Gene expression atlas of pigeonpea and its application to gain insights into genes associated with pollen fertility implicated in seed formation

Lekha T. Pazhamala, Shilp Purohit, Rachit K. Saxena, Vanika Garg, L. Krishnamurthy, Jerome Verdier, Rajeev K. Varshney

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

Pigeonpea (Cajanus cajan) is an important grain legume of the semi-arid tropics, mainly used for its protein rich seeds. To link the genome sequence information with agronomic traits resulting from specifc developmental processes, a Cajanus cajan gene expression atlas (CcGEA) was developed using the Asha genotype. Thirty tissues/organs representing developmental stages from germination to senescence were used to generate 590.84 million paired-end RNA-Seq data. The CcGEA revealed a compendium of 28 793 genes with differential, specifc, spatiotemporal and constitutive expression during various stages of development in different tissues. As an example to demonstrate the application of the CcGEA, a network of 28 flower-related genes analysed for cis-regulatory elements and splicing variants has been identifed. In addition, expression analysis of these candidate genes in male sterile and male fertile genotypes suggested their critical role in normal pollen development leading to seed formation. Gene network analysis also identifed two regulatory genes, a pollen-specifc SF3 and a sucrose-proton symporter, that could have implications for improvement of agronomic traits such as seed production and yield. In conclusion, the CcGEA provides a valuable resource for pigeonpea to identify candidate genes involved in specifc developmental processes and to understand the well-orchestrated growth and developmental process in this resilient crop.

Original languageEnglish
Pages (from-to)2037-2054
Number of pages18
JournalJournal of Experimental Botany
Volume68
Issue number8
DOIs
Publication statusPublished - 1 Apr 2017

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