Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes

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. (2018) Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nat Genet. ISSN 1061-4036

URL: https://www.ncbi.nlm.nih.gov/pubmed/30061735
DOI: 10.1038/s41588-018-0182-0

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 Deposited: 14 Aug 2018 15:10
Last Modified: 14 Aug 2018 15:10
Related URLs:
URI: http://repository.cshl.edu/id/eprint/37129

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