Chinese Journal OF Rice Science >
Genome-wide Association Analysis of Cadmium Content in Rice Based on MAGIC Population
#These authors contributed equally to the work;
Received date: 2021-05-24
Revised date: 2021-08-16
Online published: 2022-01-10
【Objective】Based on the MAGIC-Hei (Multi parent advanced generation inter cross) population of rice, we explored new loci/genes related to cadmium (Cd) content in multiple environments, and screened excellent lines with low Cd alleles to provide new genes and germplasm resources for breeding low Cd varieties.【Method】MAGIC-Hei, which is composed of eight parents, was planted in Changsha, Hunan Province in 2017-2020, and the Cd content was measured. Based on genotypic data by using genotyping-by-sequencing, we carried out genome wide association analysis (GWAS) on Cd content and explored QTLs to analyze their genetic mechanism. 【Results】Fourteen QTLs controlling Cd accumulation were detected. Except for chromosome 8, the 14 QTLs distribute on the other 11 chromosomes. Among them, six loci were consistent with reported genes, and eight loci were newly found. In addition, the eight loci on chromosomes 2, 4, 7, 9 and 12, can be detected in two or more environments and the effects are relatively stable, which can be used for further fine mapping and functional research. According to the results of gene annotation and gene expression analysis, LOC_ Os02g37160, LOC_ Os02g49560, LOC_ Os04g39010 and LOC_ Os06g46310 are candidate genes for Cd content related sites, which are related to heavy metal transport. In addition, we screened 10 excellent lines carrying favorable alleles, which can be used to create low Cd rice materials. 【Conclusion】Eight new QTLs for Cd accumulation related traits and excellent materials with low Cd content in rice were found in this study, which is of great significance for the genetic study of Cd accumulation and the breeding of low Cd varieties by marker assisted selection (MAS).
Key words： MAGIC; QTL; cadmium content; MAS breeding; candidate gene
DONG Zheng, WANG Yamei, LI Yongchao, XIONG Haibo, XUE Canhui, PAN Xiaowu, LIU Wenqiang, WEI Xiucai, LI Xiaoxiang . Genome-wide Association Analysis of Cadmium Content in Rice Based on MAGIC Population[J]. Chinese Journal OF Rice Science, 2022 , 36(1) : 35 -42 . DOI: 10.16819/j.1001-7216.2022. 210504
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