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Transcript profiling reveals potential regulators for oxidative stress response of a necrotrophic chickpea pathogen Ascochyta rabiei

3 Biotech volume 10, Article number: 117 (2020) Cite this article

Abstract

Necrotrophic pathogens experience host-generated oxidative stress during pathogenesis. They overcome such hostile environment by intricate mechanisms which are largely understudied. In this article, reference-based transcriptome analysis of a devastating Ascochyta Blight (AB) disease causing chickpea pathogen Ascochyta rabiei was explored to get insights into survival mechanisms under oxidative stress. Here, expression profiling of mock-treated and menadione-treated fungus was carried out by RNA-Seq approach. A significant number of genes in response to oxidative stress were overrepresented, suggestive of a robust and coordinated defense system of A. rabiei. A total 73 differentially expressed genes were filtered out from both the transcriptomes, among them 64 were up-regulated and 9 were found down-regulated. The gene ontology and KEGG mapping were conducted to comprehend the possible regulatory roles of differentially expressed genes in metabolic networks and biosynthetic pathways. Transcript profiling, KEGG pathway and gene ontology-based enrichment analysis revealed 12 (16.43%) stress responsive factors, 25 (34.24%) virulence associated genes, 10 (13.69%) putative effectors and 28 (38.35%) important interacting proteins associated with various metabolic pathways. In addition, genes with differential expression were further explored for underlying putative pathogenicity factors. We identified five genes ST47_g10291, ST47_g9396, ST47_g10294, ST47_g4395, and ST47_g7191 that were common to stress and fungal pathogenicity. The factors recognized in this work can be used to establish molecular tools to explain the regulatory gene networks engaged in stress response of fungal pathogens and disease management.

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Data availability and materials

All data analysed during this study are included in this published article and its additional files. The raw RNA-sequencing data are deposited in the NCBI GenBank (www.ncbi.nlm.nih.gov) under study accessions SRX5765333 and SRX5765332, which can be retrieved under the BioProject accession number PRJNA539845.

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Acknowledgements

This work is supported by external funds from Department of Biotechnology, Government of India (Project numbers: BT/PR7164/PBD/16/1016/2012 and BT/AGR/CG-Phase II/01/2014).

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Author notes

  1. Kunal Singh

    Present address: Molecular Plant Pathology Laboratory, Biotechnology Division, CSIR-Institute of Himalayan Bioresource Technology, Palampur, Himachal Pradesh, 176061, India

  2. Ranjeet Maurya and Yeshveer Singh  have contributed equally to the work.

Authors and Affiliations

  1. Plant Immunity Laboratory, National Institute of Plant Genome Research, Aruna Asaf Ali Marg, New Delhi, 110067, India

    Ranjeet Maurya, Yeshveer Singh, Manisha Sinha, Kunal Singh, Pallavi Mishra, Shreenivas Kumar Singh, Sandhya Verma, Kanchan Prabha, Kamal Kumar & Praveen Kumar Verma

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  1. Ranjeet Maurya
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Contributions

PKV conceptualized the idea of manuscript and supervised all the experiments. RM, YS, MS, KS and PM performed all the analysis, interpreted the results and formulated the manuscript. SKS and KP edited, and updated the manuscript. PKV, KS, KK and SV contributed critically by revising the draft provided valuable suggestions, and updating the manuscript for publication.

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Correspondence to Kamal Kumar or Praveen Kumar Verma.

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The authors declare that they have no conflict of interest. We have also followed the accepted principles of ethical and professional conduct and no animals or humans are involved in this research.

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Maurya, R., Singh, Y., Sinha, M. et al. Transcript profiling reveals potential regulators for oxidative stress response of a necrotrophic chickpea pathogen Ascochyta rabiei. 3 Biotech 10, 117 (2020). https://doi.org/10.1007/s13205-020-2107-8

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