In:
Plant Breeding, Wiley, Vol. 134, No. 1 ( 2015-02), p. 28-39
Abstract:
Genome‐wide association studies (GWAS) became a widely used method to map qualitative and quantitative traits in plants. We compared existing single‐marker and haplotype‐based methods for GWAS with a focus on barley. Based on German winter barley cultivars, four different single‐marker and haplotype‐based methods were tested for their power to detect significant associations in a large genome with a limited number of markers. We identified significant associations for yield and quality‐related traits using the iSelect array with 3886 mapped single nucleotide polymorphism (SNP) markers in a structured population consisting of 109 genotypes. Genome simulations with different numbers of genotypes, marker densities and marker effects were used to compare different GWAS methods. Results of simulations revealed a higher power in detecting significant associations for haplotype‐ than for single‐marker approaches, but showed a higher false discovery rate for SNP detection, due to lack of correction for population structure. Our simulations revealed that a population size of about 500 individuals is required to detect QTLs explaining a small trait variance ( 〈 10%).
Type of Medium:
Online Resource
ISSN:
0179-9541
,
1439-0523
DOI:
10.1111/pbr.2015.134.issue-1
Language:
English
Publisher:
Wiley
Publication Date:
2015
detail.hit.zdb_id:
2020488-7
SSG:
12
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