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High-density genetic map construction and comparative genome analysis in asparagus bean

Genetic maps are a prerequisite for quantitative trait locus (QTL) analysis, marker-assisted selection (MAS), fine gene mapping, and assembly of genome sequences. So far, several asparagus bean linkage maps have been established using various kinds of molecular markers. However, these maps were all...

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Autores principales: Huang, Haitao, Tan, Huaqiang, Xu, Dongmei, Tang, Yi, Niu, Yisong, Lai, Yunsong, Tie, Manman, Li, Huanxiu
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Nature Publishing Group UK 2018
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5859152/
https://www.ncbi.nlm.nih.gov/pubmed/29555986
http://dx.doi.org/10.1038/s41598-018-23173-0
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author Huang, Haitao
Tan, Huaqiang
Xu, Dongmei
Tang, Yi
Niu, Yisong
Lai, Yunsong
Tie, Manman
Li, Huanxiu
author_facet Huang, Haitao
Tan, Huaqiang
Xu, Dongmei
Tang, Yi
Niu, Yisong
Lai, Yunsong
Tie, Manman
Li, Huanxiu
author_sort Huang, Haitao
collection PubMed
description Genetic maps are a prerequisite for quantitative trait locus (QTL) analysis, marker-assisted selection (MAS), fine gene mapping, and assembly of genome sequences. So far, several asparagus bean linkage maps have been established using various kinds of molecular markers. However, these maps were all constructed by gel- or array-based markers. No maps based on sequencing method have been reported. In this study, an NGS-based strategy, SLAF-seq, was applied to create a high-density genetic map for asparagus bean. Through SLAF library construction and Illumina sequencing of two parents and 100 F2 individuals, a total of 55,437 polymorphic SLAF markers were developed and mined for SNP markers. The map consisted of 5,225 SNP markers in 11 LGs, spanning a total distance of 1,850.81 cM, with an average distance between markers of 0.35 cM. Comparative genome analysis with four other legume species, soybean, common bean, mung bean and adzuki bean showed that asparagus bean is genetically more related to adzuki bean. The results will provide a foundation for future genomic research, such as QTL fine mapping, comparative mapping in pulses, and offer support for assembling asparagus bean genome sequence.
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spelling pubmed-58591522018-03-20 High-density genetic map construction and comparative genome analysis in asparagus bean Huang, Haitao Tan, Huaqiang Xu, Dongmei Tang, Yi Niu, Yisong Lai, Yunsong Tie, Manman Li, Huanxiu Sci Rep Article Genetic maps are a prerequisite for quantitative trait locus (QTL) analysis, marker-assisted selection (MAS), fine gene mapping, and assembly of genome sequences. So far, several asparagus bean linkage maps have been established using various kinds of molecular markers. However, these maps were all constructed by gel- or array-based markers. No maps based on sequencing method have been reported. In this study, an NGS-based strategy, SLAF-seq, was applied to create a high-density genetic map for asparagus bean. Through SLAF library construction and Illumina sequencing of two parents and 100 F2 individuals, a total of 55,437 polymorphic SLAF markers were developed and mined for SNP markers. The map consisted of 5,225 SNP markers in 11 LGs, spanning a total distance of 1,850.81 cM, with an average distance between markers of 0.35 cM. Comparative genome analysis with four other legume species, soybean, common bean, mung bean and adzuki bean showed that asparagus bean is genetically more related to adzuki bean. The results will provide a foundation for future genomic research, such as QTL fine mapping, comparative mapping in pulses, and offer support for assembling asparagus bean genome sequence. Nature Publishing Group UK 2018-03-19 /pmc/articles/PMC5859152/ /pubmed/29555986 http://dx.doi.org/10.1038/s41598-018-23173-0 Text en © The Author(s) 2018 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
Huang, Haitao
Tan, Huaqiang
Xu, Dongmei
Tang, Yi
Niu, Yisong
Lai, Yunsong
Tie, Manman
Li, Huanxiu
High-density genetic map construction and comparative genome analysis in asparagus bean
title High-density genetic map construction and comparative genome analysis in asparagus bean
title_full High-density genetic map construction and comparative genome analysis in asparagus bean
title_fullStr High-density genetic map construction and comparative genome analysis in asparagus bean
title_full_unstemmed High-density genetic map construction and comparative genome analysis in asparagus bean
title_short High-density genetic map construction and comparative genome analysis in asparagus bean
title_sort high-density genetic map construction and comparative genome analysis in asparagus bean
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5859152/
https://www.ncbi.nlm.nih.gov/pubmed/29555986
http://dx.doi.org/10.1038/s41598-018-23173-0
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