期刊
NATURE BIOTECHNOLOGY
卷 30, 期 1, 页码 105-U157出版社
NATURE PORTFOLIO
DOI: 10.1038/nbt.2050
关键词
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资金
- Chinese 973 program [2007CB815700]
- National Natural Science Foundation of China [30990242]
- Provincial Key Grant of Yunnan Province [2008CC017, 2008GA002]
- Shenzhen Municipal Government
- Yantian District local government of Shenzhen
- Danish Natural Science Research Council
- CAS-Max Planck Society
- CAS
- Chinese Ministry of Agriculture
- Shenzhen Municipal Government of China
- Shenzhen Bureau of Science Technology & Information, China [ZYC200903240077A, CXB200903110066A]
- Direct For Biological Sciences [1026555] Funding Source: National Science Foundation
Rice is a staple crop that has undergone substantial phenotypic and physiological changes during domestication. Here we resequenced the genomes of 40 cultivated accessions selected from the major groups of rice and 10 accessions of their wild progenitors (Oryza rufipogon and Oryza nivara) to >15 x raw data coverage. We investigated genome-wide variation patterns in rice and obtained 6.5 million high-quality single nucleotide polymorphisms (SNPs) after excluding sites with missing data in any accession. Using these population SNP data, we identified thousands of genes with significantly lower diversity in cultivated but not wild rice, which represent candidate regions selected during domestication. Some of these variants are associated with important biological features, whereas others have yet to be functionally characterized. The molecular markers we have identified should be valuable for breeding and for identifying agronomically important genes in rice.
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