A reference-grade wild soybean genome

Min Xie, Claire Yik-Lok Chung, Man-Wah Li, Fuk-Ling Wong, Xin Wang, Ailin Liu, Zhili Wang, Alden King-Yung Leung, Tin-Hang Wong, Suk-Wah Tong, Zhixia Xiao, Kejing Fan, Ming-Sin Ng, Xinpeng Qi, Linfeng Yang, Tianquan Deng, Lijuan He, Lu Chen, Aisi Fu, Qiong Ding, Junxian He, Gyuhwa Chung, Sachiko Isobe, Takanari Tanabata, Babu Valliyodan, Henry T. Nguyen, Steven B. Cannon, Christine H. Foyer, Ting-Fung Chan () and Hon-Ming Lam ()
Additional contact information
Min Xie: The Chinese University of Hong Kong
Claire Yik-Lok Chung: The Chinese University of Hong Kong
Man-Wah Li: The Chinese University of Hong Kong
Fuk-Ling Wong: The Chinese University of Hong Kong
Xin Wang: The Chinese University of Hong Kong
Ailin Liu: The Chinese University of Hong Kong
Zhili Wang: The Chinese University of Hong Kong
Alden King-Yung Leung: The Chinese University of Hong Kong
Tin-Hang Wong: The Chinese University of Hong Kong
Suk-Wah Tong: The Chinese University of Hong Kong
Zhixia Xiao: The Chinese University of Hong Kong
Kejing Fan: The Chinese University of Hong Kong
Ming-Sin Ng: The Chinese University of Hong Kong
Xinpeng Qi: The Chinese University of Hong Kong
Linfeng Yang: BGI-Shenzhen
Tianquan Deng: BGI-Shenzhen
Lijuan He: BGI-Shenzhen
Lu Chen: BGI-Shenzhen
Aisi Fu: Wuhan Institute of Biotechnology
Qiong Ding: Wuhan Institute of Biotechnology
Junxian He: The Chinese University of Hong Kong
Gyuhwa Chung: Chonnam National University
Sachiko Isobe: Kazusa-Kamatari
Takanari Tanabata: Kazusa-Kamatari
Babu Valliyodan: University of Missouri
Henry T. Nguyen: University of Missouri
Steven B. Cannon: United States Department of Agriculture - Agricultural Research Service (USDA-ARS)
Christine H. Foyer: University of Leeds
Ting-Fung Chan: The Chinese University of Hong Kong
Hon-Ming Lam: The Chinese University of Hong Kong

Nature Communications, 2019, vol. 10, issue 1, 1-12

Abstract: Abstract Efficient crop improvement depends on the application of accurate genetic information contained in diverse germplasm resources. Here we report a reference-grade genome of wild soybean accession W05, with a final assembled genome size of 1013.2 Mb and a contig N50 of 3.3 Mb. The analytical power of the W05 genome is demonstrated by several examples. First, we identify an inversion at the locus determining seed coat color during domestication. Second, a translocation event between chromosomes 11 and 13 of some genotypes is shown to interfere with the assignment of QTLs. Third, we find a region containing copy number variations of the Kunitz trypsin inhibitor (KTI) genes. Such findings illustrate the power of this assembly in the analysis of large structural variations in soybean germplasm collections. The wild soybean genome assembly has wide applications in comparative genomic and evolutionary studies, as well as in crop breeding and improvement programs.

Date: 2019
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DOI: 10.1038/s41467-019-09142-9

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