Article ID | Journal | Published Year | Pages | File Type |
---|---|---|---|---|
8875677 | Journal of Integrative Agriculture | 2018 | 11 Pages |
Abstract
Cold stress is a major problem in rice production. To rapidly identify genes for cold tolerance in Dongxiang wild rice (DWR, Oryza rufipogon Griff.), sequencing-based bulked segregant analysis of QTL-seq method was used to resequence the extremely resistant (R) and susceptible (S) bulks of a backcross inbred lines (BILs) population (derived from Oryza sativaÃO. rufipogon) and their parents. Single nucleotide polymorphisms (SNP)-index graphs and corresponding Ï(SNP-index) graphs (at 99 and 95% confidence levels) for R- and S-bulks detected a total of 2 609 candidate SNPs, including 58 candidate cold-tolerance genes. Quantitative real-time PCR analysis revealed that 5 out of the 58 candidate genes had significant differences in expression between O. sativa and O. rufipogon. Structural variation and functional annotations of the 5 candidate genes were also analyzed, and allowed us to identify 2 insertion-deletion (InDel) markers (12-7 and 12-16) that were linked with candidate genes on chromosome 12 in DWR. These results are helpful for cloning and using cold tolerance genes from common wild rice in cultivated rice.
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Authors
Xiang-dong LUO, Jian LIU, Jun ZHAO, Liang-fang DAI, Ya-ling CHEN, Ling ZHANG, Fantao ZHANG, Biao-lin HU, Jian-kun XIE,