GBS-SNP-CROP: a reference-optional pipeline for SNP discovery and plant germplasm characterization using variable length, paired-end genotyping-by-sequencing data [PDF]
, 2016 Background: With its simple library preparation and robust approach to genome reduction, genotyping-by-sequencing (GBS) is a flexible and cost-effective strategy for SNP discovery and genotyping, provided an appropriate reference genome is available. For
Bartaula, Radhika +2 more
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An evaluation of genotyping by sequencing (GBS) to map the Breviaristatum-e (ari-e) locus in cultivated barley [PDF]
, 2014 : We explored the use of genotyping by sequencing (GBS) on a recombinant inbred line population (GPMx) derived from a cross between the two-rowed barley cultivar ‘Golden Promise’ (ari-e.GP/Vrs1) and the six-rowed cultivar ‘Morex’ (Ari-e/vrs1) to map ...
Bayer, Micha +8 more
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Genomic prediction and quantitative trait locus discovery in a cassava training population constructed from multiple breeding stages [PDF]
, 2020 Open Access Article; Published online: 11 Dec 2019Assembly of a training population (TP) is an important component of effective genomic selection‐based breeding programs.
Egesi, C. +11 more
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Adapting Genotyping-by-Sequencing and Variant Calling for Heterogeneous Stock Rats
G3: Genes, Genomes, Genetics, 2020 The heterogeneous stock (HS) is an outbred rat population derived from eight inbred rat strains. HS rats are ideally suited for genome wide association studies; however, only a few genotyping microarrays have ever been designed for rats and none of them ...
Alexander F. Gileta +6 more
doaj +1 more source
Ecology and Evolution, 2021 Usually, adaptive phenotypic differentiation is paralleled by genetic divergence between locally adapted populations. However, adaptation can also happen in a scenario of nonsignificant genetic divergence due to intense gene flow and/or recent ...
Alejandro Llanos‐Garrido +2 more
doaj +1 more source
Selection Mapping Identifies Loci Underpinning Autumn Dormancy in Alfalfa (Medicago sativa). [PDF]
, 2018 Autumn dormancy in alfalfa (Medicago sativa) is associated with agronomically important traits including regrowth rate, maturity, and winter survival. Historical recurrent selection experiments have been able to manipulate the dormancy response.
Brummer, E Charles +3 more
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Maximize Resolution or Minimize Error? Using Genotyping-By-Sequencing to Investigate the Recent Diversification of Helianthemum (Cistaceae) [PDF]
, 2019 A robust phylogenetic framework, in terms of extensive geographical and taxonomic sampling, well-resolved species relationships and high certainty of tree topologies and branch length estimations, is critical in the study of macroevolutionary patterns ...
Aparicio Martínez, Abelardo +7 more
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Optimizing ddRADseq in Non-Model Species: A Case Study in Eucalyptus dunnii Maiden
Agronomy, 2019 Restriction site-associated DNA sequencing (RADseq) and its derived protocols, such as double digest RADseq (ddRADseq), offer a flexible and highly cost-effective strategy for efficient plant genome sampling.
Natalia Cristina Aguirre +14 more
doaj +1 more source
Genomic Prediction in Tetraploid Ryegrass Using Allele Frequencies Based on Genotyping by Sequencing
Frontiers in Plant Science, 2018 Perennial ryegrass is an outbreeding forage species and is one of the most widely used forage grasses in temperate regions. The aim of this study was to investigate the possibility of implementing genomic prediction in tetraploid perennial ryegrass, to ...
Xiangyu Guo +7 more
doaj +1 more source
Genomic selection in rubber tree breeding: A comparison of models and methods for managing G×E interactions [PDF]
, 2019 Several genomic prediction models combining genotype × environment (G×E) interactions have recently been developed and used for genomic selection (GS) in plant breeding programs. G×E interactions reduce selection accuracy and limit genetic gains in plant
Francisco, Felipe O. +6 more
core +2 more sources