Genomes of 13 domesticated and wild rice relatives highlight genetic 
conservation, turnover and innovation across the genus Oryza

Stein, JC; Yu, Y; Copetti, D.; Zwickl, DJ; Zhang, LT; Zhang, C; Chougule, K; Gao, D; Iwata, A; Goicoechea, JL; Wei, S; Wang, J; Liao, Y; Wang, M; Jacquemin, J; Becker, C; Kudrna, D; Zhang, J; Londono, CEM; Song, X; Lee, S; Sanchez, P; Zuccolo, AL; Ammiraju, JSS; Talag, J; Danowitz, A; Rivera, LF; Gschwend, AR; Noutsos, C; Wu, CC; Kao, SM; Zeng, JW; Wei, FJ; Zhao, Q; Feng, Q; El Baidouri, M; Carpentier, MC; Lasserre, E; Cooke, R; Rosa Farias, DD; da Maia, LC; Dos Santos, RS; Nyberg, KG; McNally, KL; Mauleon, R; Alexandrov, N; Schmutz, J; Flowers, D; Fan, C; Weigel, D; Jena, KK; Wicker, T; Chen, M; Han, B; Henry, R; Hsing, YC; Kurata, N; de Oliveira, AC; Panaud, O; Jackson, SA; Machado, CA; Sanderson, MJ; Long, M; Ware, D; Wing, RA

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Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza

Stein, J., Yu, Y., Copetti, D., Zwickl, D., Zhang, L., Zhang, C., et al. (2018). Genomes of 13 domesticated and wild rice relatives highlight genetic conservation, turnover and innovation across the genus Oryza. Nature Genetics, 50(2), 285-296.

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Item Permalink: https://hdl.handle.net/21.11116/0000-0003-B68C-2 Version Permalink: https://hdl.handle.net/21.11116/0000-000A-76E9-B

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Stein, JC, Author
Yu, Y, Author
Copetti, D., Author
Zwickl, DJ, Author
Zhang, LT, Author
Zhang, C, Author
Chougule, K, Author
Gao, D, Author
Iwata, A, Author
Goicoechea, JL, Author
Wei, S, Author
Wang, J, Author
Liao, Y, Author
Wang, M, Author
Jacquemin, J, Author
Becker, C¹, Author
Kudrna, D, Author
Zhang, J, Author
Londono, CEM, Author
Song, X, Author
Lee, S, AuthorSanchez, P, AuthorZuccolo, AL, AuthorAmmiraju, JSS, AuthorTalag, J, AuthorDanowitz, A, AuthorRivera, LF, AuthorGschwend, AR, AuthorNoutsos, C, AuthorWu, CC, AuthorKao, SM, AuthorZeng, JW, AuthorWei, FJ, AuthorZhao, Q, AuthorFeng, Q, AuthorEl Baidouri, M, AuthorCarpentier, MC, AuthorLasserre, E, AuthorCooke, R, AuthorRosa Farias, DD, Authorda Maia, LC, AuthorDos Santos, RS, AuthorNyberg, KG, AuthorMcNally, KL, AuthorMauleon, R, AuthorAlexandrov, N, AuthorSchmutz, J, AuthorFlowers, D, AuthorFan, C, AuthorWeigel, D¹, Author         Jena, KK, AuthorWicker, T, AuthorChen, M, AuthorHan, B, AuthorHenry, R, AuthorHsing, YC, AuthorKurata, N, Authorde Oliveira, AC, AuthorPanaud, O, AuthorJackson, SA, AuthorMachado, CA, AuthorSanderson, MJ, AuthorLong, M, AuthorWare, D, AuthorWing, RA, Author more..

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1Department Molecular Biology, Max Planck Institute for Developmental Biology, Max Planck Society, ou_3375790

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Abstract: The genus Oryza is a model system for the study of molecular evolution over time scales ranging from a few thousand to 15 million years. Using 13 reference genomes spanning the Oryza species tree, we show that despite few large-scale chromosomal rearrangements rapid species diversification is mirrored by lineage-specific emergence and turnover of many novel elements, including transposons, and potential new coding and noncoding genes. Our study resolves controversial areas of the Oryza phylogeny, showing a complex history of introgression among different chromosomes in the young 'AA' subclade containing the two domesticated species. This study highlights the prevalence of functionally coupled disease resistance genes and identifies many new haplotypes of potential use for future crop protection. Finally, this study marks a milestone in modern rice research with the release of a complete long-read assembly of IR 8 'Miracle Rice', which relieved famine and drove the Green Revolution in Asia 50 years ago.

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Dates: Date issued: 2018-02

Publication Status: Issued

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Identifiers: PMID: 10.1038/s41588-018-0040-0
PMID: 29358651

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Title: Nature Genetics

Other : Nature Genet.

Source Genre: Journal

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Publ. Info: New York, NY : Nature America, Inc.

Pages: - Volume / Issue: 50 (2) Sequence Number: - Start / End Page: 285 - 296 Identifier: ISSN: 1061-4036
CoNE: https://pure.mpg.de/cone/journals/resource/954925598609