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A reference-grade wild soybean genome
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 t...
Autores principales: | , , , , , , , , , , , , , , , , , , , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Nature Publishing Group UK
2019
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6418295/ https://www.ncbi.nlm.nih.gov/pubmed/30872580 http://dx.doi.org/10.1038/s41467-019-09142-9 |
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author | Xie, Min Chung, Claire Yik-Lok Li, Man-Wah Wong, Fuk-Ling Wang, Xin Liu, Ailin Wang, Zhili Leung, Alden King-Yung Wong, Tin-Hang Tong, Suk-Wah Xiao, Zhixia Fan, Kejing Ng, Ming-Sin Qi, Xinpeng Yang, Linfeng Deng, Tianquan He, Lijuan Chen, Lu Fu, Aisi Ding, Qiong He, Junxian Chung, Gyuhwa Isobe, Sachiko Tanabata, Takanari Valliyodan, Babu Nguyen, Henry T. Cannon, Steven B. Foyer, Christine H. Chan, Ting-Fung Lam, Hon-Ming |
author_facet | Xie, Min Chung, Claire Yik-Lok Li, Man-Wah Wong, Fuk-Ling Wang, Xin Liu, Ailin Wang, Zhili Leung, Alden King-Yung Wong, Tin-Hang Tong, Suk-Wah Xiao, Zhixia Fan, Kejing Ng, Ming-Sin Qi, Xinpeng Yang, Linfeng Deng, Tianquan He, Lijuan Chen, Lu Fu, Aisi Ding, Qiong He, Junxian Chung, Gyuhwa Isobe, Sachiko Tanabata, Takanari Valliyodan, Babu Nguyen, Henry T. Cannon, Steven B. Foyer, Christine H. Chan, Ting-Fung Lam, Hon-Ming |
author_sort | Xie, Min |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-6418295 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2019 |
publisher | Nature Publishing Group UK |
record_format | MEDLINE/PubMed |
spelling | pubmed-64182952019-03-18 A reference-grade wild soybean genome Xie, Min Chung, Claire Yik-Lok Li, Man-Wah Wong, Fuk-Ling Wang, Xin Liu, Ailin Wang, Zhili Leung, Alden King-Yung Wong, Tin-Hang Tong, Suk-Wah Xiao, Zhixia Fan, Kejing Ng, Ming-Sin Qi, Xinpeng Yang, Linfeng Deng, Tianquan He, Lijuan Chen, Lu Fu, Aisi Ding, Qiong He, Junxian Chung, Gyuhwa Isobe, Sachiko Tanabata, Takanari Valliyodan, Babu Nguyen, Henry T. Cannon, Steven B. Foyer, Christine H. Chan, Ting-Fung Lam, Hon-Ming Nat Commun Article 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. Nature Publishing Group UK 2019-03-14 /pmc/articles/PMC6418295/ /pubmed/30872580 http://dx.doi.org/10.1038/s41467-019-09142-9 Text en © The Author(s) 2019 Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/. |
spellingShingle | Article Xie, Min Chung, Claire Yik-Lok Li, Man-Wah Wong, Fuk-Ling Wang, Xin Liu, Ailin Wang, Zhili Leung, Alden King-Yung Wong, Tin-Hang Tong, Suk-Wah Xiao, Zhixia Fan, Kejing Ng, Ming-Sin Qi, Xinpeng Yang, Linfeng Deng, Tianquan He, Lijuan Chen, Lu Fu, Aisi Ding, Qiong He, Junxian Chung, Gyuhwa Isobe, Sachiko Tanabata, Takanari Valliyodan, Babu Nguyen, Henry T. Cannon, Steven B. Foyer, Christine H. Chan, Ting-Fung Lam, Hon-Ming A reference-grade wild soybean genome |
title | A reference-grade wild soybean genome |
title_full | A reference-grade wild soybean genome |
title_fullStr | A reference-grade wild soybean genome |
title_full_unstemmed | A reference-grade wild soybean genome |
title_short | A reference-grade wild soybean genome |
title_sort | reference-grade wild soybean genome |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6418295/ https://www.ncbi.nlm.nih.gov/pubmed/30872580 http://dx.doi.org/10.1038/s41467-019-09142-9 |
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