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ARS Home » Northeast Area » Ithaca, New York » Robert W. Holley Center for Agriculture & Health » Plant, Soil and Nutrition Research » Research » Publications at this Location » Publication #350656

Research Project: Enhancing Plant Genome Function Maps Through Genomic, Genetic, Computational and Collaborative Research

Location: Plant, Soil and Nutrition Research

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

Author
item SUN, SILONG - CHINA AGRICULTURAL UNIVERSITY
item ZHOU, YINGSI - CHINA AGRICULTURAL UNIVERSITY
item CHEN, JIAN - CHINA AGRICULTURAL UNIVERSITY
item SHI, JUNPENG - CHINA AGRICULTURAL UNIVERSITY
item ZHAO, HAIMING - CHINA AGRICULTURAL UNIVERSITY
item ZHAO, HAINAN - CHINA AGRICULTURAL UNIVERSITY
item SONG, WEIBIN - CHINA AGRICULTURAL UNIVERSITY
item ZHANG, MEI - CHINA AGRICULTURAL UNIVERSITY
item CUI, YANG - CHINA AGRICULTURAL UNIVERSITY
item DONG, XIAOMEI - CHINA AGRICULTURAL UNIVERSITY
item LIU, HAN - CHINA AGRICULTURAL UNIVERSITY
item MA, XUXU - CHINA AGRICULTURAL UNIVERSITY
item YINPING, JIAO - COLD SPRING HARBOR LABORATORY
item BO, WANG - COLD SPRING HARBOR LABORATORY
item WEI, XUECHONG - COLD SPRING HARBOR LABORATORY
item STEIN, JOSHUA - COLD SPRING HARBOR LABORATORY
item GLAUBITZ, JEFF - CORNELL UNIVERSITY - NEW YORK
item LU, FEI - CORNELL UNIVERSITY - NEW YORK
item YU, GUOLIANG - NEXTOMICS BIOSCIENCES CO., LTD
item LIANG, CHENGZHI - CHINESE ACADEMY OF SCIENCES
item FENGLER, KEVIN - DUPONT PIONEER HI-BRED
item LI, BALIN - DUPONT PIONEER HI-BRED
item RAFALSKI, ANTONI - DUPONT PIONEER HI-BRED
item SCHNABLE, PATRICK - IOWA STATE UNIVERSITY
item Ware, Doreen
item Buckler, Edward - Ed
item LAI, JINSHENG - CHINA AGRICULTURAL UNIVERSITY

Submitted to: Nature Genetics
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 6/5/2018
Publication Date: 7/30/2018
Citation: Sun, S., Zhou, Y., Chen, J., Shi, J., Zhao, H., Zhao, H., Song, W., Zhang, M., Cui, Y., Dong, X., Liu, H., Ma, X., Yinping, J., Bo, W., Wei, X., Stein, J., Glaubitz, J., Lu, F., Yu, G., Liang, C., Fengler, K., Li, B., Rafalski, A., Schnable, P., Ware, D., Buckler IV, E.S., Lai, J. 2018. Extensive intraspecific gene order and gene structural variations between Mo17 and other maize genomes. Nature Genetics. https://doi.org/10.1038/s41588-018-0182-0.
DOI: https://doi.org/10.1038/s41588-018-0182-0

Interpretive Summary: Corn is grown on more acreage than any other crop in the US. The genetic makeup of different corn lines is very different, and these differences are the foundation for increasing yield and adaption to different environments. In this paper we report out on the development of a draft genome assembly of one corn line Mo17, and compare it to the genome another genome of corn B73, and found difference more than 5000 genes that were likely to be differences between these lines, based on the locations in the genomes. Cataloging these difference and relating them to difference on how these plants grow and respond to the environment, can have important implications for improving corn plants in the future.

Technical Abstract: Here we report the de novo genome assembly of a corresponding male representative line Mo17 using single-molecule sequencing technology. Over 96.4% of the 2,183 Mb assembled genome can be accounted by 362 scaffolds in 10 pseudo-chromosomes with 44,151 annotated protein-coding genes. Using this Mo17 genome and published B73 reference genome, comparative genomics studies were performed to study the diversity of maize on the whole genome level.