Strain identifier

BacDive ID: 14601

Type strain: Yes

Species: Staphylococcus coagulans

Strain Designation: GA211, GA 211

Strain history: CIP <- 1995, DSM <- JCM <- S. Igimi: strain GA 211

NCBI tax ID(s): 74706 (species)

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General

@ref: 2634

BacDive-ID: 14601

DSM-Number: 6628

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

description: Staphylococcus coagulans GA211 is an aerobe, Gram-positive human pathogen that was isolated from external auditory meatus of dog with external ear otitis.

NCBI tax id

  • NCBI tax id: 74706
  • Matching level: species

strain history

@refhistory
2634<- JCM <- S. Igimi, GA211
67770S. Igimi GA 211.
122510CIP <- 1995, DSM <- JCM <- S. Igimi: strain GA 211

doi: 10.13145/bacdive14601.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Caryophanales
  • family: Staphylococcaceae
  • genus: Staphylococcus
  • species: Staphylococcus coagulans
  • full scientific name: Staphylococcus coagulans (Igimi et al. 1990) Madhaiyan et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Staphylococcus schleiferi subsp. coagulans

@ref: 2634

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Caryophanales

family: Staphylococcaceae

genus: Staphylococcus

species: Staphylococcus coagulans

full scientific name: Staphylococcus coagulans (Igimi et al. 1990) Madhaiyan et al. 2020

strain designation: GA211, GA 211

type strain: yes

Morphology

cell morphology

  • @ref: 122510
  • gram stain: positive
  • cell shape: coccus-shaped
  • motility: no

colony morphology

  • @ref: 122510
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2634TRYPTICASE 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
41140MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
122510CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperature
2634positivegrowth37
41140positivegrowth37
53553positivegrowth37
67770positivegrowth37
122510positivegrowth15-45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
53553aerobe
122510facultative anaerobe

spore formation

  • @ref: 69481
  • spore formation: no
  • confidence: 100

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
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
122510nitrate+reduction17632
122510nitrite-reduction16301
68375urea+hydrolysis16199
68375arginine+hydrolysis29016
68375ornithine-degradation18257
68375esculin-hydrolysis4853
68375D-glucose+fermentation17634
68375D-fructose+fermentation15824
68375D-mannose+fermentation16024
68375maltose-fermentation17306
68375lactose-fermentation17716
68375trehalose-fermentation27082
68375D-mannitol-fermentation16899
68375raffinose-fermentation16634
68375D-ribose+fermentation16988
68375cellobiose-fermentation17057
68375nitrate+reduction17632
68375sucrose-fermentation17992
68375turanose-fermentation32528
68375arabinose-fermentation22599

metabolite production

@refChebi-IDmetaboliteproduction
6837515688acetoinyes
12251035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6837515688acetoin+
12251015688acetoin+

enzymes

@refvalueactivityec
68375beta-glucuronidase-3.2.1.31
68375L-arginine arylamidase-
68375beta-glucosidase-3.2.1.21
68375ornithine decarboxylase-4.1.1.17
68375arginine dihydrolase+3.5.3.6
68375urease+3.5.1.5
122510oxidase-
122510beta-galactosidase+3.2.1.23
122510alcohol dehydrogenase+1.1.1.1
122510gelatinase+/-
122510DNase+
122510catalase+1.11.1.6
122510coagulase+
122510lecithinase+
122510lysine decarboxylase-4.1.1.18
122510ornithine decarboxylase-4.1.1.17
122510urease+3.5.1.5

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122510+---+----++++--------+------+/---------------------

API ID32STA

@refUREADH ArgODCESCGLUFRUMNEMALLACTREMANRAFRIBCELNITVPbeta GALArgAPALPyrANOVOSACNAGTURARAbeta GUR
2634++--+++-----+-+++-+++-+---
2634++--+++-----+-++---+/---+---
2634++--+++-----+-+++-++------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2634external auditory meatus of dog with external ear otitis
53553Canine external ear otitisTokyo ?JapanJPNAsia
67770Canine external ear otitis
122510Animal, Dog, external ear otitis

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Mammals#Canidae (Dog)
#Host Body-Site#Organ#Ear

taxonmaps

  • @ref: 69479
  • File name: preview.99_1134.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_3;96_3;97_3;98_888;99_1134&stattab=map
  • Last taxonomy: Staphylococcus
  • 16S sequence: AB009945
  • Sequence Identity:
  • Total samples: 413
  • soil counts: 3
  • aquatic counts: 5
  • animal counts: 399
  • plant counts: 6

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
2634yesyes2Risk group (German classification)
1225101Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Staphylococcus schleiferi subsp. coagulans rrn gene for 16S ribosomal RNAAB0099451492nuccore74706
20218Staphylococcus schleiferi subsp. coagulans strain DSM 6628 16S ribosomal RNA gene, partial sequenceAY688091464nuccore74706
20218Staphylococcus schleiferi subsp. coagulans gene for 16S rRNA, partial sequence, strain: GTC 510AB2333341338nuccore74706

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Staphylococcus schleiferi subsp. coagulans strain DSM 662874706.5wgspatric74706
66792Staphylococcus schleiferi coagulans DSM 66282917424509draftimg74706
67770Staphylococcus coagulans DSM 6628GCA_002901995scaffoldncbi74706

GC content

@refGC-contentmethod
263435.0thermal denaturation, midpoint method (Tm)
6777035.8genome sequence analysis
6777035thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69481spore-formingspore-formingAbility to form endo- or exosporesno100no
69480gram-positivegram-positivePositive reaction to Gram-stainingyes86.202no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no98.29yes
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)yes52.458no
69480spore-formingspore-formingAbility to form endo- or exosporesno73.714no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94no
69480flagellatedmotile2+Ability to perform flagellated movementno84.525no

External links

@ref: 2634

culture collection no.: DSM 6628, ATCC 49545, CIP 104370, JCM 7470, CCUG 37248, CCM 4313, DSMZ 6628, GTC 510, LMG 22205

straininfo link

  • @ref: 83731
  • straininfo: 45226

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2634Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6628)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6628
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
41140Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16271
53553Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37248)https://www.ccug.se/strain?id=37248
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68375Automatically annotated from API ID32STA
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
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
83731Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45226.1StrainInfo: A central database for resolving microbial strain identifiers
122510Curators of the CIPCollection of Institut Pasteur (CIP 104370)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104370