Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet
Pearl millet (Pennisetum glaucum [L.] R. Br.) is a nutrient-dense, relatively drought-tolerant cereal crop cultivated in dry regions worldwide. The crop is under-researched, and its grain yield is low (< 0.8 tons ha−1) and stagnant in the major production regions, including Burkina Faso. The low pro...
| Main Authors: | , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Nature Publishing Group
2023
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/137825 |
| _version_ | 1855533786062651392 |
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| author | Rouamba, Armel Shimelis Hussien Drabo, Inoussa Mrema, Emmanuel Ojiewo, Christopher Ochieng Mwadzingeni, Learnmore Rathore, Abhishek |
| author_browse | Drabo, Inoussa Mrema, Emmanuel Mwadzingeni, Learnmore Ojiewo, Christopher Ochieng Rathore, Abhishek Rouamba, Armel Shimelis Hussien |
| author_facet | Rouamba, Armel Shimelis Hussien Drabo, Inoussa Mrema, Emmanuel Ojiewo, Christopher Ochieng Mwadzingeni, Learnmore Rathore, Abhishek |
| author_sort | Rouamba, Armel |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Pearl millet (Pennisetum glaucum [L.] R. Br.) is a nutrient-dense, relatively drought-tolerant cereal crop cultivated in dry regions worldwide. The crop is under-researched, and its grain yield is low (< 0.8 tons ha−1) and stagnant in the major production regions, including Burkina Faso. The low productivity of pearl millet is mainly attributable to a lack of improved varieties, Striga hermonthica [Sh] infestation, downy mildew infection, and recurrent heat and drought stress. Developing high-yielding and Striga-resistant pearl millet varieties that satisfy the farmers’ and market needs requires the identification of yield-promoting genes linked to economic traits to facilitate marker-assisted selection and gene pyramiding. The objective of this study was to undertake genome-wide association analyses of agronomic traits and Sh resistance among 150 pearl millet genotypes to identify genetic markers for marker-assisted breeding and trait introgression. The pearl millet genotypes were phenotyped in Sh hotspot fields and screen house conditions. Twenty-nine million single nucleotide polymorphisms (SNPs) initially generated from 345 pearl millet genotypes were filtered, and 256 K SNPs were selected and used in the present study. Phenotypic data were collected on days to flowering, plant height, number of tillers, panicle length, panicle weight, thousand-grain weight, grain weight, number of emerged Striga and area under the Striga number progress curve (ASNPC). Agronomic and Sh parameters were subjected to combined analysis of variance, while genome-wide association analysis was performed on phenotypic and SNPs data. Significant differences (P < 0.001) were detected among the assessed pearl millet genotypes for Sh parameters and agronomic traits. Further, there were significant genotype by Sh interaction for the number of Sh and ASNPC. Twenty-eight SNPs were significantly associated with a low number of emerged Sh located on chromosomes 1, 2, 3, 4, 6, and 7. Four SNPs were associated with days-to-50%-flowering on chromosomes 3, 5, 6, and 7, while five were associated with panicle length on chromosomes 2, 3, and 4. Seven SNPs were linked to thousand-grain weight on chromosomes 2, 3, and 6. The putative SNP markers associated with a low number of emerged Sh and agronomic traits in the assessed genotypes are valuable genomic resources for accelerated breeding and variety deployment of pearl millet with Sh resistance and farmer- and market-preferred agronomic traits. |
| format | Journal Article |
| id | CGSpace137825 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2023 |
| publishDateRange | 2023 |
| publishDateSort | 2023 |
| publisher | Nature Publishing Group |
| publisherStr | Nature Publishing Group |
| record_format | dspace |
| spelling | CGSpace1378252024-11-07T09:25:37Z Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet Rouamba, Armel Shimelis Hussien Drabo, Inoussa Mrema, Emmanuel Ojiewo, Christopher Ochieng Mwadzingeni, Learnmore Rathore, Abhishek genome-wide association studies striga hermonthica pearl millet Pearl millet (Pennisetum glaucum [L.] R. Br.) is a nutrient-dense, relatively drought-tolerant cereal crop cultivated in dry regions worldwide. The crop is under-researched, and its grain yield is low (< 0.8 tons ha−1) and stagnant in the major production regions, including Burkina Faso. The low productivity of pearl millet is mainly attributable to a lack of improved varieties, Striga hermonthica [Sh] infestation, downy mildew infection, and recurrent heat and drought stress. Developing high-yielding and Striga-resistant pearl millet varieties that satisfy the farmers’ and market needs requires the identification of yield-promoting genes linked to economic traits to facilitate marker-assisted selection and gene pyramiding. The objective of this study was to undertake genome-wide association analyses of agronomic traits and Sh resistance among 150 pearl millet genotypes to identify genetic markers for marker-assisted breeding and trait introgression. The pearl millet genotypes were phenotyped in Sh hotspot fields and screen house conditions. Twenty-nine million single nucleotide polymorphisms (SNPs) initially generated from 345 pearl millet genotypes were filtered, and 256 K SNPs were selected and used in the present study. Phenotypic data were collected on days to flowering, plant height, number of tillers, panicle length, panicle weight, thousand-grain weight, grain weight, number of emerged Striga and area under the Striga number progress curve (ASNPC). Agronomic and Sh parameters were subjected to combined analysis of variance, while genome-wide association analysis was performed on phenotypic and SNPs data. Significant differences (P < 0.001) were detected among the assessed pearl millet genotypes for Sh parameters and agronomic traits. Further, there were significant genotype by Sh interaction for the number of Sh and ASNPC. Twenty-eight SNPs were significantly associated with a low number of emerged Sh located on chromosomes 1, 2, 3, 4, 6, and 7. Four SNPs were associated with days-to-50%-flowering on chromosomes 3, 5, 6, and 7, while five were associated with panicle length on chromosomes 2, 3, and 4. Seven SNPs were linked to thousand-grain weight on chromosomes 2, 3, and 6. The putative SNP markers associated with a low number of emerged Sh and agronomic traits in the assessed genotypes are valuable genomic resources for accelerated breeding and variety deployment of pearl millet with Sh resistance and farmer- and market-preferred agronomic traits. 2023-10 2024-01-16T22:54:55Z 2024-01-16T22:54:55Z Journal Article https://hdl.handle.net/10568/137825 en Open Access application/pdf Nature Publishing Group Rouamba, A., Shimelis, H., Drabo, I., Mrema, E., Ojiewo, C. O., Mwadzingeni, L., & Rathore, A. (2023). Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet. Scientific Reports, 13(1). https://doi.org/10.1038/s41598-023-44046-1 |
| spellingShingle | genome-wide association studies striga hermonthica pearl millet Rouamba, Armel Shimelis Hussien Drabo, Inoussa Mrema, Emmanuel Ojiewo, Christopher Ochieng Mwadzingeni, Learnmore Rathore, Abhishek Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title | Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title_full | Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title_fullStr | Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title_full_unstemmed | Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title_short | Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet |
| title_sort | genome wide association analyses of agronomic traits and striga hermonthica resistance in pearl millet |
| topic | genome-wide association studies striga hermonthica pearl millet |
| url | https://hdl.handle.net/10568/137825 |
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