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Genotyping by sequencing of 270 Indica rice varieties revealed genetic markers probably related to heavy metal accumulation
Author(s) -
Liang Yuhu,
Dong Xiao,
Ni Xuemei,
Wang Qi,
Sahu Sunil Kumar,
Hou Junliang,
Liang Manzhong,
Chen Liangbi,
Zhang Gengyun
Publication year - 2018
Publication title -
plant breeding
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.583
H-Index - 71
eISSN - 1439-0523
pISSN - 0179-9541
DOI - 10.1111/pbr.12625
Subject(s) - biology , genotyping , single nucleotide polymorphism , quantitative trait locus , genotype , genetics , snp genotyping , genetic marker , population , snp , gene , demography , sociology
Genotyping by sequencing ( GBS ) has been applied to identify genetic markers in crops for trait association and breeding purposes. Here, we applied GBS technology to study a natural population of 270 Indica rice strains, which resulted in identification of 79,545 genomewide single nucleotide polymorphisms. Using these SNP s, we found the close relationship between the 270 Indica rice strains. Furthermore, we tested the feasibility of using these 270 Indica strains in studying important rice traits by analysing the cadmium and other metal accumulation of these strains and correlating the traits with genetic markers. We identified 32 SNP s to be associated with cadmium (Cd) accumulation, explaining 61.25% of the Cd concentration variances in grains. The genetic markers provided here are valuable resources for future rice studies, and further characterization of the candidate loci identified in this study can also aid the development of low Cd‐accumulating rice varieties.