Strain identifier

BacDive ID: 159

Type strain: Yes

Species: Actinomyces gerencseriae

Strain Designation: 2-606-032

Strain history: CIP <- 1998, DSMZ <- ATCC <- L. Georg: strain CDC W838 <- L.A. Weed: strain 2-606-032

NCBI tax ID(s): 1120943 (strain), 52769 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 2852

BacDive-ID: 159

DSM-Number: 6844

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive, colony-forming

description: Actinomyces gerencseriae 2-606-032 is a microaerophile, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from human, parotid abscess.

NCBI tax id

NCBI tax idMatching level
1120943strain
52769species

strain history

@refhistory
2852<- ATCC <- L. Georg, CDC W838 <- L.A. Weed, 2-606-032
67770DSM 6844 <-- ATCC 23860 <-- L. Georg CDC W838 <-- L. A. Weed 2-606-032.
119606CIP <- 1998, DSMZ <- ATCC <- L. Georg: strain CDC W838 <- L.A. Weed: strain 2-606-032

doi: 10.13145/bacdive159.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Actinomycetales
  • family: Actinomycetaceae
  • genus: Actinomyces
  • species: Actinomyces gerencseriae
  • full scientific name: Actinomyces gerencseriae Johnson et al. 1990

@ref: 2852

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Actinomycetaceae

genus: Actinomyces

species: Actinomyces gerencseriae

full scientific name: Actinomyces gerencseriae Johnson et al. 1990

strain designation: 2-606-032

type strain: yes

Morphology

cell morphology

@refgram stainmotilityconfidencecell shape
23355positiveno
69480no92.907
69480positive100
119606positivenorod-shaped

colony morphology

@refcolony sizecolony colorcolony shapeincubation periodmedium used
233550.2 mmwhitecircular2 daysblood agar and peptone-yeast extract-glucose broth
119606

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2852BHI/2 MEDIUM (DSMZ Medium 217)yeshttps://mediadive.dsmz.de/medium/217Name: BHI/2 MEDIUM (DSMZ Medium 217) Composition: Brain heart infusion 37.0 g/l Casein hydrolysate 10.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water
23355blood agaryes
41697MEDIUM 258 - for Actinomyces gerencseriaeyesDistilled water make up to (1000.000 ml);Glucose (5.000 g);Yeast extract(5.000 g);Brain heart infusion agar (52.000 g);Casein hydrolysate acid hydrolysed vitamine-free (10.000 g)
119606CIP Medium 7yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=7

culture temp

@refgrowthtypetemperaturerange
2852positivegrowth37mesophilic
41697positivegrowth37mesophilic
67770positivegrowth37mesophilic
119606positivegrowth30-37mesophilic
119606nogrowth10psychrophilic
119606nogrowth25mesophilic
119606nogrowth41thermophilic
119606nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
2852microaerophile
23355anaerobe
119606anaerobe

spore formation

@refspore formationconfidence
23355no
69481no99
69480no99.986

halophily

@refsaltgrowthtested relationconcentration
119606NaClpositivegrowth0-2 %
119606NaClnogrowth4 %
119606NaClnogrowth6 %
119606NaClnogrowth8 %
119606NaClnogrowth10 %

murein

  • @ref: 2852
  • murein short key: A21.11
  • type: A5ß L-Orn-L-Lys-D-Glu

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2335522599arabinose-builds acid from
2335528757fructose+builds acid from
2335529864mannitol+builds acid from
2335516634raffinose+builds acid from
2335517108D-arabinose+fermentation
1196064853esculin+hydrolysis
119606606565hippurate+hydrolysis
11960617632nitrate-reduction
11960616301nitrite-reduction
11960617632nitrate+respiration

metabolite production

  • @ref: 119606
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11960615688acetoin-
11960617234glucose+

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase+3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase-3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
119606oxidase-
119606beta-galactosidase-3.2.1.23
119606alcohol dehydrogenase-1.1.1.1
119606gelatinase-
119606amylase-
119606DNase-
119606caseinase-3.4.21.50
119606catalase-1.11.1.6
119606tween esterase-
119606gamma-glutamyltransferase-2.3.2.2
119606lecithinase-
119606lipase+
119606lysine decarboxylase-4.1.1.18
119606ornithine decarboxylase-4.1.1.17
119606phenylalanine ammonia-lyase-4.3.1.24
119606protease+
119606tryptophan deaminase-
119606urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119606--++-+-----+-+-++---

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2852human, parotid abscess
67770Human parotid abscess
119606Human, Parotid abscessRochester, MinnesotaUnited States of AmericaUSANorth America

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Other#Abscess
#Host Body-Site#Organ#Ear

taxonmaps

  • @ref: 69479
  • File name: preview.99_3712.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_124;96_1914;97_2302;98_2837;99_3712&stattab=map
  • Last taxonomy: Actinomyces gerencseriae subclade
  • 16S sequence: X80414
  • Sequence Identity:
  • Total samples: 30419
  • soil counts: 470
  • aquatic counts: 686
  • animal counts: 29005
  • plant counts: 258

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
28522Risk group (German classification)
1196062Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Actinomyces gerencseriae 16S ribosomal RNA gene, partial sequenceAF058050282ena52769
20218A.gerencseriae 16S rDNAX804141415ena52769

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Actinomyces gerencseriae DSM 68441120943.3wgspatric1120943
66792Actinomyces gerencseriae DSM 68442524023137draftimg1120943
67770Actinomyces gerencseriae DSM 6844GCA_000429265scaffoldncbi1120943

GC content

@refGC-contentmethod
285270.0thermal denaturation, midpoint method (Tm)
2335570.0
6777070

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
motileno92.073yes
flagellatedno97.207no
gram-positiveyes94.726yes
anaerobicno71.606no
aerobicno92.026no
halophileno85.317no
spore-formingno93.308yes
glucose-utilyes89.63no
thermophileno91.455no
glucose-fermentyes80.188no

External links

@ref: 2852

culture collection no.: DSM 6844, ATCC 23860, CDC W838, CIP 105418, JCM 12963, VPI 12594, CCUG 32936, CCUG 34703

straininfo link

  • @ref: 69841
  • straininfo: 38271

literature

  • topic: Phylogeny
  • Pubmed-ID: 2397195
  • title: Actinomyces georgiae sp. nov., Actinomyces gerencseriae sp. nov., designation of two genospecies of Actinomyces naeslundii, and inclusion of A. naeslundii serotypes II and III and Actinomyces viscosus serotype II in A. naeslundii genospecies 2.
  • authors: Johnson JL, Moore LV, Kaneko B, Moore WE
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-40-3-273
  • year: 1990
  • mesh: Actinomyces/*classification/genetics, DNA, Bacterial/isolation & purification/metabolism, Nucleic Acid Hybridization, Serotyping
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2852Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6844)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6844
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
23355J. L. Johnson, Lillian V. H. Moore, Beverly Kaneko, W. E. C. Moore10.1099/00207713-40-3-273Actinomyces georgiae sp. nov., Actinomyces gerencseriae sp. nov., Designation of Two Genospecies of Actinomyces naeslundii, and Inclusion of A. naeslundii serotypes II and III and Actinomyces viscosus serotype II in A. naeslundii Genospecies 2IJSEM 40: 273-286 19902397195
41697Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17436
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
69841Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38271.1StrainInfo: A central database for resolving microbial strain identifiers
119606Curators of the CIPCollection of Institut Pasteur (CIP 105418)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105418