Strain identifier

BacDive ID: 14794

Type strain: Yes

Species: Streptococcus vestibularis

Strain Designation: MM1

Strain history: CIP <- 1990, NCTC <- 1987, R.A. Whiley, London Hosp. Coll. Med., London, UK: strain MM1

NCBI tax ID(s): 889206 (strain), 1343 (species)

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General

@ref: 2142

BacDive-ID: 14794

DSM-Number: 5636

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, coccus-shaped

description: Streptococcus vestibularis MM1 is a microaerophile, mesophilic, coccus-shaped bacterium that was isolated from vestibular mucosa of human oral cavity.

NCBI tax id

NCBI tax idMatching level
889206strain
1343species

strain history

@refhistory
2142<- NCTC <- R.A. Whiley, MM1
67771<- DSM <- NCTC <- RA Whiley, MM1
123830CIP <- 1990, NCTC <- 1987, R.A. Whiley, London Hosp. Coll. Med., London, UK: strain MM1

doi: 10.13145/bacdive14794.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Streptococcaceae
  • genus: Streptococcus
  • species: Streptococcus vestibularis
  • full scientific name: Streptococcus vestibularis Whiley and Hardie 1988

@ref: 2142

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Streptococcus

species: Streptococcus vestibularis

full scientific name: Streptococcus vestibularis Whiley and Hardie 1988

strain designation: MM1

type strain: yes

Morphology

cell morphology

@refcell shapegram stainmotility
67771coccus-shaped
67771positive
123830coccus-shapedpositiveno

colony morphology

@reftype of hemolysishemolysis abilityincubation period
2142alpha11-2 days
123830

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2142COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
2142TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://mediadive.dsmz.de/medium/92Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water
35542MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
123830CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
2142positivegrowth37mesophilic
35542positivegrowth37mesophilic
67771positivegrowth37mesophilic
123830positivegrowth25-41
123830nogrowth10psychrophilic
123830nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
2142microaerophile
67771microaerophile
123830facultative anaerobe

halophily

  • @ref: 123830
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

murein

  • @ref: 2142
  • murein short key: A11.05
  • type: A3alpha L-Lys-L-Ala2

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
68371trehalose-builds acid from27082
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-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
123830esculin+hydrolysis4853
123830nitrate-reduction17632
123830nitrite-reduction16301
68381arginine-hydrolysis29016
68381D-ribose-builds acid from16988
68381D-mannitol-builds acid from16899
68381sorbitol-builds acid from30911
68381lactose+builds acid from17716
68381trehalose-builds acid from27082
68381raffinose-builds acid from16634
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381glycogen-builds acid from28087
68381pullulan-builds acid from27941
68381maltose+builds acid from17306
68381melibiose-builds acid from28053
68381melezitose-builds acid from6731
68381D-tagatose-builds acid from16443
68381urea+hydrolysis16199

metabolite production

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: yes

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin+
12383015688acetoin+

enzymes

@refvalueactivityec
2142catalase-1.11.1.6
2142cytochrome-c oxidase-1.9.3.1
68381urease+3.5.1.5
68381beta-mannosidase-3.2.1.25
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase-3.4.19.3
68381beta-galactosidase+3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase+
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase+3.2.1.21
68381arginine dihydrolase-3.5.3.6
123830oxidase-
123830beta-galactosidase+3.2.1.23
123830alcohol dehydrogenase-1.1.1.1
123830catalase-1.11.1.6
123830gamma-glutamyltransferase-2.3.2.2
123830lysine decarboxylase-4.1.1.18
123830ornithine decarboxylase-4.1.1.17
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-glucuronidase-3.2.1.31
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    48083C12:01.112
    48083C14:07.414
    48083C16:039.716
    48083C17:00.317
    48083C18:07.118
    48083C16:1 ω5c0.815.908
    48083C16:1 ω7c2.115.819
    48083C16:1 ω9c615.774
    48083C18:1 ω7c /12t/9t15.417.824
    48083C18:1 ω9c10.117.769
    48083C18:2 ω6,9c/C18:0 ANTE5.817.724
    48083C20:1 ω9c4.219.77
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
48083-----+--------------
123830-----+-------+-++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123830---------++++-------+/-++++++++-+---++--++---------

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
2142-++------+--+---+++--+---+-----+
2142-++------+------+++------+-----+
2142-++------+--+---+++--+---+--+--+
2142-++--+---+--+---+++---+--+-----+

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
2142vestibular mucosa of human oral cavityUnited KingdomGBREurope
48083Human oral cavity,vestibular mucosaUnited KingdomGBREuropeLondon
67771From vestibular mucosa of human oral cavityUnited KingdomGBREurope
123830Human, Oral cavityUnited KingdomGBREuropeLondon

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Mouth

taxonmaps

  • @ref: 69479
  • File name: preview.99_131.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_4;96_100;97_107;98_116;99_131&stattab=map
  • Last taxonomy: Streptococcus
  • 16S sequence: AY188353
  • Sequence Identity:
  • Total samples: 228807
  • soil counts: 3877
  • aquatic counts: 10320
  • animal counts: 212872
  • plant counts: 1738

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
21421Risk group (German classification)
1238302Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptococcus vestibularis strain NCTC 12166 16S-23S ribosomal RNA intergenic spacer, partial sequenceEU860352350ena889206
20218Streptococcus vestibularis ATCC 49124 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA internal transcribed spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceJN181394537ena889206
20218S.vestibularis 16S rRNAX583211332ena889206
2142Streptococcus vestibularis strain ATCC 49124 16S ribosomal RNA gene, complete sequenceAY1883531538ena889206

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptococcus vestibularis ATCC 49124GCA_000188295scaffoldncbi889206
66792Streptococcus vestibularis ATCC 49124889206.3wgspatric889206
66792Streptococcus vestibularis ATCC 49124649990016draftimg889206

GC content

  • @ref: 2142
  • GC-content: 39.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.141no
flagellatedno94.802no
gram-positiveyes93.574yes
anaerobicno89.599no
aerobicno97.967yes
halophileyes76.86no
spore-formingno95.495no
glucose-utilyes88.1no
thermophileno99.07no
glucose-fermentyes88.755no

External links

@ref: 2142

culture collection no.: CCUG 24893, CIP 103363, LMG 13516, CCM 7438, BCRC 14734, KCTC 3650, DSM 5636, ATCC 49124, NCTC 12166

straininfo link

  • @ref: 83911
  • straininfo: 7693

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2142Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5636)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5636
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
35542Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15152
48083Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 24893)https://www.ccug.se/strain?id=24893
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)
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
68381Automatically annotated from API rID32STR
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
83911Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7693.1StrainInfo: A central database for resolving microbial strain identifiers
123830Curators of the CIPCollection of Institut Pasteur (CIP 103363)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103363