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

S. Bhogireddy; A. Xavier; V. Garg; N. Layland; R. Arias; P. Payton; S.N. Nayak; M.K. Pandey; N. Puppala; R.K. Varshney

doi:10.1038/s41598-020-60187-z

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

Journal article

Open access

Peer reviewed

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

S. Bhogireddy, A. Xavier, V. Garg, N. Layland, R. Arias, P. Payton, S.N. Nayak, M.K. Pandey, N. Puppala and R.K. Varshney

Scientific Reports, Vol.10(1), 4071

2020

DOI: https://doi.org/10.1038/s41598-020-60187-z

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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, RNA-seq 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.

Details

Title: Genome-wide transcriptome and physiological analyses provide new insights into peanut drought response mechanisms
Authors/Creators: S. Bhogireddy (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
A. Xavier (Author/Creator) - New Mexico State University
V. Garg (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
N. Layland (Author/Creator) - USDA FSIS OFO, Dallas, USA.
R. Arias (Author/Creator) - National Peanut Research Laboratory
P. Payton (Author/Creator) - Cropping Systems Research Laboratory
S.N. Nayak (Author/Creator) - University of Agricultural Sciences, Dharwad
M.K. Pandey (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
N. Puppala (Author/Creator) - New Mexico State University
R.K. Varshney (Author/Creator) - International Crops Research Institute for the Semi-Arid Tropics
Publication Details: Scientific Reports, Vol.10(1), 4071
Publisher: Nature Research
Identifiers: 991005542975407891
Copyright: © 2020 The Authors.
Murdoch Affiliation: Murdoch University; State Agricultural Biotechnology Centre; Centre for Crop and Food Innovation
Language: English
Resource Type: Journal article

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Collaboration types: Domestic collaboration; International collaboration
Citation topics: 3 Agriculture, Environment & Ecology; 3.4 Crop Science; 3.4.49 Plant Stress Responses
Web Of Science research areas: Plant Sciences
ESI research areas: Plant & Animal Science