QTL mapping and candidate gene analysis of cadmium accumulation in polished rice by genome-wide association study
| Autor: | Yongchao Li, Sanxiong Liu, Xiaoxiang Li, Min Jun, Yonghong Duan, Wenqiang Liu, Xiong Haibo, Xiaowu Pan, Dong Zheng, Yu Yaying |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
0106 biological sciences
0301 basic medicine Agricultural genetics Candidate gene Linkage disequilibrium Quantitative Trait Loci lcsh:Medicine Genome-wide association study Biology Quantitative trait locus Quantitative trait 01 natural sciences Polymorphism Single Nucleotide Article Plant breeding Linkage Disequilibrium 03 medical and health sciences Quantitative Trait Heritable SNP lcsh:Science Gene Phylogeny Genetic association study Genetics Multidisciplinary lcsh:R Chromosome Mapping High-Throughput Nucleotide Sequencing food and beverages Oryza 030104 developmental biology lcsh:Q Candidate Gene Analysis 010606 plant biology & botany Cadmium Genome-Wide Association Study |
| Zdroj: | Scientific Reports, Vol 10, Iss 1, Pp 1-11 (2020) Scientific Reports |
| ISSN: | 2045-2322 |
| DOI: | 10.1038/s41598-020-68742-4 |
| Popis: | Cadmium (Cd) accumulation in rice is a serious threat to food safety and human health. Breeding rice varieties with low Cd accumulation is one of the most effective approaches to reducing health risks from Cd-polluted rice. However, the genetic basis of Cd accumulation in grains, especially in indica rice varieties, has not been fully elucidated. The evaluation of Cd-accumulation capacity was conducted among 338 diverse rice accessions grown in Cd-contaminated soils with different Cd contents. Thirteen rice lines with relatively low Cd accumulation, including six indica rice lines, were identified. Then, 35 QTLs significantly associated with Cd accumulation were identified through sequencing-based SNP discovery and a genome-wide association study (GWAS) in the two experimental years, and only qCd8-1 was detected in both years. Among of them, nine QTLs were co-localized with identified genes or QTLs. A novel QTL, qCd1-3, with the lowest P value was selected for further LD decay analysis and candidate gene prediction. We found differential expression of OsABCB24 between high-Cd-accumulative and low-Cd-accumulative accessions, suggesting it may be a candidate gene for qCd1-3 associated with low Cd accumulation. These results may be helpful for further exploiting novel functional genes related to Cd accumulation and developing rice variety with low Cd accumulation through marker-assisted breeding. |
| Databáze: | OpenAIRE |
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