Emendation of Propionibacterium acnes subsp. acnes (Deiko et al. 2015) and proposal of Propionibacterium acnes type II as Propionibacterium acnes subsp. defendens subsp. nov.

Andrew McDowell, Emma Barnard, Jared Liu, Huiying Li, Sheila Patrick

Research output: Contribution to journalArticle

19 Citations (Scopus)

Abstract

Recently, strains of Propionibacterium acnes from the type III genetic division have been proposed as Propionibacterium acnes subsp. elongatum subsp. nov., with strains from the type I and II divisions collectively classified as Propionibacterium acnes subsp. acnes subsp. nov. Under such a taxonomic re-appraisal, we believe that types I and II should also have their own separate rank of subspecies. In support of this, we describe a polyphasic taxonomic study based on the analysis of publically available multilocus and whole genome sequence datasets, alongside a systematic review of previously published phylogenetic, genomic, phenotypic and clinical data. Strains of types I and II form highly distinct clades based on multilocus sequence analysis (MLSA) and whole genome phylogenetic reconstructions. In silico or digital DNA-DNA similarity values also fall within the 70-80% boundary recommended for bacterial subspecies. Furthermore, we see important differences in genome content, including the presence of an active CRISPR/Cas system in type II strains, but not type I, and evidence for increasing linkage equilibrium within the separate divisions. Key biochemical differences include positive tests for beta-haemolytic, neuraminidase and sorbitol fermentation activities with type I strains, but not type II. We now propose type I strains as Propionibacterium acnes subsp. acnes subsp. nov., and type II as Propionibacterium acnes subsp. defendens subsp. nov. The type strain of Propionibacterium acnes subsp. acnes subsp. nov. is NCTC 737T (=ATCC 6919T=JCM 6425T=DSM 1897T=CCUG 1794T), while the type strain of Propionibacterium acnes subsp. defendens subsp. nov. is ATCC 11828 (=JCM 6473=CCUG 6369).
LanguageEnglish
Pages5358-5365
JournalInternational Journal of Systematic and Evolutionary Microbiology
Volume66
Early online date1 Dec 2016
DOIs
Publication statusE-pub ahead of print - 1 Dec 2016

Fingerprint

Propionibacterium acnes
acne
new subspecies
Acne Vulgaris
genome
subspecies
phylogenetics
DNA
Genome
fermentation
genomics
CRISPR-Cas Systems
Multilocus Sequence Typing
Sorbitol
Neuraminidase
sialidase
phylogeny
systematic review
Computer Simulation
Fermentation

Keywords

  • Propionibacterium acnes subsp. defendens subsp. nov.
  • type I
  • type II
  • Multilocus Sequence Analysis
  • Genomics
  • Phenotype

Cite this

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title = "Emendation of Propionibacterium acnes subsp. acnes (Deiko et al. 2015) and proposal of Propionibacterium acnes type II as Propionibacterium acnes subsp. defendens subsp. nov.",
abstract = "Recently, strains of Propionibacterium acnes from the type III genetic division have been proposed as Propionibacterium acnes subsp. elongatum subsp. nov., with strains from the type I and II divisions collectively classified as Propionibacterium acnes subsp. acnes subsp. nov. Under such a taxonomic re-appraisal, we believe that types I and II should also have their own separate rank of subspecies. In support of this, we describe a polyphasic taxonomic study based on the analysis of publically available multilocus and whole genome sequence datasets, alongside a systematic review of previously published phylogenetic, genomic, phenotypic and clinical data. Strains of types I and II form highly distinct clades based on multilocus sequence analysis (MLSA) and whole genome phylogenetic reconstructions. In silico or digital DNA-DNA similarity values also fall within the 70-80{\%} boundary recommended for bacterial subspecies. Furthermore, we see important differences in genome content, including the presence of an active CRISPR/Cas system in type II strains, but not type I, and evidence for increasing linkage equilibrium within the separate divisions. Key biochemical differences include positive tests for beta-haemolytic, neuraminidase and sorbitol fermentation activities with type I strains, but not type II. We now propose type I strains as Propionibacterium acnes subsp. acnes subsp. nov., and type II as Propionibacterium acnes subsp. defendens subsp. nov. The type strain of Propionibacterium acnes subsp. acnes subsp. nov. is NCTC 737T (=ATCC 6919T=JCM 6425T=DSM 1897T=CCUG 1794T), while the type strain of Propionibacterium acnes subsp. defendens subsp. nov. is ATCC 11828 (=JCM 6473=CCUG 6369).",
keywords = "Propionibacterium acnes subsp. defendens subsp. nov., type I, type II, Multilocus Sequence Analysis, Genomics, Phenotype",
author = "Andrew McDowell and Emma Barnard and Jared Liu and Huiying Li and Sheila Patrick",
year = "2016",
month = "12",
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doi = "10.1099/ijsem.0.001521",
language = "English",
volume = "66",
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journal = "International Journal of Systematic and Evolutionary Microbiology",
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TY - JOUR

T1 - Emendation of Propionibacterium acnes subsp. acnes (Deiko et al. 2015) and proposal of Propionibacterium acnes type II as Propionibacterium acnes subsp. defendens subsp. nov.

AU - McDowell, Andrew

AU - Barnard, Emma

AU - Liu, Jared

AU - Li, Huiying

AU - Patrick, Sheila

PY - 2016/12/1

Y1 - 2016/12/1

N2 - Recently, strains of Propionibacterium acnes from the type III genetic division have been proposed as Propionibacterium acnes subsp. elongatum subsp. nov., with strains from the type I and II divisions collectively classified as Propionibacterium acnes subsp. acnes subsp. nov. Under such a taxonomic re-appraisal, we believe that types I and II should also have their own separate rank of subspecies. In support of this, we describe a polyphasic taxonomic study based on the analysis of publically available multilocus and whole genome sequence datasets, alongside a systematic review of previously published phylogenetic, genomic, phenotypic and clinical data. Strains of types I and II form highly distinct clades based on multilocus sequence analysis (MLSA) and whole genome phylogenetic reconstructions. In silico or digital DNA-DNA similarity values also fall within the 70-80% boundary recommended for bacterial subspecies. Furthermore, we see important differences in genome content, including the presence of an active CRISPR/Cas system in type II strains, but not type I, and evidence for increasing linkage equilibrium within the separate divisions. Key biochemical differences include positive tests for beta-haemolytic, neuraminidase and sorbitol fermentation activities with type I strains, but not type II. We now propose type I strains as Propionibacterium acnes subsp. acnes subsp. nov., and type II as Propionibacterium acnes subsp. defendens subsp. nov. The type strain of Propionibacterium acnes subsp. acnes subsp. nov. is NCTC 737T (=ATCC 6919T=JCM 6425T=DSM 1897T=CCUG 1794T), while the type strain of Propionibacterium acnes subsp. defendens subsp. nov. is ATCC 11828 (=JCM 6473=CCUG 6369).

AB - Recently, strains of Propionibacterium acnes from the type III genetic division have been proposed as Propionibacterium acnes subsp. elongatum subsp. nov., with strains from the type I and II divisions collectively classified as Propionibacterium acnes subsp. acnes subsp. nov. Under such a taxonomic re-appraisal, we believe that types I and II should also have their own separate rank of subspecies. In support of this, we describe a polyphasic taxonomic study based on the analysis of publically available multilocus and whole genome sequence datasets, alongside a systematic review of previously published phylogenetic, genomic, phenotypic and clinical data. Strains of types I and II form highly distinct clades based on multilocus sequence analysis (MLSA) and whole genome phylogenetic reconstructions. In silico or digital DNA-DNA similarity values also fall within the 70-80% boundary recommended for bacterial subspecies. Furthermore, we see important differences in genome content, including the presence of an active CRISPR/Cas system in type II strains, but not type I, and evidence for increasing linkage equilibrium within the separate divisions. Key biochemical differences include positive tests for beta-haemolytic, neuraminidase and sorbitol fermentation activities with type I strains, but not type II. We now propose type I strains as Propionibacterium acnes subsp. acnes subsp. nov., and type II as Propionibacterium acnes subsp. defendens subsp. nov. The type strain of Propionibacterium acnes subsp. acnes subsp. nov. is NCTC 737T (=ATCC 6919T=JCM 6425T=DSM 1897T=CCUG 1794T), while the type strain of Propionibacterium acnes subsp. defendens subsp. nov. is ATCC 11828 (=JCM 6473=CCUG 6369).

KW - Propionibacterium acnes subsp. defendens subsp. nov.

KW - type I

KW - type II

KW - Multilocus Sequence Analysis

KW - Genomics

KW - Phenotype

U2 - 10.1099/ijsem.0.001521

DO - 10.1099/ijsem.0.001521

M3 - Article

VL - 66

SP - 5358

EP - 5365

JO - International Journal of Systematic and Evolutionary Microbiology

T2 - International Journal of Systematic and Evolutionary Microbiology

JF - International Journal of Systematic and Evolutionary Microbiology

SN - 1466-5026

ER -