Journal
GENOME BIOLOGY AND EVOLUTION
Volume 10, Issue 9, Pages 2432-2442Publisher
OXFORD UNIV PRESS
DOI: 10.1093/gbe/evy162
Keywords
Phytophthora plurivora; two speed genome; root rot pathogen; P. plurivora genome; purifying selection
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Funding
- Swedish Research Council Formas [2015-430]
- Swedish Foundation for Strategic Research (FFL5)
- Helge Ax: son Johnsons Stiftelse
- Nordic Joint Committee for Agricultural and Food Research (NKJ)
- Nordic Forest Research (SNS) network
- Scottish Government Rural and Environment Science and Analytical Services Division (RESAS)
- DBT-Ramalingaswamy fellowship
- DST-INSPIRE AORC fellowship
- National Genomics Infrastructure in Stockholm - Science for Life Laboratory
- Knut and Alice Wallenberg Foundation
- Partnership Alnarp
- Parvatha Vardhini foundation
- Swedish Research Council
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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 Malmo, 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 tetra ploidy 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 Glade (Phytophthora multivora and Phytophthora capsici) revealed that the orthologs were likely to be under neutral or purifying selection.
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