Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
Foxtail millet ( Setaria italica ) is an ideal model of genetic system for functional genomics of the Panicoideae crop. Identification of QTL responsible for morpho-agronomic and yield-related traits facilitates dissection of genetic control and breeding in cereal crops. Here, based on a Yugu1 × Lon...
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| Veröffentlicht in: | Molecular genetics and genomics : MGG 2022-05, Vol.297 (3), p.873-888 |
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| creator | Liu, Tianpeng He, Jihong Dong, Kongjun Wang, Xuewen Zhang, Lei Ren, Ruiyu Huang, Sha Sun, Xiaoting Pan, Wanxiang Wang, Wenwen Yang, Peng Yang, Tianyu Zhang, Zhengsheng |
| description | Foxtail millet (
Setaria italica
) is an ideal model of genetic system for functional genomics of the Panicoideae crop. Identification of QTL responsible for morpho-agronomic and yield-related traits facilitates dissection of genetic control and breeding in cereal crops. Here, based on a Yugu1 × Longgu7 RIL population and genome-wide resequencing data, an updated linkage map harboring 2297 bin and 74 SSR markers was constructed, spanning 1315.1 cM with an average distance of 0.56 cM between adjacent markers. A total of 221 QTL for 17 morpho-agronomic and yield-related traits explaining 5.5 ~ 36% of phenotypic variation were identified across multi-environments. Of these, 109 QTL were detected in two to nine environments, including the most stable qLMS6.1 harboring a promising candidate gene
Seita.6G250500
, of which 70 were repeatedly identified in different trials in the same geographic location, suggesting that foxtail millet has more identical genetic modules under the similar ecological environment. One hundred-thirty QTL with overlapping intervals formed 22 QTL clusters. Furthermore, six superior recombinant inbred lines, RIL35, RIL48, RIL77, RIL80, RIL115 and RIL125 with transgressive inheritance and enrichment of favorable alleles in plant height, tiller, panicle morphology and yield related-traits were screened by hierarchical cluster. These identified QTL, QTL clusters and superior lines lay ground for further gene-trait association studies and breeding practice in foxtail millet. |
| doi_str_mv | 10.1007/s00438-022-01894-2 |
| format | Article |
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Setaria italica
) is an ideal model of genetic system for functional genomics of the Panicoideae crop. Identification of QTL responsible for morpho-agronomic and yield-related traits facilitates dissection of genetic control and breeding in cereal crops. Here, based on a Yugu1 × Longgu7 RIL population and genome-wide resequencing data, an updated linkage map harboring 2297 bin and 74 SSR markers was constructed, spanning 1315.1 cM with an average distance of 0.56 cM between adjacent markers. A total of 221 QTL for 17 morpho-agronomic and yield-related traits explaining 5.5 ~ 36% of phenotypic variation were identified across multi-environments. Of these, 109 QTL were detected in two to nine environments, including the most stable qLMS6.1 harboring a promising candidate gene
Seita.6G250500
, of which 70 were repeatedly identified in different trials in the same geographic location, suggesting that foxtail millet has more identical genetic modules under the similar ecological environment. One hundred-thirty QTL with overlapping intervals formed 22 QTL clusters. Furthermore, six superior recombinant inbred lines, RIL35, RIL48, RIL77, RIL80, RIL115 and RIL125 with transgressive inheritance and enrichment of favorable alleles in plant height, tiller, panicle morphology and yield related-traits were screened by hierarchical cluster. These identified QTL, QTL clusters and superior lines lay ground for further gene-trait association studies and breeding practice in foxtail millet.</description><identifier>ISSN: 1617-4615</identifier><identifier>EISSN: 1617-4623</identifier><identifier>DOI: 10.1007/s00438-022-01894-2</identifier><identifier>PMID: 35451683</identifier><language>eng</language><publisher>Berlin/Heidelberg: Springer Berlin Heidelberg</publisher><subject>Animal Genetics and Genomics ; Biochemistry ; Biomedical and Life Sciences ; Genetic control ; Genomes ; Genomics ; Heredity ; Human Genetics ; Inbreeding ; Life Sciences ; Microbial Genetics and Genomics ; Millet ; Original ; Original Article ; Phenotypic variations ; Plant breeding ; Plant Genetics and Genomics ; Quantitative trait loci ; Setaria italica</subject><ispartof>Molecular genetics and genomics : MGG, 2022-05, Vol.297 (3), p.873-888</ispartof><rights>The Author(s) 2022</rights><rights>2022. The Author(s).</rights><rights>The Author(s) 2022. This work is published under http://creativecommons.org/licenses/by/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-c474t-5a7c7bcc1163826633f8a87bde19a1a2cc7cb0afc3056738252a41c0f662d0933</citedby><cites>FETCH-LOGICAL-c474t-5a7c7bcc1163826633f8a87bde19a1a2cc7cb0afc3056738252a41c0f662d0933</cites><orcidid>0000-0002-6328-8932</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00438-022-01894-2$$EPDF$$P50$$Gspringer$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00438-022-01894-2$$EHTML$$P50$$Gspringer$$Hfree_for_read</linktohtml><link.rule.ids>230,314,776,780,881,27901,27902,41464,42533,51294</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/35451683$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Tianpeng</creatorcontrib><creatorcontrib>He, Jihong</creatorcontrib><creatorcontrib>Dong, Kongjun</creatorcontrib><creatorcontrib>Wang, Xuewen</creatorcontrib><creatorcontrib>Zhang, Lei</creatorcontrib><creatorcontrib>Ren, Ruiyu</creatorcontrib><creatorcontrib>Huang, Sha</creatorcontrib><creatorcontrib>Sun, Xiaoting</creatorcontrib><creatorcontrib>Pan, Wanxiang</creatorcontrib><creatorcontrib>Wang, Wenwen</creatorcontrib><creatorcontrib>Yang, Peng</creatorcontrib><creatorcontrib>Yang, Tianyu</creatorcontrib><creatorcontrib>Zhang, Zhengsheng</creatorcontrib><title>Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments</title><title>Molecular genetics and genomics : MGG</title><addtitle>Mol Genet Genomics</addtitle><addtitle>Mol Genet Genomics</addtitle><description>Foxtail millet (
Setaria italica
) is an ideal model of genetic system for functional genomics of the Panicoideae crop. Identification of QTL responsible for morpho-agronomic and yield-related traits facilitates dissection of genetic control and breeding in cereal crops. Here, based on a Yugu1 × Longgu7 RIL population and genome-wide resequencing data, an updated linkage map harboring 2297 bin and 74 SSR markers was constructed, spanning 1315.1 cM with an average distance of 0.56 cM between adjacent markers. A total of 221 QTL for 17 morpho-agronomic and yield-related traits explaining 5.5 ~ 36% of phenotypic variation were identified across multi-environments. Of these, 109 QTL were detected in two to nine environments, including the most stable qLMS6.1 harboring a promising candidate gene
Seita.6G250500
, of which 70 were repeatedly identified in different trials in the same geographic location, suggesting that foxtail millet has more identical genetic modules under the similar ecological environment. One hundred-thirty QTL with overlapping intervals formed 22 QTL clusters. Furthermore, six superior recombinant inbred lines, RIL35, RIL48, RIL77, RIL80, RIL115 and RIL125 with transgressive inheritance and enrichment of favorable alleles in plant height, tiller, panicle morphology and yield related-traits were screened by hierarchical cluster. These identified QTL, QTL clusters and superior lines lay ground for further gene-trait association studies and breeding practice in foxtail millet.</description><subject>Animal Genetics and Genomics</subject><subject>Biochemistry</subject><subject>Biomedical and Life Sciences</subject><subject>Genetic control</subject><subject>Genomes</subject><subject>Genomics</subject><subject>Heredity</subject><subject>Human Genetics</subject><subject>Inbreeding</subject><subject>Life Sciences</subject><subject>Microbial Genetics and Genomics</subject><subject>Millet</subject><subject>Original</subject><subject>Original Article</subject><subject>Phenotypic variations</subject><subject>Plant breeding</subject><subject>Plant Genetics and Genomics</subject><subject>Quantitative trait loci</subject><subject>Setaria 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Genomics</topic><topic>Millet</topic><topic>Original</topic><topic>Original Article</topic><topic>Phenotypic variations</topic><topic>Plant breeding</topic><topic>Plant Genetics and Genomics</topic><topic>Quantitative trait loci</topic><topic>Setaria italica</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Liu, Tianpeng</creatorcontrib><creatorcontrib>He, Jihong</creatorcontrib><creatorcontrib>Dong, Kongjun</creatorcontrib><creatorcontrib>Wang, Xuewen</creatorcontrib><creatorcontrib>Zhang, Lei</creatorcontrib><creatorcontrib>Ren, Ruiyu</creatorcontrib><creatorcontrib>Huang, Sha</creatorcontrib><creatorcontrib>Sun, Xiaoting</creatorcontrib><creatorcontrib>Pan, Wanxiang</creatorcontrib><creatorcontrib>Wang, Wenwen</creatorcontrib><creatorcontrib>Yang, Peng</creatorcontrib><creatorcontrib>Yang, Tianyu</creatorcontrib><creatorcontrib>Zhang, 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Zhengsheng</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments</atitle><jtitle>Molecular genetics and genomics : MGG</jtitle><stitle>Mol Genet Genomics</stitle><addtitle>Mol Genet Genomics</addtitle><date>2022-05-01</date><risdate>2022</risdate><volume>297</volume><issue>3</issue><spage>873</spage><epage>888</epage><pages>873-888</pages><issn>1617-4615</issn><eissn>1617-4623</eissn><abstract>Foxtail millet (
Setaria italica
) is an ideal model of genetic system for functional genomics of the Panicoideae crop. Identification of QTL responsible for morpho-agronomic and yield-related traits facilitates dissection of genetic control and breeding in cereal crops. Here, based on a Yugu1 × Longgu7 RIL population and genome-wide resequencing data, an updated linkage map harboring 2297 bin and 74 SSR markers was constructed, spanning 1315.1 cM with an average distance of 0.56 cM between adjacent markers. A total of 221 QTL for 17 morpho-agronomic and yield-related traits explaining 5.5 ~ 36% of phenotypic variation were identified across multi-environments. Of these, 109 QTL were detected in two to nine environments, including the most stable qLMS6.1 harboring a promising candidate gene
Seita.6G250500
, of which 70 were repeatedly identified in different trials in the same geographic location, suggesting that foxtail millet has more identical genetic modules under the similar ecological environment. One hundred-thirty QTL with overlapping intervals formed 22 QTL clusters. Furthermore, six superior recombinant inbred lines, RIL35, RIL48, RIL77, RIL80, RIL115 and RIL125 with transgressive inheritance and enrichment of favorable alleles in plant height, tiller, panicle morphology and yield related-traits were screened by hierarchical cluster. These identified QTL, QTL clusters and superior lines lay ground for further gene-trait association studies and breeding practice in foxtail millet.</abstract><cop>Berlin/Heidelberg</cop><pub>Springer Berlin Heidelberg</pub><pmid>35451683</pmid><doi>10.1007/s00438-022-01894-2</doi><tpages>16</tpages><orcidid>https://orcid.org/0000-0002-6328-8932</orcidid><oa>free_for_read</oa></addata></record> |
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| ispartof | Molecular genetics and genomics : MGG, 2022-05, Vol.297 (3), p.873-888 |
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| source | Springer Journals |
| subjects | Animal Genetics and Genomics Biochemistry Biomedical and Life Sciences Genetic control Genomes Genomics Heredity Human Genetics Inbreeding Life Sciences Microbial Genetics and Genomics Millet Original Original Article Phenotypic variations Plant breeding Plant Genetics and Genomics Quantitative trait loci Setaria italica |
| title | Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments |
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