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Whole genome resequencing identifies candidate genes and allelic diagnostic markers for resistance to Ralstonia solanacearum infection in cultivated peanut (Arachis hypogaea L.)

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Relation http://oar.icrisat.org/12428/
https://www.frontiersin.org/articles/10.3389/fpls.2022.1048168/full
https://doi.org/10.3389/fpls.2022.1048168
 
Title Whole genome resequencing identifies candidate genes and allelic diagnostic markers for resistance to Ralstonia solanacearum infection in cultivated peanut (Arachis hypogaea L.)
 
Creator Zhang, C
Xie, W
Fu, H
Chen, Y
Chen, H
Cai, T
Yang, Q
Zhuang, Y
Zhong, X
Chen, K
Gao, M
Liu, F
Wan, Y
Pandey, M K
Varshney, R K
Zhuang, W
 
Subject Groundnut
Genetics and Genomics
 
Description Bacterial wilt disease (BWD), caused by Ralstonia solanacearum is a major challenge for peanut production in China and significantly affects global peanut field productivity. It is imperative to identify genetic loci and putative genes controlling resistance to R. solanacearum (RRS). Therefore, a sequencing-based trait mapping approach termed “QTL-seq” was applied to a recombination inbred line population of 581 individuals from the cross of Yueyou 92 (resistant) and Xinhuixiaoli (susceptible). A total of 381,642 homozygous single nucleotide polymorphisms (SNPs) and 98,918 InDels were identified through whole genome resequencing of resistant and susceptible parents for RRS. Using QTL-seq analysis, a candidate genomic region comprising of 7.2 Mb (1.8–9.0 Mb) was identified on chromosome 12 which was found to be significantly associated with RRS based on combined Euclidean Distance (ED) and SNP-index methods. This candidate genomic region had 180 nonsynonymous SNPs and 14 InDels that affected 75 and 11 putative candidate genes, respectively. Finally, eight nucleotide binding site leucine rich repeat (NBS-LRR) putative resistant genes were identified as the important candidate genes with high confidence. Two diagnostic SNP markers were validated and revealed high phenotypic variation in the different resistant and susceptible RIL lines. These findings advocate the expediency of the QTL-seq approach for precise and rapid identification of candidate genomic regions, and the development of diagnostic markers that are applicable in breeding disease-resistant peanut varieties.
 
Publisher Frontiers Media
 
Date 2023-01-04
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_by
 
Identifier http://oar.icrisat.org/12428/1/Frontiers%20in%20Plant%20Science_13_01-28_2023.pdf
Zhang, C and Xie, W and Fu, H and Chen, Y and Chen, H and Cai, T and Yang, Q and Zhuang, Y and Zhong, X and Chen, K and Gao, M and Liu, F and Wan, Y and Pandey, M K and Varshney, R K and Zhuang, W (2023) Whole genome resequencing identifies candidate genes and allelic diagnostic markers for resistance to Ralstonia solanacearum infection in cultivated peanut (Arachis hypogaea L.). Frontiers in Plant Science (TSI), 13. 01-28. ISSN 1664-462X