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PMID: 17696613 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Research Support, U.S. Gov't, Non-P.H.S.

Global dissemination of a single mutation conferring white pericarp in rice.

PLoS genetics ·Vol. 3 ·No. 8 ·2007-08-00 ·Pages e133

Sweeney MT, Thomson MJ, Cho YG, Park YJ, Williamson SH, Bustamante CD, McCouch SR

Abstract

Here we report that the change from the red seeds of wild rice to the white seeds of cultivated rice (Oryza sativa) resulted from the strong selective sweep of a single mutation, a frame-shift deletion within the Rc gene that is found in 97.9% of white rice varieties today. A second mutation, also within Rc, is present in less than 3% of white accessions surveyed. Haplotype analysis revealed that the predominant mutation originated in the japonica subspecies and crossed both geographic and sterility barriers to move into the indica subspecies. A little less than one Mb of japonica DNA hitchhiked with the rc allele into most indica varieties, suggesting that other linked domestication alleles may have been transferred from japonica to indica along with white pericarp color. Our finding provides evidence of active cultural exchange among ancient farmers over the course of rice domestication coupled with very strong, positive selection for a single white allele in both subspecies of O. sativa.

MeSH Terms
Asia Crops, Agricultural/genetics Gene Flow Gene Frequency Genes, Plant Genetic Variation Haplotypes Japan Molecular Sequence Data Mutation Oryza/genetics Phylogeny Pigmentation/genetics Polymorphism, Single Nucleotide
Authors & Affiliations
7 authors, click to expand affiliations / ORCID
Sweeney Megan T
Department of Plant Breeding and Genetics, Cornell University, Ithaca, New York, United States of America.
Thomson Michael J
Cho Yong Gu
Park Yong Jin
Williamson Scott H
Bustamante Carlos D
McCouch Susan R
Conflict of Interest

Competing interests. The authors have declared that no competing interests exist.

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Article Info
Journal
PLoS genetics
Abbr.
PLoS Genet
ISSN
1553-7404
DOI
10.1371/journal.pgen.0030133
Published
2007-08-00
Epub
2007-00-26
Pages
e133
Language
English
Region
United States
NLM ID
101239074
PMCID
PMC1941752
Subset
IM
Databases
GENBANK
DQ885795, DQ885796, DQ885797, DQ885798, DQ885799, DQ885800, DQ885801, DQ885802, DQ885803, DQ885804, DQ885805, DQ885806, DQ885807, DQ885808, DQ885809, DQ885810, DQ885811, DQ885812, DQ885813, DQ885814, DQ885815, DQ885816, DQ885817, DQ885818, DQ885819, DQ885820, DQ885821, DQ885822, DQ885823, DQ902346, DQ902347, DQ902348, DQ902349, DQ902350, DQ902351, DQ902352
External Links
PubMed source DOI: 10.1371/journal.pgen.0030133 PMC Full Text View journal details
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