Sun, S., Zhou, Y., Chen, J., Shi, J., Zhao, H., Zhao, H., Song, W., Zhang, M., Cui, Y., Dong, X., Liu, H., Ma, X., Jiao, Y., Wang, B., Wei, X., Stein, J. C., Glaubitz, J. C., Lu, F., Yu, G., Liang, C., Fengler, K., Li, B., Rafalski, A., Schnable, P. S., Ware, D. H., Buckler, E. S., Lai, J. (July 2018) Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nat Genet, 50 (9). pp. 1289-1295. ISSN 1061-4036
Abstract
Maize is an important crop with a high level of genome diversity and heterosis. The genome sequence of a typical female line, B73, was previously released. Here, we report a de novo genome assembly of a corresponding male representative line, Mo17. More than 96.4% of the 2,183 Mb assembled genome can be accounted for by 362 scaffolds in ten pseudochromosomes with 38,620 annotated protein-coding genes. Comparative analysis revealed large gene-order and gene structural variations: approximately 10% of the annotated genes were mutually nonsyntenic, and more than 20% of the predicted genes had either large-effect mutations or large structural variations, which might cause considerable protein divergence between the two inbred lines. Our study provides a high-quality reference-genome sequence of an important maize germplasm, and the intraspecific gene order and gene structural variations identified should have implications for heterosis and genome evolution.
| Item Type: | Paper |
|---|---|
| Subjects: | organism description > plant > maize bioinformatics > genomics and proteomics > genetics & nucleic acid processing > genomes > genome annotation |
| CSHL Authors: | |
| Communities: | CSHL labs > Ware lab |
| Depositing User: | Matthew Dunn |
| Date: | 30 July 2018 |
| Date Deposited: | 14 Aug 2018 15:10 |
| Last Modified: | 26 Apr 2019 14:21 |
| Related URLs: | |
| URI: | https://repository.cshl.edu/id/eprint/37129 |
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