Cargando…

QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)

BACKGROUND: Foxtail millet (Setaria italica) has been developed into a model genetical system for deciphering architectural evolution, C(4) photosynthesis, nutritional properties, abiotic tolerance and bioenergy in cereal grasses because of its advantageous characters with the small genome size, sel...

Descripción completa

Detalles Bibliográficos
Autores principales: Liu, Tianpeng, He, Jihong, Dong, Kongjun, Wang, Xuewen, Wang, Wenwen, Yang, Peng, Ren, Ruiyu, Zhang, Lei, Zhang, Zhengsheng, Yang, Tianyu
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7011527/
https://www.ncbi.nlm.nih.gov/pubmed/32041544
http://dx.doi.org/10.1186/s12864-020-6553-9
_version_ 1783496087562092544
author Liu, Tianpeng
He, Jihong
Dong, Kongjun
Wang, Xuewen
Wang, Wenwen
Yang, Peng
Ren, Ruiyu
Zhang, Lei
Zhang, Zhengsheng
Yang, Tianyu
author_facet Liu, Tianpeng
He, Jihong
Dong, Kongjun
Wang, Xuewen
Wang, Wenwen
Yang, Peng
Ren, Ruiyu
Zhang, Lei
Zhang, Zhengsheng
Yang, Tianyu
author_sort Liu, Tianpeng
collection PubMed
description BACKGROUND: Foxtail millet (Setaria italica) has been developed into a model genetical system for deciphering architectural evolution, C(4) photosynthesis, nutritional properties, abiotic tolerance and bioenergy in cereal grasses because of its advantageous characters with the small genome size, self-fertilization, short growing cycle, small growth stature, efficient genetic transformation and abundant diverse germplasm resources. Therefore, excavating QTLs of yield component traits, which are closely related to aspects mentioned above, will further facilitate genetic research in foxtail millet and close cereal species. RESULTS: Here, 164 Recombinant inbreed lines from a cross between Longgu7 and Yugu1 were created and 1,047,978 SNPs were identified between both parents via resequencing. A total of 3413 bin markers developed from SNPs were used to construct a binary map, containing 3963 recombinant breakpoints and totaling 1222.26 cM with an average distance of 0.36 cM between adjacent markers. Forty-seven QTLs were identified for four traits of straw weight, panicle weight, grain weight per plant and 1000-grain weight. These QTLs explained 5.5–14.7% of phenotypic variance. Thirty-nine favorable QTL alleles were found to inherit from Yugu1. Three stable QTLs were detected in multi-environments, and nine QTL clusters were identified on Chromosome 3, 6, 7 and 9. CONCLUSIONS: A high-density genetic map with 3413 bin markers was constructed and three stable QTLs and 9 QTL clusters for yield component traits were identified. The results laid a powerful foundation for fine mapping, identifying candidate genes, elaborating molecular mechanisms and application in foxtail millet breeding programs by marker-assisted selection.
format Online
Article
Text
id pubmed-7011527
institution National Center for Biotechnology Information
language English
publishDate 2020
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-70115272020-02-14 QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica) Liu, Tianpeng He, Jihong Dong, Kongjun Wang, Xuewen Wang, Wenwen Yang, Peng Ren, Ruiyu Zhang, Lei Zhang, Zhengsheng Yang, Tianyu BMC Genomics Research Article BACKGROUND: Foxtail millet (Setaria italica) has been developed into a model genetical system for deciphering architectural evolution, C(4) photosynthesis, nutritional properties, abiotic tolerance and bioenergy in cereal grasses because of its advantageous characters with the small genome size, self-fertilization, short growing cycle, small growth stature, efficient genetic transformation and abundant diverse germplasm resources. Therefore, excavating QTLs of yield component traits, which are closely related to aspects mentioned above, will further facilitate genetic research in foxtail millet and close cereal species. RESULTS: Here, 164 Recombinant inbreed lines from a cross between Longgu7 and Yugu1 were created and 1,047,978 SNPs were identified between both parents via resequencing. A total of 3413 bin markers developed from SNPs were used to construct a binary map, containing 3963 recombinant breakpoints and totaling 1222.26 cM with an average distance of 0.36 cM between adjacent markers. Forty-seven QTLs were identified for four traits of straw weight, panicle weight, grain weight per plant and 1000-grain weight. These QTLs explained 5.5–14.7% of phenotypic variance. Thirty-nine favorable QTL alleles were found to inherit from Yugu1. Three stable QTLs were detected in multi-environments, and nine QTL clusters were identified on Chromosome 3, 6, 7 and 9. CONCLUSIONS: A high-density genetic map with 3413 bin markers was constructed and three stable QTLs and 9 QTL clusters for yield component traits were identified. The results laid a powerful foundation for fine mapping, identifying candidate genes, elaborating molecular mechanisms and application in foxtail millet breeding programs by marker-assisted selection. BioMed Central 2020-02-10 /pmc/articles/PMC7011527/ /pubmed/32041544 http://dx.doi.org/10.1186/s12864-020-6553-9 Text en © The Author(s). 2020 Open AccessThis article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research Article
Liu, Tianpeng
He, Jihong
Dong, Kongjun
Wang, Xuewen
Wang, Wenwen
Yang, Peng
Ren, Ruiyu
Zhang, Lei
Zhang, Zhengsheng
Yang, Tianyu
QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title_full QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title_fullStr QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title_full_unstemmed QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title_short QTL mapping of yield component traits on bin map generated from resequencing a RIL population of foxtail millet (Setaria italica)
title_sort qtl mapping of yield component traits on bin map generated from resequencing a ril population of foxtail millet (setaria italica)
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7011527/
https://www.ncbi.nlm.nih.gov/pubmed/32041544
http://dx.doi.org/10.1186/s12864-020-6553-9
work_keys_str_mv AT liutianpeng qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT hejihong qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT dongkongjun qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT wangxuewen qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT wangwenwen qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT yangpeng qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT renruiyu qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT zhanglei qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT zhangzhengsheng qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica
AT yangtianyu qtlmappingofyieldcomponenttraitsonbinmapgeneratedfromresequencingarilpopulationoffoxtailmilletsetariaitalica