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Transcriptome profiling and differential gene expression analysis provides insights into Lr24-based resistance in wheat against Puccinia triticina

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Abstract

Leaf rust caused by Puccinia triticina is an important disease of wheat and Lr24 gene confers resistance to all known pathotypes of P. triticina in India. Transcripts associated with the Lr24 mediated resistance were identified through transcriptome sequencing and further expression analysis of differentially regulated genes was performed using qPCR technique. De novo transcriptome assembly showed 66,415 and 68,688 transcripts in resistant and susceptible genotypes, respectively. The study revealed that 5873 genes unique to resistant; 6782 genes unique to susceptible, while 10,841 genes were common to both. Gene Ontology distribution statistics showed 1030 and 1068 CDS in biological processes; 1234 and 1326 CDS in cellular processes; 1321 and 1352 CDS in molecular functions, respectively. A total of 659 genes were found to be differentially expressed, of which 349 were upregulated and 310 were downregulated in resistant genotype. Pathway analysis of transcripts appeared in resistant genotype revealed that 279 transcripts had homology with genes involved in signal transduction, 18 transcripts in membrane transport, one transcript in signaling molecules. Real-time PCR study showed that most of the up-regulated defense related genes expressed in early hours indicating that a cascade of defense starts early in Lr24 mediated resistance, which successfully inhibited pathogen establishment.

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Availability of data and materials

This whole transcriptome sequence data, Sequence Read Archive (Accession number SRR7232436, SRR7232435) bio sample (Accession number SAMN08954389), bio project (Accession Number: PRJNA450904) has been deposited in NCBI data base.

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Acknowledgements

The senior author gratefully acknowledge the financial support received from Post Graduate School, ICAR-IARI New Delhi for this research work. Authors are also thankful to Director, Joint Director (Research), ICAR-IARI New Delhi, Head, Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, New Delhi – 110 012, India for providing guidance and facilities for carrying out this work smoothly.

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Author notes

  1. Manjunatha Channappa

    Present address: ICAR-National Bureau of Agricultural Insect Resources, Bengaluru, 560 024, India

Authors and Affiliations

  1. Fungal Molecular Biology Laboratory, Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, New Delhi, 110 012, India

    Manjunatha Channappa, Sapna Sharma, Deepika Kulshreshtha, Kartar Singh & Rashmi Aggarwal

  2. ICAR-Indian Institute of Wheat and Barley Research, Regional Station, Flowerdale, Shimla, 171001, India

    Subhash C. Bhardwaj

  3. ICAR-Indian Agricultural Research Institute, Regional Station, Wellington, Tamil Nadu, 643 231, India

    Sivasamy Murugasamy, A. Sindhu & V. K. Vikas

Authors
  1. Manjunatha Channappa
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  2. Sapna Sharma
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  3. Deepika Kulshreshtha
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  4. Kartar Singh
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  5. Subhash C. Bhardwaj
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  7. A. Sindhu
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  8. V. K. Vikas
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  9. Rashmi Aggarwal
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Contributions

RA: conceptualization, data curation, funding acquisition, project administration, resources, supervision, writing—review and editing. CM: data curation, formal analysis, investigation, methodology, resources, validation, visualization, writing—original draft, writing—review and editing. SS: data curation, formal analysis, investigation, methodology, validation, visualization, writing—original draft, writing—review and editing. DK: data curation, formal analysis, software, writing—original draft. KS: data curation, investigation, validation. SCB: methodology, resources. MS: methodology, resources. SA: writing—review and editing. VK: writing—review and editing.

Corresponding author

Correspondence to Rashmi Aggarwal.

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The authors declare there is no conflict of interest that could be perceived as prejudicial to the impartiality of the reported research.

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This article does not contain any studies with human participants or animals performed by any of the authors.

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Channappa, M., Sharma, S., Kulshreshtha, D. et al. Transcriptome profiling and differential gene expression analysis provides insights into Lr24-based resistance in wheat against Puccinia triticina. 3 Biotech 11, 455 (2021). https://doi.org/10.1007/s13205-021-02972-9

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  • DOI: https://doi.org/10.1007/s13205-021-02972-9

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