Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness
In previous studies, we reported quantitative trait loci (QTL) associated with the heading, flowering, and maturity time in four hard red spring wheat recombinant inbred line (RIL) populations but the results are scattered in population-specific genetic maps, which is challenging to exploit efficien...
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MDPI AG
2021-04-01
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| Series: | Plants |
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| Online Access: | https://www.mdpi.com/2223-7747/10/5/853 |
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| author | Kassa Semagn Muhammad Iqbal Hua Chen Enid Perez-Lara Darcy H. Bemister Rongrong Xiang Jun Zou Muhammad Asif Atif Kamran Amidou N’Diaye Harpinder Randhawa Curtis Pozniak Dean Spaner |
| author_facet | Kassa Semagn Muhammad Iqbal Hua Chen Enid Perez-Lara Darcy H. Bemister Rongrong Xiang Jun Zou Muhammad Asif Atif Kamran Amidou N’Diaye Harpinder Randhawa Curtis Pozniak Dean Spaner |
| author_sort | Kassa Semagn |
| collection | DOAJ |
| description | In previous studies, we reported quantitative trait loci (QTL) associated with the heading, flowering, and maturity time in four hard red spring wheat recombinant inbred line (RIL) populations but the results are scattered in population-specific genetic maps, which is challenging to exploit efficiently in breeding. Here, we mapped and characterized QTL associated with these three earliness traits using the International Wheat Genome Sequencing Consortium (IWGSC) RefSeq v2.0 physical map. Our data consisted of (i) 6526 single nucleotide polymorphisms (SNPs) and two traits evaluated at five conventionally managed environments in the ‘Cutler’ × ‘AC Barrie’ population; (ii) 3158 SNPs and two traits evaluated across three organic and seven conventional managements in the ‘Attila’ × ‘CDC Go’ population; (iii) 5731 SilicoDArT and SNP markers and the three traits evaluated at four conventional and organic management systems in the ‘Peace’ × ‘Carberry’ population; and (iv) 1058 SNPs and two traits evaluated across two conventionally and organically managed environments in the ‘Peace’ × ‘CDC Stanley’ population. Using composite interval mapping, the phenotypic data across all environments, and the IWGSC RefSeq v2.0 physical maps, we identified a total of 44 QTL associated with days to heading (11), flowering (10), and maturity (23). Fifteen of the 44 QTL were common to both conventional and organic management systems, and the remaining QTL were specific to either the conventional (21) or organic (8) management systems. Some QTL harbor known genes, including the <i>Vrn-A1</i>, <i>Vrn-B1</i>, <i>Rht-A1</i>, and <i>Rht-B1</i> that regulate photoperiodism, flowering time, and plant height in wheat, which lays a solid basis for cloning and further characterization. |
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| institution | Directory Open Access Journal |
| issn | 2223-7747 |
| language | English |
| last_indexed | 2024-03-10T12:02:39Z |
| publishDate | 2021-04-01 |
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| spelling | doaj.art-442256ea17be406f9b41626d3f7e7cdf2023-11-21T16:49:25ZengMDPI AGPlants2223-77472021-04-0110585310.3390/plants10050853Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. EarlinessKassa Semagn0Muhammad Iqbal1Hua Chen2Enid Perez-Lara3Darcy H. Bemister4Rongrong Xiang5Jun Zou6Muhammad Asif7Atif Kamran8Amidou N’Diaye9Harpinder Randhawa10Curtis Pozniak11Dean Spaner12Department of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaCrop Development Centre, Department of Plant Sciences, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, CanadaAgriculture and Agri-Food Canada, 5403-1st Avenue South, Lethbridge, AB T1J 4B1, CanadaCrop Development Centre, Department of Plant Sciences, University of Saskatchewan, 51 Campus Drive, Saskatoon, SK S7N 5A8, CanadaDepartment of Agricultural, Food, and Nutritional Science, 4-10 Agriculture-Forestry Centre, University of Alberta, Edmonton, AB T6G 2P5, CanadaIn previous studies, we reported quantitative trait loci (QTL) associated with the heading, flowering, and maturity time in four hard red spring wheat recombinant inbred line (RIL) populations but the results are scattered in population-specific genetic maps, which is challenging to exploit efficiently in breeding. Here, we mapped and characterized QTL associated with these three earliness traits using the International Wheat Genome Sequencing Consortium (IWGSC) RefSeq v2.0 physical map. Our data consisted of (i) 6526 single nucleotide polymorphisms (SNPs) and two traits evaluated at five conventionally managed environments in the ‘Cutler’ × ‘AC Barrie’ population; (ii) 3158 SNPs and two traits evaluated across three organic and seven conventional managements in the ‘Attila’ × ‘CDC Go’ population; (iii) 5731 SilicoDArT and SNP markers and the three traits evaluated at four conventional and organic management systems in the ‘Peace’ × ‘Carberry’ population; and (iv) 1058 SNPs and two traits evaluated across two conventionally and organically managed environments in the ‘Peace’ × ‘CDC Stanley’ population. Using composite interval mapping, the phenotypic data across all environments, and the IWGSC RefSeq v2.0 physical maps, we identified a total of 44 QTL associated with days to heading (11), flowering (10), and maturity (23). Fifteen of the 44 QTL were common to both conventional and organic management systems, and the remaining QTL were specific to either the conventional (21) or organic (8) management systems. Some QTL harbor known genes, including the <i>Vrn-A1</i>, <i>Vrn-B1</i>, <i>Rht-A1</i>, and <i>Rht-B1</i> that regulate photoperiodism, flowering time, and plant height in wheat, which lays a solid basis for cloning and further characterization.https://www.mdpi.com/2223-7747/10/5/853DArTseqnitrogen use efficiencymappingorganic agriculturephysical mapSNP array |
| spellingShingle | Kassa Semagn Muhammad Iqbal Hua Chen Enid Perez-Lara Darcy H. Bemister Rongrong Xiang Jun Zou Muhammad Asif Atif Kamran Amidou N’Diaye Harpinder Randhawa Curtis Pozniak Dean Spaner Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness Plants DArTseq nitrogen use efficiency mapping organic agriculture physical map SNP array |
| title | Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness |
| title_full | Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness |
| title_fullStr | Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness |
| title_full_unstemmed | Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness |
| title_short | Physical Mapping of QTL in Four Spring Wheat Populations under Conventional and Organic Management Systems. I. Earliness |
| title_sort | physical mapping of qtl in four spring wheat populations under conventional and organic management systems i earliness |
| topic | DArTseq nitrogen use efficiency mapping organic agriculture physical map SNP array |
| url | https://www.mdpi.com/2223-7747/10/5/853 |
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