TY - JOUR
T1 - Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes
AU - Sun, Silong
AU - Zhou, Yingsi
AU - Chen, Jian
AU - Shi, Junpeng
AU - Zhao, Haiming
AU - Zhao, Hainan
AU - Song, Weibin
AU - Zhang, Mei
AU - Cui, Yang
AU - Dong, Xiaomei
AU - Liu, Han
AU - Ma, Xuxu
AU - Jiao, Yinping
AU - Wang, Bo
AU - Wei, Xuehong
AU - Stein, Joshua C.
AU - Glaubitz, Jeff C.
AU - Lu, Fei
AU - Yu, Guoliang
AU - Liang, Chengzhi
AU - Fengler, Kevin
AU - Li, Bailin
AU - Rafalski, Antoni
AU - Schnable, Patrick S.
AU - Ware, Doreen H.
AU - Buckler, Edward S.
AU - Lai, Jinsheng
N1 - Funding Information:
We thank the Beijing Computing Center for providing computing resources. This work was supported by grants from the National Key Research and Development Program of China (2016YFD0100802) and the National Natural Science Foundation of China (91435206; 31421005) to J.L., and the US National Science Foundation (IOS-1238014 and USDA-ARS) to E.S.B.
Publisher Copyright:
© 2018, The Author(s).
PY - 2018/9/1
Y1 - 2018/9/1
N2 - 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.
AB - 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.
UR - http://www.scopus.com/inward/record.url?scp=85051142685&partnerID=8YFLogxK
U2 - 10.1038/s41588-018-0182-0
DO - 10.1038/s41588-018-0182-0
M3 - Article
C2 - 30061735
AN - SCOPUS:85051142685
VL - 50
SP - 1289
EP - 1295
JO - Nature Genetics
JF - Nature Genetics
SN - 1061-4036
IS - 9
ER -