Phyllosticta paracitricarpa is synonymous with the EU quarantine fungus P. citricarpa based on phylogenomic analyses
Phyllosticta citricarpa is an important citrus-pathogen and a quarantine organism in the European Union. Its recently described relative, P. paracitricarpa, is very closely related and not listed as a quarantine organism. P. paracitricarpa is very difficult to distinguish from P. citricarpa, since its morphological features overlap and the barcoding gene sequences that were originally used to delimit them as distinct species have a low number of species-specific polymorphisms that have subsequently been shown to overlap between the two clades. Therefore, we performed extensive genomic analyses to determine whether the genetic variation between P. citricarpa and P. paracitricarpa strains should be considered to represent infraspecific variation within P. citricarpa, or whether it is indicative of distinct species. Using a phylogenomic analysis with 3,000 single copy ortholog genes and whole-genome comparisons, we determined that the variation between P. citricarpa and P. paracitricarpa can be considered as infraspecies variation within P. citricarpa. We also determined the level of variation in mitochondrial assemblies of several Phyllosticta species and concluded there are only minimal differences between the assemblies of P. citricarpa and P. paracitricarpa. Thus, using several orthogonal approaches, we here demonstrate that variation within the nuclear and mitochondrial genomes of other Phyllosticta species is larger than variation between genomes obtained from P. citricarpa and P. paracitricarpa strains. Thus, P. citricarpa and P. paracitricarpa should be considered as conspecific.
Authors
- Petros Skiadas (ORCID: https://orcid.org/0000-0001-8577-6681)
- Igor V. Grigoriev (ORCID: https://orcid.org/0000-0002-3136-8903)
- Hope Hundley (ORCID: https://orcid.org/0000-0001-5071-4587)
- Pedro Willem Crous (ORCID: https://orcid.org/0000-0001-9085-8825)
- Kerrie Barry (ORCID: https://orcid.org/0000-0002-8999-6785)
- Anouk C. van Westerhoven (ORCID: https://orcid.org/0000-0001-7480-2784)
- J.Z. Groenewald (ORCID: https://orcid.org/0000-0002-9474-6246)
- Sajeet Haridas (ORCID: https://orcid.org/0000-0002-0229-0975)
- Anna Lipzen (ORCID: https://orcid.org/0000-0003-2293-9329)
- Michael Seidl (ORCID: https://orcid.org/0000-0002-5218-2083)
- Robert Riley (ORCID: https://orcid.org/0000-0003-0224-0975)
- Jie Guo (ORCID: https://orcid.org/0000-0003-2268-7926)
- Xander C. L. Zuijdgeest (ORCID: https://orcid.org/0000-0002-0209-1378)
- Kecia Duffy
- Francis Martin (ORCID: https://orcid.org/0000-0002-4737-3715)
- Jasmyn Pangilinan (ORCID: https://orcid.org/0000-0001-7966-3496)
- Kurt LaButti (ORCID: https://orcid.org/0000-0002-5838-1972)
- Mi Yan
- Valerie A van Ingen-Buijs
- Christopher Daum (ORCID: https://orcid.org/0000-0003-3895-5892)
- Jie Wang (ORCID: https://orcid.org/0000-0002-6126-5120)
Institutions
- Lawrence Berkeley National Laboratory (US)
- Utrecht University (NL)
- Joint Genome Institute (US)
- Graduate School Experimental Plant Sciences (NL)
- Westerdijk Fungal Biodiversity Institute (NL)
- Netherlands Food and Consumer Product Safety Authority (NL)
- Interactions Arbres-Microorganismes (FR)
- Bernstein Center for Computational Neuroscience Tübingen (DE)
- University of Tübingen (DE)
- Wageningen University & Research (NL)
Publication Details
- Journal
- Fungal Genetics and Biology
- Published
- 2024-09-06
- DOI
- https://doi.org/10.1016/j.fgb.2024.103925
- Citations
- 6
- Primary Topic
- Plant Pathogens and Fungal Diseases
- Type
- article
- Field-Weighted Citation Impact
- 1.96
Funders
- Joint Genome Institute
- Nederlandse Organisatie voor Toegepast Natuurwetenschappelijk Onderzoek