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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 × Longg...

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Autores principales: 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
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Springer Berlin Heidelberg 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9130181/
https://www.ncbi.nlm.nih.gov/pubmed/35451683
http://dx.doi.org/10.1007/s00438-022-01894-2
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author 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
author_facet 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
author_sort Liu, Tianpeng
collection PubMed
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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00438-022-01894-2.
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spelling pubmed-91301812022-05-26 Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments 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 Mol Genet Genomics Original Article 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. SUPPLEMENTARY INFORMATION: The online version contains supplementary material available at 10.1007/s00438-022-01894-2. Springer Berlin Heidelberg 2022-04-22 2022 /pmc/articles/PMC9130181/ /pubmed/35451683 http://dx.doi.org/10.1007/s00438-022-01894-2 Text en © The Author(s) 2022 https://creativecommons.org/licenses/by/4.0/Open AccessThis article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) .
spellingShingle Original Article
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
Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title_full Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title_fullStr Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title_full_unstemmed Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title_short Genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (Setaria italica) across multi-environments
title_sort genome-wide identification of quantitative trait loci for morpho-agronomic and yield-related traits in foxtail millet (setaria italica) across multi-environments
topic Original Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9130181/
https://www.ncbi.nlm.nih.gov/pubmed/35451683
http://dx.doi.org/10.1007/s00438-022-01894-2
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