plant phenomics, coupled with the wealth of genotypic data generated by next-generation sequencing technologies, provides exciting new resources for investigations into and improvement of complex...
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Protocol
Genome and Environment Based Prediction Models and Methods of Complex Traits Incorporating Genotype × Environment Interaction
Genomic-enabled prediction models are of paramount importance for the successful implementation of genomic selection (GS) based on breeding values. As opposed to animal breeding, plant breeding includes extens...
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Article
Open AccessA chickpea genetic variation map based on the sequencing of 3,366 genomes
Zero hunger and good health could be realized by 2030 through effective conservation, characterization and utilization of germplasm resources1. So far, few chickpea (Cicer arietinum) germplasm accessions have bee...
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Article
Open AccessGenome-based trait prediction in multi- environment breeding trials in groundnut
Comparative assessment identified naïve interaction model, and naïve and informed interaction GS models suitable for achieving higher prediction accuracy in groundnut kee** in mind the high g...
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Article
Open AccessCoupling day length data and genomic prediction tools for predicting time-related traits under complex scenarios
Genomic selection (GS) has proven to be an efficient tool for predicting crop-rank performance of untested genotypes; however, when the traits have intermediate optima (phenology stages), this implementation m...
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Article
Open AccessMaize genomes to fields (G2F): 2014–2017 field seasons: genotype, phenotype, climatic, soil, and inbred ear image datasets
Advanced tools and resources are needed to efficiently and sustainably produce food for an increasing world population in the context of variable environmental conditions. The maize genomes to fields (G2F) ini...
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Article
Open AccessGenomic-enabled prediction models using multi-environment trials to estimate the effect of genotype × environment interaction on prediction accuracy in chickpea
Genomic selection (GS) by selecting lines prior to field phenoty** using genoty** data has the potential to enhance the rate of genetic gains. Genotype × environment (G × E) interaction inclusion in GS mod...
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Article
Open AccessThe effect of artificial selection on phenotypic plasticity in maize
Remarkable productivity has been achieved in crop species through artificial selection and adaptation to modern agronomic practices. Whether intensive selection has changed the ability of improved cultivars to...
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Article
Open AccessInteraction between FTO rs9939609 and the Native American-origin ABCA1 rs9282541 affects BMI in the admixed Mexican population
The aim of this study was to explore whether interactions between FTO rs9939609 and ABCA1 rs9282541 affect BMI and waist circumference (WC), and could explain previously reported population differences in FTO-obe...
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Article
Open AccessGenoty** by sequencing for genomic prediction in a soybean breeding population
Advances in genoty** technology, such as genoty** by sequencing (GBS), are making genomic prediction more attractive to reduce breeding cycle times and costs associated with phenoty**. Genomic prediction...
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Article
Open AccessA reaction norm model for genomic selection using high-dimensional genomic and environmental data
New methods that incorporate the main and interaction effects of high-dimensional markers and of high-dimensional environmental covariates gave increased prediction accuracy of grain yield in w...
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Article
Open AccessA General Bayesian Estimation Method of Linear–Bilinear Models Applied to Plant Breeding Trials With Genotype × Environment Interaction
Statistical analyses of two-way tables with interaction arise in many different fields of research. This study proposes the von Mises–Fisher distribution as a prior on the set of orthogonal matrices in a linea...
