Mining for heat stress responsive genes by RNA-Seq based comprehensive gene expression analyses in chickpea (Cicer arietinum L.) uri icon

abstract

  • Chickpea (Cicer arietinum L.), an important legume crop, is adverselyaffected by abiotic stresses such as heat, drought andsalinity. Amongst these stresses, heat stress is the main abioticstress that has an adverse impact on almost all aspects of plantdevelopment, growth, reproduction and yield. Development ofgenomic resources is a pre-requisite to develop heat-tolerantchickpea varieties. In this context, RNA-Seqbased transcriptomeanalysis was performed on vegetative (leaves and roots)and reproductive (leaves, roots and flowers) tissues of six contrastingheat responsive (tolerant - ICCV 92944, ICC 1356, ICC15614 and sensitive - ICC 5912, ICC 4567, ICC 10685) genotypes.A total of ~514 million reads were generated and alignmentof these reads against the available chickpea genomeassembly resulted in mapping of 469 (92.9%) million reads.Furthermore, gene expression analysis resulted in identificationof 7,670 significantly differentially expressed genes, including874 novel genes between contrasting genotypes. A set of 56stress responsive genes belonging to APETALA2/Ethylene ResponsiveFactor (AP2/ERF), Heat Shock Protein (HSP) and 90families are selected for further validation using quantitative realtime PCR. Moreover >22,456 single nucleotide polymorphisms(SNPs)/INDELs were identified between parental genotypes oftwo mapping populations (ICC15614 × ICC 4567 and ICC 1356 ×ICC 4567). Novel differentially expressed genes along with themarker resources identified in this study should help breeders indeveloping heat tolerant chickpea varieties in efficient manner

publication date

  • 2017