Strain identifier

BacDive ID: 135327

Type strain: No

Species: Gardnerella vaginalis

Strain Designation: AmMS 117

Strain history: CIP <- 1993, J. Wanderscheid, Baxter Diagnostics Inc., Paris Nord II, France: strain AmMS 117

NCBI tax ID(s): 2702 (species)

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General

@ref: 34416

BacDive-ID: 135327

keywords: genome sequence, Bacteria, anaerobe, mesophilic

description: Gardnerella vaginalis AmMS 117 is an anaerobe, mesophilic bacterium that was isolated from Human.

NCBI tax id

  • NCBI tax id: 2702
  • Matching level: species

strain history

@refhistory
344161993, J. Wanderscheid, Baxter Diagnostics Inc., Paris Nord II, France: strain AmMS 117
34416CIP <- 1993, J. Wanderscheid, Baxter Diagnostics Inc., Paris Nord II, France: strain AmMS 117

doi: 10.13145/bacdive135327.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Bifidobacteriales
  • family: Bifidobacteriaceae
  • genus: Gardnerella
  • species: Gardnerella vaginalis
  • full scientific name: Gardnerella vaginalis (Gardner and Dukes 1955) Greenwood and Pickett 1980

  • synonyms

    @refsynonym
    20215Corynebacterium vaginale
    20215Haemophilus vaginalis

@ref: 34416

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Bifidobacteriales

family: Bifidobacteriaceae

genus: Gardnerella

species: Gardnerella vaginalis

strain designation: AmMS 117

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.317
6948099.654positive
34416nonegativerod-shaped

colony morphology

  • @ref: 34416

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
34416MEDIUM 26 - for Gardnerella and Propionibacterium lymphophilumyesDistilled water make up to (1000.000 ml);Horse serum (200.000 ml);Brainheart infusion (37.000 g);Maltose 10 % solution - M0173 (200.000 ml)
34416CIP Medium 252yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=252
34416CIP Medium 26yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=26

culture temp

@refgrowthtypetemperaturerange
34416positivegrowth37mesophilic
34416positivegrowth25-41
34416nogrowth10psychrophilic
34416nogrowth15psychrophilic
34416nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
69480anaerobe99.667
34416facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

halophily

@refsaltgrowthtested relationconcentration
34416NaClpositivegrowth0-2 %
34416NaClnogrowth4 %
34416NaClnogrowth6 %
34416NaClnogrowth8 %
34416NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate+builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen+builds acid from28087
68371starch+builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
34416esculin-hydrolysis4853
34416hippurate-hydrolysis606565
34416nitrate-reduction17632
34416nitrite-reduction16301
34416nitrate+respiration17632

antibiotic resistance

  • @ref: 34416
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 34416
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
3441615688acetoin-
3441617234glucose-

enzymes

@refvalueactivityec
34416oxidase-
34416beta-galactosidase+3.2.1.23
34416alcohol dehydrogenase-1.1.1.1
34416gelatinase-
34416amylase+
34416DNase-
34416caseinase-3.4.21.50
34416catalase-1.11.1.6
34416tween esterase-
34416gamma-glutamyltransferase-2.3.2.2
34416lecithinase+
34416lipase-
34416lysine decarboxylase-4.1.1.18
34416ornithine decarboxylase-4.1.1.17
34416protease+
34416tryptophan deaminase-
34416urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase+3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
34416--++-+----++-+-+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
34416---++----+++--------+------+---+/----++--+------+-+

Isolation, sampling and environmental information

isolation

  • @ref: 34416
  • sample type: Human

Safety information

risk assessment

  • @ref: 34416
  • biosafety level: 2
  • biosafety level comment: Risk group (French classification)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Gardnerella vaginalis ATCC 49145GCA_003034925contigncbi2702
66792Gardnerella vaginalis ATCC 49145GCA_001913835contigncbi2702
66792Gardnerella vaginalis strain ATCC 491452702.107wgspatric2702
66792Gardnerella vaginalis strain ATCC 491452702.154wgspatric2702
66792Gardnerella vaginalis ATCC 491452854671940draftimg2702
66792Gardnerella vaginalis ATCC 491452854673377draftimg2702

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.233no
gram-positiveyes56.666no
anaerobicyes94.437no
halophileno63.731no
spore-formingno96.948no
glucose-utilyes89.393no
aerobicno97.55no
flagellatedno96.824no
thermophileno91.011yes
glucose-fermentyes80.139no

External links

@ref: 34416

culture collection no.: CIP 103660, ATCC 49145

straininfo link

  • @ref: 92701
  • straininfo: 42321

literature

topicPubmed-IDtitleauthorsjournalDOIyearmesh
Pathogenicity21175040Inhibitory activity of thymol on native and mature Gardnerella vaginalis biofilms: in vitro study.Braga PC, Dal Sasso M, Culici M, Spallino AArzneimittelforschung10.1055/s-0031-12963462010Anti-Infective Agents/*pharmacology, Biofilms/*drug effects, Female, Gardnerella vaginalis/*drug effects/growth & development, Humans, Microbial Sensitivity Tests, Microscopy, Fluorescence, Microscopy, Phase-Contrast, Thymol/*pharmacology, Vaginosis, Bacterial/microbiology
Genetics28473387Draft Genome Sequence of Gardnerella vaginalis Strain ATCC 49145 Associated with Bacterial Vaginosis.Kidane DT, Arivett BA, Crigler J, Vick EJ, Farone AL, Farone MBGenome Announc10.1128/genomeA.00286-172017

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
34416Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103660Collection of Institut Pasteur (CIP 103660)
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
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
92701Reimer, 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-ID42321.1