Strain identifier

BacDive ID: 14800

Type strain: No

Species: Streptococcus dysgalactiae subsp. equisimilis

Strain Designation: LRA 06 11 76, LRA 006 11 76

Strain history: CIP <- 1993, R. Mercier, bioMérieux, La Balme-les-Grottes, France: strain LRA 006 11 76 <- NCTC <- 1952, R.M. Fry, PHLS, London, UK

NCBI tax ID(s): 119602 (subspecies)

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General

@ref: 2460

BacDive-ID: 14800

DSM-Number: 6176

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

description: Streptococcus dysgalactiae subsp. equisimilis LRA 06 11 76 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from Human vagina.

NCBI tax id

  • NCBI tax id: 119602
  • Matching level: subspecies

strain history

@refhistory
2460<- ATCC <- D. Androphy, LRA 06 11 76 <- API SA (Streptococcus equisimilis)
118985CIP <- 1993, R. Mercier, bioMérieux, La Balme-les-Grottes, France: strain LRA 006 11 76 <- NCTC <- 1952, R.M. Fry, PHLS, London, UK

doi: 10.13145/bacdive14800.20230509.8.1

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 dysgalactiae subsp. equisimilis
  • full scientific name: Streptococcus dysgalactiae subsp. equisimilis Vandamme et al. 1996

@ref: 2460

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Streptococcus

species: Streptococcus dysgalactiae subsp. equisimilis

full scientific name: Streptococcus dysgalactiae subsp. equisimilis Vandamme et al. 1996 emend. Vieira et al. 1998

strain designation: LRA 06 11 76, LRA 006 11 76

type strain: no

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480positive100
118985positivecoccus-shapedno

colony morphology

@reftype of hemolysishemolysis ability
2460beta1
68370beta1
1189851

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2460TRYPTICASE 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
39688MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
118985CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
118985CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
2460positivegrowth37mesophilic
39688positivegrowth37mesophilic
118985positivegrowth25-41
118985nogrowth10psychrophilic
118985nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
2460microaerophile
118985facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.963

halophily

  • @ref: 118985
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

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-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
68370glycogen-builds acid from28087
68370raffinose-builds acid from16634
68370inulin-builds acid from15443
68370trehalose+builds acid from27082
68370lactose-builds acid from17716
68370D-sorbitol-builds acid from17924
68370D-mannitol-builds acid from16899
68370L-arabinose-builds acid from30849
68370esculin-hydrolysis4853
68370hippurate-hydrolysis606565
118985esculin-hydrolysis4853
118985hippurate-hydrolysis606565
118985nitrate-reduction17632
118985nitrite-reduction16301
118985nitrate+respiration17632
68379nitrate-reduction17632
68379esculin-hydrolysis4853
68379urea-hydrolysis16199
68379gelatin-hydrolysis5291
68379D-glucose+fermentation17634
68379D-ribose+fermentation16988
68379D-xylose-fermentation65327
68379D-mannitol-fermentation16899
68379maltose+fermentation17306
68379lactose-fermentation17716
68379sucrose+fermentation17992
68379glycogen-fermentation28087
68380urea-hydrolysis16199
68380arginine+hydrolysis29016
68380D-mannose+fermentation16024
68380raffinose-fermentation16634
68380L-glutamate-degradation29985
68380nitrate-reduction17632
68380tryptophan-energy source27897
68381arginine+hydrolysis29016
68381D-mannitol-builds acid from16899
68381sorbitol-builds acid from30911
68381lactose-builds acid from17716
68381trehalose+builds acid from27082
68381raffinose-builds acid from16634
68381sucrose+builds acid from17992
68381L-arabinose-builds acid from30849
68381D-arabitol-builds acid from18333
68381alpha-cyclodextrin-builds acid from40585
68381hippurate-hydrolysis606565
68381glycogen-builds acid from28087
68381pullulan+builds acid from27941
68381maltose+builds acid from17306
68381melibiose-builds acid from28053
68381melezitose-builds acid from6731
68381methyl beta-D-glucopyranoside-builds acid from320055
68381D-tagatose-builds acid from16443
68381urea-hydrolysis16199

metabolite production

@refChebi-IDmetaboliteproduction
6837015688acetoinno
6838035581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6838115688acetoin-
6838035581indole-
6837015688acetoin-
11898515688acetoin-

enzymes

@refvalueactivityec
2460catalase+1.11.1.6
2460cytochrome-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+
68381alkaline phosphatase+3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase+3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase+3.5.3.6
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+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase-4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
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
68379catalase-1.11.1.6
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase+3.2.1.20
68379beta-galactosidase-3.2.1.23
68379beta-glucuronidase+3.2.1.31
68379alkaline phosphatase+3.1.3.1
68379pyrrolidonyl arylamidase+3.4.19.3
68379pyrazinamidase-3.5.1.B15
68370leucine arylamidase+3.4.11.1
68370alkaline phosphatase+3.1.3.1
68370beta-galactosidase-3.2.1.23
68370alpha-galactosidase-3.2.1.22
68370pyrrolidonyl arylamidase-3.4.19.3
68370beta-glucosidase-3.2.1.21
118985oxidase-
118985beta-galactosidase+3.2.1.23
118985alcohol dehydrogenase+1.1.1.1
118985catalase-1.11.1.6
118985lysine decarboxylase-4.1.1.18
118985ornithine decarboxylase-4.1.1.17
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382cystine arylamidase+3.4.11.3
68382trypsin-3.4.21.4
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

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44716C12:01.112
    44716C14:03.814
    44716C16:023.216
    44716C18:05.818
    44716C13:0 ISO 2OH0.913.814
    44716C16:1 ω5c1.715.908
    44716C16:1 ω7c14.715.819
    44716C16:1 ω9c7.815.774
    44716C17:1 ω5c ISO1.416.461
    44716C18:1 ω5c0.917.919
    44716C18:1 ω7c /12t/9t11.717.824
    44716C18:1 ω9c12.117.769
    44716C18:1 ω9c DMA1.518.226
    44716C18:2 ω6,9c/C18:0 ANTE1017.724
    44716C19:1 ISO I118.473
    44716Unidentified0.816.198
    44716Unidentified0.616.314
    44716unknown 18.1941.118.194
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
44716--+++-+-----++--+-+--

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
44716-++--+++--++--++----
118985-+++-+-+-+++--++----

API 20STR

@refVPHIPESCPYRAalpha GALbeta GURbeta GALPALLAPADHRIBARAMANSORLACTREINURAFAMDGLYGbeta HEM
2460-----+-+++-----+----+
2460-----+-+++-----+--+/--+
2460-----+/--++-+----+--+-+
44716-----+-++++----+--+-+

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
44716-----+-----+++--------+-----++-++-----------------

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
44716-+-+-+--+-+-----++--++-++++-+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
44716+--+-+----+-+----+------++------
2460+--+-++---+-+----+------++------
2460+--+-++---+-+----+------++------
2460+-++-+----+-+----+---+/---++------

Isolation, sampling and environmental information

isolation

@refsample type
44716Human vagina
118985Human, Vagina

isolation source categories

Cat1Cat2Cat3
#Host Body-Site#Urogenital tract#Vagina
#Host#Human#Female

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
2460yesyes2Risk group (German classification)
1189852Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptococcus dysgalactiae subsp. equisimilis gene for 16S rRNA, partial sequence, strain:ATCC 35666AB0967551476ena119602
20218Streptococcus dysgalactiae subsp. equisimilis DNA, 16S-23S rRNA intergenic spacer, partial sequenceAB258407227ena119602
20218Streptococcus dysgalactiae subsp. equisimilis partial 16S rRNA gene, strain ATCC 35666AJ3196431458ena119602
20218Streptococcus dysgalactiae subsp. equisimilis strain ATCC 35666 16S ribosomal RNA gene, partial sequenceAY1213601312ena119602

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptococcus dysgalactiae subsp. equisimilis NCTC8543GCA_900460145contigncbi119602
66792Streptococcus dysgalactiae strain FDAARGOS_10171334.229completepatric1334
66792Streptococcus dysgalactiae subsp. equisimilis strain NCTC8543119602.195wgspatric119602

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno96.125no
gram-positiveyes92.444no
anaerobicno96.413yes
halophileyes84.069no
spore-formingno93.335no
glucose-utilyes88.389no
flagellatedno98.312no
thermophileno99.662no
aerobicno94.055no
glucose-fermentyes83.518no

External links

@ref: 2460

culture collection no.: CCUG 4211, LMG 15819, CIP 103684, DSM 6176, ATCC 35666, NCTC 8543

straininfo link

  • @ref: 83917
  • straininfo: 105408

literature

  • topic: Phylogeny
  • Pubmed-ID: 14657127
  • title: rDNA sequence analyses of Streptococcus dysgalactiae subsp. equisimilis isolates from pigs.
  • authors: Kawata K, Minakami T, Mori Y, Katsumi M, Kataoka Y, Ezawa A, Kikuchi N, Takahashi T
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02666-0
  • year: 2003
  • mesh: Animals, Base Sequence, DNA Primers, DNA, Bacterial/genetics, DNA, Ribosomal/*genetics, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, RNA, Ribosomal, 23S/genetics, Sequence Alignment, Sequence Homology, Nucleic Acid, Streptococcus/*classification/*genetics/isolation & purification, Swine/*microbiology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2460Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6176)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6176
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
39688Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15508
44716Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 4211)https://www.ccug.se/strain?id=4211
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)
68370Automatically annotated from API 20STR
68371Automatically annotated from API 50CH acid
68379Automatically annotated from API Coryne
68380Automatically annotated from API rID32A
68381Automatically annotated from API rID32STR
68382Automatically annotated from API zym
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
83917Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID105408.1StrainInfo: A central database for resolving microbial strain identifiers
118985Curators of the CIPCollection of Institut Pasteur (CIP 103684)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103684