Chen, J. and Huang, Q. and Gao, D. and et al, . (2013) Whole-genome sequencing of Oryza brachyantha reveals mechanisms underlying Oryza genome evolution. Nature Communications, 4 (1595). pp. 1-9.
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Abstract
The wild species of the genus Oryza contain a largely untapped reservoir of agronomically important genes for rice improvement. Here we report the 261-Mb de novo assembled genome sequence of Oryza brachyantha. Low activity of long-terminal repeat retrotransposons and massive internal deletions of ancient long-terminal repeat elements lead to the compact genome of Oryza brachyantha. We model 32,038 protein-coding genes in the Oryza brachyantha genome, of which only 70% are located in collinear positions in comparison with the rice genome. Analysing breakpoints of non-collinear genes suggests that double-strand break repair through non-homologous end joining has an important role in gene movement and erosion of collinearity in the Oryza genomes. Transition of euchromatin to heterochromatin in the rice genome is accompanied by segmental and tandem duplications, further expanded by transposable element insertions. The high-quality reference genome sequence of Oryza brachyantha provides an important resource for functional and evolutionary studies in the genus Oryza.
| Item Type: | Article |
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| Additional Information: | We thank Zhukuan Cheng (Institute of Genetics and Developmental Biology, Chinese Academy of Sciences) for his kind help in cytogenetic studies, and Dashan Brar (International Rice Research Institute, Philippines) for generously providing the Oryza brachyantha plant material. |
| Author Affiliation: | State Key Laboratory of Plant Genomics, Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, No. 1 West Beichen Road, Chaoyang District, Beijing 100101, China. |
| Subjects: | Crop Improvement > Genetics/Genomics Crop Improvement > Plant Breeding |
| Divisions: | Other Crops |
| Depositing User: | Mr Balakrishna Garadasu |
| Date Deposited: | 02 Apr 2013 05:09 |
| Last Modified: | 02 Apr 2013 05:09 |
| Official URL: | http://dx.doi.org/10.1038/ncomms2596 |
| URI: | http://eprints.icrisat.ac.in/id/eprint/9979 |
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