ArticlePlant molecular biology2026
Pan-transcriptome analysis of diverse chickpea accessions reveals specific expression patterns and genetic variations associated with agronomic traits.
Article in Plant molecular biology, 2026. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.
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Abstract
Chickpea (Cicer arietinum L.) is one of the important legumes providing a rich source of dietary intake. Although numerous genomics studies have been performed in chickpea, a comprehensive pan-transcriptome analysis across diverse chickpea accessions has not been conducted. In this study, we analyzed the transcriptomes of 32 chickpea accessions, comprising 21 desi-type, 9 kabuli-type, and 2 wild accessions, employing reference-based RNA-seq approach. We identified genes expressed in an accession-specific manner as well as the genes preferentially expressed in desi, kabuli, and wild chickpeas. The analysis of single-nucleotide polymorphisms (SNPs) across 32 accessions revealed phylogenetic relationships distinguishing the three chickpea types. The SNPs located within the coding regions linked to seed size/weight and drought stress response traits were identified. Further, we highlighted candidate genes for these traits based on their colocalization with quantitative trait loci and presence of non-synonymous SNPs with potential impact on the stability of the encoded proteins. Overall, this study provides a valuable resource for the pan-transcriptome, gene expression atlas, and transcriptome-wide SNP map to facilitate large-scale functional characterization and genotyping applications in chickpea.
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