Comparative transcriptome profiling of rice colonized with beneficial endophyte, Piriformospora indica , under high sali
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ORIGINAL ARTICLE
Comparative transcriptome profiling of rice colonized with beneficial endophyte, Piriformospora indica, under high salinity environment Nivedita1 · Rajesh K. Gazara2,3,4 · Shazia Khan1 · Sadia Iqrar1 · Kudsiya Ashrafi1 · Malik Z. Abdin1 Received: 4 July 2020 / Accepted: 10 September 2020 © Springer Nature B.V. 2020
Abstract The salinity stress tolerance in plants has been studied enormously, reflecting its agronomic relevance. Despite the extensive research, limited success has been achieved in relation to the plant tolerance mechanism. The beneficial interaction between Piriformospora indica and rice could essentially improve the performance of the plant during salt stress. In this study, the transcriptomic data between P. indica treated and untreated rice roots were compared under control and salt stress conditions. Overall, 661 salt-responsive differentially expressed genes (DEGs) were detected with 161 up- and 500 down-regulated genes in all comparison groups. Gene ontology analyses indicated the DEGs were mainly enriched in “auxin-activated signaling pathway”, “water channel activity”, “integral component of plasma membrane”, “stress responses”, and “metabolic processes”. Kyoto Encyclopedia of Genes and Genomes pathway analysis revealed that the DEGs were primarily related to “Zeatin biosynthesis”, “Fatty acid elongation”, “Carotenoid biosynthesis”, and “Biosynthesis of secondary metabolites”. Particularly, genes related to cell wall modifying enzymes (e.g. invertase/pectin methylesterase inhibitor protein and arabinogalactans), phytohormones (e.g. Auxin-responsive Aux/IAA gene family, ent-kaurene synthase, and 12-oxophytodienoate reductase) and receptor-like kinases (e.g. AGC kinase and receptor protein kinase) were induced in P. indica colonized rice under salt stress condition. The differential expression of these genes implies that the coordination between hormonal crosstalk, signaling, and cell wall dynamics contributes to the higher growth and tolerance in P. indica-inoculated rice. Our results offer a valuable resource for future functional studies on salt-responsive genes that should improve the resilience and adaptation of rice against salt stress. Keywords Rice · RNA-seq · Piriformospora indica · Symbiosis · Salt stress
Introduction
Electronic supplementary material The online version of this article (https://doi.org/10.1007/s11033-020-05839-z) contains supplementary material, which is available to authorized users.
A significant part of the cultivated and irrigated land in the world is affected by high salinity to the extents that pose a severe threat to agronomically important crops [1]. Soil
* Malik Z. Abdin [email protected]
1
Department of Biotechnology, Jamia Hamdard, New Delhi 110062, India
Nivedita [email protected]
2
Rajesh K. Gazara [email protected]
Centro de Bioiências e Biotecnologia, Universidade Estadual do Norte Fluminense “Darcy Ribeiro” University, Campos dos goytacazes, Rio de Janeiro, Brazil
3
Shazia Khan shaziakha
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