QTL mapping for quality traits using a high-density genetic map of wheat
Protein- and starch-related quality traits, which are quantitatively inherited and significantly influenced by the environment, are critical determinants of the end-use quality of wheat. We constructed a high-density genetic map containing 10,739 loci (5,399 unique loci) using a set of 184 recombina...
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| description | Protein- and starch-related quality traits, which are quantitatively inherited and significantly influenced by the environment, are critical determinants of the end-use quality of wheat. We constructed a high-density genetic map containing 10,739 loci (5,399 unique loci) using a set of 184 recombinant inbred lines (RILs) derived from a cross of 'Tainong 18 × Linmai 6' (TL-RILs). In this study, a quantitative trait loci (QTLs) analysis was used to examine the genetic control of grain protein content, sedimentation value, farinograph parameters, falling number and the performance of the starch pasting properties using TL-RILs grown in a field for three years. A total of 106 QTLs for 13 quality traits were detected, distributed on the 21 chromosomes. Of these, 38 and 68 QTLs for protein- and starch-related traits, respectively, were detected in three environments and their average values (AV). Twenty-six relatively high-frequency QTLs (RHF-QTLs) that were detected in more than two environments. Twelve stable QTL clusters containing at least one RHF-QTL were detected and classified into three types: detected only for protein-related traits (type I), detected only for starch-related traits (type II), and detected for both protein- and starch-related traits (type III). A total of 339 markers flanked with 11 QTL clusters (all except C6), were found to be highly homologous with 282 high confidence (HC) and 57 low confidence (LC) candidate genes based on IWGSC RefSeq v 1.0. These stable QTLs and RHF-QTLs, especially those grouped into clusters, are credible and should be given priority for QTL fine-mapping and identification of candidate genes with which to explain the molecular mechanisms of quality development and inform marker-assisted breeding in the future. |
| doi_str_mv | 10.1371/journal.pone.0230601 |
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We constructed a high-density genetic map containing 10,739 loci (5,399 unique loci) using a set of 184 recombinant inbred lines (RILs) derived from a cross of 'Tainong 18 × Linmai 6' (TL-RILs). In this study, a quantitative trait loci (QTLs) analysis was used to examine the genetic control of grain protein content, sedimentation value, farinograph parameters, falling number and the performance of the starch pasting properties using TL-RILs grown in a field for three years. A total of 106 QTLs for 13 quality traits were detected, distributed on the 21 chromosomes. Of these, 38 and 68 QTLs for protein- and starch-related traits, respectively, were detected in three environments and their average values (AV). Twenty-six relatively high-frequency QTLs (RHF-QTLs) that were detected in more than two environments. Twelve stable QTL clusters containing at least one RHF-QTL were detected and classified into three types: detected only for protein-related traits (type I), detected only for starch-related traits (type II), and detected for both protein- and starch-related traits (type III). A total of 339 markers flanked with 11 QTL clusters (all except C6), were found to be highly homologous with 282 high confidence (HC) and 57 low confidence (LC) candidate genes based on IWGSC RefSeq v 1.0. These stable QTLs and RHF-QTLs, especially those grouped into clusters, are credible and should be given priority for QTL fine-mapping and identification of candidate genes with which to explain the molecular mechanisms of quality development and inform marker-assisted breeding in the future.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0230601</identifier><identifier>PMID: 32208463</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Agricultural production ; Biology ; Biology and Life Sciences ; Breeding ; Chromosomes ; Cloning ; Clusters ; Density ; Flour ; Gene mapping ; Genes ; Genetic control ; Homology ; Inbreeding ; Laboratories ; Loci ; Mapping ; Markers ; Medicine and Health Sciences ; Molecular modelling ; Peptide mapping ; Physical Sciences ; Proteins ; Quality ; Quantitative genetics ; Quantitative trait loci ; Research and Analysis Methods ; Rheology ; Rheumatoid factor ; Sedimentation ; Sedimentation & deposition ; Seeds ; Starch ; Wheat</subject><ispartof>PloS one, 2020-03, Vol.15 (3), p.e0230601-e0230601</ispartof><rights>COPYRIGHT 2020 Public Library of Science</rights><rights>2020 Guo et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2020 Guo et al 2020 Guo et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c622t-7749bb5565022332f7b437810f2d2185510cccc395bab4c31692107ff7de1fca3</citedby><cites>FETCH-LOGICAL-c622t-7749bb5565022332f7b437810f2d2185510cccc395bab4c31692107ff7de1fca3</cites><orcidid>0000-0002-6174-1537</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7092975/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC7092975/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,724,777,781,861,882,2096,2915,23847,27905,27906,53772,53774,79349,79350</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/32208463$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Kumar, Ajay</contributor><creatorcontrib>Guo, Ying</creatorcontrib><creatorcontrib>Zhang, Guizhi</creatorcontrib><creatorcontrib>Guo, Baojin</creatorcontrib><creatorcontrib>Qu, Chunyan</creatorcontrib><creatorcontrib>Zhang, Mingxia</creatorcontrib><creatorcontrib>Kong, Fanmei</creatorcontrib><creatorcontrib>Zhao, Yan</creatorcontrib><creatorcontrib>Li, Sishen</creatorcontrib><title>QTL mapping for quality traits using a high-density genetic map of wheat</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>Protein- and starch-related quality traits, which are quantitatively inherited and significantly influenced by the environment, are critical determinants of the end-use quality of wheat. We constructed a high-density genetic map containing 10,739 loci (5,399 unique loci) using a set of 184 recombinant inbred lines (RILs) derived from a cross of 'Tainong 18 × Linmai 6' (TL-RILs). In this study, a quantitative trait loci (QTLs) analysis was used to examine the genetic control of grain protein content, sedimentation value, farinograph parameters, falling number and the performance of the starch pasting properties using TL-RILs grown in a field for three years. A total of 106 QTLs for 13 quality traits were detected, distributed on the 21 chromosomes. Of these, 38 and 68 QTLs for protein- and starch-related traits, respectively, were detected in three environments and their average values (AV). Twenty-six relatively high-frequency QTLs (RHF-QTLs) that were detected in more than two environments. 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modelling</topic><topic>Peptide mapping</topic><topic>Physical Sciences</topic><topic>Proteins</topic><topic>Quality</topic><topic>Quantitative genetics</topic><topic>Quantitative trait loci</topic><topic>Research and Analysis Methods</topic><topic>Rheology</topic><topic>Rheumatoid factor</topic><topic>Sedimentation</topic><topic>Sedimentation & deposition</topic><topic>Seeds</topic><topic>Starch</topic><topic>Wheat</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Guo, Ying</creatorcontrib><creatorcontrib>Zhang, Guizhi</creatorcontrib><creatorcontrib>Guo, Baojin</creatorcontrib><creatorcontrib>Qu, Chunyan</creatorcontrib><creatorcontrib>Zhang, Mingxia</creatorcontrib><creatorcontrib>Kong, Fanmei</creatorcontrib><creatorcontrib>Zhao, Yan</creatorcontrib><creatorcontrib>Li, Sishen</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>Gale In Context: Opposing Viewpoints</collection><collection>Gale In 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one</jtitle><addtitle>PLoS One</addtitle><date>2020-03-24</date><risdate>2020</risdate><volume>15</volume><issue>3</issue><spage>e0230601</spage><epage>e0230601</epage><pages>e0230601-e0230601</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>Protein- and starch-related quality traits, which are quantitatively inherited and significantly influenced by the environment, are critical determinants of the end-use quality of wheat. We constructed a high-density genetic map containing 10,739 loci (5,399 unique loci) using a set of 184 recombinant inbred lines (RILs) derived from a cross of 'Tainong 18 × Linmai 6' (TL-RILs). In this study, a quantitative trait loci (QTLs) analysis was used to examine the genetic control of grain protein content, sedimentation value, farinograph parameters, falling number and the performance of the starch pasting properties using TL-RILs grown in a field for three years. A total of 106 QTLs for 13 quality traits were detected, distributed on the 21 chromosomes. Of these, 38 and 68 QTLs for protein- and starch-related traits, respectively, were detected in three environments and their average values (AV). Twenty-six relatively high-frequency QTLs (RHF-QTLs) that were detected in more than two environments. Twelve stable QTL clusters containing at least one RHF-QTL were detected and classified into three types: detected only for protein-related traits (type I), detected only for starch-related traits (type II), and detected for both protein- and starch-related traits (type III). A total of 339 markers flanked with 11 QTL clusters (all except C6), were found to be highly homologous with 282 high confidence (HC) and 57 low confidence (LC) candidate genes based on IWGSC RefSeq v 1.0. These stable QTLs and RHF-QTLs, especially those grouped into clusters, are credible and should be given priority for QTL fine-mapping and identification of candidate genes with which to explain the molecular mechanisms of quality development and inform marker-assisted breeding in the future.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>32208463</pmid><doi>10.1371/journal.pone.0230601</doi><tpages>e0230601</tpages><orcidid>https://orcid.org/0000-0002-6174-1537</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Agricultural production Biology Biology and Life Sciences Breeding Chromosomes Cloning Clusters Density Flour Gene mapping Genes Genetic control Homology Inbreeding Laboratories Loci Mapping Markers Medicine and Health Sciences Molecular modelling Peptide mapping Physical Sciences Proteins Quality Quantitative genetics Quantitative trait loci Research and Analysis Methods Rheology Rheumatoid factor Sedimentation Sedimentation & deposition Seeds Starch Wheat |
| title | QTL mapping for quality traits using a high-density genetic map of wheat |
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