Strain identifier

BacDive ID: 3147

Type strain: Yes

Species: Corynebacterium ulcerans

Strain Designation: 20184

Strain history: CIP <- 2000, CCUG <- NCTC, London, UK <- W.H.H. Jebb, PHLS, Oxford, UK: strain 20184

NCBI tax ID(s): 65058 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 12523

BacDive-ID: 3147

DSM-Number: 46325

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

description: Corynebacterium ulcerans 20184 is a microaerophile, mesophilic, Gram-positive human pathogen that was isolated from human throat.

NCBI tax id

  • NCBI tax id: 65058
  • Matching level: species

strain history

@refhistory
12523<- IMET; IMET 11148 <- CCUG; CCUG 2708 <- NCTC; NCTC 7910 <- W.H.H. Jebb;
67770CCUG 2708 <-- NCTC 7910 <-- W. H. H. Jebb.
123709CIP <- 2000, CCUG <- NCTC, London, UK <- W.H.H. Jebb, PHLS, Oxford, UK: strain 20184

doi: 10.13145/bacdive3147.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/actinomycetota
  • domain: Bacteria
  • phylum: Actinomycetota
  • class: Actinomycetes
  • order: Mycobacteriales
  • family: Corynebacteriaceae
  • genus: Corynebacterium
  • species: Corynebacterium ulcerans
  • full scientific name: Corynebacterium ulcerans (ex Gilbert and Stewart 1927) Riegel et al. 1995

@ref: 12523

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium ulcerans

full scientific name: Corynebacterium ulcerans (ex Gilbert and Stewart 1927) Riegel et al. 1995

strain designation: 20184

type strain: yes

Morphology

cell morphology

  • @ref: 123709
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

@refcolony colorincubation periodmedium used
19720Ivory10-14 daysISP 2
19720Ivory10-14 daysISP 3
19720Ivory10-14 daysISP 4
19720Ivory10-14 daysISP 5
19720Ivory10-14 daysISP 6
19720Ivory10-14 daysISP 7
123709

multicellular morphology

@refforms multicellular complexmedium name
19720noISP 2
19720noISP 3
19720noISP 4
19720noISP 5
19720noISP 6
19720noISP 7

multimedia

  • @ref: 12523
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_46325.jpg
  • caption: Medium 693 37°C
  • intellectual property rights: Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12523COLUMBIA 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
19720ISP 2yesName: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
19720ISP 3yesName: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
19720ISP 4yesName: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
19720ISP 5yesName: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
19720ISP 6yesName: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
19720ISP 7yesName: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
39544MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
12523TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
123709CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
19720positiveoptimum37mesophilic
12523positivegrowth37mesophilic
39544positivegrowth37mesophilic
44579positivegrowth37mesophilic
67770positivegrowth37mesophilic
123709positivegrowth25-41
123709nogrowth10psychrophilic
123709nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
44579microaerophile
123709facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
123709NaClpositivegrowth0-2 %
123709NaClnogrowth4 %
123709NaClnogrowth6 %
123709NaClnogrowth8 %
123709NaClnogrowth10 %

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
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
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
123709citrate-carbon source16947
123709esculin-hydrolysis4853
123709hippurate-hydrolysis606565
123709nitrate-reduction17632
123709nitrite-reduction16301
123709nitrate+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

metabolite production

  • @ref: 123709
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12370915688acetoin-
12370917234glucose+

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
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
68379catalase+1.11.1.6
68379gelatinase-
68379urease+3.5.1.5
68379beta-glucosidase-3.2.1.21
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
123709oxidase-
123709beta-galactosidase-3.2.1.23
123709alcohol dehydrogenase-1.1.1.1
123709gelatinase-
123709amylase-
123709DNase-
123709caseinase-3.4.21.50
123709catalase+1.11.1.6
123709tween esterase-
123709gamma-glutamyltransferase-2.3.2.2
123709lecithinase-
123709lipase-
123709lysine decarboxylase-4.1.1.18
123709ornithine decarboxylase-4.1.1.17
123709phenylalanine ammonia-lyase-4.3.1.24
123709protease-
123709tryptophan deaminase-
123709urease+3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYGControlCAT
19720---+-----+-++--+--+
12523---+--++-+-++--+--+-+
12523---+--+--+-++--+--+/--+

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19720+++-+----++---+----
123709+++-+--+-++---+-----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123709+---+----+/-+++--------+-----+---+/----++------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123709++--+----+---------+-----------+-----------------+---------+------------++-+---++-----+--++---+----

Isolation, sampling and environmental information

isolation

@refsample typesampling datecountryorigin.countrycontinentisolation date
12523human throat
44579Human throat1948
67770Human throatUnited KingdomGBREurope
123709Human, ThroatUnited KingdomGBREurope1948

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Oral cavity and airways#Throat

taxonmaps

  • @ref: 69479
  • File name: preview.99_248.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_101;97_108;98_117;99_248&stattab=map
  • Last taxonomy: Corynebacterium
  • 16S sequence: X84256
  • Sequence Identity:
  • Total samples: 30067
  • soil counts: 2353
  • aquatic counts: 2458
  • animal counts: 24362
  • plant counts: 894

Safety information

risk assessment

@refpathogenicity humanpathogenicity animalbiosafety levelbiosafety level comment
12523yesyes2Risk group (German classification)
197202Risk group (German classification)
1237092Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium ulcerans strain ATCC 51799 16S ribosomal RNA gene, partial sequenceGQ1183451442ena65058
20218C.ulcerans 16S rRNA gene (CCUG 2708)X819111395ena1717
20218Corynebacterium ulcerans 16S ribosomal RNA gene, partial sequenceAY438065418ena65058
20218Corynebacterium ulcerans 16S rRNA gene, strain NCTC 7910X842561490ena65058

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium ulcerans NCTC7910GCA_900187135completencbi65058
66792Corynebacterium ulcerans strain FDAARGOS_111865058.478completepatric65058
66792Corynebacterium ulcerans strain NCTC791065058.133completepatric65058
66792Corynebacterium ulcerans NCTC 79102848159128completeimg65058

GC content

@refGC-contentmethod
6777053.2thermal denaturation, midpoint method (Tm)
6777053

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno94.009no
flagellatedno97.124no
gram-positiveyes93.814no
anaerobicno98.89yes
aerobicno80.867yes
halophileyes73.797no
spore-formingno92.658no
thermophileno93.661yes
glucose-utilyes87.887no
glucose-fermentyes72.888no

External links

@ref: 12523

culture collection no.: ATCC 51799, LMG 19058, DSM 46325, CCUG 2708, IMET 11148, NCTC 7910, PCM 554, JCM 10387, CIP 106504

straininfo link

  • @ref: 72663
  • straininfo: 12977

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny7729671Taxonomy of Corynebacterium diphtheriae and related taxa, with recognition of Corynebacterium ulcerans sp. nov. nom. rev.Riegel P, Ruimy R, de Briel D, Prevost G, Jehl F, Christen R, Monteil HFEMS Microbiol Lett10.1111/j.1574-6968.1995.tb07429.x1995Base Composition, Carbohydrate Metabolism, Corynebacterium/*classification/genetics/metabolism, Corynebacterium diphtheriae/*classification/genetics/metabolism, Corynebacterium pseudotuberculosis/classification/genetics/metabolism, DNA, Bacterial/analysis, Energy Metabolism, Molecular Sequence Data, Nitrates/metabolism, PhylogenyMetabolism
Phylogeny31310200Classification of three corynebacterial strains isolated from the Northern Bald Ibis (Geronticus eremita): proposal of Corynebacterium choanae sp. nov., Corynebacterium pseudopelargi sp. nov., and Corynebacterium gerontici sp. nov.Busse HJ, Kleinhagauer T, Glaeser SP, Spergser J, Kampfer P, Ruckert CInt J Syst Evol Microbiol10.1099/ijsem.0.0035802019Animals, Bacterial Typing Techniques, Base Composition, Birds/*microbiology, Corynebacterium/*classification/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Genes, Bacterial, Nasal Cavity/*microbiology, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12523Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 46325)https://www.dsmz.de/collection/catalogue/details/culture/DSM-46325
19720Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM46325.pdfCompendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig
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
39544Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18641
44579Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 2708)https://www.ccug.se/strain?id=2708
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
68379Automatically annotated from API Coryne
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
72663Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12977.1StrainInfo: A central database for resolving microbial strain identifiers
123709Curators of the CIPCollection of Institut Pasteur (CIP 106504)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106504