Strain identifier

BacDive ID: 3162

Type strain: Yes

Species: Corynebacterium imitans

Strain history: CIP <- 1997, G. Funke, Zürich Univ., Switzerland: strain DMMZ 2023 <- A. Efstratiou

NCBI tax ID(s): 156978 (species)

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General

@ref: 11636

BacDive-ID: 3162

DSM-Number: 44264

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

description: Corynebacterium imitans LMG 19048 is an aerobe, mesophilic bacterium that was isolated from human throat.

NCBI tax id

  • NCBI tax id: 156978
  • Matching level: species

strain history

@refhistory
11636<- G. Funke, University Zürich, isolate DMMZ 2023 <- A. Efstratiou <- D. Kuklinska
67770CCUG 36877 <-- G. Funke DMMZ 2023 <-- A. Efstratiou.
120054CIP <- 1997, G. Funke, Zürich Univ., Switzerland: strain DMMZ 2023 <- A. Efstratiou

doi: 10.13145/bacdive3162.20230509.8.1

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 imitans
  • full scientific name: Corynebacterium imitans Funke et al. 1997

@ref: 11636

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium imitans

full scientific name: Corynebacterium imitans Funke et al. 1997 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no97.934
69480100positive
120054nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19642Ivory10-14 daysISP 2
19642Ivory10-14 daysISP 3
19642Beige10-14 daysISP 4
19642Beige10-14 daysISP 5
19642Beige10-14 daysISP 6
19642Beige10-14 daysISP 7
120054

multicellular morphology

@refforms multicellular complexmedium name
19642noISP 2
19642noISP 3
19642noISP 4
19642noISP 5
19642noISP 6
19642noISP 7

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11636TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
19642ISP 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
19642ISP 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:
19642ISP 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
19642ISP 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
19642ISP 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
19642ISP 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
41517MEDIUM 6 - Columbia agar with 10 % horse bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Horseblood (100.000 ml)
120054CIP Medium 6yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=6

culture temp

@refgrowthtypetemperaturerange
19642positiveoptimum37mesophilic
11636positivegrowth37mesophilic
41517positivegrowth37mesophilic
53465positivegrowth37mesophilic
67770positivegrowth37mesophilic
120054positivegrowth25-45
120054nogrowth10psychrophilic
120054nogrowth15psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
53465aerobe
120054facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

halophily

  • @ref: 120054
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

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
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
68371maltose+builds acid from17306
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
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
120054citrate-carbon source16947
120054esculin-hydrolysis4853
120054hippurate+hydrolysis606565
120054nitrate-reduction17632
120054nitrite-reduction16301
120054nitrate+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
68379glycogen-fermentation28087

metabolite production

  • @ref: 120054
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12005415688acetoin-
12005417234glucose-

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-
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68379gelatinase-
68379urease-3.5.1.5
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
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
120054oxidase-
120054beta-galactosidase-3.2.1.23
120054alcohol dehydrogenase-1.1.1.1
120054gelatinase-
120054amylase-
120054DNase-
120054caseinase-3.4.21.50
120054catalase+1.11.1.6
120054tween esterase-
120054gamma-glutamyltransferase+2.3.2.2
120054lecithinase-
120054lipase-
120054lysine decarboxylase-4.1.1.18
120054ornithine decarboxylase-4.1.1.17
120054phenylalanine ammonia-lyase-4.3.1.24
120054tryptophan deaminase-
120054urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
19642---+-------+---+---

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19642+++------++--------
120054+++-+----++---------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
120054+/----+-----+++--------++/-++++/-+---+---+/-+------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120054++--+-----++-------+----+-----------------------++-----------------+++-----+---++--------++++++-+--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
11636human throatPolandPOLEurope
53465Human nasopharynx,5-month-old boy
67770Human throatPolandPOLEurope
120054Human, NasopharynxPolandPOLEurope

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_1699.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_386;97_1125;98_1341;99_1699&stattab=map
  • Last taxonomy: Corynebacterium imitans
  • 16S sequence: Y09044
  • Sequence Identity:
  • Total samples: 8008
  • soil counts: 292
  • aquatic counts: 498
  • animal counts: 7138
  • plant counts: 80

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
116362Risk group (German classification)
196422Risk group (German classification)
1200542Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium imitans 16S ribosomal RNA gene, partial sequenceAY438058418ena156978
20218Corynebacterium imitans 16S rRNA gene, strain 2023Y090441472ena156978

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium imitans NCTC13015GCA_900187215completencbi156978
66792Corynebacterium imitans DSM 44264GCA_000739455completencbi156978
66792Corynebacterium imitans strain DSM 44264156978.3completepatric156978
66792Corynebacterium imitans strain NCTC13015156978.6completepatric156978
66792Corynebacterium imitans NCTC 130152773857867completeimg156978
66792Corynebacterium imitans DSM 442642597490159completeimg156978

GC content

@refGC-contentmethod
6777064.3genome sequence analysis
6777062high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno91.993no
flagellatedno96.927no
gram-positiveyes93.577no
anaerobicno99.045no
aerobicyes56.647yes
halophileyes77.494no
spore-formingno93.79no
thermophileno91.807no
glucose-utilyes81.936no
glucose-fermentno55.937no

External links

@ref: 11636

culture collection no.: LMG 19048, DSM 44264, CCUG 36877, IFO 16163, NBRC 100416, NBRC 16163, NCTC 13015, JCM 10386, ATCC 700354, CCM 4676, CIP 105130, DMMZ 2023

straininfo link

  • @ref: 72678
  • straininfo: 11587

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny9230366Corynebacterium imitans sp. nov. isolated from patients with suspected diphtheria.Funke G, Efstratiou A, Kuklinska D, Hutson RA, De Zoysa A, Engler KH, Collins MDJ Clin Microbiol10.1128/jcm.35.8.1978-1983.19971997Corynebacterium/*classification/genetics/isolation & purification/physiology, Diphtheria/*microbiology, Humans, Infant, Male, Molecular Sequence Data, Phylogeny, RNA, Bacterial/*analysis/genetics, RNA, Ribosomal, 16S/*analysis/genetics, Sequence Homology, Nucleic Acid, Species SpecificityPathogenicity
Genetics25414508Complete Genome Sequence of Corynebacterium imitans DSM 44264, Isolated from a Five-Month-Old Boy with Suspected Pharyngeal Diphtheria.Mollmann S, Albersmeier A, Ruckert C, Tauch AGenome Announc10.1128/genomeA.01210-142014Phylogeny
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
Phylogeny29148360Corynebacterium godavarianum sp. nov., isolated from the Godavari river, India.Jani K, Khare K, Senik S, Karodi P, Vemuluri VR, Bandal J, Shouche Y, Rale V, Sharma AInt J Syst Evol Microbiol10.1099/ijsem.0.0024912017Bacterial Typing Techniques, Base Composition, Corynebacterium/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Humans, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Religion, Rivers/*microbiology, Sequence Analysis, DNA, *Water MicrobiologyPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11636Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44264)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44264
19642Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44264.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
41517Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17116
53465Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 36877)https://www.ccug.se/strain?id=36877
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
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
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
72678Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID11587.1StrainInfo: A central database for resolving microbial strain identifiers
120054Curators of the CIPCollection of Institut Pasteur (CIP 105130)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105130