The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication

Muhua Wang, Yeisoo Yu, Georg Haberer, Pradeep Reddy Marri, Chuanzhu Fan, Jose Luis Goicoechea, Andrea Zuccolo, Xiang Song, David A Kudrna, Jetty S.S. Ammiraju, Rosa Maria Cossu, Carlos Maldonado, Jinfeng Chen, Seunghee Lee, Nick Sisneros, Kristi De Baynast, Wolfgang Golser, Marina Wissotski, Woojin Kim, Paul SanchezMarie Noelle Ndjiondjop, Kayode Sanni, Manyuan Long, Judith Carney, Olivier Panaud, Thomas Wicker, Carlos A. MacHado, Mingsheng Chen, Klaus F.X. Mayer, Steve Rounsley, Rod A Wing

Research output: Contribution to journalArticle

154 Citations (Scopus)

Abstract

The cultivation of rice in Africa dates back more than 3,000 years. Interestingly, African rice is not of the same origin as Asian rice (Oryza sativa L.) but rather is an entirely different species (i.e., Oryza glaberrima Steud.). Here we present a high-quality assembly and annotation of the O. glaberrima genome and detailed analyses of its evolutionary history of domestication and selection. Population genomics analyses of 20 O. glaberrima and 94 Oryza barthii accessions support the hypothesis that O. glaberrima was domesticated in a single region along the Niger river as opposed to noncentric domestication events across Africa. We detected evidence for artificial selection at a genome-wide scale, as well as with a set of O. glaberrima genes orthologous to O. sativa genes that are known to be associated with domestication, thus indicating convergent yet independent selection of a common set of genes during two geographically and culturally distinct domestication processes.

Original languageEnglish (US)
JournalNature Genetics
DOIs
StateAccepted/In press - Jul 27 2014

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Genome
Genes
Metagenomics
Niger
Oryza
Domestication
Rivers

ASJC Scopus subject areas

  • Genetics

Cite this

The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication. / Wang, Muhua; Yu, Yeisoo; Haberer, Georg; Marri, Pradeep Reddy; Fan, Chuanzhu; Goicoechea, Jose Luis; Zuccolo, Andrea; Song, Xiang; Kudrna, David A; Ammiraju, Jetty S.S.; Cossu, Rosa Maria; Maldonado, Carlos; Chen, Jinfeng; Lee, Seunghee; Sisneros, Nick; De Baynast, Kristi; Golser, Wolfgang; Wissotski, Marina; Kim, Woojin; Sanchez, Paul; Ndjiondjop, Marie Noelle; Sanni, Kayode; Long, Manyuan; Carney, Judith; Panaud, Olivier; Wicker, Thomas; MacHado, Carlos A.; Chen, Mingsheng; Mayer, Klaus F.X.; Rounsley, Steve; Wing, Rod A.

In: Nature Genetics, 27.07.2014.

Research output: Contribution to journalArticle

Wang, M, Yu, Y, Haberer, G, Marri, PR, Fan, C, Goicoechea, JL, Zuccolo, A, Song, X, Kudrna, DA, Ammiraju, JSS, Cossu, RM, Maldonado, C, Chen, J, Lee, S, Sisneros, N, De Baynast, K, Golser, W, Wissotski, M, Kim, W, Sanchez, P, Ndjiondjop, MN, Sanni, K, Long, M, Carney, J, Panaud, O, Wicker, T, MacHado, CA, Chen, M, Mayer, KFX, Rounsley, S & Wing, RA 2014, 'The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication', Nature Genetics. https://doi.org/10.1038/ng.3044
Wang, Muhua ; Yu, Yeisoo ; Haberer, Georg ; Marri, Pradeep Reddy ; Fan, Chuanzhu ; Goicoechea, Jose Luis ; Zuccolo, Andrea ; Song, Xiang ; Kudrna, David A ; Ammiraju, Jetty S.S. ; Cossu, Rosa Maria ; Maldonado, Carlos ; Chen, Jinfeng ; Lee, Seunghee ; Sisneros, Nick ; De Baynast, Kristi ; Golser, Wolfgang ; Wissotski, Marina ; Kim, Woojin ; Sanchez, Paul ; Ndjiondjop, Marie Noelle ; Sanni, Kayode ; Long, Manyuan ; Carney, Judith ; Panaud, Olivier ; Wicker, Thomas ; MacHado, Carlos A. ; Chen, Mingsheng ; Mayer, Klaus F.X. ; Rounsley, Steve ; Wing, Rod A. / The genome sequence of African rice (Oryza glaberrima) and evidence for independent domestication. In: Nature Genetics. 2014.
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