Strain identifier

BacDive ID: 3221

Type strain: Yes

Species: Corynebacterium tuberculostearicum

Strain Designation: LDC-20

Strain history: CIP <- 2001, CCUG <- 1901, J. Tang, ATCC, Manassas, USA <- W.L. Barksdale <- C. Reich

NCBI tax ID(s): 38304 (species)

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General

@ref: 12195

BacDive-ID: 3221

DSM-Number: 44922

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-positive, rod-shaped, colony-forming

description: Corynebacterium tuberculostearicum LDC-20 is an aerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from human bone marrow .

NCBI tax id

  • NCBI tax id: 38304
  • Matching level: species

strain history

@refhistory
12195<- E. Falsen, CCUG; <- ATCC; ATCC 35692 <- W. L. Barksdale;
67770CCUG 45418 <-- W. L. Barksdale strain Medalle X <-- C. Reich.
123677CIP <- 2001, CCUG <- 1901, J. Tang, ATCC, Manassas, USA <- W.L. Barksdale <- C. Reich

doi: 10.13145/bacdive3221.20230509.8.1

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 tuberculostearicum
  • full scientific name: Corynebacterium tuberculostearicum Feurer et al. 2004

  • synonyms

    • @ref: 20215
    • synonym: Corynebacterium tuberculostearicum

@ref: 12195

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium tuberculostearicum

full scientific name: Corynebacterium tuberculostearicum Feurer et al. 2004

strain designation: LDC-20

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotility
23202positiverod-shapedno
123677positiverod-shapedno

colony morphology

@refcolony sizecolony shapemedium used
232021 mmcirculartrypto casein soy agar supplemented with Tween 80
123677

multimedia

@refmultimedia contentintellectual property rightscaption
12195https://www.dsmz.de/microorganisms/photos/DSM_44922-1.jpg© Leibniz-Institut DSMZ
12195https://www.dsmz.de/microorganisms/photos/DSM_44922.jpg© Leibniz-Institut DSMZMedium 693 37°C

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
12195COLUMBIA 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
12195TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
23202trypto casein soy agar supplemented with Tween 80yes
33758MEDIUM 355 - for Corynebacterium genitaliumyesDistilled water make up to (1000.000 ml);Tween 80 (1.000 ml);Trypto casein soy agar (40.000 g)
123677CIP Medium 355yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=355

culture temp

@refgrowthtypetemperaturerange
12195positivegrowth37mesophilic
33758positivegrowth37mesophilic
67770positivegrowth37mesophilic
123677positivegrowth25-41
123677nogrowth10psychrophilic
123677nogrowth15psychrophilic
123677nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23202aerobe
23202facultative anaerobe
123677microaerophile

spore formation

  • @ref: 23202
  • spore formation: no

compound production

  • @ref: 12195
  • compound: pyrazine carboxylamidase

halophily

@refsaltgrowthtested relationconcentration
123677NaClnogrowth0 %
123677NaClnogrowth2 %
123677NaClnogrowth4 %
123677NaClnogrowth6 %
123677NaClnogrowth8 %
123677NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2320228087glycogen-builds acid from
2320215443inulin-builds acid from
2320217716lactose-builds acid from
2320229864mannitol-builds acid from
2320230911sorbitol-builds acid from
2320228017starch-builds acid from
2320218222xylose-builds acid from
2320227689decanoate-carbon source
2320216947citrate-carbon source
2320233871glycerate-carbon source
232024853esculin-hydrolysis
232025291gelatin-hydrolysis
2320216199urea-hydrolysis
2320216024D-mannose+assimilation
23202174265-dehydro-D-gluconate+builds acid from
2320228757fructose+builds acid from
2320228260galactose+builds acid from
2320217234glucose+builds acid from
2320217754glycerol+builds acid from
2320237684mannose+builds acid from
2320233942ribose+builds acid from
23202168082-dehydro-D-gluconate+carbon source
2320217634D-glucose+carbon source
2320216988D-ribose+carbon source
2320229806fumarate+carbon source
2320217754glycerol+carbon source
2320229991L-aspartate+carbon source
2320229985L-glutamate+carbon source
2320215589L-malate+carbon source
2320217203L-proline+carbon source
2320217115L-serine+carbon source
2320230031succinate+carbon source
2320217992sucrose+carbon source
2320224265gluconate+/-builds acid from
2320217306maltose+/-builds acid from
23202506227N-acetylglucosamine+/-builds acid from
2320217992sucrose+/-builds acid from
2320227082trehalose+/-builds acid from
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
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-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
12367716947citrate-carbon source
1236774853esculin-hydrolysis
123677606565hippurate-hydrolysis
12367717632nitrate-reduction
12367716301nitrite-reduction
6837917632nitrate-reduction
683794853esculin-hydrolysis
6837916199urea-hydrolysis
683795291gelatin-hydrolysis
6837917634D-glucose-fermentation
6837916988D-ribose-fermentation
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837917992sucrose-fermentation
6837928087glycogen-fermentation
6838016199urea-hydrolysis
6838029016arginine+hydrolysis
6838016024D-mannose-fermentation
6838016634raffinose-fermentation
6838029985L-glutamate+degradation
6838017632nitrate-reduction
6838027897tryptophan-energy source
6838129016arginine+hydrolysis
6838116988D-ribose-builds acid from
6838116899D-mannitol-builds acid from
6838130911sorbitol-builds acid from
6838117716lactose-builds acid from
6838127082trehalose-builds acid from
6838116634raffinose-builds acid from
6838117992sucrose-builds acid from
6838130849L-arabinose-builds acid from
6838118333D-arabitol-builds acid from
6838140585alpha-cyclodextrin-builds acid from
68381606565hippurate+hydrolysis
6838128087glycogen-builds acid from
6838127941pullulan-builds acid from
6838117306maltose-builds acid from
6838128053melibiose-builds acid from
683816731melezitose-builds acid from
68381320055methyl beta-D-glucopyranoside-builds acid from
6838116443D-tagatose-builds acid from
6838116199urea+hydrolysis

antibiotic resistance

  • @ref: 123677
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
12367735581indoleno
6838035581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6838115688acetoin-
6838035581indole-
12367715688acetoin-
12367717234glucose+

enzymes

@refvalueactivityec
23202acid phosphatase+/-3.1.3.2
23202alkaline phosphatase+/-3.1.3.1
23202alpha-chymotrypsin-3.4.21.1
23202alpha-fucosidase-3.2.1.51
23202alpha-galactosidase-3.2.1.22
23202alpha-glucosidase-3.2.1.20
23202beta-galactosidase-3.2.1.23
23202beta-glucosidase-3.2.1.21
23202catalase+1.11.1.6
23202cystine arylamidase+/-3.4.11.3
23202cytochrome oxidase-1.9.3.1
23202DNase-
23202esterase (C 4)+
23202esterase lipase (C 8)+/-
23202leucine arylamidase+/-3.4.11.1
23202lipase (C 14)-
23202naphthol-AS-BI-phosphohydrolase+
23202nitrate reductase+/-1.7.99.4
23202trypsin-3.4.21.4
23202valine 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
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
68381urease+3.5.1.5
68381beta-mannosidase-3.2.1.25
68381glycyl tryptophan arylamidase-
68381N-acetyl-beta-glucosaminidase-3.2.1.52
68381pyrrolidonyl arylamidase+3.4.19.3
68381beta-galactosidase-3.2.1.23
68381Alanyl-Phenylalanyl-Proline arylamidase+
68381alkaline phosphatase-3.1.3.1
68381alpha-galactosidase-3.2.1.22
68381beta-glucuronidase-3.2.1.31
68381beta-glucosidase-3.2.1.21
68381arginine dihydrolase+3.5.3.6
68380serine arylamidase+
68380glutamyl-glutamate arylamidase-
68380histidine arylamidase+
68380glycin arylamidase+
68380alanine arylamidase+3.4.11.2
68380tyrosine arylamidase-
68380pyrrolidonyl arylamidase+3.4.19.3
68380leucine arylamidase+3.4.11.1
68380phenylalanine arylamidase+
68380leucyl glycin arylamidase+3.4.11.1
68380proline-arylamidase+3.4.11.5
68380L-arginine arylamidase+
68380alkaline phosphatase+3.1.3.1
68380tryptophan deaminase-4.1.99.1
68380alpha-fucosidase-3.2.1.51
68380glutamate decarboxylase+4.1.1.15
68380N-acetyl-beta-glucosaminidase-3.2.1.52
68380beta-glucuronidase-3.2.1.31
68380alpha-arabinosidase-3.2.1.55
68380beta-glucosidase-3.2.1.21
68380alpha-glucosidase-3.2.1.20
68380beta-Galactosidase 6-phosphate-
68380beta-galactosidase-3.2.1.23
68380alpha-galactosidase-3.2.1.22
68380arginine dihydrolase+3.5.3.6
68380urease-3.5.1.5
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
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
123677oxidase-
123677beta-galactosidase-3.2.1.23
123677alcohol dehydrogenase-1.1.1.1
123677gelatinase-
123677amylase-
123677DNase-
123677caseinase-3.4.21.50
123677catalase+1.11.1.6
123677tween esterase+
123677gamma-glutamyltransferase-2.3.2.2
123677lecithinase-
123677lipase-
123677lysine decarboxylase-4.1.1.18
123677ornithine decarboxylase-4.1.1.17
123677phenylalanine ammonia-lyase-4.3.1.24
123677protease-
123677tryptophan deaminase-
123677urease-3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELControlGLURIBXYLMANMALLACSACGLYGCAT
12195--++----------------+
12195--++----------------+

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123677--++-+-----+--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123677+---+----++++--------------+-------+----------+-+

API rID32A

@refUREADH Argalpha GALbeta GALbeta GPalpha GLUbeta GLUalpha ARAbeta GURbeta NAGMNERAFGDCalpha FUCNITINDPALArgAProALGAPheALeuAPyrATyrAAlaAGlyAHisAGGASerA
56770-+----------+---+++++++-+++-+

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
56770+----------------+-+--+--------+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123677+---+--+----+------+-----------+----------------++------+---+--------------+---++--------+++-++-+--

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
12195human bone marrow (leprosy patient)PhilippinesPHLAsia
56770Human bone marrow,leprosy patientPhilippinesPHLAsia
67770Human bone marrowPhilippinesPHLAsia
123677Human, Bone marrowPhilippinesPHLAsia

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body-Site#Other#Bone

taxonmaps

  • @ref: 69479
  • File name: preview.99_492.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_322;97_358;98_405;99_492&stattab=map
  • Last taxonomy: Corynebacterium
  • 16S sequence: X84247
  • Sequence Identity:
  • Total samples: 43008
  • soil counts: 1147
  • aquatic counts: 2523
  • animal counts: 38602
  • plant counts: 736

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
121952Risk group (German classification)
1236772Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Corynebacterium tuberculostearicum 16S rRNA gene, strain ATCC 35692X842471479ena38304
20218Corynebacterium tuberculostearicum strain CIP 107291 16S ribosomal RNA gene, partial sequenceAY965875443ena38304
12195Corynebacterium sp. CIP107291 partial 16S rRNA geneAJ4380501512ena38304

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium tuberculostearicum strain DSM 4492238304.5wgspatric38304
66792Corynebacterium tuberculostearicum strain FDAARGOS_111738304.9completepatric38304
66792Corynebacterium tuberculostearicum DSM 449222833975288draftimg38304
67770Corynebacterium tuberculostearicum DSM 44922GCA_013408445contigncbi38304

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveyes94.396yes
anaerobicno99.105yes
halophileyes82.368no
spore-formingno95.038yes
glucose-utilyes87.39yes
aerobicno78.445no
motileno94.131no
flagellatedno97.252yes
thermophileno96.387no
glucose-fermentyes73.35no

External links

@ref: 12195

culture collection no.: DSM 44922, ATCC 35529, ATCC 35692, CCUG 45418, CIP 107291, JCM 13389, Medalle X

straininfo link

  • @ref: 72735
  • straininfo: 41230

literature

  • topic: Phylogeny
  • Pubmed-ID: 15280269
  • title: Taxonomic characterization of nine strains isolated from clinical and environmental specimens, and proposal of Corynebacterium tuberculostearicum sp. nov.
  • authors: Feurer C, Clermont D, Bimet F, Candrea A, Jackson M, Glaser P, Bizet C, Dauga C
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02907-0
  • year: 2004
  • mesh: Bacterial Proteins/analysis/isolation & purification, Bacterial Typing Techniques, Corynebacterium/*classification/genetics/isolation & purification/physiology, Corynebacterium Infections/*microbiology, DNA, Bacterial/chemistry, DNA, Ribosomal/chemistry, Environmental Microbiology, Fatty Acids/analysis/isolation & purification, *Food Microbiology, Genes, rRNA, Humans, Molecular Sequence Data, Phylogeny, Proteome/analysis/isolation & purification, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
12195Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44922)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44922
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
23202Carole Feurer, Dominique Clermont, Francois Bimet, Adina Candréa, Mary Jackson, Philippe Glaser, Chantal Bizet, Catherine Dauga10.1099/ijs.0.02907-0Taxonomic characterization of nine strains isolated from clinical and environmental specimens, and proposal of Corynebacterium tuberculostearicum sp. nov.IJSEM 54: 1055-1061 200415280269
33758Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4710
56770Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 45418)https://www.ccug.se/strain?id=45418
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
68380Automatically annotated from API rID32A
68381Automatically annotated from API rID32STR
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
72735Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID41230.1StrainInfo: A central database for resolving microbial strain identifiers
123677Curators of the CIPCollection of Institut Pasteur (CIP 107291)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107291