Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize
Fusarium stalk rot (FSR) of maize is an economically important post-flowering stalk rot (PFSR) disease caused by Fusarium verticillioides. The pathogen invades the plant individually, or in combination with other stalk rot pathogens or secondary colonizers, thereby making it difficult to make accura...
| Main Authors: | , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Springer
2022
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| Online Access: | https://hdl.handle.net/10568/126434 |
| _version_ | 1855528839470383104 |
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| author | Rashid, Zerka Babu, Veerendra Sharma, Shyam Sundar Singh, Pradeep Kumar Nair, Sudha Krishnan |
| author_browse | Babu, Veerendra Nair, Sudha Krishnan Rashid, Zerka Sharma, Shyam Sundar Singh, Pradeep Kumar |
| author_facet | Rashid, Zerka Babu, Veerendra Sharma, Shyam Sundar Singh, Pradeep Kumar Nair, Sudha Krishnan |
| author_sort | Rashid, Zerka |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Fusarium stalk rot (FSR) of maize is an economically important post-flowering stalk rot (PFSR) disease caused by Fusarium verticillioides. The pathogen invades the plant individually, or in combination with other stalk rot pathogens or secondary colonizers, thereby making it difficult to make accurate selection for resistance. For identification and validation of genomic regions associated with FSR resistance, a genome-wide association study (GWAS) was conducted with 342 maize lines. The panel was screened for FSR in three environments using standard artificial inoculation methodology. GWAS using the mixed linear model corrected for population structure and kinship was done, in which 290,626 SNPs from genotyping-by-sequencing were used. A total of 7 SNPs, five on chromosome 6 showing strong LD at 168 Mb, were identified to be associated with FSR. Haplotype regression analysis identified 32 haplotypes with a significant effect on the trait. In a QTL mapping experiment in two populations for validating the identified variants, QTLs were identified with confidence intervals having overlapped physical coordinates in both the populations on chromosome 6, which was closely located to the GWAS-identified variants on chromosome 6. It makes this genomic region a crucial one to further investigate the possibility of developing trait markers for deployment in breeding pipelines. It was noted that previously reported QTLs for other stalk rots in maize mapped within the same physical intervals of several haplotypes identified for FSR resistance in this study. The possibility of QTLs controlling broad-spectrum resistance for PFSR in general requires further investigation. |
| format | Journal Article |
| id | CGSpace126434 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2022 |
| publishDateRange | 2022 |
| publishDateSort | 2022 |
| publisher | Springer |
| publisherStr | Springer |
| record_format | dspace |
| spelling | CGSpace1264342025-11-06T13:06:32Z Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize Rashid, Zerka Babu, Veerendra Sharma, Shyam Sundar Singh, Pradeep Kumar Nair, Sudha Krishnan fusarium maize disease resistance quantitative trait loci mapping Fusarium stalk rot (FSR) of maize is an economically important post-flowering stalk rot (PFSR) disease caused by Fusarium verticillioides. The pathogen invades the plant individually, or in combination with other stalk rot pathogens or secondary colonizers, thereby making it difficult to make accurate selection for resistance. For identification and validation of genomic regions associated with FSR resistance, a genome-wide association study (GWAS) was conducted with 342 maize lines. The panel was screened for FSR in three environments using standard artificial inoculation methodology. GWAS using the mixed linear model corrected for population structure and kinship was done, in which 290,626 SNPs from genotyping-by-sequencing were used. A total of 7 SNPs, five on chromosome 6 showing strong LD at 168 Mb, were identified to be associated with FSR. Haplotype regression analysis identified 32 haplotypes with a significant effect on the trait. In a QTL mapping experiment in two populations for validating the identified variants, QTLs were identified with confidence intervals having overlapped physical coordinates in both the populations on chromosome 6, which was closely located to the GWAS-identified variants on chromosome 6. It makes this genomic region a crucial one to further investigate the possibility of developing trait markers for deployment in breeding pipelines. It was noted that previously reported QTLs for other stalk rots in maize mapped within the same physical intervals of several haplotypes identified for FSR resistance in this study. The possibility of QTLs controlling broad-spectrum resistance for PFSR in general requires further investigation. 2022-12 2023-01-01T16:13:48Z 2023-01-01T16:13:48Z Journal Article https://hdl.handle.net/10568/126434 en Open Access application/pdf Springer Rashid, Z., Babu, V., Sharma, S. S., Singh, P. K., & Nair, S. K. (2022). Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize. Theoretical and Applied Genetics, 135(12), 4549–4563. https://doi.org/10.1007/s00122-022-04239-0 |
| spellingShingle | fusarium maize disease resistance quantitative trait loci mapping Rashid, Zerka Babu, Veerendra Sharma, Shyam Sundar Singh, Pradeep Kumar Nair, Sudha Krishnan Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title | Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title_full | Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title_fullStr | Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title_full_unstemmed | Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title_short | Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize |
| title_sort | identification and validation of a key genomic region on chromosome 6 for resistance to fusarium stalk rot in tropical maize |
| topic | fusarium maize disease resistance quantitative trait loci mapping |
| url | https://hdl.handle.net/10568/126434 |
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