Genomewide SNP variation reveals relationships among landraces and modern varieties of rice

被引：477

作者：

McNally, Kenneth L. ^{[1
]}

Childs, Kevin L. ^{[2
]}

Bohnert, Regina ^{[3
]}

Davidson, Rebecca M. ^{[4
]}

Zhao, Keyan ^{[5
]}

Ulat, Victor J. ^{[1
]}

Zeller, Georg ^{[3
,6
]}

Clark, Richard M. ^{[6
]}

Hoen, Douglas R. ^{[7
]}

Bureau, Thomas E. ^{[7
]}

Stokowski, Renee ^{[8
]}

Ballinger, Dennis G. ^{[8
]}

Frazer, Kelly A. ^{[8
]}

Cox, David R. ^{[8
]}

Padhukasahasram, Badri ^{[5
]}

Bustamante, Carlos D. ^{[5
]}

Weigel, Detlef ^{[6
]}

Mackill, David J. ^{[1
]}

Bruskiewich, Richard M. ^{[1
]}

Raetsch, Gunnar ^{[3
]}

Buell, C. Robin ^{[2
]}

Leung, Hei ^{[1
]}

Leach, Jan E. ^{[4
]}

机构：

[1] Int Rice Res Inst, Manila 1301, Philippines

[2] Michigan State Univ, Dept Plant Biol, E Lansing, MI 48824 USA

[3] Friedrich Miescher Lab Max Planck Soc, D-72076 Tubingen, Germany

[4] Colorado State Univ, Program Plant Mol Biol, Ft Collins, CO 80523 USA

[5] Cornell Univ, Dept Biol Stat & Computat Biol, Ithaca, NY 14853 USA

[6] Max Planck Inst Dev Biol, Dept Mol Biol, D-72076 Tubingen, Germany

[7] McGill Univ, Dept Biol, Montreal, PQ H3A 1B1, Canada

[8] Perlegen Sci Inc, Mountain View, CA 94043 USA

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2009年 / 106卷 / 30期

基金：

美国国家科学基金会;

关键词：

introgression; Oryza sativa; resequencing; SNP discovery; ORYZA-SATIVA L; ARABIDOPSIS-THALIANA; LINKAGE DISEQUILIBRIUM; POPULATION-STRUCTURE; HAPLOTYPE DIVERSITY; ANNOTATION RESOURCE; QTL ANALYSIS; SEQUENCE; GENE; RESISTANCE;

D O I：

10.1073/pnas.0900992106

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Rice, the primary source of dietary calories for half of humanity, is the first crop plant for which a high-quality reference genome sequence from a single variety was produced. We used resequencing microarrays to interrogate 100 Mb of the unique fraction of the reference genome for 20 diverse varieties and landraces that capture the impressive genotypic and phenotypic diversity of domesticated rice. Here, we report the distribution of 160,000 nonredundant SNPs. Introgression patterns of shared SNPs revealed the breeding history and relationships among the 20 varieties; some introgressed regions are associated with agronomic traits that mark major milestones in rice improvement. These comprehensive SNP data provide a foundation for deep exploration of rice diversity and gene-trait relationships and their use for future rice improvement.

引用

页码：12273 / 12278

页数：6

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