Strain identifier

BacDive ID: 234

Type strain: Yes

Species: Globicatella sulfidifaciens

Strain history: CIP <- 2001, CCUG <- 1900, LMG

NCBI tax ID(s): 1121925 (strain), 136093 (species)

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General

@ref: 6091

BacDive-ID: 234

DSM-Number: 15739

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-variable, coccus-shaped, colony-forming, animal pathogen

description: Globicatella sulfidifaciens DSM 15739 is a microaerophile, mesophilic, Gram-variable animal pathogen that forms circular colonies and was isolated from cattle lung.

NCBI tax id

NCBI tax idMatching level
1121925strain
136093species

strain history

@refhistory
6091<- CCUG <- P. Vandamme, LMG <- L. Devriese <- J. Hommez
123381CIP <- 2001, CCUG <- 1900, LMG

doi: 10.13145/bacdive234.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Aerococcaceae
  • genus: Globicatella
  • species: Globicatella sulfidifaciens
  • full scientific name: Globicatella sulfidifaciens Vandamme et al. 2001

@ref: 6091

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Aerococcaceae

genus: Globicatella

species: Globicatella sulfidifaciens

full scientific name: Globicatella sulfidifaciens Vandamme et al. 2001

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
23374variablecoccus-shaped
69480no95.415
69480positive100
123381negativecoccus-shapedno

colony morphology

@reftype of hemolysishemolysis abilitycolony sizecolony colorcolony shapeincubation periodmedium used
23374alpha10.5-1.0 mmgrey whitecircular2 daysblood agar
1233811

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6091COLUMBIA 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
6091BHI MEDIUM (DSMZ Medium 215)yeshttps://mediadive.dsmz.de/medium/215Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
23374blood agaryes
33090MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
123381CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
123381CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
6091positivegrowth37mesophilic
23374positivegrowth25mesophilic
23374positiveoptimum37-42
33090positivegrowth37mesophilic
123381positivegrowth30-37mesophilic
123381nogrowth10psychrophilic
123381nogrowth25mesophilic
123381nogrowth41thermophilic
123381nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6091microaerophile
23374facultative anaerobe
123381microaerophile

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.983

halophily

@refsaltgrowthtested relationconcentration
23374NaClpositivemaximum6.5 %
123381NaClnogrowth6.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2337461993maltotriose-builds acid from
2337429864mannitol-builds acid from
2337437657methyl D-glucoside-builds acid from
2337433942ribose-builds acid from
2337415443inulin+builds acid from
2337417234glucose+fermentation
2337417295L-phenylalanine+hydrolysis
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
1233814853esculin-hydrolysis
123381606565hippurate+hydrolysis
12338117632nitrate-reduction
12338116301nitrite-reduction

antibiotic resistance

@refChEBImetaboliteis antibioticis sensitive
233743745clindamycinyesno
2337448923erythromycinyesno
233746472lincomycinyesno
233747507neomycinyesno

metabolite production

@refChebi-IDmetaboliteproduction
2337416136hydrogen sulfideyes
12338135581indoleno

metabolite tests

  • @ref: 123381
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
23374catalase-1.11.1.6
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
123381oxidase-
123381beta-galactosidase+3.2.1.23
123381alcohol dehydrogenase-1.1.1.1
123381catalase+1.11.1.6
123381gamma-glutamyltransferase-2.3.2.2
123381lysine decarboxylase-4.1.1.18
123381ornithine decarboxylase-4.1.1.17
123381urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123381--++-------+--++----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123381----------------------+/-+/-+/-------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
6091cattle lungBelgiumBELEurope
56278Cattle lungBelgiumBELEuropeTorhout
123381Animal, Cattle, lungBelgiumBELEurope

isolation source categories

Cat1Cat2Cat3
#Host#Mammals#Bovinae (Cow, Cattle)
#Host Body-Site#Oral cavity and airways#Lung

taxonmaps

  • @ref: 69479
  • File name: preview.99_1021.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_178;96_586;97_685;98_797;99_1021&stattab=map
  • Last taxonomy: Globicatella
  • 16S sequence: AJ297627
  • Sequence Identity:
  • Total samples: 34050
  • soil counts: 2839
  • aquatic counts: 2884
  • animal counts: 27100
  • plant counts: 1227

Safety information

risk assessment

@refpathogenicity animalbiosafety levelbiosafety level comment
6091yes2Risk group (German classification)
1233811Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6091
  • description: Globicatella sulfidofaciens 16S rRNA gene
  • accession: AJ297627
  • length: 1490
  • database: ena
  • NCBI tax ID: 136093

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Globicatella sulfidifaciens DSM 15739GCA_900167405scaffoldncbi1121925
66792Globicatella sulfidifaciens DSM 15739 strain DSM 157391121925.5wgspatric1121925
66792Globicatella sulfidifaciens DSM 157392524614644draftimg1121925

GC content

@refGC-contentmethod
609135.8
2337435.8thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes51no
motileno96.135no
flagellatedno97.226no
gram-positiveyes92.155yes
anaerobicno93.303yes
aerobicno92.027no
halophileyes78.83no
spore-formingno90.44no
thermophileno95.678yes
glucose-utilyes89.165no
glucose-fermentyes72.143no

External links

@ref: 6091

culture collection no.: DSM 15739, CCUG 44365, CIP 107175, LMG 18844, GEM 604

straininfo link

  • @ref: 69917
  • straininfo: 12460

literature

  • topic: Phylogeny
  • Pubmed-ID: 11594605
  • title: Globicatella sulfidifaciens sp. nov., isolated from purulent infections in domestic animals.
  • authors: Vandamme P, Hommez J, Snauwaert C, Hoste B, Cleenwerck I, Lefebvre K, Vancanneyt M, Swings J, Devriese LA, Haesebrouck F
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-5-1745
  • year: 2001
  • mesh: Animals, *Animals, Domestic, Bacteria/*classification/isolation & purification/metabolism, Bacterial Infections/microbiology/*veterinary, Bacterial Proteins/chemistry, Base Composition, Cattle, Cattle Diseases/microbiology, DNA, Ribosomal/analysis, Humans, Joint Diseases/microbiology/*veterinary, Lung Diseases/microbiology/*veterinary, Molecular Sequence Data, Nucleic Acid Hybridization, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sheep, Sheep Diseases/microbiology, Suppuration/*microbiology, Swine, Swine Diseases/microbiology
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6091Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15739)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15739
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
23374P Vandamme, J Hommez, C Snauwaert, B Hoste, I Cleenwerck, K Lefebvre, M Vancanneyt, J Swings, L A Devriese, F Haesebrouck10.1099/00207713-51-5-1745Globicatella sulfidifaciens sp. nov., isolated from purulent infections in domestic animals.IJSEM 51: 1745-1749 200111594605
33090Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4581
56278Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 44365)https://www.ccug.se/strain?id=44365
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
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
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)
69917Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12460.1StrainInfo: A central database for resolving microbial strain identifiers
123381Curators of the CIPCollection of Institut Pasteur (CIP 107175)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107175