Next‐generation sequencing identified genomic region and diagnostic markers for resistance to bacterial wilt on chromosome B02 in peanut ( Arachis hypogaea L.)

Huaiyong Luo, Manish K Pandey, Aamir Khan, Bei Wu, Jianbin Guo, Xiaoping Ren, Xiaojing Zhou, Yuning Chen, Weigang Chen, Li Huang, Nian Liu, Yong Lei, Boshou Liao, Rajeev Varshney, Huifang Jiang. (13/5/2019). Next‐generation sequencing identified genomic region and diagnostic markers for resistance to bacterial wilt on chromosome B02 in peanut ( Arachis hypogaea L. ). Plant Biotechnology Journal, 12(17), pp. 2356-2369.

Abstract

Bacterial wilt, caused by Ralstonia solanacearum, is a devastating disease affecting over 350plant species. A few peanut cultivars were found to possess stable and durable bacterial wiltresistance (BWR). Genomics-assisted breeding can accelerate the process of developing resistant cultivars by using diagnostic markers. Here, we deployed sequencing-based trait mappingapproach, QTL-seq, to discover genomic regions, candidate genes and diagnostic markers for BWR in a recombination inbred line population (195 progenies) of peanut. The QTL-seq analysis identified one candidate genomic region on chromosome B02 significantly associated with BWR.Mapping of newly developed single nucleotide polymorphism (SNP) markers narrowed down theregion to 2.07 Mb and confirmed its major effects and stable expressions across three environments. This candidate genomic region had 49 non synonymous SNPs affecting 19 putative candidate genes including seven putative resistance genes (R-genes). Two diagnostic markers were successfully validated in diverse breeding lines and cultivars and could be deployed in genomics-assisted breeding of varieties with enhanced BWR.