Strain identifier

BacDive ID: 3153

Type strain: Yes

Species: Corynebacterium diphtheriae

Strain Designation: C7s, C7 s (-) tox-

Strain history: CIP <- 1984, ATCC <- L. Barksdale, New-York, USA: strain New-York, C7s

NCBI tax ID(s): 1717 (species)

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General

@ref: 11482

BacDive-ID: 3153

DSM-Number: 44123

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic

description: Corynebacterium diphtheriae C7s is an obligate aerobe, mesophilic bacterium of the family Corynebacteriaceae.

NCBI tax id

  • NCBI tax id: 1717
  • Matching level: species

strain history

@refhistory
11482<- P. Kämpfer, TU Berlin, Fachgebiet Hygiene; <- NCTC; NCTC 11397 <- ATCC; ATCC 27010 <- L. Barksdale; C7 s (-) tox-
118942CIP <- 1984, ATCC <- L. Barksdale, New-York, USA: strain New-York, C7s

doi: 10.13145/bacdive3153.20230509.8.1

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 diphtheriae
  • full scientific name: Corynebacterium diphtheriae (Kruse 1886) Lehmann and Neumann 1896 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Bacillus diphtheriae

@ref: 11482

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium diphtheriae subsp. diphtheriae

full scientific name: Corynebacterium diphtheriae subsp. diphtheriae (Kruse 1886) Tagini et al. 2019

strain designation: C7s, C7 s (-) tox-

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no94.707
69480100positive
118942nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19631Brown beige10-14 daysISP 2
19631Brown beige10-14 daysISP 3
19631Brown beige10-14 daysISP 4
19631Beige10-14 daysISP 5
19631Beige10-14 daysISP 6
19631Brown beige10-14 daysISP 7

multicellular morphology

@refmedium nameforms multicellular complex
19631ISP 2
19631ISP 3no
19631ISP 4no
19631ISP 5no
19631ISP 6no
19631ISP 7no

multimedia

@refmultimedia contentintellectual property rightscaption
11482https://www.dsmz.de/microorganisms/photos/DSM_44123-1.jpg© Leibniz-Institut DSMZ
11482https://www.dsmz.de/microorganisms/photos/DSM_44123-2.jpg© Leibniz-Institut DSMZ
11482https://www.dsmz.de/microorganisms/photos/DSM_44123.jpg© Leibniz-Institut DSMZMedium 535a 37°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11482COLUMBIA 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
19631ISP 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
19631ISP 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:
19631ISP 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
19631ISP 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
19631ISP 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
19631ISP 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
37677MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
11482TRYPTICASE 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
118942CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3
118942CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
19631positiveoptimum37mesophilic
11482positivegrowth37mesophilic
37677positivegrowth37mesophilic
118942positivegrowth37mesophilic
118942nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118942
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
19631no
69481no99
69480no99.99

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11894217632nitrate+reduction
11894216301nitrite-reduction
11894217632nitrate+respiration
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917716lactose-fermentation
6837928087glycogen-fermentation

metabolite production

  • @ref: 118942
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 118942
  • 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
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
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
68379N-acetyl-beta-glucosaminidase-3.2.1.52
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
118942oxidase-
118942beta-galactosidase-3.2.1.23
118942gelatinase-
118942amylase+
118942DNase+
118942catalase+1.11.1.6
118942tween esterase-
118942lecithinase-
118942phenylalanine ammonia-lyase-4.3.1.24
118942urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYGControlCAT
19631-----------------+-
11482+-----+----++--+----+
11482+-----+----++/---+----+
53924+-----+----++--+----+

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19631-++-+--------------
53924-++------++---+-----
118942-++-+----+----+-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118942++--+----+---------+-----------+-----------------+-----------------------------++------------------

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinent
11482New YorkUSAUSANorth America
53924New York ?USAUSANorth America

taxonmaps

  • @ref: 69479
  • File name: preview.99_132.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_101;97_108;98_117;99_132&stattab=map
  • Last taxonomy: Corynebacterium diphtheriae
  • 16S sequence: X82059
  • Sequence Identity:
  • Total samples: 39115
  • soil counts: 3296
  • aquatic counts: 4794
  • animal counts: 29947
  • plant counts: 1078

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
114822Risk group (German classification)
196312Risk group (German classification)
1189422Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium diphtheriae strain ATCC 27010 16S ribosomal RNA gene, partial sequenceGQ1183411441ena1717
20218C.diphtheriae 16S ribosomal DNAX820591391ena1717
20218Corynebacterium diphtheriae 16S rRNA gene, strain NCTC 11397X842481485ena1717

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium diphtheriae NCTC11397GCA_001457455completencbi1717
66792Corynebacterium diphtheriae bv. gravis DSM 44123GCA_001913265contigncbi1720349
66792Corynebacterium diphtheriae bv. gravis strain DSM 441231720349.3wgspatric1720349
66792Corynebacterium diphtheriae strain NCTC113971717.62completepatric1717
66792Corynebacterium diphtheriae NCTC113972660238345completeimg1717
66792Corynebacterium diphtheriae bv. gravis DSM 441232916404855draftimg1720349
66792Corynebacterium diphtheriae NCTC11397GCA_902809765completencbi1717
66792Corynebacterium diphtheriae subsp. diphtheriae strain FDAARGOS_15542315257.4completepatric2315257
66792Corynebacterium diphtheriae subsp. diphtheriae strain FDAARGOS_15542315257.3completepatric2315257
66792Corynebacterium diphtheriae strain NCTC113971717.769completepatric1717

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno99no
flagellatedno97.67no
gram-positiveyes92.877no
anaerobicno97.217no
aerobicno84.522no
halophileyes66.026no
spore-formingno94.119yes
glucose-utilyes88.43no
motileno95.21no
thermophileno92.685yes
glucose-fermentyes80.049no

External links

@ref: 11482

culture collection no.: DSM 44123, ATCC 27010, CIP 100721, NCTC 11397, CCUG 37874

straininfo link

  • @ref: 72669
  • straininfo: 38751

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21742447Strain-dependent arthritogenic potential of the zoonotic pathogen Corynebacterium ulcerans.Dias AA, Silva FC Jr, Santos LS, Ribeiro-Carvalho MM, Sabbadini PS, Santos CS, Filardy AA, Myioshi A, Azevedo VA, Hirata R Jr, Villas-Boas MH, Mattos-Guaraldi ALVet Microbiol10.1016/j.vetmic.2011.06.0072011Animals, Arthritis, Infectious/*microbiology/pathology, Bacterial Load, Corynebacterium/immunology/*physiology, Corynebacterium Infections/immunology/*microbiology/*pathology, Corynebacterium diphtheriae/physiology, Cytokines/metabolism, Disease Models, Animal, Female, Male, Mice, Species Specificity, Time FactorsMetabolism
Phylogeny27902402Pathogenic properties of a Corynebacterium diphtheriae strain isolated from a case of osteomyelitis.Peixoto RS, Hacker E, Antunes CA, Weerasekera D, Dias AA, Martins CA, Hirata R Jr, Santos KRND, Burkovski A, Mattos-Guaraldi ALJ Med Microbiol10.1099/jmm.0.0003622016Adult, Animals, Caenorhabditis elegans, Corynebacterium diphtheriae/classification/genetics/*isolation & purification/*pathogenicity, Epithelial Cells/microbiology, Female, Humans, Macrophages/microbiology, Male, Mice, Osteomyelitis/*microbiology, RAW 264.7 Cells, VirulencePathogenicity
Phylogeny28950931Corynebacterium gottingense sp. nov., isolated from a clinical patient.Atasayar E, Zimmermann O, Sproer C, Schumann P, Gross UInt J Syst Evol Microbiol10.1099/ijsem.0.0023222017Bacterial Typing Techniques, Base Composition, Blood/*microbiology, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Germany, Humans, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAPathogenicity
Phylogeny30174653Distinct Genomic Features Characterize Two Clades of Corynebacterium diphtheriae: Proposal of Corynebacterium diphtheriae Subsp. diphtheriae Subsp. nov. and Corynebacterium diphtheriae Subsp. lausannense Subsp. nov.Tagini F, Pillonel T, Croxatto A, Bertelli C, Koutsokera A, Lovis A, Greub GFront Microbiol10.3389/fmicb.2018.017432018
Phylogeny30355399Taxonomic status of Corynebacterium diphtheriae biovar Belfanti and proposal of Corynebacterium belfantii sp. nov.Dazas M, Badell E, Carmi-Leroy A, Criscuolo A, Brisse SInt J Syst Evol Microbiol10.1099/ijsem.0.0030692018Bacterial Typing Techniques, Base Composition, Corynebacterium diphtheriae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, France, Genes, Bacterial, Humans, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Respiratory System/*microbiology, Sequence Analysis, DNA, Vitamin K 2/chemistryPathogenicity
Phylogeny32119905Corynebacterium rouxii sp. nov., a novel member of the diphtheriae species complex.Badell E, Hennart M, Rodrigues C, Passet V, Dazas M, Panunzi L, Bouchez V, Carmi-Leroy A, Toubiana J, Brisse SRes Microbiol10.1016/j.resmic.2020.02.0032020Bacterial Typing Techniques, Corynebacterium/chemistry/*classification/genetics, Corynebacterium Infections/microbiology, Corynebacterium diphtheriae/chemistry/*classification/genetics, Humans, Phylogeny, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization, Whole Genome SequencingPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11482Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44123)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44123
19631Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44123.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
37677Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/12217
53924Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 37874)https://www.ccug.se/strain?id=37874
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)
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
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
72669Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID38751.1StrainInfo: A central database for resolving microbial strain identifiers
118942Curators of the CIPCollection of Institut Pasteur (CIP 100721)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20100721