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Data from: Condition‐dependent co‐regulation of genomic clusters of virulence factors in the grapevine trunk pathogen Neofusicoccum parvum

The ascomycete Neofusicoccum parvum, one of the causal agents of Botryosphaeria dieback, is a destructive wood‐infecting fungus and a serious threat to grape production worldwide. The capability to colonize woody tissue, combined with the secretion of phytotoxic compounds, is thought to underlie its pathogenicity and virulence. Here, we describe the repertoire of virulence factors and their transcriptional dynamics as the fungus feeds on different substrates and colonizes the woody stem. We assembled and annotated a highly contiguous genome using single‐molecule real‐time DNA sequencing. Transcriptome profiling by RNA sequencing determined the genome‐wide patterns of expression of virulence factors both in vitro (potato dextrose agar or medium amended with grape wood as substrate) and in planta. Pairwise statistical testing of differential expression, followed by co‐expression network analysis, revealed that physically clustered genes coding for putative virulence functions were induced depending on the substrate or stage of plant infection. Co‐expressed gene clusters were significantly enriched not only in genes associated with secondary metabolism, but also in those associated with cell wall degradation, suggesting that dynamic co‐regulation of transcriptional networks contributes to multiple aspects of N. parvum virulence. In most of the co‐expressed clusters, all genes shared at least a common motif in their promoter region, indicative of co‐regulation by the same transcription factor. Co‐expression analysis also identified chromatin regulators with correlated expression with inducible clusters of virulence factors, suggesting a complex, multi‐layered regulation of the virulence repertoire of N. parvum.

Dataset Info

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FieldValue
Authors
Massonnet, Mélanie
Morales‐Cruz, Abraham
Figueroa‐Balderas, Rosa
Lawrence, Daniel P.
Baumgartner, Kendra
Cantu, Dario
(ORCID)
Product Type
Dataset
Intended Use
Support the prevention and management of pathogenic fungal virulence and colonization of grapevine woody stems, and serve as a basis for further studies on how N. parvum is able to colonize woody tissues or adapt to this environment. An understanding of the functions that lead to the colonization of certain cell types/tissues, and the corresponding fungal genes activated during subsequent degradation of such host tissues, may help to understand the mechanism(s) of cultivar resistance and interactions within the trunk pathogen community.
Publisher
Molecular Plant Pathology
Contact Name
Cantu, Dario
Contact Email
Public Access Level
Public
Primary Article

Massonnet, M., Morales-Cruz, A., Figueroa-Balderas, R., Lawrence, D.P., Baumgartner, K., & Cantu, D. (2018). Condition-dependent co-regulation of genomic clusters of virulence factors in the grapevine trunk pathogen Neofusicoccum parvum. Molecular Plant Pathology, 19 (1), pp. 21-34

License
Funding Source(s)
National Institute of Food and Agriculture
2012‐51181‐19954
Dataset DOI (digital object identifier)
10.1111/mpp.12491
Program Code
005:037 - Department of Agriculture - Research and Education
Bureau Code
005:20 - National Institute of Food and Agriculture
Modified Date
2018-12-17
Release Date
2018-09-05
Ag Data Commons Keywords: 
  • Genomics & Genetics
  • Genome
  • Genomics & Genetics
  • Plants & Crops
ISO Topic(s):