Transcriptome analysis of capsicum chlorosis virus-induced hypersensitive resistance response in Bell capsicum

Gamage, Shirani M. K. Widana, McGrath, Desmond J., Persley, Denis M. and Dietzgen, Ralf G. (2016) Transcriptome analysis of capsicum chlorosis virus-induced hypersensitive resistance response in Bell capsicum. PLoS ONE, 11 7: 41-57. doi:10.1371/journal.pone.0159085

Author Gamage, Shirani M. K. Widana
McGrath, Desmond J.
Persley, Denis M.
Dietzgen, Ralf G.
Title Transcriptome analysis of capsicum chlorosis virus-induced hypersensitive resistance response in Bell capsicum
Journal name PLoS ONE   Check publisher's open access policy
ISSN 1932-6203
ISBN 978-1-118-37183-1
Publication date 2016-07-11
Year available 2016
Sub-type Article (original research)
DOI 10.1371/journal.pone.0159085
Open Access Status DOI
Volume 11
Issue 7
Start page 41
End page 57
Total pages 21
Place of publication San Francisco, CA, United States
Publisher Public Library of Science
Language eng
Subject 2700 Medicine
1300 Biochemistry, Genetics and Molecular Biology
1100 Agricultural and Biological Sciences
Abstract Background
Formatted abstract
Background: Capsicum chlorosis virus (CaCV) is an emerging pathogen of capsicum, tomato and peanut crops in Australia and South-East Asia. Commercial capsicum cultivars with CaCV resistance are not yet available, but CaCV resistance identified in Capsicum chinense is being introgressed into commercial Bell capsicum. However, our knowledge of the molecular mechanisms leading to the resistance response to CaCV infection is limited. Therefore, transcriptome and expression profiling data provide an important resource to better understand CaCV resistance mechanisms.

Methodology/Principal Findings: We assembled capsicum transcriptomes and analysed gene expression using Illumina HiSeq platform combined with a tag-based digital gene expression system. Total RNA extracted from CaCV/mock inoculated CaCV resistant (R) and susceptible (S) capsicum at the time point when R line showed a strong hypersensitive response to CaCV infection was used in transcriptome assembly. Gene expression profiles of R and S capsicum in CaCV- and buffer-inoculated conditions were compared. None of the genes were differentially expressed (DE) between R and S cultivars when mock-inoculated, while 2484 genes were DE when inoculated with CaCV. Functional classification revealed that the most highly up-regulated DE genes in R capsicum included pathogenesis-related genes, cell death-associated genes, genes associated with hormone-mediated signalling pathways and genes encoding enzymes involved in synthesis of defense-related secondary metabolites. We selected 15 genes to confirm DE expression levels by real-time quantitative PCR.

Conclusion/Significance: DE transcript profiling data provided comprehensive gene expression information to gain an understanding of the underlying CaCV resistance mechanisms. Further, we identified candidate CaCV resistance genes in the CaCV-resistant C. annuum x C. chinense breeding line. This knowledge will be useful in future for fine mapping of the CaCV resistance locus and potential genetic engineering of resistance into CaCV-susceptible crops.
Keyword Capsicum (Capsicum spp.)
Capsicum chlorosis virus (CaCV)
CaCV resistance
Bell capsicum
Differentially expressed (DE)
DE transcript profiling data
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
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Queensland Alliance for Agriculture and Food Innovation
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