Gene expression atlas of pigeonpea and its application to gain insights into genes associated with pollen fertility implicated in seed formation.
IF: 7.298
Cited by: 36


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 specific 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, specific, spatio-temporal 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 identified. 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 identified two regulatory genes, a pollen-specific 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 specific developmental processes and to understand the well-orchestrated growth and developmental process in this resilient crop.


Cajanus cajan
gene clustering
gene expression atlas
gene networking
legume genomics
male sterile genotype
pollen-specific SF3
sucrose–proton symporter.

MeSH terms

Crops, Agricultural
Gene Expression Regulation, Plant
Genes, Plant


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

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