Multi-locus genome-wide association studies reveal genomic regions and putative candidate genes associated with leaf spot diseases in African groundnut (Arachis hypogaea L.) germplasm
dc.contributor.author | Oteng-Frimpong, Richard | en |
dc.contributor.author | Karikari, Benjamin | en |
dc.contributor.author | Sie, Emmanuel Kofi | en |
dc.contributor.author | Kassim, Yussif Baba | en |
dc.contributor.author | Puozaa, Doris Kanvenaa | en |
dc.contributor.author | Rasheed, Masawudu Abdul | en |
dc.contributor.author | Fonceka, Daniel | en |
dc.contributor.author | Okello, David Kallule | en |
dc.contributor.author | Balota, Maria | en |
dc.contributor.author | Burow, Mark | en |
dc.contributor.author | Ozias-Akins, Peggy | en |
dc.date.accessioned | 2023-03-30T15:02:30Z | en |
dc.date.available | 2023-03-30T15:02:30Z | en |
dc.date.issued | 2023-01-05 | en |
dc.description.abstract | Early leaf spot (ELS) and late leaf spot (LLS) diseases are the two most destructive groundnut diseases in Ghana resulting in <= 70% yield losses which is controlled largely by chemical method. To develop leaf spot resistant varieties, the present study was undertaken to identify single nucleotide polymorphism (SNP) markers and putative candidate genes underlying both ELS and LLS. In this study, six multi-locus models of genome-wide association study were conducted with the best linear unbiased predictor obtained from 294 African groundnut germplasm screened for ELS and LLS as well as image-based indices of leaf spot diseases severity in 2020 and 2021 and 8,772 high-quality SNPs from a 48 K SNP array Axiom platform. Ninety-seven SNPs associated with ELS, LLS and five image-based indices across the chromosomes in the 2 two sub-genomes. From these, twenty-nine unique SNPs were detected by at least two models for one or more traits across 16 chromosomes with explained phenotypic variation ranging from 0.01 - 62.76%, with exception of chromosome (Chr) 08 (Chr08), Chr10, Chr11, and Chr19. Seventeen potential candidate genes were predicted at +/- 300 kbp of the stable/prominent SNP positions (12 and 5, down- and upstream, respectively). The results from this study provide a basis for understanding the genetic architecture of ELS and LLS diseases in African groundnut germplasm, and the associated SNPs and predicted candidate genes would be valuable for breeding leaf spot diseases resistant varieties upon further validation. | en |
dc.description.notes | This study was made possible by the generous support of the BMGF funded Accelerated Varietal Improvement and Seed Systems for Legumes and Cereals in Africa (AVISA) Project Grant Number OPP1198373 and the American people through the United States Agency for International Development (USAID) Cooperative Agreement No. 7200AA 18CA00003 to the University of Georgia as management entity for U.S. Feed the Future Innovation Lab for Peanut (2018-2023). The funders had no role in experiments, data analyses and publication. | en |
dc.description.sponsorship | BMGF funded Accelerated Varietal Improvement and Seed Systems for Legumes and Cereals in Africa (AVISA) [OPP1198373]; American people through the United States Agency for International Development (USAID) [7200AA 18CA00003] | en |
dc.description.version | Published version | en |
dc.format.mimetype | application/pdf | en |
dc.identifier.doi | https://doi.org/10.3389/fpls.2022.1076744 | en |
dc.identifier.other | 1076744 | en |
dc.identifier.pmid | 36684745 | en |
dc.identifier.uri | http://hdl.handle.net/10919/114231 | en |
dc.identifier.volume | 13 | en |
dc.language.iso | en | en |
dc.publisher | Frontiers | en |
dc.rights | Creative Commons Attribution 4.0 International | en |
dc.rights.uri | http://creativecommons.org/licenses/by/4.0/ | en |
dc.subject | candidate genes | en |
dc.subject | environmentally friendly | en |
dc.subject | genomics | en |
dc.subject | markerassisted selection | en |
dc.subject | oilseed | en |
dc.subject | early leaf spot | en |
dc.subject | late leaf spot | en |
dc.title | Multi-locus genome-wide association studies reveal genomic regions and putative candidate genes associated with leaf spot diseases in African groundnut (Arachis hypogaea L.) germplasm | en |
dc.title.serial | Frontiers in Plant Science | en |
dc.type | Article - Refereed | en |
dc.type.dcmitype | Text | en |
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