Strain identifier

BacDive ID: 130835

Type strain: Yes

Species: Anaerococcus provencensis

Strain Designation: 9402080

Strain history: <- I. Pagnier, URMITE, 27 bd Jean Moulin, 13385 Marseille Cedex 05, France; 9402080 <- A. Martinez

NCBI tax ID(s): 938293 (species)

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General

@ref: 21474

BacDive-ID: 130835

DSM-Number: 26345

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-positive, human pathogen

description: Anaerococcus provencensis 9402080 is an anaerobe, mesophilic, Gram-positive human pathogen that was isolated from cervical abscess.

NCBI tax id

  • NCBI tax id: 938293
  • Matching level: species

strain history

  • @ref: 21474
  • history: <- I. Pagnier, URMITE, 27 bd Jean Moulin, 13385 Marseille Cedex 05, France; 9402080 <- A. Martinez

doi: 10.13145/bacdive130835.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Clostridia
  • order: Eubacteriales
  • family: Peptoniphilaceae
  • genus: Anaerococcus
  • species: Anaerococcus provencensis
  • full scientific name: Anaerococcus provencensis corrig. Pagnier et al. 2017

  • synonyms

    • @ref: 20215
    • synonym: Anaerococcus provenciensis

@ref: 21474

domain: Bacteria

phylum: Firmicutes

class: Clostridia

order: Clostridiales

family: Peptoniphilaceae

genus: Anaerococcus

species: Anaerococcus provencensis

full scientific name: Anaerococcus provencensis Pagnier et al. 2017

strain designation: 9402080

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: positive
  • confidence: 100

Culture and growth conditions

culture medium

  • @ref: 21474
  • name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/104
  • composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water

culture temp

  • @ref: 21474
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
21474anaerobe
69480anaerobe99.518

spore formation

@refspore formationconfidence
69481no99
69480no99.989

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6838016199urea-hydrolysis
6838029016arginine+hydrolysis
6838016024D-mannose+fermentation
6838016634raffinose-fermentation
6838029985L-glutamate-degradation
6838017632nitrate-reduction
6838027897tryptophan-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

@refvalueactivityec
68380serine arylamidase-
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase+
68380glycin arylamidase-
68380alanine arylamidase-3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase+3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase-
68380leucyl glycin arylamidase-3.4.11.1
68380proline-arylamidase-3.4.11.5
68380L-arginine arylamidase+
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase+3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase+3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase+3.5.3.6
68380urease-3.5.1.5

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
21474-+-+--+--+/-+-----+/-+---++---+--

Isolation, sampling and environmental information

isolation

  • @ref: 21474
  • sample type: cervical abscess
  • geographic location: Marseille
  • country: France
  • origin.country: FRA
  • continent: Europe

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Other
  • Cat3: #Abscess

taxonmaps

  • @ref: 69479
  • File name: preview.99_6273.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_172;96_2434;97_2966;98_4647;99_6273&stattab=map
  • Last taxonomy: Anaerococcus provencensis subclade
  • 16S sequence: HM587323
  • Sequence Identity:
  • Total samples: 1927
  • soil counts: 4
  • aquatic counts: 8
  • animal counts: 1911
  • plant counts: 4

Safety information

risk assessment

  • @ref: 21474
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 21474
  • description: Anaerococcus provencensis strain 9402080 16S ribosomal RNA gene, partial sequence
  • accession: HM587323
  • length: 1378
  • database: ena
  • NCBI tax ID: 938293

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Anaerococcus provencensis 9402080GCA_000312365scaffoldncbi938293
66792Anaerococcus provencensis 94020802600255036draftimg938293

GC content

  • @ref: 21474
  • GC-content: 33.48
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno93.723no
flagellatedno96.965no
gram-positiveyes95.519no
anaerobicyes98.008yes
aerobicno96.802no
halophileno61.028no
spore-formingno94.624no
glucose-utilyes86.39no
thermophileno98.655yes
glucose-fermentyes68.927no

External links

@ref: 21474

culture collection no.: DSM 26345, CSUR P121

straininfo link

  • @ref: 89322
  • straininfo: 402777

literature

topicPubmed-IDtitleauthorsjournalDOIyeartopic2mesh
Genetics25197492Non-contiguous finished genome sequence and description of Anaerococcus provenciensis sp. nov.Pagnier I, Croce O, Robert C, Raoult D, La Scola BStand Genomic Sci10.4056/sigs.55010352014Phylogeny
Phylogeny33514860Anaerococcus urinimassiliensis sp. nov., a new bacterium isolated from human urine.Morand A, Tall ML, Kuete Yimagou E, Ngom II, Lo CI, Cornu F, Tsimaratos M, Lagier JC, Levasseur A, Raoult D, Fournier PESci Rep10.1038/s41598-021-82420-z2021PathogenicityAdolescent, *Firmicutes/classification/genetics/isolation & purification, *Glomerulonephritis, Membranoproliferative/microbiology/urine, *Hepatitis, Autoimmune/microbiology/urine, Humans, Male, Urine/*microbiology

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
21474Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26345Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26345)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68380Automatically annotated from API rID32A
69479João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
89322Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID402777.1