Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms

    Bhogireddy, S and Xavier, A and Garg, V and Layland, N and Arias, R and Payton, P and Nayak, S N and Pandey, M K and Puppala, N and Varshney, R K (2020) Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms. Scientific Reports (TSI), 10 (1). ISSN 2045-2322

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    Abstract

    Drought is one of the main constraints in peanut production in West Texas and eastern New Mexico regions due to the depletion of groundwater. A multi-seasonal phenotypic analysis of 10 peanut genotypes revealed C76-16 (C-76) and Valencia-C (Val-C) as the best and poor performers under deficit irrigation (DI) in West Texas, respectively. In order to decipher transcriptome changes under DI, RNAseq was performed in C-76 and Val-C. Approximately 369 million raw reads were generated from 12 different libraries of two genotypes subjected to fully irrigated (FI) and DI conditions, of which ~329 million (90.2%) filtered reads were mapped to the diploid ancestors of peanut. The transcriptome analysis detected 4,508 differentially expressed genes (DEGs), 1554 genes encoding transcription factors (TFs) and a total of 514 single nucleotide polymorphisms (SNPs) among the identified DEGs. The comparative analysis between the two genotypes revealed higher and integral tolerance in C-76 through activation of key genes involved in ABA and sucrose metabolic pathways. Interestingly, one SNP from the gene coding F-box protein (Araip.3WN1Q) and another SNP from gene coding for the lipid transfer protein (Aradu.03ENG) showed polymorphism in selected contrasting genotypes. These SNPs after further validation may be useful for performing early generation selection for selecting drought responsive genotypes.

    Item Type: Article
    Divisions: Research Program : Genetic Gains
    CRP: CGIAR Research Program on Grain Legumes and Dryland Cereals (GLDC)
    Uncontrolled Keywords: Groundnut, Genomics, Drought
    Subjects: Mandate crops > Groundnut
    Others > Drought
    Others > Genetics and Genomics
    Depositing User: Mr Arun S
    Date Deposited: 06 Sep 2020 07:09
    Last Modified: 06 Sep 2020 07:09
    URI: http://oar.icrisat.org/id/eprint/11600
    Official URL: https://doi.org/10.1038/s41598-020-60187-z
    Projects: UNSPECIFIED
    Funders: UNSPECIFIED
    Acknowledgement: This project was funded by in part by the NIFA-Hatch funds from the US Department of Agriculture provided to the New Mexico Agricultural Experiment Station; New Mexico Peanut Research Board; National Peanut Research Board, Office of Agriculture, Research and Policy, Beaureau of Food security, US Agency for International Development, under the terms of Award No (AID-ECG-A-00-07-0001) to the University of Georgia as management entity for the US Feed the Future Innovation lab on Peanut Productivity and Mycotoxin Control. We thank Sunil S Gangurde for helping in the preparation of the Circos figure for the manuscript. BS acknowledges the award of a research grant fellowship from the Department of Biotechnology (DBT), Government of India. AX acknowledges the Plant and Environmental Sciences, New Mexico State University for Graduate Research Assistantship during the period of study. VG acknowledges the award of a research grant fellowship from the Department of Science and Technology, Government of India. This work has been undertaken as part of the CGIAR Research Program on Grain Legumes and Dryland Cereals. ICRISAT is a member of the CGIAR consortium.
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