Transcriptome analysis of chickpea during heat stress unveils the signatures of long intergenic non-coding RNAs (lincRNAs) and mRNAs in the heat-QTL region

Sailaja Bhogireddy; Himabindu Kudapa; Prasad Bajaj; Vanika Garg; Annapurna Chitikineni; Sourav Nayak; Rajeev K. Varshney

doi:10.1016/j.cropd.2023.100026

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Transcriptome analysis of chickpea during heat stress unveils the signatures of long intergenic non-coding RNAs (lincRNAs) and mRNAs in the heat-QTL region

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Transcriptome analysis of chickpea during heat stress unveils the signatures of long intergenic non-coding RNAs (lincRNAs) and mRNAs in the heat-QTL region

Sailaja Bhogireddy, Himabindu Kudapa, Prasad Bajaj, Vanika Garg, Annapurna Chitikineni, Sourav Nayak and Rajeev K. Varshney

Crop Design, Vol.2(1), 100026

2023

DOI: https://doi.org/10.1016/j.cropd.2023.100026

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Abstract

Chickpea

Heat QTL

Heat stress

Long non-coding RNAs

mRNAs

RNA-Sequencing

In plants, besides the role of messenger RNAs (mRNAs) in gene expression, long intergenic non-coding RNAs (lincRNAs) play a key role in regulating various biological processes. Chickpea (Cicer arietinum L.), an important legume crop, is sensitive to extreme temperature regimes. Here, we identified the lincRNAs and mRNAs in three chickpea genotypes contrasting for heat stress response (two tolerant- ICC 1356, ICC 15614; one sensitive- ICC 4567) and investigated their role in heat stress. A total of 894 putative lincRNAs and 61,110 mRNAs were identified from leaf and root tissues at the vegetative and reproductive stages of the plant under control and heat stress conditions. Co-expression studies revealed the significant association of lincRNAs with mRNAs which are attributed to heat stress leaf samples at the reproductive stage. Further, mRNAs encoding heat shock transcription factors (HSFs), heat shock proteins (HSPs), starch, and sucrose metabolism pathway genes played an essential role in mitigating heat stress. Furthermore, three key lincRNAs underlying chickpea's heat-quantitative trait locus (QTL) region were identified. This study provided new insights into the regulation of heat stress tolerance in chickpea by identifying candidate lincRNAs and mRNAs.

Details

Title: Transcriptome analysis of chickpea during heat stress unveils the signatures of long intergenic non-coding RNAs (lincRNAs) and mRNAs in the heat-QTL region
Authors/Creators: Sailaja Bhogireddy - University of Georgia
Himabindu Kudapa - International Crops Research Institute for the Semi-Arid Tropics
Prasad Bajaj - International Crops Research Institute for the Semi-Arid Tropics
Vanika Garg - Murdoch University
Annapurna Chitikineni - Murdoch University
Sourav Nayak - International Crops Research Institute for the Semi-Arid Tropics
Rajeev K. Varshney - Murdoch University
Publication Details: Crop Design, Vol.2(1), 100026
Publisher: Elsevier B.V. on behalf of Zhejiang University and Zhejiang University Press Co. Ltd
Identifiers: 991005609866707891
Murdoch Affiliation: State Agricultural Biotechnology Centre; Centre for Crop and Food Innovation; Food Futures Institute
Language: English
Resource Type: Journal article

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