Strain identifier

BacDive ID: 2276

Type strain: Yes

Species: Granulicatella balaenopterae

Strain Designation: M1975/96/1

Strain history: CIP <- 1999, CCUG <- M.D. Collins, IFR, Reading, UK: strain M1975/96/1 <- G. Foster, UK

NCBI tax ID(s): 137733 (species)

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General

@ref: 6039

BacDive-ID: 2276

DSM-Number: 15827

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, animal pathogen

description: Granulicatella balaenopterae M1975/96/1 is an anaerobe, mesophilic animal pathogen that was isolated from minke whale .

NCBI tax id

  • NCBI tax id: 137733
  • Matching level: species

strain history

@refhistory
6039<- CCUG <- M. D. Collins <- G. Foster
116712CIP <- 1999, CCUG <- M.D. Collins, IFR, Reading, UK: strain M1975/96/1 <- G. Foster, UK

doi: 10.13145/bacdive2276.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Carnobacteriaceae
  • genus: Granulicatella
  • species: Granulicatella balaenopterae
  • full scientific name: Granulicatella balaenopterae (Lawson et al. 1999) Collins and Lawson 2000

  • synonyms

    • @ref: 20215
    • synonym: Abiotrophia balaenopterae

@ref: 6039

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Granulicatella

species: Granulicatella balaenopterae

full scientific name: Granulicatella balaenopterae (Lawson et al. 1999) Collins and Lawson 2000

strain designation: M1975/96/1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.198
69480100positive
116712nopositivecoccus-shaped

colony morphology

@refincubation period
536342 days
116712

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6039PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
6039CHOCOLATE AGAR (DSMZ Medium 429b)yeshttps://mediadive.dsmz.de/medium/429bName: CHOCOLATE AGAR (DSMZ Medium 429b) Composition: Horse blood 100.0 g/l Sheep blood 100.0 g/l Columbia agar base
40244MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
116712CIP Medium 10yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=10
116712CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6
116712CIP Medium 85yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=85

culture temp

@refgrowthtypetemperaturerange
6039positivegrowth37mesophilic
40244positivegrowth37mesophilic
116712positivegrowth25-37mesophilic
116712nogrowth10psychrophilic
116712nogrowth41thermophilic
116712nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6039anaerobe
6039microaerophile
53634microaerophile
116712facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.994

halophily

  • @ref: 116712
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 6.5 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 2-ketogluconate-builds acid from
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-lyxose-builds acid from62318
68371xylitol-builds acid from17151
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
68371cellobiose-builds acid from17057
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-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
116712esculin+hydrolysis4853
116712hippurate-hydrolysis606565
116712nitrate-reduction17632
116712nitrite-reduction16301

metabolite tests

  • @ref: 116712
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

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
116712oxidase-
116712beta-galactosidase+3.2.1.23
116712alcohol dehydrogenase+1.1.1.1
116712catalase-1.11.1.6
116712gamma-glutamyltransferase-2.3.2.2
116712lysine decarboxylase-4.1.1.18
116712ornithine decarboxylase-4.1.1.17

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116712--++-+-----+---++---

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116712-----------+/-------------+/-+/--+/--------+/-+/--+/-+/--+/-----+/--+/-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcontinentcountryorigin.country
6039minke whale (Balaenoptera acutorostrata)Balaenoptera acutorostrataNorth west coastEurope
53634Minke whale (Balaenoptera acutorostrata)EuropeUnited KingdomGBR
116712Minke whale, Balaenoptera acutorostrataEuropeUnited KingdomGBR

isolation source categories

  • Cat1: #Host
  • Cat2: #Mammals
  • Cat3: #Aquatic mammal

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
6039yes, in single cases1Risk group (German classification)
1167121Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Granulicatella balaenopterae strain CCUG 37380 clone 1 16S-23S ribosomal RNA intergenic spacer, partial sequenceDQ204534208ena137733
20218Granulicatella balaenopterae strain CCUG 37380 16S-23S ribosomal RNA intergenic spacer, complete sequenceJQ012776204ena137733
6039Granulicatella balaenopterae 16S rRNA gene, strain CCUG 37380Y165471383ena137733

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Granulicatella balaenopterae DSM 15827GCA_900111135scaffoldncbi137733
66792Granulicatella balaenopterae strain DSM 15827137733.3wgspatric137733
66792Granulicatella balaenopterae DSM 158272684622850draftimg137733

GC content

  • @ref: 6039
  • GC-content: 37

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentyes79.25no
motileno95.46no
flagellatedno98.243no
gram-positiveyes89.696no
anaerobicno78.926no
aerobicno96.363yes
halophileyes84.644no
spore-formingno93.963no
thermophileno97.262no
glucose-utilyes88.099no

External links

@ref: 6039

culture collection no.: DSM 15827, ATCC 700813, CCUG 37380, CIP 105938

straininfo link

  • @ref: 71834
  • straininfo: 46256

literature

  • topic: Phylogeny
  • Pubmed-ID: 10319470
  • title: Abiotrophia balaenopterae sp. nov., isolated from the minke whale (Balaenoptera acutorostrata).
  • authors: Lawson PA, Foster G, Falsen E, Sjoden B, Collins MD
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-49-2-503
  • year: 1999
  • mesh: Animals, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Genes, rRNA, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Streptococcaceae/*classification/cytology/*genetics/isolation & purification, Whales/*microbiology
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6039Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15827)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15827
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
40244Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18013
53634Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37380)https://www.ccug.se/strain?id=37380
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
68371Automatically annotated from API 50CH acid
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
71834Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID46256.1StrainInfo: A central database for resolving microbial strain identifiers
116712Curators of the CIPCollection of Institut Pasteur (CIP 105938)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105938