Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomically important genes.

Abstract:

: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 × 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.

journal_name

Nat Biotechnol

journal_title

Nature biotechnology

authors

Xu X,Liu X,Ge S,Jensen JD,Hu F,Li X,Dong Y,Gutenkunst RN,Fang L,Huang L,Li J,He W,Zhang G,Zheng X,Zhang F,Li Y,Yu C,Kristiansen K,Zhang X,Wang J,Wright M,McCouch S,Nielsen R,Wang J,Wang W

doi

10.1038/nbt.2050

subject

Has Abstract

pub_date

2011-12-11 00:00:00

pages

105-11

issue

1

eissn

1087-0156

issn

1546-1696

pii

nbt.2050

journal_volume

30

pub_type

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