| Literature DB >> 29358651 |
Joshua C Stein1, Yeisoo Yu2,3, Dario Copetti2,4, Derrick J Zwickl5, Li Zhang6, Chengjun Zhang6, Kapeel Chougule1,2, Dongying Gao7, Aiko Iwata7, Jose Luis Goicoechea2, Sharon Wei1, Jun Wang8, Yi Liao9, Muhua Wang2,10, Julie Jacquemin2,11, Claude Becker12, Dave Kudrna2, Jianwei Zhang2, Carlos E M Londono2, Xiang Song2, Seunghee Lee2, Paul Sanchez2,13, Andrea Zuccolo2,14, Jetty S S Ammiraju2,15, Jayson Talag2, Ann Danowitz2, Luis F Rivera2,16, Andrea R Gschwend6, Christos Noutsos1, Cheng-Chieh Wu17,18, Shu-Min Kao17,19, Jhih-Wun Zeng17, Fu-Jin Wei17,20, Qiang Zhao21, Qi Feng21, Moaine El Baidouri22, Marie-Christine Carpentier22, Eric Lasserre22, Richard Cooke22, Daniel da Rosa Farias23, Luciano Carlos da Maia23, Railson S Dos Santos23, Kevin G Nyberg24, Kenneth L McNally4, Ramil Mauleon4, Nickolai Alexandrov4, Jeremy Schmutz25, Dave Flowers25, Chuanzhu Fan8, Detlef Weigel12, Kshirod K Jena4, Thomas Wicker26, Mingsheng Chen9, Bin Han21, Robert Henry27, Yue-Ie C Hsing17, Nori Kurata28, Antonio Costa de Oliveira23, Olivier Panaud22, Scott A Jackson7, Carlos A Machado24, Michael J Sanderson5, Manyuan Long6, Doreen Ware1,29, Rod A Wing30,31,32.
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.Entities:
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Year: 2018 PMID： 29358651 DOI： 10.1038/s41588-018-0040-0
Source DB: PubMed Journal: Nat Genet ISSN： 1061-4036 Impact factor: 38.330