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Draft Genome Sequence for the Tree Pathogen Phytophthora plurivora

Vetukuri, Ramesh R.; Tripathy, Sucheta; Malar C, Mathu; Panda, Arijit; Kushwaha, Sandeep K. LU ; Chawade, Aakash; Andreasson, Erik; Grenville-Briggs, Laura J. and Whisson, Stephen C. (2018) In Genome Biology and Evolution 10(9). p.2432-2442
Abstract

Species from the genus Phytophthora are well represented among organisms causing serious diseases on trees. Phytophthora plurivora has been implicated in long-term decline of woodland trees across Europe. Here we present a draft genome sequence of P. plurivora, originally isolated from diseased European beech (Fagus sylvatica) in Malmö, Sweden. When compared with other sequenced Phytophthora species, the P. plurivora genome assembly is relatively compact, spanning 41 Mb. This is organized in 1,919 contigs and 1,898 scaffolds, encompassing 11,741 predicted genes, and has a repeat content of approximately 15%. Comparison of allele frequencies revealed evidence for tetraploidy in the sequenced isolate. As in other sequenced Phytophthora... (More)

Species from the genus Phytophthora are well represented among organisms causing serious diseases on trees. Phytophthora plurivora has been implicated in long-term decline of woodland trees across Europe. Here we present a draft genome sequence of P. plurivora, originally isolated from diseased European beech (Fagus sylvatica) in Malmö, Sweden. When compared with other sequenced Phytophthora species, the P. plurivora genome assembly is relatively compact, spanning 41 Mb. This is organized in 1,919 contigs and 1,898 scaffolds, encompassing 11,741 predicted genes, and has a repeat content of approximately 15%. Comparison of allele frequencies revealed evidence for tetraploidy in the sequenced isolate. As in other sequenced Phytophthora species, P. plurivora possesses genes for pathogenicity-associated RXLR and Crinkle and Necrosis effectors, predominantly located in gene-sparse genomic regions. Comparison of the P. plurivora RXLR effectors with orthologs in other sequenced species in the same clade (Phytophthora multivora and Phytophthora capsici) revealed that the orthologs were likely to be under neutral or purifying selection.

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organization
publishing date
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Contribution to journal
publication status
published
subject
in
Genome Biology and Evolution
volume
10
issue
9
pages
11 pages
publisher
Oxford University Press
external identifiers
  • scopus:85054085119
ISSN
1759-6653
DOI
10.1093/gbe/evy162
language
English
LU publication?
yes
id
4f650c3f-0af2-443a-b4c5-ceea3b621a91
date added to LUP
2018-10-15 13:26:12
date last changed
2019-04-10 04:15:03
@article{4f650c3f-0af2-443a-b4c5-ceea3b621a91,
  abstract     = {<p>Species from the genus Phytophthora are well represented among organisms causing serious diseases on trees. Phytophthora plurivora has been implicated in long-term decline of woodland trees across Europe. Here we present a draft genome sequence of P. plurivora, originally isolated from diseased European beech (Fagus sylvatica) in Malmö, Sweden. When compared with other sequenced Phytophthora species, the P. plurivora genome assembly is relatively compact, spanning 41 Mb. This is organized in 1,919 contigs and 1,898 scaffolds, encompassing 11,741 predicted genes, and has a repeat content of approximately 15%. Comparison of allele frequencies revealed evidence for tetraploidy in the sequenced isolate. As in other sequenced Phytophthora species, P. plurivora possesses genes for pathogenicity-associated RXLR and Crinkle and Necrosis effectors, predominantly located in gene-sparse genomic regions. Comparison of the P. plurivora RXLR effectors with orthologs in other sequenced species in the same clade (Phytophthora multivora and Phytophthora capsici) revealed that the orthologs were likely to be under neutral or purifying selection.</p>},
  author       = {Vetukuri, Ramesh R. and Tripathy, Sucheta and Malar C, Mathu and Panda, Arijit and Kushwaha, Sandeep K. and Chawade, Aakash and Andreasson, Erik and Grenville-Briggs, Laura J. and Whisson, Stephen C.},
  issn         = {1759-6653},
  language     = {eng},
  number       = {9},
  pages        = {2432--2442},
  publisher    = {Oxford University Press},
  series       = {Genome Biology and Evolution},
  title        = {Draft Genome Sequence for the Tree Pathogen Phytophthora plurivora},
  url          = {http://dx.doi.org/10.1093/gbe/evy162},
  volume       = {10},
  year         = {2018},
}