Strain identifier
BacDive ID: 1602
Type strain:
Species: Phocaeicola vulgatus
Strain history: <- ATCC <- Wadsworth Anaerobic Bact. Res. Lab., WAL 1887
NCBI tax ID(s): 821 (species)
General
@ref: 1346
BacDive-ID: 1602
DSM-Number: 3289
keywords: Bacteria, anaerobe, mesophilic, human pathogen
description: Phocaeicola vulgatus CCUG 12546 is an anaerobe, mesophilic human pathogen that was isolated from retroperitoneal abscess.
NCBI tax id
- NCBI tax id: 821
- Matching level: species
strain history
- @ref: 1346
- history: <- ATCC <- Wadsworth Anaerobic Bact. Res. Lab., WAL 1887
doi: 10.13145/bacdive1602.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Bacteroidia
- order: Bacteroidales
- family: Bacteroidaceae
- genus: Phocaeicola
- species: Phocaeicola vulgatus
- full scientific name: Phocaeicola vulgatus (Eggerth and Gagnon 1933) García-López et al. 2020
synonyms
- @ref: 20215
- synonym: Bacteroides vulgatus
@ref: 1346
domain: Bacteria
phylum: Bacteroidetes
class: Bacteroidia
order: Bacteroidales
family: Bacteroidaceae
genus: Phocaeicola
species: Phocaeicola vulgatus
full scientific name: Phocaeicola vulgatus (Eggerth and Gagnon 1933) García-López et al. 2020
type strain: no
Culture and growth conditions
culture medium
- @ref: 1346
- name: CHOPPED MEAT MEDIUM (DSMZ Medium 78)
- growth: yes
- link: https://mediadive.dsmz.de/medium/78
- composition: Name: CHOPPED MEAT MEDIUM (DSMZ Medium 78) Composition: Ground beef 500.0 g/l Casitone 30.0 g/l Agar 15.0 g/l Ethanol 9.5 g/l (optional) K2HPO4 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl 0.5 g/l Haemin 0.005 g/l (optional) Resazurin 0.001 g/l Vitamin K3 0.0005 g/l (optional) Vitamin K1 (optional) NaOH (optional) Distilled water
culture temp
- @ref: 1346
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 1346
- oxygen tolerance: anaerobe
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
68380 | 16199 | urea | - | hydrolysis |
68380 | 29016 | arginine | - | hydrolysis |
68380 | 16024 | D-mannose | + | fermentation |
68380 | 16634 | raffinose | + | fermentation |
68380 | 29985 | L-glutamate | - | degradation |
68380 | 17632 | nitrate | - | reduction |
68380 | 27897 | tryptophan | - | energy source |
metabolite production
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68380
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68380 | serine arylamidase | - | |
68380 | glutamyl-glutamate arylamidase | + | |
68380 | histidine arylamidase | - | |
68380 | glycin arylamidase | + | |
68380 | alanine arylamidase | + | 3.4.11.2 |
68380 | tyrosine arylamidase | - | |
68380 | pyrrolidonyl arylamidase | - | 3.4.19.3 |
68380 | leucine arylamidase | - | 3.4.11.1 |
68380 | phenylalanine arylamidase | - | |
68380 | leucyl glycin arylamidase | + | 3.4.11.1 |
68380 | proline-arylamidase | - | 3.4.11.5 |
68380 | L-arginine arylamidase | - | |
68380 | alkaline phosphatase | + | 3.1.3.1 |
68380 | tryptophan deaminase | - | 4.1.99.1 |
68380 | alpha-fucosidase | + | 3.2.1.51 |
68380 | glutamate decarboxylase | - | 4.1.1.15 |
68380 | N-acetyl-beta-glucosaminidase | + | 3.2.1.52 |
68380 | alpha-arabinosidase | + | 3.2.1.55 |
68380 | beta-glucosidase | - | 3.2.1.21 |
68380 | alpha-glucosidase | + | 3.2.1.20 |
68380 | beta-galactosidase | + | 3.2.1.23 |
68380 | alpha-galactosidase | + | 3.2.1.22 |
68380 | arginine dihydrolase | - | 3.5.3.6 |
68380 | urease | - | 3.5.1.5 |
API rID32A
@ref | URE | ADH Arg | alpha GAL | beta GAL | beta GP | alpha GLU | beta GLU | alpha ARA | beta GUR | beta NAG | MNE | RAF | GDC | alpha FUC | NIT | IND | PAL | ArgA | ProA | LGA | PheA | LeuA | PyrA | TyrA | AlaA | GlyA | HisA | GGA | SerA |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
45742 | - | - | + | + | - | + | - | + | - | + | + | + | - | + | - | - | + | - | - | + | - | - | - | - | + | + | - | + | - |
1346 | - | - | + | + | +/- | + | - | + | +/- | + | + | + | - | + | - | - | + | - | - | + | - | - | - | - | + | + | - | + | - |
1346 | - | - | + | + | +/- | + | - | + | +/- | + | + | + | - | + | - | - | + | - | - | + | - | - | - | - | + | + | - | + | - |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
1346 | retroperitoneal abscess |
45742 | Human retroperitoneal abscess |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host Body-Site | #Other | #Abdomen |
#Host Body-Site | #Other | #Abscess |
Safety information
risk assessment
- @ref: 1346
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
External links
@ref: 1346
culture collection no.: CCUG 12546, KCTC 2639, DSM 3289, ATCC 29327, WAL 1887
straininfo link
- @ref: 71247
- straininfo: 39470
literature
- topic: Pathogenicity
- Pubmed-ID: 3972999
- title: Evaluation of broth microdilution susceptibility results for anaerobic organisms by use of a rapid direct colony inoculum.
- authors: Mangels JI, Lindberg LH
- journal: J Clin Microbiol
- DOI: 10.1128/jcm.21.2.269-272.1985
- year: 1985
- mesh: Bacteria, Anaerobic/*drug effects, Humans, Microbial Sensitivity Tests/*methods, Quality Control, Tetracycline/pharmacology
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
1346 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3289) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3289 | |
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
45742 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 12546) | https://www.ccug.se/strain?id=12546 | |
68380 | Automatically annotated from API rID32A | |||
71247 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID39470.1 | StrainInfo: A central database for resolving microbial strain identifiers |