Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton
SUMMARY An evaluation of combining ability can facilitate the selection of suitable parents and superior F1 hybrids for hybrid cotton breeding, although the molecular genetic basis of combining ability has not been fully characterized. In the present study, 282 female parents were crossed with four...
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| Veröffentlicht in: | The Plant journal : for cell and molecular biology 2020-12, Vol.104 (5), p.1285-1300 |
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| creator | Geng, Xiaoli Sun, Gaofei Qu, Yujie Sarfraz, Zareen Jia, Yinhua He, Shoupu Pan, Zhaoe Sun, Junling Iqbal, Muhammad S. Wang, Qinglian Qin, Hongde Liu, Jinhai Liu, Hui Yang, Jun Ma, Zhiying Xu, Dongyong Yang, Jinlong Zhang, Jinbiao Li, Zhikun Cai, Zhongmin Zhang, Xuelin Zhang, Xin Zhou, Guanyin Li, Lin Zhu, Haiyong Wang, Liru Pang, Baoyin Du, Xiongming |
| description | SUMMARY
An evaluation of combining ability can facilitate the selection of suitable parents and superior F1 hybrids for hybrid cotton breeding, although the molecular genetic basis of combining ability has not been fully characterized. In the present study, 282 female parents were crossed with four male parents in accordance with the North Carolina II mating scheme to generate 1128 hybrids. The parental lines were genotyped based on restriction site‐associated DNA sequencing and 306 814 filtered single nucleotide polymorphisms were used for genome‐wide association analysis involving the phenotypes, general combining ability (GCA) values, and specific combining ability values of eight fiber quality‐ and yield‐related traits. The main results were: (i) all parents could be clustered into five subgroups based on population structure analyses and the GCA performance of the female parents had significant differences between subgroups; (ii) 20 accessions with a top 5% GCA value for more than one trait were identified as elite parents for hybrid cotton breeding; (iii) 120 significant single nucleotide polymorphisms, clustered into 66 quantitative trait loci, such as the previously reported Gh_A07G1769 and GhHOX3 genes, were found to be significantly associated with GCA; and (iv) identified quantitative trait loci for GCA had a cumulative effect on GCA of the accessions. Overall, our results suggest that pyramiding the favorable loci for GCA may improve the efficiency of hybrid cotton breeding.
Significance Statement
General and specific combining ability values are very important factors for the selection of appropriate parents and superior combinations in hybrid cotton breeding, although the molecular genetic basis has not been fully characterized. In the present study, we identified significant single nucleotide polymorphisms for general and specific combining ability in a large‐scale North Carolina II population through a genome‐wide association study. The results obtained provide new insights with respect to our understanding of the genetic factors related to combining ability. |
| doi_str_mv | 10.1111/tpj.14999 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_7756405</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2447546734</sourcerecordid><originalsourceid>FETCH-LOGICAL-c4439-e3f08f84206a3839bc42f9a17decdac226ca269d732d5df7bf988ab4b85422523</originalsourceid><addsrcrecordid>eNp1kc1qFTEYhoMo9lhdeAMScKOLafOfyUYoxValoIsK7kImPzaHOZPTJGMZV70Er9ErMe2pRQWzCUmePLwfLwDPMTrAbR3W7foAM6XUA7DCVPCOYvrlIVghJVAnGSZ74Ekpa4SwpII9BnuUKCWwVCuwPvVT2vif1z-uovPQxVK8rTFNMAV4sQw5uvjd3F6ElGGIg8_wcjZjrEv7BM3k4BL96Noh-9FU72DNJtYC4wTn7XgD2FRrmp6CR8GMxT-72_fB55O358fvurOPp--Pj846yxhVnacB9aFnBAlDe6oGy0hQBkvnrTOWEGENEcpJShx3QQ5B9b0Z2NBzRggndB-82Xm387DxzvqpBRr1NseNyYtOJuq_X6Z4ob-mb1pKLhjiTfDqTpDT5exL1ZtYrB_bLD7NRRPGJGdCUtbQl_-g6zTnqY3XKMEZl1igRr3eUTanUrIP92Ew0jcN6tagvm2wsS_-TH9P_q6sAYc74CqOfvm_SZ9_-rBT_gL9AarX</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2465457160</pqid></control><display><type>article</type><title>Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton</title><source>Wiley Journals</source><source>IngentaConnect Free/Open Access Journals</source><source>EZB-FREE-00999 freely available EZB journals</source><source>Wiley Online Library (Open Access Collection)</source><creator>Geng, Xiaoli ; Sun, Gaofei ; Qu, Yujie ; Sarfraz, Zareen ; Jia, Yinhua ; He, Shoupu ; Pan, Zhaoe ; Sun, Junling ; Iqbal, Muhammad S. ; Wang, Qinglian ; Qin, Hongde ; Liu, Jinhai ; Liu, Hui ; Yang, Jun ; Ma, Zhiying ; Xu, Dongyong ; Yang, Jinlong ; Zhang, Jinbiao ; Li, Zhikun ; Cai, Zhongmin ; Zhang, Xuelin ; Zhang, Xin ; Zhou, Guanyin ; Li, Lin ; Zhu, Haiyong ; Wang, Liru ; Pang, Baoyin ; Du, Xiongming</creator><creatorcontrib>Geng, Xiaoli ; Sun, Gaofei ; Qu, Yujie ; Sarfraz, Zareen ; Jia, Yinhua ; He, Shoupu ; Pan, Zhaoe ; Sun, Junling ; Iqbal, Muhammad S. ; Wang, Qinglian ; Qin, Hongde ; Liu, Jinhai ; Liu, Hui ; Yang, Jun ; Ma, Zhiying ; Xu, Dongyong ; Yang, Jinlong ; Zhang, Jinbiao ; Li, Zhikun ; Cai, Zhongmin ; Zhang, Xuelin ; Zhang, Xin ; Zhou, Guanyin ; Li, Lin ; Zhu, Haiyong ; Wang, Liru ; Pang, Baoyin ; Du, Xiongming</creatorcontrib><description>SUMMARY
An evaluation of combining ability can facilitate the selection of suitable parents and superior F1 hybrids for hybrid cotton breeding, although the molecular genetic basis of combining ability has not been fully characterized. In the present study, 282 female parents were crossed with four male parents in accordance with the North Carolina II mating scheme to generate 1128 hybrids. The parental lines were genotyped based on restriction site‐associated DNA sequencing and 306 814 filtered single nucleotide polymorphisms were used for genome‐wide association analysis involving the phenotypes, general combining ability (GCA) values, and specific combining ability values of eight fiber quality‐ and yield‐related traits. The main results were: (i) all parents could be clustered into five subgroups based on population structure analyses and the GCA performance of the female parents had significant differences between subgroups; (ii) 20 accessions with a top 5% GCA value for more than one trait were identified as elite parents for hybrid cotton breeding; (iii) 120 significant single nucleotide polymorphisms, clustered into 66 quantitative trait loci, such as the previously reported Gh_A07G1769 and GhHOX3 genes, were found to be significantly associated with GCA; and (iv) identified quantitative trait loci for GCA had a cumulative effect on GCA of the accessions. Overall, our results suggest that pyramiding the favorable loci for GCA may improve the efficiency of hybrid cotton breeding.
Significance Statement
General and specific combining ability values are very important factors for the selection of appropriate parents and superior combinations in hybrid cotton breeding, although the molecular genetic basis has not been fully characterized. In the present study, we identified significant single nucleotide polymorphisms for general and specific combining ability in a large‐scale North Carolina II population through a genome‐wide association study. The results obtained provide new insights with respect to our understanding of the genetic factors related to combining ability.</description><identifier>ISSN: 0960-7412</identifier><identifier>EISSN: 1365-313X</identifier><identifier>DOI: 10.1111/tpj.14999</identifier><identifier>PMID: 32996179</identifier><language>eng</language><publisher>England: Blackwell Publishing Ltd</publisher><subject>Association analysis ; Combining ability ; Cotton ; Crop yield ; Deoxyribonucleic acid ; DNA ; DNA sequencing ; fiber quality ; fiber yield ; Gene mapping ; Genomes ; genome‐wide association study ; Hybridization ; Hybrids ; Nucleotides ; Original ; Phenotypes ; Plant breeding ; Population structure ; Quantitative trait loci ; Single-nucleotide polymorphism ; Subgroups ; upland cotton</subject><ispartof>The Plant journal : for cell and molecular biology, 2020-12, Vol.104 (5), p.1285-1300</ispartof><rights>2020 The Authors. The Plant Journal published by Society for Experimental Biology and John Wiley & Sons Ltd</rights><rights>2020 The Authors. The Plant Journal published by Society for Experimental Biology and John Wiley & Sons Ltd.</rights><rights>2020. This article is published under http://creativecommons.org/licenses/by-nc-nd/4.0/ (the “License”). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c4439-e3f08f84206a3839bc42f9a17decdac226ca269d732d5df7bf988ab4b85422523</citedby><cites>FETCH-LOGICAL-c4439-e3f08f84206a3839bc42f9a17decdac226ca269d732d5df7bf988ab4b85422523</cites><orcidid>0000-0003-1704-2568</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://onlinelibrary.wiley.com/doi/pdf/10.1111%2Ftpj.14999$$EPDF$$P50$$Gwiley$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://onlinelibrary.wiley.com/doi/full/10.1111%2Ftpj.14999$$EHTML$$P50$$Gwiley$$Hfree_for_read</linktohtml><link.rule.ids>230,314,780,784,885,1417,1433,27924,27925,45574,45575,46409,46833</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/32996179$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Geng, Xiaoli</creatorcontrib><creatorcontrib>Sun, Gaofei</creatorcontrib><creatorcontrib>Qu, Yujie</creatorcontrib><creatorcontrib>Sarfraz, Zareen</creatorcontrib><creatorcontrib>Jia, Yinhua</creatorcontrib><creatorcontrib>He, Shoupu</creatorcontrib><creatorcontrib>Pan, Zhaoe</creatorcontrib><creatorcontrib>Sun, Junling</creatorcontrib><creatorcontrib>Iqbal, Muhammad S.</creatorcontrib><creatorcontrib>Wang, Qinglian</creatorcontrib><creatorcontrib>Qin, Hongde</creatorcontrib><creatorcontrib>Liu, Jinhai</creatorcontrib><creatorcontrib>Liu, Hui</creatorcontrib><creatorcontrib>Yang, Jun</creatorcontrib><creatorcontrib>Ma, Zhiying</creatorcontrib><creatorcontrib>Xu, Dongyong</creatorcontrib><creatorcontrib>Yang, Jinlong</creatorcontrib><creatorcontrib>Zhang, Jinbiao</creatorcontrib><creatorcontrib>Li, Zhikun</creatorcontrib><creatorcontrib>Cai, Zhongmin</creatorcontrib><creatorcontrib>Zhang, Xuelin</creatorcontrib><creatorcontrib>Zhang, Xin</creatorcontrib><creatorcontrib>Zhou, Guanyin</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Zhu, Haiyong</creatorcontrib><creatorcontrib>Wang, Liru</creatorcontrib><creatorcontrib>Pang, Baoyin</creatorcontrib><creatorcontrib>Du, Xiongming</creatorcontrib><title>Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton</title><title>The Plant journal : for cell and molecular biology</title><addtitle>Plant J</addtitle><description>SUMMARY
An evaluation of combining ability can facilitate the selection of suitable parents and superior F1 hybrids for hybrid cotton breeding, although the molecular genetic basis of combining ability has not been fully characterized. In the present study, 282 female parents were crossed with four male parents in accordance with the North Carolina II mating scheme to generate 1128 hybrids. The parental lines were genotyped based on restriction site‐associated DNA sequencing and 306 814 filtered single nucleotide polymorphisms were used for genome‐wide association analysis involving the phenotypes, general combining ability (GCA) values, and specific combining ability values of eight fiber quality‐ and yield‐related traits. The main results were: (i) all parents could be clustered into five subgroups based on population structure analyses and the GCA performance of the female parents had significant differences between subgroups; (ii) 20 accessions with a top 5% GCA value for more than one trait were identified as elite parents for hybrid cotton breeding; (iii) 120 significant single nucleotide polymorphisms, clustered into 66 quantitative trait loci, such as the previously reported Gh_A07G1769 and GhHOX3 genes, were found to be significantly associated with GCA; and (iv) identified quantitative trait loci for GCA had a cumulative effect on GCA of the accessions. Overall, our results suggest that pyramiding the favorable loci for GCA may improve the efficiency of hybrid cotton breeding.
Significance Statement
General and specific combining ability values are very important factors for the selection of appropriate parents and superior combinations in hybrid cotton breeding, although the molecular genetic basis has not been fully characterized. In the present study, we identified significant single nucleotide polymorphisms for general and specific combining ability in a large‐scale North Carolina II population through a genome‐wide association study. The results obtained provide new insights with respect to our understanding of the genetic factors related to combining ability.</description><subject>Association analysis</subject><subject>Combining ability</subject><subject>Cotton</subject><subject>Crop yield</subject><subject>Deoxyribonucleic acid</subject><subject>DNA</subject><subject>DNA sequencing</subject><subject>fiber quality</subject><subject>fiber yield</subject><subject>Gene mapping</subject><subject>Genomes</subject><subject>genome‐wide association study</subject><subject>Hybridization</subject><subject>Hybrids</subject><subject>Nucleotides</subject><subject>Original</subject><subject>Phenotypes</subject><subject>Plant breeding</subject><subject>Population structure</subject><subject>Quantitative trait loci</subject><subject>Single-nucleotide polymorphism</subject><subject>Subgroups</subject><subject>upland cotton</subject><issn>0960-7412</issn><issn>1365-313X</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2020</creationdate><recordtype>article</recordtype><sourceid>24P</sourceid><sourceid>WIN</sourceid><recordid>eNp1kc1qFTEYhoMo9lhdeAMScKOLafOfyUYoxValoIsK7kImPzaHOZPTJGMZV70Er9ErMe2pRQWzCUmePLwfLwDPMTrAbR3W7foAM6XUA7DCVPCOYvrlIVghJVAnGSZ74Ekpa4SwpII9BnuUKCWwVCuwPvVT2vif1z-uovPQxVK8rTFNMAV4sQw5uvjd3F6ElGGIg8_wcjZjrEv7BM3k4BL96Noh-9FU72DNJtYC4wTn7XgD2FRrmp6CR8GMxT-72_fB55O358fvurOPp--Pj846yxhVnacB9aFnBAlDe6oGy0hQBkvnrTOWEGENEcpJShx3QQ5B9b0Z2NBzRggndB-82Xm387DxzvqpBRr1NseNyYtOJuq_X6Z4ob-mb1pKLhjiTfDqTpDT5exL1ZtYrB_bLD7NRRPGJGdCUtbQl_-g6zTnqY3XKMEZl1igRr3eUTanUrIP92Ew0jcN6tagvm2wsS_-TH9P_q6sAYc74CqOfvm_SZ9_-rBT_gL9AarX</recordid><startdate>202012</startdate><enddate>202012</enddate><creator>Geng, Xiaoli</creator><creator>Sun, Gaofei</creator><creator>Qu, Yujie</creator><creator>Sarfraz, Zareen</creator><creator>Jia, Yinhua</creator><creator>He, Shoupu</creator><creator>Pan, Zhaoe</creator><creator>Sun, Junling</creator><creator>Iqbal, Muhammad S.</creator><creator>Wang, Qinglian</creator><creator>Qin, Hongde</creator><creator>Liu, Jinhai</creator><creator>Liu, Hui</creator><creator>Yang, Jun</creator><creator>Ma, Zhiying</creator><creator>Xu, Dongyong</creator><creator>Yang, Jinlong</creator><creator>Zhang, Jinbiao</creator><creator>Li, Zhikun</creator><creator>Cai, Zhongmin</creator><creator>Zhang, Xuelin</creator><creator>Zhang, Xin</creator><creator>Zhou, Guanyin</creator><creator>Li, Lin</creator><creator>Zhu, Haiyong</creator><creator>Wang, Liru</creator><creator>Pang, Baoyin</creator><creator>Du, Xiongming</creator><general>Blackwell Publishing Ltd</general><general>John Wiley and Sons Inc</general><scope>24P</scope><scope>WIN</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QO</scope><scope>7QP</scope><scope>7QR</scope><scope>7TM</scope><scope>8FD</scope><scope>FR3</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0003-1704-2568</orcidid></search><sort><creationdate>202012</creationdate><title>Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton</title><author>Geng, Xiaoli ; Sun, Gaofei ; Qu, Yujie ; Sarfraz, Zareen ; Jia, Yinhua ; He, Shoupu ; Pan, Zhaoe ; Sun, Junling ; Iqbal, Muhammad S. ; Wang, Qinglian ; Qin, Hongde ; Liu, Jinhai ; Liu, Hui ; Yang, Jun ; Ma, Zhiying ; Xu, Dongyong ; Yang, Jinlong ; Zhang, Jinbiao ; Li, Zhikun ; Cai, Zhongmin ; Zhang, Xuelin ; Zhang, Xin ; Zhou, Guanyin ; Li, Lin ; Zhu, Haiyong ; Wang, Liru ; Pang, Baoyin ; Du, Xiongming</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c4439-e3f08f84206a3839bc42f9a17decdac226ca269d732d5df7bf988ab4b85422523</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2020</creationdate><topic>Association analysis</topic><topic>Combining ability</topic><topic>Cotton</topic><topic>Crop yield</topic><topic>Deoxyribonucleic acid</topic><topic>DNA</topic><topic>DNA sequencing</topic><topic>fiber quality</topic><topic>fiber yield</topic><topic>Gene mapping</topic><topic>Genomes</topic><topic>genome‐wide association study</topic><topic>Hybridization</topic><topic>Hybrids</topic><topic>Nucleotides</topic><topic>Original</topic><topic>Phenotypes</topic><topic>Plant breeding</topic><topic>Population structure</topic><topic>Quantitative trait loci</topic><topic>Single-nucleotide polymorphism</topic><topic>Subgroups</topic><topic>upland cotton</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Geng, Xiaoli</creatorcontrib><creatorcontrib>Sun, Gaofei</creatorcontrib><creatorcontrib>Qu, Yujie</creatorcontrib><creatorcontrib>Sarfraz, Zareen</creatorcontrib><creatorcontrib>Jia, Yinhua</creatorcontrib><creatorcontrib>He, Shoupu</creatorcontrib><creatorcontrib>Pan, Zhaoe</creatorcontrib><creatorcontrib>Sun, Junling</creatorcontrib><creatorcontrib>Iqbal, Muhammad S.</creatorcontrib><creatorcontrib>Wang, Qinglian</creatorcontrib><creatorcontrib>Qin, Hongde</creatorcontrib><creatorcontrib>Liu, Jinhai</creatorcontrib><creatorcontrib>Liu, Hui</creatorcontrib><creatorcontrib>Yang, Jun</creatorcontrib><creatorcontrib>Ma, Zhiying</creatorcontrib><creatorcontrib>Xu, Dongyong</creatorcontrib><creatorcontrib>Yang, Jinlong</creatorcontrib><creatorcontrib>Zhang, Jinbiao</creatorcontrib><creatorcontrib>Li, Zhikun</creatorcontrib><creatorcontrib>Cai, Zhongmin</creatorcontrib><creatorcontrib>Zhang, Xuelin</creatorcontrib><creatorcontrib>Zhang, Xin</creatorcontrib><creatorcontrib>Zhou, Guanyin</creatorcontrib><creatorcontrib>Li, Lin</creatorcontrib><creatorcontrib>Zhu, Haiyong</creatorcontrib><creatorcontrib>Wang, Liru</creatorcontrib><creatorcontrib>Pang, Baoyin</creatorcontrib><creatorcontrib>Du, Xiongming</creatorcontrib><collection>Wiley Online Library (Open Access Collection)</collection><collection>Wiley Online Library (Open Access Collection)</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Biotechnology Research Abstracts</collection><collection>Calcium & Calcified Tissue Abstracts</collection><collection>Chemoreception Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Technology Research Database</collection><collection>Engineering Research Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>The Plant journal : for cell and molecular biology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Geng, Xiaoli</au><au>Sun, Gaofei</au><au>Qu, Yujie</au><au>Sarfraz, Zareen</au><au>Jia, Yinhua</au><au>He, Shoupu</au><au>Pan, Zhaoe</au><au>Sun, Junling</au><au>Iqbal, Muhammad S.</au><au>Wang, Qinglian</au><au>Qin, Hongde</au><au>Liu, Jinhai</au><au>Liu, Hui</au><au>Yang, Jun</au><au>Ma, Zhiying</au><au>Xu, Dongyong</au><au>Yang, Jinlong</au><au>Zhang, Jinbiao</au><au>Li, Zhikun</au><au>Cai, Zhongmin</au><au>Zhang, Xuelin</au><au>Zhang, Xin</au><au>Zhou, Guanyin</au><au>Li, Lin</au><au>Zhu, Haiyong</au><au>Wang, Liru</au><au>Pang, Baoyin</au><au>Du, Xiongming</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton</atitle><jtitle>The Plant journal : for cell and molecular biology</jtitle><addtitle>Plant J</addtitle><date>2020-12</date><risdate>2020</risdate><volume>104</volume><issue>5</issue><spage>1285</spage><epage>1300</epage><pages>1285-1300</pages><issn>0960-7412</issn><eissn>1365-313X</eissn><abstract>SUMMARY
An evaluation of combining ability can facilitate the selection of suitable parents and superior F1 hybrids for hybrid cotton breeding, although the molecular genetic basis of combining ability has not been fully characterized. In the present study, 282 female parents were crossed with four male parents in accordance with the North Carolina II mating scheme to generate 1128 hybrids. The parental lines were genotyped based on restriction site‐associated DNA sequencing and 306 814 filtered single nucleotide polymorphisms were used for genome‐wide association analysis involving the phenotypes, general combining ability (GCA) values, and specific combining ability values of eight fiber quality‐ and yield‐related traits. The main results were: (i) all parents could be clustered into five subgroups based on population structure analyses and the GCA performance of the female parents had significant differences between subgroups; (ii) 20 accessions with a top 5% GCA value for more than one trait were identified as elite parents for hybrid cotton breeding; (iii) 120 significant single nucleotide polymorphisms, clustered into 66 quantitative trait loci, such as the previously reported Gh_A07G1769 and GhHOX3 genes, were found to be significantly associated with GCA; and (iv) identified quantitative trait loci for GCA had a cumulative effect on GCA of the accessions. Overall, our results suggest that pyramiding the favorable loci for GCA may improve the efficiency of hybrid cotton breeding.
Significance Statement
General and specific combining ability values are very important factors for the selection of appropriate parents and superior combinations in hybrid cotton breeding, although the molecular genetic basis has not been fully characterized. In the present study, we identified significant single nucleotide polymorphisms for general and specific combining ability in a large‐scale North Carolina II population through a genome‐wide association study. The results obtained provide new insights with respect to our understanding of the genetic factors related to combining ability.</abstract><cop>England</cop><pub>Blackwell Publishing Ltd</pub><pmid>32996179</pmid><doi>10.1111/tpj.14999</doi><tpages>17</tpages><orcidid>https://orcid.org/0000-0003-1704-2568</orcidid><oa>free_for_read</oa></addata></record> |
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| source | Wiley Journals; IngentaConnect Free/Open Access Journals; EZB-FREE-00999 freely available EZB journals; Wiley Online Library (Open Access Collection) |
| subjects | Association analysis Combining ability Cotton Crop yield Deoxyribonucleic acid DNA DNA sequencing fiber quality fiber yield Gene mapping Genomes genome‐wide association study Hybridization Hybrids Nucleotides Original Phenotypes Plant breeding Population structure Quantitative trait loci Single-nucleotide polymorphism Subgroups upland cotton |
| title | Genome‐wide dissection of hybridization for fiber quality‐ and yield‐related traits in upland cotton |
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