Strain identifier

BacDive ID: 14814

Type strain: Yes

Species: Streptococcus didelphis

Strain Designation: 94-11374-1

Strain history: CIP <- 2001, C. A. Teitzel, Washington State Univ., Pullman, USA: strain 94-11374-1

NCBI tax ID(s): 1123301 (strain), 102886 (species)

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General

@ref: 5934

BacDive-ID: 14814

DSM-Number: 15616

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic

description: Streptococcus didelphis 94-11374-1 is a microaerophile, mesophilic bacterium that was isolated from opposum, Didelphis virginiana, with suppurative dermatitis and hepatic fibrosis.

NCBI tax id

NCBI tax idMatching level
1123301strain
102886species

strain history

@refhistory
5934<- ATCC <- Washington Animal Dis. Diagn. lab. <- C. A. Teitzel
118930CIP <- 2001, C. A. Teitzel, Washington State Univ., Pullman, USA: strain 94-11374-1

doi: 10.13145/bacdive14814.20230509.8.1

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 didelphis
  • full scientific name: Streptococcus didelphis Rurangirwa et al. 2000

@ref: 5934

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Streptococcus

species: Streptococcus didelphis

full scientific name: Streptococcus didelphis Rurangirwa et al. 2000

strain designation: 94-11374-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.044
69480100positive
118930nopositiveovoid-shaped

colony morphology

  • @ref: 118930
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5934COLUMBIA 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
5934TRYPTICASE 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
33029MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
118930CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
118930CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45
118930CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
5934positivegrowth37mesophilic
33029positivegrowth37mesophilic
56771positivegrowth37mesophilic
118930positivegrowth25-41
118930nogrowth10psychrophilic
118930nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
5934microaerophile
56771aerobe
56771anaerobe
118930facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.961

halophily

  • @ref: 118930
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
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
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
118930esculin-hydrolysis4853
118930nitrate-reduction17632
118930nitrite-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
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

antibiotic resistance

  • @ref: 118930
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 68381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin-
11893015688acetoin-

enzymes

@refvalueactivityec
68381urease-3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
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
68381beta-glucuronidase+3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase+3.5.3.6
118930oxidase-
118930beta-galactosidase-3.2.1.23
118930alcohol dehydrogenase+1.1.1.1
118930catalase+1.11.1.6
118930gamma-glutamyltransferase-2.3.2.2
118930lysine decarboxylase-4.1.1.18
118930ornithine 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-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
118930-+++-++---++--++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118930+---+----++++--------+-----+--++---++/------------+/-

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
5934+--++/-++---+-+----+----+-++------

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentgeographic locationisolation date
5934opposum, Didelphis virginiana, with suppurative dermatitis and hepatic fibrosisDidelphis virginianaUSAUSANorth America
56771Opposum,Didelphis virginiana
118930Opposum tissuesUnited States of AmericaUSANorth AmericaPacific Northwest1994

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host#Mammals
#Host Body-Site#Organ#Skin, Nail, Hair

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59342Risk group (German classification)
1189302Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Streptococcus didelphis strain DSM 15616 16S ribosomal RNA gene, partial sequenceDQ118677458ena102886
20218Streptococcus didelphis strain ATCC 700828 16S ribosomal RNA gene, partial sequenceDQ3031851451ena102886
5934Streptococcus didelphis strain W94-11374-1 16S ribosomal RNA gene, partial sequenceAF1761031505ena102886

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Streptococcus didelphis DSM 15616GCA_000380005scaffoldncbi1123301
66792Streptococcus didelphis DSM 156161123301.3wgspatric1123301
66792Streptococcus didelphis DSM 156162515154028draftimg1123301

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.805no
flagellatedno98.277no
gram-positiveyes92.066no
anaerobicno90.435no
aerobicno94.587no
halophileyes92.621no
spore-formingno96.081no
thermophileno99.688no
glucose-utilyes87.179no
glucose-fermentyes87.593no

External links

@ref: 5934

culture collection no.: DSM 15616, ATCC 700828, CCUG 45419, WADDL 94-11374-1, CIP 106980

straininfo link

  • @ref: 83931
  • straininfo: 44160

literature

  • topic: Phylogeny
  • Pubmed-ID: 10758886
  • title: Streptococcus didelphis sp. nov., a streptococcus with marked catalase activity isolated from opossums (Didelphis virginiana) with suppurative dermatitis and liver fibrosis.
  • authors: Rurangirwa FR, Teitzel CA, Cui J, French DM, McDonough PL, Besser T
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-50-2-759
  • year: 2000
  • mesh: Animals, Catalase/*metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Dermatitis/microbiology/*veterinary, Female, Genes, rRNA, Liver Cirrhosis/microbiology/*veterinary, Male, Molecular Sequence Data, *Opossums, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Streptococcal Infections/microbiology/*veterinary, Streptococcus/*classification/enzymology/isolation & purification
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5934Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15616)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15616
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
33029Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19170
56771Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45419)https://www.ccug.se/strain?id=45419
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)
68371Automatically annotated from API 50CH acid
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
83931Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44160.1StrainInfo: A central database for resolving microbial strain identifiers
118930Curators of the CIPCollection of Institut Pasteur (CIP 106980)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106980