Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species

Abstract Microsatellites (simple sequence repeats, SSRs) are co-dominant nuclear markers that are widely used in population genetic studies. Population genetic parameters from different studies might be significantly influenced by differences in marker number. In our study, 265 sequences with polymo...

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Autores principales:	Huaying Wang, Baiming Yang, Huan Wang, Hongxing Xiao
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2021
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/8a47daa2448647268d0cc455b7c67c34
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spelling	oai:doaj.org-article:8a47daa2448647268d0cc455b7c67c342021-12-02T16:45:11ZImpact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species10.1038/s41598-021-87945-x2045-2322https://doaj.org/article/8a47daa2448647268d0cc455b7c67c342021-04-01T00:00:00Zhttps://doi.org/10.1038/s41598-021-87945-xhttps://doaj.org/toc/2045-2322Abstract Microsatellites (simple sequence repeats, SSRs) are co-dominant nuclear markers that are widely used in population genetic studies. Population genetic parameters from different studies might be significantly influenced by differences in marker number. In our study, 265 sequences with polymorphic microsatellites were obtained from SLAF-seq data. Then, subpopulations containing different numbers (5, 6, 7,…, 15, 20, 25, 30, 35, 40) of markers were genotyped 10 times to investigate the impact of marker numbers on population genetic diversity results. Our results show that genotyping with less than 11 or 12 microsatellite markers lead to significant deviations in the population genetic diversity or genetic structure results. In order to provide markers for population genetic and conservation studies for Rhododendron, 26 SSR primers were designed and validated in three species.Huaying WangBaiming YangHuan WangHongxing XiaoNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 11, Iss 1, Pp 1-9 (2021)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Huaying Wang Baiming Yang Huan Wang Hongxing Xiao Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
description	Abstract Microsatellites (simple sequence repeats, SSRs) are co-dominant nuclear markers that are widely used in population genetic studies. Population genetic parameters from different studies might be significantly influenced by differences in marker number. In our study, 265 sequences with polymorphic microsatellites were obtained from SLAF-seq data. Then, subpopulations containing different numbers (5, 6, 7,…, 15, 20, 25, 30, 35, 40) of markers were genotyped 10 times to investigate the impact of marker numbers on population genetic diversity results. Our results show that genotyping with less than 11 or 12 microsatellite markers lead to significant deviations in the population genetic diversity or genetic structure results. In order to provide markers for population genetic and conservation studies for Rhododendron, 26 SSR primers were designed and validated in three species.
format	article
author	Huaying Wang Baiming Yang Huan Wang Hongxing Xiao
author_facet	Huaying Wang Baiming Yang Huan Wang Hongxing Xiao
author_sort	Huaying Wang
title	Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
title_short	Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
title_full	Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
title_fullStr	Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
title_full_unstemmed	Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species
title_sort	impact of different numbers of microsatellite markers on population genetic results using slaf-seq data for rhododendron species
publisher	Nature Portfolio
publishDate	2021
url	https://doaj.org/article/8a47daa2448647268d0cc455b7c67c34
work_keys_str_mv	AT huayingwang impactofdifferentnumbersofmicrosatellitemarkersonpopulationgeneticresultsusingslafseqdataforrhododendronspecies AT baimingyang impactofdifferentnumbersofmicrosatellitemarkersonpopulationgeneticresultsusingslafseqdataforrhododendronspecies AT huanwang impactofdifferentnumbersofmicrosatellitemarkersonpopulationgeneticresultsusingslafseqdataforrhododendronspecies AT hongxingxiao impactofdifferentnumbersofmicrosatellitemarkersonpopulationgeneticresultsusingslafseqdataforrhododendronspecies
_version_	1718383464667938816

Impact of different numbers of microsatellite markers on population genetic results using SLAF-seq data for Rhododendron species

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