Genome-wide association study of pre-harvest sprouting tolerance using a 90K SNP array in common wheat (Triticum aestivum L.)

Key message Three major loci for pre-harvest sprouting tolerance (PHST) were mapped on chromosomes 1AL, 3BS, and 6BL, and two CAPS and one dCAPS markers were validated. Sixteen lines with favorable alleles and increased PHST were identified. Pre-harvest sprouting (PHS) significantly affects wheat gr...

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Bibliographic Details
Published in:Theoretical and applied genetics 2019-11, Vol.132 (11), p.2947-2963
Main Authors: Zhu, Yulei, Wang, Shengxing, Wei, Wenxin, Xie, Hongyong, Liu, Kai, Zhang, Can, Wu, Zengyun, Jiang, Hao, Cao, Jiajia, Zhao, Liangxia, Lu, Jie, Zhang, Haiping, Chang, Cheng, Xia, Xianchun, Xiao, Shihe, Ma, Chuanxi
Format: Article
Language:English
Subjects:
Agriculture
Alleles
Analysis
Biochemistry
Biomedical and Life Sciences
Biotechnology
Chang Cheng
Chromosome Mapping
Chromosomes
Crop yields
Dormancy
Gene polymorphism
Genetic aspects
Genetic Association Studies
Genetic Markers
Genome-wide association studies
Genomes
Genomics
Genotype
Germination
Germination - genetics
Inbreeding
Life Sciences
Linkage Disequilibrium
Models, Genetic
Original Article
Phenotype
Phenotypic variations
Plant Biochemistry
Plant Breeding/Biotechnology
Plant Genetics and Genomics
Polymorphism, Single Nucleotide
Quantitative genetics
Quantitative Trait Loci
Seed germination
Seeds - physiology
Single nucleotide polymorphisms
Single-nucleotide polymorphism
Triticum - genetics
Triticum - physiology
Triticum aestivum
Wheat
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Summary:Key message Three major loci for pre-harvest sprouting tolerance (PHST) were mapped on chromosomes 1AL, 3BS, and 6BL, and two CAPS and one dCAPS markers were validated. Sixteen lines with favorable alleles and increased PHST were identified. Pre-harvest sprouting (PHS) significantly affects wheat grain yield and quality. In the present study, the PHS tolerance (PHST) of 192 wheat varieties (lines) was evaluated by assessment of field sprouting, seed germination index, and period of dormancy in different environments. A high-density Illumina iSelect 90K SNP array was used to genotype the panel. A genome-wide association study (GWAS) based on single- and multi-locus mixed linear models was used to detect loci for PHST. The single-locus model identified 23 loci for PHST ( P  
ISSN:0040-5752
1432-2242
DOI:10.1007/s00122-019-03398-x