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Genome-wide transcriptome analysis and physiological variation modulates gene regulatory networks acclimating salinity tolerance in chickpea

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Relation http://oar.icrisat.org/11887/
https://doi.org/10.1016/j.envexpbot.2021.104478
doi:10.1016/j.envexpbot.2021.104478
 
Title Genome-wide transcriptome analysis and physiological variation modulates gene regulatory networks acclimating salinity tolerance in chickpea
 
Creator Kumar, N
Soren, K R
Bharadwaj, C
Sneha Priya, P R
Shrivastava, A K
Pal, M
Roorkiwal, M
Kumar, K
Patil, B S
Soni, A
Nimmy, M S
Siddique, K H M
Varshney, R K
 
Subject Chickpea
Genetics and Genomics
 
Description Salinity is a major abiotic stress that is a global threat to crop production, including chickpea. This study focused
on understanding the complex molecular mechanisms underlying salinity tolerance using comparative transcriptome
analysis of tolerant (ICCV 10, JG 11) and sensitive (DCP 92-3, Pusa 256) chickpea genotypes in control
and salt-stressed environments. A total of 530 million reads were generated from root samples of four genotypes
using Illumina HiSeq-2500. A total of 21,698 differentially expressed genes (DEGs) were identified, of which
11,456 and 10,242 were up- and down-regulated, respectively, in comparative analysis. These DEGs were
associated with crucial metabolic pathways, including hormone signaling, photosynthesis, lipid and carbohydrate
metabolism, and cell wall biogenesis. Gene ontology (GO) examination revealed an enrichment of transcripts
involved in salinity response. A total of 4257 differentially expressed GO terms were categorized into 64
functional groups; of which, GO terms like, integral component of membrane, organelle, and cellular anatomical
entity were highly represented in tolerant genotypes under salt stress. Significant up-regulation of transcripts
encoding potassium transporter family HAK/KUP proteins, MIP/aquaporin protein family, NADH dehydrogenase,
pectinesterase, and PP2C family proteins occurred under salt stress. The tolerant lines (ICCV 10 and JG 11)
engaged highly efficient machinery in response to elevated salt stress, especially for signal transduction, transport
and influx of K+ ions, and osmotic homeostasis. The overall study highlights the role of potential candidate
genes and their regulatory networks which can be utilized in breeding salt tolerant chickpea cultivars.
 
Publisher Pergamon-Elsevier
 
Date 2021-04
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Identifier http://oar.icrisat.org/11887/1/Genome-wide-transcriptome-analysis-and-physiological-var_2021_Environmental-.pdf
Kumar, N and Soren, K R and Bharadwaj, C and Sneha Priya, P R and Shrivastava, A K and Pal, M and Roorkiwal, M and Kumar, K and Patil, B S and Soni, A and Nimmy, M S and Siddique, K H M and Varshney, R K (2021) Genome-wide transcriptome analysis and physiological variation modulates gene regulatory networks acclimating salinity tolerance in chickpea. Environmental and Experimental Botany (TSI), 187. pp. 1-14. ISSN 0098-8472