Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.)
Soils in sub-Saharan Africa are nitrogen deficient due to low fertilizer use and inadequate soil fertility management practices. This has resulted in a significant yield gap for the major staple crop maize, which is undermining nutritional security and livelihood sustainability across the region. Di...
| Autores principales: | , , , , , |
|---|---|
| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2022
|
| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/126603 |
| _version_ | 1855517291258576896 |
|---|---|
| author | Ndlovu, Noel Spillane, Charles McKeown, Peter C. Cairns, Jill E. Das, Biswanath Gowda, Manje |
| author_browse | Cairns, Jill E. Das, Biswanath Gowda, Manje McKeown, Peter C. Ndlovu, Noel Spillane, Charles |
| author_facet | Ndlovu, Noel Spillane, Charles McKeown, Peter C. Cairns, Jill E. Das, Biswanath Gowda, Manje |
| author_sort | Ndlovu, Noel |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Soils in sub-Saharan Africa are nitrogen deficient due to low fertilizer use and inadequate soil fertility management practices. This has resulted in a significant yield gap for the major staple crop maize, which is undermining nutritional security and livelihood sustainability across the region. Dissecting the genetic basis of grain protein, starch and oil content under nitrogen-starved soils can increase our understanding of the governing genetic systems and improve the efficacy of future breeding schemes. An association mapping panel of 410 inbred lines and four bi-parental populations were evaluated in field trials in Kenya and South Africa under optimum and low nitrogen conditions and genotyped with 259,798 SNP markers. Genetic correlations demonstrated that these populations may be utilized to select higher performing lines under low nitrogen stress. Furthermore, genotypic, environmental and GxE variations in nitrogen-starved soils were found to be significant for oil content. Broad sense heritabilities ranged from moderate (0.18) to high (0.86). Under low nitrogen stress, GWAS identified 42 SNPs linked to grain quality traits. These significant SNPs were associated with 51 putative candidate genes. Linkage mapping identified multiple QTLs for the grain quality traits. Under low nitrogen conditions, average prediction accuracies across the studied genotypes were higher for oil content (0.78) and lower for grain yield (0.08). Our findings indicate that grain quality traits are polygenic and that using genomic selection in maize breeding can improve genetic gain. Furthermore, the identified genomic regions and SNP markers can be utilized for selection to improve maize grain quality traits. |
| format | Journal Article |
| id | CGSpace126603 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1266032025-11-06T13:03:24Z Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) Ndlovu, Noel Spillane, Charles McKeown, Peter C. Cairns, Jill E. Das, Biswanath Gowda, Manje genes grain nitrogen fertilizers plants sustainable development tropical zones genetic gain maize soil genetics biotechnology Soils in sub-Saharan Africa are nitrogen deficient due to low fertilizer use and inadequate soil fertility management practices. This has resulted in a significant yield gap for the major staple crop maize, which is undermining nutritional security and livelihood sustainability across the region. Dissecting the genetic basis of grain protein, starch and oil content under nitrogen-starved soils can increase our understanding of the governing genetic systems and improve the efficacy of future breeding schemes. An association mapping panel of 410 inbred lines and four bi-parental populations were evaluated in field trials in Kenya and South Africa under optimum and low nitrogen conditions and genotyped with 259,798 SNP markers. Genetic correlations demonstrated that these populations may be utilized to select higher performing lines under low nitrogen stress. Furthermore, genotypic, environmental and GxE variations in nitrogen-starved soils were found to be significant for oil content. Broad sense heritabilities ranged from moderate (0.18) to high (0.86). Under low nitrogen stress, GWAS identified 42 SNPs linked to grain quality traits. These significant SNPs were associated with 51 putative candidate genes. Linkage mapping identified multiple QTLs for the grain quality traits. Under low nitrogen conditions, average prediction accuracies across the studied genotypes were higher for oil content (0.78) and lower for grain yield (0.08). Our findings indicate that grain quality traits are polygenic and that using genomic selection in maize breeding can improve genetic gain. Furthermore, the identified genomic regions and SNP markers can be utilized for selection to improve maize grain quality traits. 2022-12 2023-01-05T09:16:45Z 2023-01-05T09:16:45Z Journal Article https://hdl.handle.net/10568/126603 en Open Access application/pdf Springer Ndlovu, N., Spillane, C., McKeown, P. C., Cairns, J. E., Das, B., & Gowda, M. (2022). Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.). Theoretical and Applied Genetics, 135(12), 4351–4370. https://doi.org/10.1007/s00122-022-04224-7 |
| spellingShingle | genes grain nitrogen fertilizers plants sustainable development tropical zones genetic gain maize soil genetics biotechnology Ndlovu, Noel Spillane, Charles McKeown, Peter C. Cairns, Jill E. Das, Biswanath Gowda, Manje Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title | Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title_full | Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title_fullStr | Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title_full_unstemmed | Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title_short | Genome-wide association studies of grain yield and quality traits under optimum and low-nitrogen stress in tropical maize (Zea mays L.) |
| title_sort | genome wide association studies of grain yield and quality traits under optimum and low nitrogen stress in tropical maize zea mays l |
| topic | genes grain nitrogen fertilizers plants sustainable development tropical zones genetic gain maize soil genetics biotechnology |
| url | https://hdl.handle.net/10568/126603 |
| work_keys_str_mv | AT ndlovunoel genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl AT spillanecharles genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl AT mckeownpeterc genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl AT cairnsjille genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl AT dasbiswanath genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl AT gowdamanje genomewideassociationstudiesofgrainyieldandqualitytraitsunderoptimumandlownitrogenstressintropicalmaizezeamaysl |