Name: Atopobium Collins and Wallbanks 1993

Category: Genus

Proposed as: gen. nov.

Etymology: A.to.po.bi.um. Gr. masc./fem. adj. atopos, having no place, strange; Gr. masc. n. bios, living thing; N.L. neut. n. Atopobium, strange living thing

Gender: neuter (stem: Atopobi-)

Type species: Atopobium minutum (Hauduroy et al. 1937) Collins and Wallbanks 1993

Conduct genome-based taxonomy of genus at TYGS

16S rRNA gene: Analyse FASTA

Effective publication: Collins MD, Wallbanks S. Comparative sequence analyses of the 16S rRNA genes of Lactobacillus minutus, Lactobacillus rimae and Streptococcus parvulus: proposal for the creation of a new genus Atopobium. FEMS Microbiol. Lett. 1992; 95:235-240.

IJSEM list: Anonymous. Validation list no. 44. Validation of publication of new names and new combinations previously effectively published outside the IJSB. Int J Syst Bacteriol 1993; 43:188-189.

Nomenclatural status: validly published under the ICNP

Taxonomic status: correct name

Risk group: 2

• Emendations:
  • Cools et al. 2014 Cools P, Oyaert M, Vaneechoutte M, De Laere E, Vervaeke S. Atopobium deltae sp. nov., isolated from the blood of a patient with Fournier's gangrene. Int J Syst Evol Microbiol 2014; 64:3140-3145. Oren A, Garrity GM. Notification list. Notification that new names and new combinations have appeared in volume 64, part 9 of the IJSEM. Int J Syst Evol Microbiol 2014; 64:3923-3925.
    Notes:
    • ⊕ Emendation accompanied by the proposal of 1 new species in the genus.

• Notes:
  • 🥇 Nomenclatural type of the family Atopobiaceae Gupta et al. 2013. Publication: Gupta RS, Chen WJ, Adeolu M, Chai Y. Molecular signatures for the class Coriobacteriia and its different clades; proposal for division of the class Coriobacteriia into the emended order Coriobacteriales, containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov. Int J Syst Evol Microbiol 2013; 63:3379-3397.
  • 🧕 Boone et al. (2001) assigned this genus to the family Coriobacteriaceae Stackebrandt et al. 1997. Publication: Garrity GM, Holt JG. The Road Map to the Manual. In: Boone DR, Castenholz RW, Garrity GM (eds), Bergey's Manual of Systematic Bacteriology, second edition, vol. 1 (The Archaea and the deeply branching and phototrophic Bacteria), Springer-Verlag, New York, 2001, p. 119-166.
  • 🧕 Stackebrandt et al. (1997) assigned this genus to the family Coriobacteriaceae Stackebrandt et al. 1997. Publication: Stackebrandt E, Rainey FA, Ward-Rainey NL. Proposal for a new hierarchic classification system, Actinobacteria classis nov. Int. J. Syst. Bacteriol. 1997; 47:479-491.
  • 🧕 Zhi et al. (2009) assigned this genus to the family Coriobacteriaceae Stackebrandt et al. 1997. Publication: Zhi XY, Li WJ, Stackebrandt E. An update of the structure and 16S rRNA gene sequence-based definition of higher ranks of the class Actinobacteria, with the proposal of two new suborders and four new families and emended descriptions of the existing higher taxa. Int J Syst Evol Microbiol 2009; 59:589-608.
  • 🚋 The type species of this genus has alternatively been placed in the genus Bacteroides Castellani and Chalmers 1919 (Approved Lists 1980). Publication: Hauduroy P, Ehringer G, Urbain G, Guillot G, Magrou J. Dictionnaire des bactéries pathogènes. Masson et Cie, Paris, 1937.
  • 🚋 The type species of this genus has alternatively been placed in the genus Lactobacillus Beijerinck 1901 (Approved Lists 1980). Publication: Moore WEC, Holdeman LV. Lactobacillus. In: Holdeman LV, Moore WEC (eds), Anaerobe Laboratory Manual, Virginia Polytechnic Institute - Anaerobe Laboratory, Blacksburg/Virginia, 1972, p. 61-66.
  • 🙄 This taxon name is occasionally misprinted (or affected by an OCR error) in some sources as: "Afopobium"; "Apotobium"; "Aropobium"; "Atopobhlm"; "Atopobhon"; "Atopoblum"; "Atopobrum"; "Atupobiurn".
  • 🎰 The BRCs most frequently used for deposits in this group are: DSM: 6; ATCC: 5; CCUG: 5; JCM: 4; CIP: 3; NCTC: 2; NCIMB: 1; IFO: 1; NBRC: 1.
  • 😷 The risk group for Canada has been imported on 2024-02-27. The full classification is: risk group = 2, note = "Animal classification RG: 1 - Security sensitive biological agent: No - Terrestrial animal pathogen under Canadian Food Inspection Agency authority: No - Containment level: Containment Level 2". — If in doubt, use the risk group given in the regulations for your country and, if these are not available, use the risk group given in the catalogue of the culture collection from which you have obtained or intend to obtain the strain.

Subdivision:

Number of child taxa with a validly published and correct name: 3
Number of child taxa with a validly published name, including synonyms: 6
Total number of child taxa: 9

• Child taxa:

  • Name	Nomenclatural status	Taxonomic status
    Atopobium deltae Cools et al. 2014	validly published under the ICNP	correct name
    "Atopobium detroiti" Salimnia et al. 2008	not validly published	preferred name (not correct name)
    Atopobium fossor (Bailey and Love 1986) Kageyama et al. 1999	validly published under the ICNP	correct name
    "Atopobium massiliense" Bordigoni et al. 2020	not validly published	preferred name (not correct name)
    Atopobium minutum (Hauduroy et al. 1937) Collins and Wallbanks 1993	validly published under the ICNP	correct name
    Atopobium parvulum (Weinberg et al. 1937) Collins and Wallbanks 1993	validly published under the ICNP	synonym
    Atopobium rimae (Olsen et al. 1991) Collins and Wallbanks 1993	validly published under the ICNP	synonym
    "Atopobium uli" Vandamme et al. 1996	not validly published	preferred name (not correct name)
    Atopobium vaginae Rodriguez Jovita et al. 1999	validly published under the ICNP	synonym

Parent taxon: Atopobiaceae Gupta et al. 2013

Assigned by: Gupta RS, Chen WJ, Adeolu M, Chai Y. Molecular signatures for the class Coriobacteriia and its different clades; proposal for division of the class Coriobacteriia into the emended order Coriobacteriales, containing the emended family Coriobacteriaceae and Atopobiaceae fam. nov., and Eggerthellales ord. nov., containing the family Eggerthellaceae fam. nov. Int J Syst Evol Microbiol 2013; 63:3379-3397.

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Record number: 515198