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Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize

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Title Identification and validation of a key genomic region on chromosome 6 for resistance to Fusarium stalk rot in tropical maize
 
Creator Rashid, Zerka
Babu, Veerendra
Sharma, Shyam Sundar
Singh, Pradeep Kumar
Nair, Sudha Krishnan
 
Subject Fusarium
maize
disease resistance
quantitative trait loci mapping
 
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.
 
Date 2022-10-22
2023-01-01T16:13:48Z
2023-01-01T16:13:48Z
 
Type Journal Article
 
Identifier Rashid, Z., Babu, V., Sharma, S.S., Singh, P.K. and 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 135:4549–4563. https://hdl.handle.net/10883/22276
1432-2242
https://hdl.handle.net/10568/126434
https://hdl.handle.net/10883/22276
https://doi.org/10.1007/s00122-022-04239-0
 
Language en
 
Rights CC-BY-4.0
Open Access
 
Format application/pdf
 
Source Theoretical and Applied Genetics