Strain identifier

BacDive ID: 3164

Type strain: Yes

Species: Corynebacterium thomssenii

Strain Designation: 96-649, Tho 218/95

Strain history: CIP <- 1998, O. Zimmermann, Göttingen Univ., Göttingen, Germany <- E. Fuchs

NCBI tax ID(s): 62629 (species)

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General

@ref: 11642

BacDive-ID: 3164

DSM-Number: 44276

keywords: 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive

description: Corynebacterium thomssenii 96-649 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from pleural effusion.

NCBI tax id

  • NCBI tax id: 62629
  • Matching level: species

strain history

@refhistory
11642<- O. Zimmermann, Univ. Göttingen, Tho 218/95 <- E. Fuchs, Hospital Nordhausen
67770CCUG 38516 <-- G. Funke DMMZ 3081.
123532CIP <- 1998, O. Zimmermann, Göttingen Univ., Göttingen, Germany <- E. Fuchs

doi: 10.13145/bacdive3164.20241212.9.2

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 thomssenii
  • full scientific name: Corynebacterium thomssenii Zimmermann et al. 1998

@ref: 11642

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium thomssenii

full scientific name: Corynebacterium thomssenii Zimmermann et al. 1998

strain designation: 96-649, Tho 218/95

type strain: yes

Morphology

cell morphology

@refgram stainmotilitycell shape
23174positiveno
123532positivenorod-shaped

colony morphology

@refcolony colorincubation periodmedium usedcolony sizecolony shape
20038Colorless10-14 daysISP 2
20038Colorless10-14 daysISP 3
20038Colorless10-14 daysISP 4
20038Colorless10-14 daysISP 5
20038Colorless10-14 daysISP 6
20038Colorless10-14 daysISP 7
23174whitish1 dayColumbia agar with 5% sheep blood<0.5 mmcircular
543042-3 days
123532

multicellular morphology

@refmedium nameforms multicellular complex
20038ISP 2
20038ISP 3no
20038ISP 4no
20038ISP 5no
20038ISP 6no
20038ISP 7no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11642TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a)yeshttps://mediadive.dsmz.de/medium/535aName: TRYPTICASE SOY BROTH AGAR+BLOOD (DSMZ Medium 535a) Composition: None 50.0 g/l Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
11642BHI 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
20038ISP 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
20038ISP 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:
20038ISP 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
20038ISP 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
20038ISP 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
20038ISP 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
23174Columbia agar with 5% sheep bloodyes
40206MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
123532CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperature
20038positiveoptimum37
11642positivegrowth37
23174positivegrowth37
40206positivegrowth37
54304positivegrowth37
67770positivegrowth37
123532positivegrowth30-37
123532nogrowth10
123532nogrowth15
123532nogrowth25
123532nogrowth41
123532nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23174aerobe
54304microaerophile
123532facultative anaerobe

spore formation

@refspore formation
20038no
23174no

halophily

@refsaltgrowthtested relationconcentration
123532NaClpositivegrowth0-8 %
123532NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: MK-8(H2), MK-9(H2), MK-10(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23174168082-dehydro-D-gluconate-builds acid from
2317415963ribitol-builds acid from
2317427613amygdalin-builds acid from
2317422599arabinose-builds acid from
2317418305arbutin-builds acid from
2317417057cellobiose-builds acid from
2317462318D-lyxose-builds acid from
2317416634raffinose-builds acid from
2317416813galactitol-builds acid from
2317417113erythritol-builds acid from
2317428066gentiobiose-builds acid from
2317424265gluconate-builds acid from
2317414336glycerol 1-phosphate-builds acid from
2317428087glycogen-builds acid from
2317417268myo-inositol-builds acid from
2317415443inulin-builds acid from
2317418403L-arabitol-builds acid from
2317417266L-sorbose-builds acid from
2317429864mannitol-builds acid from
231746731melezitose-builds acid from
2317428053melibiose-builds acid from
23174320061methyl alpha-D-glucopyranoside-builds acid from
2317443943methyl alpha-D-mannoside-builds acid from
2317474863methyl beta-D-xylopyranoside-builds acid from
2317426546rhamnose-builds acid from
2317417814salicin-builds acid from
2317430911sorbitol-builds acid from
2317417151xylitol-builds acid from
2317418222xylose-builds acid from
231744853esculin-hydrolysis
2317418186tyrosine-hydrolysis
2317417632nitrate-reduction
23174174265-dehydro-D-gluconate+builds acid from
2317415824D-fructose+builds acid from
2317416024D-mannose+builds acid from
2317417234glucose+builds acid from
2317417306maltose+builds acid from
2317417992sucrose+builds acid from
2317427082trehalose+builds acid from
2317416199urea+hydrolysis
6837928087glycogen-fermentation
6837917992sucrose-fermentation
6837917716lactose-fermentation
6837917306maltose+fermentation
6837916899D-mannitol-fermentation
6837965327D-xylose-fermentation
6837916988D-ribose-fermentation
683795291gelatin-hydrolysis
6837916199urea+hydrolysis
683794853esculin-hydrolysis
1235324853esculin-hydrolysis
123532606565hippurate-hydrolysis
12353217632nitrate-reduction
12353216301nitrite-reduction
12353217632nitrate+respiration
68371Potassium 5-ketogluconate+builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837917634D-glucose+fermentation
6837917632nitrate-reduction
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
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin+builds acid from
6837159640N-acetylglucosamine-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
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

antibiotic resistance

  • @ref: 123532
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

  • @ref: 123532
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
12353215688acetoin-
12353217234glucose-

enzymes

@refvalueactivityec
23174acid phosphatase+3.1.3.2
23174alkaline phosphatase+3.1.3.1
23174alpha-fucosidase-3.2.1.51
23174alpha-galactosidase-3.2.1.22
23174alpha-glucosidase-3.2.1.20
23174alpha-mannosidase-3.2.1.24
23174beta-glucosidase-3.2.1.21
23174beta-glucuronidase-3.2.1.31
23174catalase+1.11.1.6
23174chymotrypsin-3.4.4.5
23174cystine arylamidase+3.4.11.3
23174esterase+
23174esterase lipase (C 8)+
23174leucine arylamidase+3.4.11.1
23174lipase (C 14)-
23174N-acetyl-beta-glucosaminidase+3.2.1.52
23174pyrazinamidase+3.5.1.B15
23174valine arylamidase-
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
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382leucine arylamidase+3.4.11.1
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
123532oxidase-
123532beta-galactosidase-3.2.1.23
123532alcohol dehydrogenase-1.1.1.1
123532gelatinase-
123532amylase+
123532DNase+
123532caseinase-3.4.21.50
123532catalase+1.11.1.6
123532tween esterase-
123532gamma-glutamyltransferase-2.3.2.2
123532lecithinase-
123532lipase-
123532lysine decarboxylase-4.1.1.18
123532ornithine decarboxylase-4.1.1.17
123532phenylalanine ammonia-lyase-4.3.1.24
123532protease-
123532tryptophan deaminase-
123532urease+3.5.1.5
68379urease+3.5.1.5
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68379beta-glucuronidase-3.2.1.31
68379alkaline phosphatase+3.1.3.1
68382esterase lipase (C 8)+
68379gelatinase-
68379beta-glucosidase-3.2.1.21
68379beta-galactosidase-3.2.1.23
68379pyrrolidonyl arylamidase-3.4.19.3
68379pyrazinamidase-3.5.1.B15

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYG
20038---+-----+-+---+---

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
20038++++++---++--------
123532+++-+-+--++---------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123532----------+++-----------+--+--+/-+/----+/----+--------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123532++-----++++----------------------------------------------------------------+----------+-------+-+--

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
11642pleural effusionNordhausenGermanyDEUEurope
23174human clinical specimens with as-yet-unknown pathogenicityLaboratory of Clinical Microbiology at the Südharz-Krankenhaus of Nordhausen1995
54304Human pleural fluids,56-yr-old man,renal failureNordhausenGermanyDEUEurope1995
67770Pleural fluid of a 56-year-old manNordhausenGermanyDEUEurope
123532Human, Pleural fluidNordhausenGermanyDEUEurope1995

isolation source categories

Cat1Cat2Cat3
#Infection#Medical environment#Clinic
#Infection#Patient#Specimen
#Host#Human

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
116422Risk group (German classification)
200382German classification
1235322Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium thomssenii 16S ribosomal RNA gene, partial sequenceAY438064418nuccore62629
23174Corynebacterium thomssenii 16S ribosomal RNA gene, partial sequenceAF0104741472nuccore62629

External links

@ref: 11642

culture collection no.: DSM 44276, CCUG 38516, JCM 12109, CIP 105597

straininfo link

  • @ref: 72680
  • straininfo: 13116

literature

  • topic: Phylogeny
  • Pubmed-ID: 9731289
  • title: Corynebacterium thomssenii sp. nov., a Corynebacterium with N-acetyl-beta-glucosaminidase activity from human clinical specimens.
  • authors: Zimmermann O, Sproer C, Kroppenstedt RM, Fuchs E, Kochel HG, Funke G
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-48-2-489
  • year: 1998
  • mesh: Acetylglucosaminidase/*metabolism, Base Sequence, Corynebacterium/*classification/enzymology/genetics, Corynebacterium Infections/*microbiology, DNA, Bacterial, Humans, Male, Middle Aged, Molecular Sequence Data, Phylogeny
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11642Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44276)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44276
20038Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM44276.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
23174Ortrud Zimmermann, Cathrin Spröer, Reiner M. Kroppenstedt, Erika Fuchs, Heinrich G. Köchel, Guido Funke10.1099/00207713-48-2-489Corynebacterium thomssenii sp. nov., a Corynebacterium with N/acetyl-beta-glucosaminidase activity from human clinical specimensIJSEM 48: 489-494 19989731289
40206Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17634
54304Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 38516)https://www.ccug.se/strain?id=38516
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
72680Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13116.1StrainInfo: A central database for resolving microbial strain identifiers
123532Curators of the CIPCollection of Institut Pasteur (CIP 105597)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105597