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Draft Genome Sequence for the Tree Pathogen Phytophthora plurivora.

Ramesh R Vetukuri1, Sucheta Tripathy2,3, Mathu Malar C2,3

  • 1Department of Plant Protection Biology, Swedish University of Agricultural Sciences, Alnarp, Sweden.

Genome Biology and Evolution
|July 31, 2018
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Summary
This summary is machine-generated.

Phytophthora plurivora, a pathogen causing woodland tree decline, has had its genome sequenced. This research reveals its compact genome, pathogenicity genes, and potential tetraploidy, offering insights into forest disease management.

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Area of Science:

  • Plant Pathology
  • Genomics
  • Forestry

Background:

  • Species from the genus Phytophthora are significant pathogens of trees worldwide.
  • Phytophthora plurivora is associated with the long-term decline of European woodland trees, particularly European beech (Fagus sylvatica).

Purpose of the Study:

  • To present a draft genome sequence of Phytophthora plurivora.
  • To analyze the genomic features of P. plurivora and compare them with related Phytophthora species.

Main Methods:

  • Whole-genome sequencing of Phytophthora plurivora isolated from diseased European beech.
  • Bioinformatic analysis of the genome assembly, including gene prediction, repeat content analysis, and effector gene identification.
  • Comparative genomic analysis of effector genes with orthologs in related Phytophthora species.

Main Results:

  • A draft genome assembly of Phytophthora plurivora was generated, comprising 41 Mb with 1,919 contigs and 1,898 scaffolds, containing 11,741 predicted genes.
  • The genome exhibited a relatively compact structure with approximately 15% repeat content, and evidence for tetraploidy was detected.
  • Pathogenicity-associated genes, including RXLR and Crinkle and Necrosis effectors, were identified, primarily in gene-sparse regions.

Conclusions:

  • The genome sequence provides a valuable resource for understanding the biology and pathogenicity of Phytophthora plurivora.
  • Comparative analysis suggests that RXLR effectors in P. plurivora and related species are under neutral or purifying selection.
  • This genomic information can contribute to developing strategies for managing Phytophthora-induced tree diseases.