A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp)
Molecular markers are increasingly being deployed to accelerate genetic gain in crop plants. The objective of this study was to assess the potential of a mid-density genotyping panel for molecular applications in cowpea breeding. A core set of 2,602 targeted diversity array technology (DArTag) singl...
| Main Authors: | , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Hindawi Limited
2024
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/139879 |
| _version_ | 1855531109521031168 |
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| author | Ongom, Patrick Obia Fatokun, Christian Togola, Abou Garcia Oliveira, Ana Luisa Eng Hwa Ng Kilian, Andrzej Lonardi, Stefano Close, Timothy J. Boukar, Ousmane |
| author_browse | Boukar, Ousmane Close, Timothy J. Eng Hwa Ng Fatokun, Christian Garcia Oliveira, Ana Luisa Kilian, Andrzej Lonardi, Stefano Ongom, Patrick Obia Togola, Abou |
| author_facet | Ongom, Patrick Obia Fatokun, Christian Togola, Abou Garcia Oliveira, Ana Luisa Eng Hwa Ng Kilian, Andrzej Lonardi, Stefano Close, Timothy J. Boukar, Ousmane |
| author_sort | Ongom, Patrick Obia |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Molecular markers are increasingly being deployed to accelerate genetic gain in crop plants. The objective of this study was to assess the potential of a mid-density genotyping panel for molecular applications in cowpea breeding. A core set of 2,602 targeted diversity array technology (DArTag) single-nucleotide polymorphisms (SNPs) was designed from an existing 51,128 Cowpea iSelect Consortium Array. The panel's usefulness was assessed using 376 genotypes from different populations of known genetic backgrounds. The panel was informative, with over 78% of SNPs exceeding a minor allele frequency of 0.20. The panel decoded three stratifications in the constituted population, as was expected. Linkage disequilibrium (LD) decay was correctly depicted as slower in a biparental subset than in other populations. A known flower and seed coat color gene region was located on chromosome Vu07, suggesting that the mid-density panel may be used to hypothesize genomic regions underlying target traits in cowpea. Unexpected heterozygosity was detected in some lines and highly among F-1 progenies, divulging the panel's potential application in germplasm purity and hybridity verification. The study unveils the potential of an excellent genomic resource that can be tapped to enhance the development of improved cowpea cultivars. |
| format | Journal Article |
| id | CGSpace139879 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Hindawi Limited |
| publisherStr | Hindawi Limited |
| record_format | dspace |
| spelling | CGSpace1398792025-11-11T10:36:00Z A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) Ongom, Patrick Obia Fatokun, Christian Togola, Abou Garcia Oliveira, Ana Luisa Eng Hwa Ng Kilian, Andrzej Lonardi, Stefano Close, Timothy J. Boukar, Ousmane single nucleotide polymorphisms cowpeas genotyping linkage disequilibrium quantitative trait loci grain legumes molecular markers Molecular markers are increasingly being deployed to accelerate genetic gain in crop plants. The objective of this study was to assess the potential of a mid-density genotyping panel for molecular applications in cowpea breeding. A core set of 2,602 targeted diversity array technology (DArTag) single-nucleotide polymorphisms (SNPs) was designed from an existing 51,128 Cowpea iSelect Consortium Array. The panel's usefulness was assessed using 376 genotypes from different populations of known genetic backgrounds. The panel was informative, with over 78% of SNPs exceeding a minor allele frequency of 0.20. The panel decoded three stratifications in the constituted population, as was expected. Linkage disequilibrium (LD) decay was correctly depicted as slower in a biparental subset than in other populations. A known flower and seed coat color gene region was located on chromosome Vu07, suggesting that the mid-density panel may be used to hypothesize genomic regions underlying target traits in cowpea. Unexpected heterozygosity was detected in some lines and highly among F-1 progenies, divulging the panel's potential application in germplasm purity and hybridity verification. The study unveils the potential of an excellent genomic resource that can be tapped to enhance the development of improved cowpea cultivars. 2024-01-09 2024-03-08T17:34:50Z 2024-03-08T17:34:50Z Journal Article https://hdl.handle.net/10568/139879 en Open Access application/pdf Hindawi Limited Ongom, P. O., Fatokun, C., Togola, A., Garcia-Oliveira, A. L., Ng, E. H., Kilian, A., Lonardi, S., Close, T. J., & Boukar, O. (2024). A Mid-Density Single-Nucleotide Polymorphism Panel for Molecular Applications in Cowpea (Vigna unguiculata (L.) Walp). In A. Ferrante (Ed.), International Journal of Genomics (Vol. 2024, pp. 1–19). Hindawi Limited. https://doi.org/10.1155/2024/9912987 |
| spellingShingle | single nucleotide polymorphisms cowpeas genotyping linkage disequilibrium quantitative trait loci grain legumes molecular markers Ongom, Patrick Obia Fatokun, Christian Togola, Abou Garcia Oliveira, Ana Luisa Eng Hwa Ng Kilian, Andrzej Lonardi, Stefano Close, Timothy J. Boukar, Ousmane A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title | A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title_full | A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title_fullStr | A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title_full_unstemmed | A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title_short | A mid-density single-nucleotide polymorphism panel for molecular applications in cowpea (Vigna unguiculata (L.) Walp) |
| title_sort | mid density single nucleotide polymorphism panel for molecular applications in cowpea vigna unguiculata l walp |
| topic | single nucleotide polymorphisms cowpeas genotyping linkage disequilibrium quantitative trait loci grain legumes molecular markers |
| url | https://hdl.handle.net/10568/139879 |
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