PMID- 28338822 OWN - NLM STAT- MEDLINE VI - 68 IP - 8 TI - Gene expression atlas of pigeonpea and its application to gain insights into genes associated with pollen fertility implicated in seed formation. PG - 2037-2054 CI - © The Author 2017. Published by Oxford University Press on behalf of the Society for Experimental Biology. LA - eng PT - Journal Article PL - England TA - J Exp Bot JT - Journal of experimental botany JID - 9882906 IS - 1460-2431 (Electronic) LID - 10.1093/jxb/erx010 [doi] FAU - Pazhamala, Lekha T AU - Pazhamala LT AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. FAU - Purohit, Shilp AU - Purohit S AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. FAU - Saxena, Rachit K AU - Saxena RK AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. FAU - Garg, Vanika AU - Garg V AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. FAU - Krishnamurthy, L AU - Krishnamurthy L AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. FAU - Verdier, Jerome AU - Verdier J AD - INRA - Research Institute in Horticulture and Seeds (IRHS), 49071 Beaucouze, France. FAU - Varshney, Rajeev K AU - Varshney RK AD - International Crops Research Institute for the Semi-Arid Tropics (ICRISAT), Hyderabad 502 324, India. AD - School of Plant Biology and Institute of Agriculture, University of Western Australia, 35 Stirling Highway, Crawley, WA, 6009, Australia. IS - 0022-0957 (Linking) SB - IM MH - Cajanus/*genetics/physiology MH - Crops, Agricultural/*genetics/physiology MH - Fertility/*genetics/physiology MH - *Gene Expression Regulation, Plant MH - Genes, Plant/*physiology MH - Pollination/*genetics/physiology MH - Seeds/*genetics/physiology OTO - NOTNLM OT - *Cajanus cajan OT - *CcGEA OT - *gene clustering OT - *gene expression atlas OT - *gene networking OT - *legume genomics OT - *male sterile genotype OT - *pigeonpea OT - *pollen-specific SF3 OT - *sucrose–proton symporter. PMC - PMC5429002 DCOM- 20180130 LR - 20181113 DP - 20170401 AB - 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.