Whole genome sequencing and phylogenomic analysis show support for the splitting of genus Pythium

Simple item page

Simple item page

Full item details

creativework.keywords - en
Biology--Classification
Biologie--Classification
Oomycètes
Oomycetes
Séquençage du génome entier
creativework.keywords - fr
Whole genome sequencing
Pythium
Pythium
Phylogenèse
Phylogeny
dc.contributor.author
Nguyen, Hai D. T.
Dodge, Annette
Dadej, Kasia
Rintoul, Tara L.
Ponomareva, Ekaterina
Martin, Frank N.
de Cock, Arthur W. A. M.
Lévesque, C. André
Redhead, Scott A.
Spies, Christoffel F. J.
dc.date.accepted
2022-02-18
dc.date.accessioned
2024-06-03T12:56:49Z
dc.date.available
2024-06-03T12:56:49Z
dc.date.issued
2022-05-06
dc.date.submitted
2021-09-13
dc.description.abstract - en
The genus Pythium (nom. cons.) sensu lato (s.l.) is composed of many important species of plant pathogens. Early molecular phylogenetic studies suggested paraphyly of Pythium, which led to a formal proposal by Uzuhashi and colleagues in 2010 to split the genus into Pythium sensu stricto (s.s.), Elongisporangium, Globisporangium, Ovatisporangium (= Phytopythium), and Pilasporangium using morphological characters and phylogenies of the mt cytochrome c oxidase subunit 2 (cox2) and D1–D2 domains of nuc 28S rDNA. Although the split was fairly justified by the delineating morphological characters, there were weaknesses in the molecular analyses, which created reluctance in the scientific community to adopt these new genera for the description of new species. In this study, this issue was addressed using phylogenomics. Whole genomes of 109 strains of Pythium and close relatives were sequenced, assembled, and annotated. These data were combined with 10 genomes sequenced in previous studies. Phylogenomic analyses were performed with 148 single-copy genes represented in at least 90% of the taxa in the data set. The results showed support for the division of Pythium s.l. The status of alternative generic names that have been used for species of Pythium in the past (e.g., Artotrogus, Cystosiphon, Eupythium, Nematosporangium, Rheosporangium, Sphaerosporangium) was investigated. Based on our molecular analyses and review of the Pythium generic concepts, we urge the scientific community to adopt the generic names Pythium, Elongisporangium, Globisporangium, and their concepts as proposed by Uzuhashi and colleagues in 2010 in their work going forward. In order to consolidate the taxonomy of these genera, some of the recently described Pythium spp. are transferred to Elongisporangium and Globisporangium.
dc.identifier.citation
Nguyen, H. D. T., Dodge, A., Dadej, K., Rintoul, T. L., Ponomareva, E., Martin, F. N., de Cock, A. W. A. M., Lévesque, C. A., Redhead, S. A., & Spies, C. F. J. (2022). Whole genome sequencing and phylogenomic analysis show support for the splitting of genus Pythium. Mycologia, 114(3), 501-515. https://doi.org/10.1080/00275514.2022.2045116
dc.identifier.doi
https://doi.org/10.1080/00275514.2022.2045116
dc.identifier.issn
0027-5514
1557-2536
dc.identifier.uri
https://open-science.canada.ca/handle/123456789/2525
dc.language.iso
en
dc.publisher
Taylor and Francis
dc.rights - en
Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)
dc.rights - fr
Creative Commons Attribution - Pas d'utilisation commerciale - Pas de modification 4.0 International (CC BY-NC-ND 4.0)
dc.rights.openaccesslevel - en
Gold
dc.rights.openaccesslevel - fr
Or
dc.rights.uri - en
https://creativecommons.org/licenses/by-nc-nd/4.0/
dc.rights.uri - fr
https://creativecommons.org/licenses/by-nc-nd/4.0/deed.fr
dc.subject - en
Nature and environment
dc.subject - fr
Nature et environnement
dc.subject.en - en
Nature and environment
dc.subject.fr - fr
Nature et environnement
dc.title - en
Whole genome sequencing and phylogenomic analysis show support for the splitting of genus Pythium
dc.type - en
Article
dc.type - fr
Article
local.article.journalissue
3
local.article.journaltitle
Mycologia
local.article.journalvolume
114
local.pagination
501-515
local.peerreview - en
Yes
local.peerreview - fr
Oui
local.requestdoi
No
Download(s)

Original bundle

Now showing 1 - 1 of 1

Thumbnail image

Name: WholeGenomeSequencingAndPhylogenomicAnalysisShowSupportForTheSplittingOfGenusPythium_2022.pdf

Size: 2.68 MB

Format: PDF

Download file

Collection(s)

Page details

Date modified: