Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing.
Genetic maps in barley are usually constructed from a limited number of molecular markers such as SSR (simple sequence repeat) and DarT (diversity arrays technology). These markers must be first developed before being used for genotyping. Here, we introduce a new strategy based on sequencing progeny...
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2015-01-01
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doaj-c73989f17d5c401abfe0643d1b63d7192020-11-25T00:48:33ZengPublic Library of Science (PLoS)PLoS ONE1932-62032015-01-01107e013316110.1371/journal.pone.0133161Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing.Gaofeng ZhouQisen ZhangXiao-Qi ZhangCong TanChengdao LiGenetic maps in barley are usually constructed from a limited number of molecular markers such as SSR (simple sequence repeat) and DarT (diversity arrays technology). These markers must be first developed before being used for genotyping. Here, we introduce a new strategy based on sequencing progeny of a doubled haploid population from Baudin × AC Metcalfe to construct a genetic map in barley. About 13,547 polymorphic SNP tags with >93% calling rate were selected to construct the genetic map. A total of 12,998 SNP tags were anchored to seven linkage groups which spanned a cumulative 967.6 cM genetic distance. The high-density genetic map can be used for QTL mapping and the assembly of WGS and BAC contigs. The genetic map was evaluated for its effectiveness and efficiency in QTL mapping and candidate gene identification. A major QTL for plant height was mapped at 105.5 cM on chromosome 3H. This QTL with LOD value of 13.01 explained 44.5% of phenotypic variation. This strategy will enable rapid and efficient establishment of high-density genetic maps in other species.http://europepmc.org/articles/PMC4504713?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Gaofeng Zhou Qisen Zhang Xiao-Qi Zhang Cong Tan Chengdao Li |
spellingShingle |
Gaofeng Zhou Qisen Zhang Xiao-Qi Zhang Cong Tan Chengdao Li Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. PLoS ONE |
author_facet |
Gaofeng Zhou Qisen Zhang Xiao-Qi Zhang Cong Tan Chengdao Li |
author_sort |
Gaofeng Zhou |
title |
Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. |
title_short |
Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. |
title_full |
Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. |
title_fullStr |
Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. |
title_full_unstemmed |
Construction of High-Density Genetic Map in Barley through Restriction-Site Associated DNA Sequencing. |
title_sort |
construction of high-density genetic map in barley through restriction-site associated dna sequencing. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2015-01-01 |
description |
Genetic maps in barley are usually constructed from a limited number of molecular markers such as SSR (simple sequence repeat) and DarT (diversity arrays technology). These markers must be first developed before being used for genotyping. Here, we introduce a new strategy based on sequencing progeny of a doubled haploid population from Baudin × AC Metcalfe to construct a genetic map in barley. About 13,547 polymorphic SNP tags with >93% calling rate were selected to construct the genetic map. A total of 12,998 SNP tags were anchored to seven linkage groups which spanned a cumulative 967.6 cM genetic distance. The high-density genetic map can be used for QTL mapping and the assembly of WGS and BAC contigs. The genetic map was evaluated for its effectiveness and efficiency in QTL mapping and candidate gene identification. A major QTL for plant height was mapped at 105.5 cM on chromosome 3H. This QTL with LOD value of 13.01 explained 44.5% of phenotypic variation. This strategy will enable rapid and efficient establishment of high-density genetic maps in other species. |
url |
http://europepmc.org/articles/PMC4504713?pdf=render |
work_keys_str_mv |
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