The patterns of deleterious mutations during the domestication of soybean

Myung-Shin Kim, Roberto Lozano, Ji Hong Kim, Dong Nyuk Bae, Sang-Tae Kim, Jung-Ho Park, Man Soo Choi, Jaehyun Kim, Hyun-Choong Ok, Soo-Kwon Park, Michael A. Gore, Jung-Kyung Moon () and Soon-Chun Jeong ()
Additional contact information
Myung-Shin Kim: Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology
Roberto Lozano: Cornell University
Ji Hong Kim: Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology
Dong Nyuk Bae: Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology
Sang-Tae Kim: The Catholic University of Korea
Jung-Ho Park: Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology
Man Soo Choi: National Institute of Crop Science, Rural Development Administration
Jaehyun Kim: National Institute of Crop Science, Rural Development Administration
Hyun-Choong Ok: National Institute of Crop Science, Rural Development Administration
Soo-Kwon Park: National Institute of Crop Science, Rural Development Administration
Michael A. Gore: Cornell University
Jung-Kyung Moon: National Institute of Crop Science, Rural Development Administration
Soon-Chun Jeong: Bio-Evaluation Center, Korea Research Institute of Bioscience and Biotechnology

Nature Communications, 2021, vol. 12, issue 1, 1-14

Abstract: Abstract Globally, soybean is a major protein and oil crop. Enhancing our understanding of the soybean domestication and improvement process helps boost genomics-assisted breeding efforts. Here we present a genome-wide variation map of 10.6 million single-nucleotide polymorphisms and 1.4 million indels for 781 soybean individuals which includes 418 domesticated (Glycine max), 345 wild (Glycine soja), and 18 natural hybrid (G. max/G. soja) accessions. We describe the enhanced detection of 183 domestication-selective sweeps and the patterns of putative deleterious mutations during domestication and improvement. This predominantly selfing species shows 7.1% reduction of overall deleterious mutations in domesticated soybean relative to wild soybean and a further 1.4% reduction from landrace to improved accessions. The detected domestication-selective sweeps also show reduced levels of deleterious alleles. Importantly, genotype imputation with this resource increases the mapping resolution of genome-wide association studies for seed protein and oil traits in a soybean diversity panel.

Date: 2021
References: Add references at CitEc
Citations: View citations in EconPapers (4)

Downloads: (external link)
https://www.nature.com/articles/s41467-020-20337-3 Abstract (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:12:y:2021:i:1:d:10.1038_s41467-020-20337-3

Ordering information: This journal article can be ordered from
https://www.nature.com/ncomms/

DOI: 10.1038/s41467-020-20337-3

Access Statistics for this article

Nature Communications is currently edited by Nathalie Le Bot, Enda Bergin and Fiona Gillespie

More articles in Nature Communications from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().