Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum

Abstract Genetic linkage maps are indispensable tools in a wide range of genetic and genomic research. With the advancement of genotyping-by-sequencing (GBS) methods, the construction of a high-density linkage maps has become achievable in marine organisms lacking sufficient genomic resources, such...

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Autores principales:	Hongtao Nie, Xiwu Yan, Zhongming Huo, Liwen Jiang, Peng Chen, Hui Liu, Jianfeng Ding, Feng Yang
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e0a6509f03fe4eb8bd50a26bbd29866d
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spelling	oai:doaj.org-article:e0a6509f03fe4eb8bd50a26bbd29866d2021-12-02T16:06:11ZConstruction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum10.1038/s41598-017-00246-02045-2322https://doaj.org/article/e0a6509f03fe4eb8bd50a26bbd29866d2017-03-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-00246-0https://doaj.org/toc/2045-2322Abstract Genetic linkage maps are indispensable tools in a wide range of genetic and genomic research. With the advancement of genotyping-by-sequencing (GBS) methods, the construction of a high-density linkage maps has become achievable in marine organisms lacking sufficient genomic resources, such as mollusks. In this study, high-density linkage map was constructed for an ecologically and commercially important clam species, Ruditapes philippinarum. For the consensus linkage map, a total of 9658 markers spanning 1926.98 cM were mapped to 18 sex-averaged linkage groups, with an average marker distance of 0.42 cM. Based on the high-density linkage map, ten QTLs for growth-related traits and shell color were detected. The coverage and density of the current map are sufficient for us to effectively detect QTL for segregating traits, and two QTL positions were all coincident with the closest markers. This high-density genetic linkage map reveals basic genomic architecture and will be useful for comparative genomics research, genome assembly and genetic improvement of R. philippinarum and other bivalve molluscan species.Hongtao NieXiwu YanZhongming HuoLiwen JiangPeng ChenHui LiuJianfeng DingFeng YangNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Hongtao Nie Xiwu Yan Zhongming Huo Liwen Jiang Peng Chen Hui Liu Jianfeng Ding Feng Yang Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
description	Abstract Genetic linkage maps are indispensable tools in a wide range of genetic and genomic research. With the advancement of genotyping-by-sequencing (GBS) methods, the construction of a high-density linkage maps has become achievable in marine organisms lacking sufficient genomic resources, such as mollusks. In this study, high-density linkage map was constructed for an ecologically and commercially important clam species, Ruditapes philippinarum. For the consensus linkage map, a total of 9658 markers spanning 1926.98 cM were mapped to 18 sex-averaged linkage groups, with an average marker distance of 0.42 cM. Based on the high-density linkage map, ten QTLs for growth-related traits and shell color were detected. The coverage and density of the current map are sufficient for us to effectively detect QTL for segregating traits, and two QTL positions were all coincident with the closest markers. This high-density genetic linkage map reveals basic genomic architecture and will be useful for comparative genomics research, genome assembly and genetic improvement of R. philippinarum and other bivalve molluscan species.
format	article
author	Hongtao Nie Xiwu Yan Zhongming Huo Liwen Jiang Peng Chen Hui Liu Jianfeng Ding Feng Yang
author_facet	Hongtao Nie Xiwu Yan Zhongming Huo Liwen Jiang Peng Chen Hui Liu Jianfeng Ding Feng Yang
author_sort	Hongtao Nie
title	Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
title_short	Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
title_full	Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
title_fullStr	Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
title_full_unstemmed	Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum
title_sort	construction of a high-density genetic map and quantitative trait locus mapping in the manila clam ruditapes philippinarum
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/e0a6509f03fe4eb8bd50a26bbd29866d
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Construction of a High-Density Genetic Map and Quantitative Trait Locus Mapping in the Manila clam Ruditapes philippinarum

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