Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize
Fusarium stalk rot (FSR) is a global destructive disease in maize; the efficiency of phenotypic selection for improving FSR resistance was low. Novel genomic tools of genome-wide association study (GWAS) and genomic prediction (GP) provide an opportunity for genetic dissection and improving FSR resi...
| Autores principales: | , , , , , , , , , , , , , , |
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| Formato: | Journal Article |
| Lenguaje: | Inglés |
| Publicado: |
Springer
2024
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| Materias: | |
| Acceso en línea: | https://hdl.handle.net/10568/141932 |
| _version_ | 1855534798176518144 |
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| author | Song, Junqiao Liu, Yubo Guo, Rui Pacheco Gil, R. Angela Muñoz-Zavala, Carlos Song, Wei Wang, Hui Cao, Shiliang Hu, Guanghui Zheng, Hongjian Dhliwayo, Thanda San Vicente, Felix M. Prasanna, Boddupalli M. Wang, Chunping Zhang, Xuecai |
| author_browse | Cao, Shiliang Dhliwayo, Thanda Guo, Rui Hu, Guanghui Liu, Yubo Muñoz-Zavala, Carlos Pacheco Gil, R. Angela Prasanna, Boddupalli M. San Vicente, Felix M. Song, Junqiao Song, Wei Wang, Chunping Wang, Hui Zhang, Xuecai Zheng, Hongjian |
| author_facet | Song, Junqiao Liu, Yubo Guo, Rui Pacheco Gil, R. Angela Muñoz-Zavala, Carlos Song, Wei Wang, Hui Cao, Shiliang Hu, Guanghui Zheng, Hongjian Dhliwayo, Thanda San Vicente, Felix M. Prasanna, Boddupalli M. Wang, Chunping Zhang, Xuecai |
| author_sort | Song, Junqiao |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Fusarium stalk rot (FSR) is a global destructive disease in maize; the efficiency of phenotypic selection for improving FSR resistance was low. Novel genomic tools of genome-wide association study (GWAS) and genomic prediction (GP) provide an opportunity for genetic dissection and improving FSR resistance. In this study, GWAS and GP analyses were performed on 562 tropical maize inbred lines consisting of two populations. In total, 15 SNPs significantly associated with FSR resistance were identified across two populations and the combinedPOP consisting of all 562 inbred lines, with the P-values ranging from 1.99 × 10–7 to 8.27 × 10–13, and the phenotypic variance explained (PVE) values ranging from 0.94 to 8.30%. The genetic effects of the 15 favorable alleles ranged from −4.29 to −14.21% of the FSR severity. One stable genomic region at ~ 250 Mb on chromosome 1 was detected across all populations, and the PVE values of the SNPs detected in this region ranged from 2.16 to 5.18%. Prediction accuracies of FSR severity estimated with the genome-wide SNPs were moderate and ranged from 0.29 to 0.51. By incorporating genotype-by-environment interaction, prediction accuracies were improved between 0.36 and 0.55 in different breeding scenarios. Considering both the genome coverage and the threshold of the P-value of SNPs to select a subset of molecular markers further improved the prediction accuracies. These findings extend the knowledge of exploiting genomic tools for genetic dissection and improving FSR resistance in tropical maize. |
| format | Journal Article |
| id | CGSpace141932 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2024 |
| publishDateRange | 2024 |
| publishDateSort | 2024 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1419322025-12-08T09:54:28Z Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize Song, Junqiao Liu, Yubo Guo, Rui Pacheco Gil, R. Angela Muñoz-Zavala, Carlos Song, Wei Wang, Hui Cao, Shiliang Hu, Guanghui Zheng, Hongjian Dhliwayo, Thanda San Vicente, Felix M. Prasanna, Boddupalli M. Wang, Chunping Zhang, Xuecai genetic dissection fusarium disease resistance maize genome-wide association studies genotype environment interaction Fusarium stalk rot (FSR) is a global destructive disease in maize; the efficiency of phenotypic selection for improving FSR resistance was low. Novel genomic tools of genome-wide association study (GWAS) and genomic prediction (GP) provide an opportunity for genetic dissection and improving FSR resistance. In this study, GWAS and GP analyses were performed on 562 tropical maize inbred lines consisting of two populations. In total, 15 SNPs significantly associated with FSR resistance were identified across two populations and the combinedPOP consisting of all 562 inbred lines, with the P-values ranging from 1.99 × 10–7 to 8.27 × 10–13, and the phenotypic variance explained (PVE) values ranging from 0.94 to 8.30%. The genetic effects of the 15 favorable alleles ranged from −4.29 to −14.21% of the FSR severity. One stable genomic region at ~ 250 Mb on chromosome 1 was detected across all populations, and the PVE values of the SNPs detected in this region ranged from 2.16 to 5.18%. Prediction accuracies of FSR severity estimated with the genome-wide SNPs were moderate and ranged from 0.29 to 0.51. By incorporating genotype-by-environment interaction, prediction accuracies were improved between 0.36 and 0.55 in different breeding scenarios. Considering both the genome coverage and the threshold of the P-value of SNPs to select a subset of molecular markers further improved the prediction accuracies. These findings extend the knowledge of exploiting genomic tools for genetic dissection and improving FSR resistance in tropical maize. 2024-05 2024-05-20T14:15:57Z 2024-05-20T14:15:57Z Journal Article https://hdl.handle.net/10568/141932 en Limited Access Springer Song, J., Liu, Y., Guo, R., Pacheco, A., Muñoz-Zavala, C., Song, W., Wang, H., Cao, S., Hu, G., Zheng, H., Dhliwayo, T., San Vicente, F., Prasanna, B. M., Wang, C., & Zhang, X. (2024). Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize. Theoretical and Applied Genetics, 137(5), 109. https://doi.org/10.1007/s00122-024-04597-x |
| spellingShingle | genetic dissection fusarium disease resistance maize genome-wide association studies genotype environment interaction Song, Junqiao Liu, Yubo Guo, Rui Pacheco Gil, R. Angela Muñoz-Zavala, Carlos Song, Wei Wang, Hui Cao, Shiliang Hu, Guanghui Zheng, Hongjian Dhliwayo, Thanda San Vicente, Felix M. Prasanna, Boddupalli M. Wang, Chunping Zhang, Xuecai Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title | Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title_full | Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title_fullStr | Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title_full_unstemmed | Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title_short | Exploiting genomic tools for genetic dissection and improving the resistance to Fusarium stalk rot in tropical maize |
| title_sort | exploiting genomic tools for genetic dissection and improving the resistance to fusarium stalk rot in tropical maize |
| topic | genetic dissection fusarium disease resistance maize genome-wide association studies genotype environment interaction |
| url | https://hdl.handle.net/10568/141932 |
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