Genome Sequence of the Palaeopolyploid Soybean

Authors

• Jeremy Schmutz, HudsonAlpha Genome Sequencing Center
• Steven B. Cannon, USDA-ARS Corn Insects and Crop Genetics Research Unit
• Jessica Schlueter, University of North Carolina at Charlotte
• Jianxin Ma, Purdue University
• Therese Mitros, University of California
• William Nelson, The University of Arizona
• David L. Hyten, USDA, ARS, Soybean Genomics and Improvement Laboratory
• Qijian Song, USDA, ARS, Soybean Genomics and Improvement Laboratory
• Jay J. Thelen, Division of Biochemistry & Interdisciplinary Plant Group
• Jianlin Cheng, University of Missouri
• Dong Xu, University of Missouri
• Uffe Hellsten, Joint Genome Institute
• Gregory D. May, The National Center for Genome Resources
• Yeisoo Yu, University of Arizona
• Tetsuya Sakurai, RIKEN Plant Science Center
• Taishi Umezawa, RIKEN Plant Science Center
• Madan K. Bhattacharyya, Iowa State University
• Devinder Sandhu, University of Wisconsin-Stevens Point
• Babu Valliyodan, University of Missouri
• Erika Lindquist, Joint Genome Institute
• Myron Peto, USDA-ARS Corn Insects and Crop Genetics Research Unit
• David Grant, USDA-ARS Corn Insects and Crop Genetics Research Unit
• Shengqiang Shu, Joint Genome Institute
• David Goodstein, Joint Genome Institute
• Kerrie Barry, Joint Genome Institute
• Montona Futrell-Griggs, Purdue University
• Brian Abernathy, Purdue University
• Jianchang Du, Purdue University
• Zhixi Tian, Purdue University
• Liucun Zhu, Purdue University
• Navdeep Gill, Purdue UniversityFollow
• Trupti Joshi, University of Missouri
• Marc Libault, University of Missouri
• Anand Sethuraman, HudsonAlpha Genome Sequencing Center
• Xue-Cheng Zhang, University of Missouri
• Kazuo Shinozaki, RIKEN Plant Science Center
• Henry T. Nguyen, University of Missouri
• Rod A. Wing, University of Arizona
• Perry Cregan, USDA, ARS, Soybean Genomics and Improvement Laboratory
• James Specht, University of Nebraska - Lincoln
• Jane Grimwood, HudsonAlpha Genome Sequencing Center
• Dan Rokhsar, Joint Genome Institute
• Gary Stacey, University of Missouri
• Randy C. Shoemaker, USDA-ARS Corn Insects and Crop Genetics Research Unit
• Scott A. Jackson, Purdue University

ORCID

http://orcid.org/0000-0003-3746-1866

Document Type

Article

Publication Title

Nature

ISSN

1476-4687

Publication Date

1-14-2010

Keywords

DNA sequencing, Plant genetics

Abstract

Soybean (Glycine max) is one of the most important crop plants for seed protein and oil content, and for its capacity to fix atmospheric nitrogen through symbioses with soil-borne microorganisms. We sequenced the 1.1-gigabase genome by a whole-genome shotgun approach and integrated it with physical and high-density genetic maps to create a chromosome-scale draft sequence assembly. We predict 46,430 protein-coding genes, 70% more than Arabidopsis and similar to the poplar genome which, like soybean, is an ancient polyploid (palaeopolyploid). About 78% of the predicted genes occur in chromosome ends, which comprise less than one-half of the genome but account for nearly all of the genetic recombination. Genome duplications occurred at approximately 59 and 13 million years ago, resulting in a highly duplicated genome with nearly 75% of the genes present in multiple copies. The two duplication events were followed by gene diversification and loss, and numerous chromosome rearrangements. An accurate soybean genome sequence will facilitate the identification of the genetic basis of many soybean traits, and accelerate the creation of improved soybean varieties.

DOI

https://doi.org/10.1038/nature08670

Volume

463

Issue

7278

First Page

178

Last Page

183

Comments

This article is distributed under the terms of the Creative Commons Attribution-Non-Commercial-Share Alike licence (http://creativecommons.org/licenses/by-nc-sa/3.0/), which permits distribution, and reproduction in any medium, provided the original author and source are credited. This licence does not permit commercial exploitation, and derivative works must be licensed under the same or similar licence.

Additional Comments

A Corrigendum to this article was published on 06 May 2010 https://www.nature.com/articles/nature08957

Creative Commons License

This work is licensed under a Creative Commons Attribution-Noncommercial-Share Alike 3.0 License.

NSUWorks Citation

Schmutz, Jeremy; Steven B. Cannon; Jessica Schlueter; Jianxin Ma; Therese Mitros; William Nelson; David L. Hyten; Qijian Song; Jay J. Thelen; Jianlin Cheng; Dong Xu; Uffe Hellsten; Gregory D. May; Yeisoo Yu; Tetsuya Sakurai; Taishi Umezawa; Madan K. Bhattacharyya; Devinder Sandhu; Babu Valliyodan; Erika Lindquist; Myron Peto; David Grant; Shengqiang Shu; David Goodstein; Kerrie Barry; Montona Futrell-Griggs; Brian Abernathy; Jianchang Du; Zhixi Tian; Liucun Zhu; Navdeep Gill; Trupti Joshi; Marc Libault; Anand Sethuraman; Xue-Cheng Zhang; Kazuo Shinozaki; Henry T. Nguyen; Rod A. Wing; Perry Cregan; James Specht; Jane Grimwood; Dan Rokhsar; Gary Stacey; Randy C. Shoemaker; and Scott A. Jackson. 2010. "Genome Sequence of the Palaeopolyploid Soybean." Nature 463, (7278): 178-183. doi:https://doi.org/10.1038/nature08670.