Cargando…
A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq)
As a salt-tolerant arbor tree species, Salix matsudana plays an important role in afforestation and greening in the coastal areas of China. To select superior Salix varieties that adapt to wide saline areas, it is of paramount importance to understand and identify the mechanisms of salt-tolerance at...
Autores principales: | , , , , , , , , |
---|---|
Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Public Library of Science
2016
|
Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4915623/ https://www.ncbi.nlm.nih.gov/pubmed/27327501 http://dx.doi.org/10.1371/journal.pone.0157777 |
_version_ | 1782438712806735872 |
---|---|
author | Zhang, Jian Yuan, Huwei Li, Min Li, Yujuan Wang, Ying Ma, Xiangjian Zhang, Yuan Tan, Feng Wu, Rongling |
author_facet | Zhang, Jian Yuan, Huwei Li, Min Li, Yujuan Wang, Ying Ma, Xiangjian Zhang, Yuan Tan, Feng Wu, Rongling |
author_sort | Zhang, Jian |
collection | PubMed |
description | As a salt-tolerant arbor tree species, Salix matsudana plays an important role in afforestation and greening in the coastal areas of China. To select superior Salix varieties that adapt to wide saline areas, it is of paramount importance to understand and identify the mechanisms of salt-tolerance at the level of the whole genome. Here, we describe a high-density genetic linkage map of S. matsudana that represents a good coverage of the Salix genome. An intraspecific F(1) hybrid population was established by crossing the salt-sensitive “Yanjiang” variety as the female parent with the salt-tolerant “9901” variety as the male parent. This population, along with its parents, was genotyped by specific length amplified fragment sequencing (SLAF-seq), leading to 277,333 high-quality SLAF markers. By marker analysis, we found that both the parents and offspring were tetraploid. The mean sequencing depth was 53.20-fold for “Yanjiang”, 47.41-fold for “9901”, and 11.02-fold for the offspring. Of the SLAF markers detected, 42,321 are polymorphic with sufficient quality for map construction. The final genetic map was constructed using 6,737 SLAF markers, covering 38 linkage groups (LGs). The genetic map spanned 5,497.45 cM in length, with an average distance of 0.82 cM. As a first high-density genetic map of S. matsudana constructed from salt tolerance-varying varieties, this study will provide a foundation for mapping quantitative trait loci that modulate salt tolerance and resistance in Salix and provide important references for molecular breeding of this important forest tree. |
format | Online Article Text |
id | pubmed-4915623 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2016 |
publisher | Public Library of Science |
record_format | MEDLINE/PubMed |
spelling | pubmed-49156232016-07-06 A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) Zhang, Jian Yuan, Huwei Li, Min Li, Yujuan Wang, Ying Ma, Xiangjian Zhang, Yuan Tan, Feng Wu, Rongling PLoS One Research Article As a salt-tolerant arbor tree species, Salix matsudana plays an important role in afforestation and greening in the coastal areas of China. To select superior Salix varieties that adapt to wide saline areas, it is of paramount importance to understand and identify the mechanisms of salt-tolerance at the level of the whole genome. Here, we describe a high-density genetic linkage map of S. matsudana that represents a good coverage of the Salix genome. An intraspecific F(1) hybrid population was established by crossing the salt-sensitive “Yanjiang” variety as the female parent with the salt-tolerant “9901” variety as the male parent. This population, along with its parents, was genotyped by specific length amplified fragment sequencing (SLAF-seq), leading to 277,333 high-quality SLAF markers. By marker analysis, we found that both the parents and offspring were tetraploid. The mean sequencing depth was 53.20-fold for “Yanjiang”, 47.41-fold for “9901”, and 11.02-fold for the offspring. Of the SLAF markers detected, 42,321 are polymorphic with sufficient quality for map construction. The final genetic map was constructed using 6,737 SLAF markers, covering 38 linkage groups (LGs). The genetic map spanned 5,497.45 cM in length, with an average distance of 0.82 cM. As a first high-density genetic map of S. matsudana constructed from salt tolerance-varying varieties, this study will provide a foundation for mapping quantitative trait loci that modulate salt tolerance and resistance in Salix and provide important references for molecular breeding of this important forest tree. Public Library of Science 2016-06-21 /pmc/articles/PMC4915623/ /pubmed/27327501 http://dx.doi.org/10.1371/journal.pone.0157777 Text en https://creativecommons.org/publicdomain/zero/1.0/ This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 (https://creativecommons.org/publicdomain/zero/1.0/) public domain dedication. |
spellingShingle | Research Article Zhang, Jian Yuan, Huwei Li, Min Li, Yujuan Wang, Ying Ma, Xiangjian Zhang, Yuan Tan, Feng Wu, Rongling A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title | A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title_full | A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title_fullStr | A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title_full_unstemmed | A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title_short | A High-Density Genetic Map of Tetraploid Salix matsudana Using Specific Length Amplified Fragment Sequencing (SLAF-seq) |
title_sort | high-density genetic map of tetraploid salix matsudana using specific length amplified fragment sequencing (slaf-seq) |
topic | Research Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4915623/ https://www.ncbi.nlm.nih.gov/pubmed/27327501 http://dx.doi.org/10.1371/journal.pone.0157777 |
work_keys_str_mv | AT zhangjian ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT yuanhuwei ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT limin ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT liyujuan ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT wangying ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT maxiangjian ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT zhangyuan ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT tanfeng ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT wurongling ahighdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT zhangjian highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT yuanhuwei highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT limin highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT liyujuan highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT wangying highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT maxiangjian highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT zhangyuan highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT tanfeng highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq AT wurongling highdensitygeneticmapoftetraploidsalixmatsudanausingspecificlengthamplifiedfragmentsequencingslafseq |