Strain identifier

BacDive ID: 3207

Type strain: Yes

Species: Corynebacterium casei

Strain history: CIP <- 2001, T.M. Cogan, National Dairy Products Research Centre (DPRC), Fermoy, County Cork, Ireland: strain DPC 5298

NCBI tax ID(s): 1285583 (strain), 160386 (species)

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General

@ref: 11892

BacDive-ID: 3207

DSM-Number: 44701

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

description: Corynebacterium casei CCUG 57201 is a facultative anaerobe, mesophilic, Gram-positive bacterium that forms circular colonies and was isolated from cheese.

NCBI tax id

NCBI tax idMatching level
1285583strain
160386species

strain history

@refhistory
11892<- NCIMB
328582001, T. M. Cogan, Ireland: strain DPC 5298
67770NCIMB 30130 <-- T. M. Cogan DPC 5298.
117198CIP <- 2001, T.M. Cogan, National Dairy Products Research Centre (DPRC), Fermoy, County Cork, Ireland: strain DPC 5298

doi: 10.13145/bacdive3207.20230509.8.1

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 casei
  • full scientific name: Corynebacterium casei Brennan et al. 2001

@ref: 11892

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium casei

full scientific name: Corynebacterium casei Brennan et al. 2001 emend. Nouioui et al. 2018

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell shapemotilityconfidence
23192positive1-3 µmrod-shapedno
69480no94.837
69480positive100
117198positiverod-shapedno

colony morphology

@refcolony sizecolony colorcolony shapemedium usedhemolysis ability
231921 mmcreamcircularFunke media
1171981

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
11892TRYPTICASE 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
11892COLUMBIA 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
23192Funke mediayes
32858MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
117198CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
11892positivegrowth30mesophilic
32858positivegrowth30mesophilic
61235positivegrowth30mesophilic
67770positivegrowth28mesophilic
117198positivegrowth15-37
117198nogrowth10psychrophilic
117198nogrowth41thermophilic
117198nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23192facultative anaerobe
61235aerobe
117198obligate aerobe

spore formation

@refspore formationconfidence
23192no
69481no100
69480no99.996

halophily

  • @ref: 117198
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23192168082-dehydro-D-gluconate-builds acid from
2319215963ribitol-builds acid from
2319227613amygdalin-builds acid from
2319218305arbutin-builds acid from
2319217057cellobiose-builds acid from
2319217108D-arabinose-builds acid from
2319218333D-arabitol-builds acid from
2319228847D-fucose-builds acid from
2319262318D-lyxose-builds acid from
2319216443D-tagatose-builds acid from
2319232528turanose-builds acid from
2319265327D-xylose-builds acid from
2319217113erythritol-builds acid from
2319228066gentiobiose-builds acid from
2319224265gluconate-builds acid from
2319217754glycerol-builds acid from
2319228087glycogen-builds acid from
2319215443inulin-builds acid from
2319230849L-arabinose-builds acid from
2319218403L-arabitol-builds acid from
2319218287L-fucose-builds acid from
2319265328L-xylose-builds acid from
2319217716lactose-builds acid from
2319217306maltose-builds acid from
231926731melezitose-builds acid from
2319228053melibiose-builds acid from
23192320061methyl alpha-D-glucopyranoside-builds acid from
2319243943methyl alpha-D-mannoside-builds acid from
2319274863methyl beta-D-xylopyranoside-builds acid from
2319216634raffinose-builds acid from
2319217814salicin-builds acid from
2319230911sorbitol-builds acid from
2319217992sucrose-builds acid from
2319217151xylitol-builds acid from
231924853esculin-hydrolysis
231925291gelatin-hydrolysis
2319218186tyrosine-hydrolysis
2319216199urea-hydrolysis
2319228757fructose+builds acid from
2319217234glucose+builds acid from
2319237684mannose+builds acid from
2319233942ribose+builds acid from
2319217632nitrate+reduction
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-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
11719816947citrate-carbon source
1171984853esculin-hydrolysis
117198606565hippurate-hydrolysis
11719817632nitrate+reduction
11719816301nitrite-reduction
11719817632nitrate-respiration

antibiotic resistance

  • @ref: 117198
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 117198
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11719815688acetoin-
11719817234glucose+

enzymes

@refvalueactivityec
23192acid phosphatase+3.1.3.2
23192alkaline phosphatase+3.1.3.1
23192alpha-galactosidase-3.2.1.22
23192alpha-glucosidase-3.2.1.20
23192alpha-mannosidase-3.2.1.24
23192beta-galactosidase-3.2.1.23
23192beta-glucosidase-3.2.1.21
23192beta-glucuronidase-3.2.1.31
23192catalase+1.11.1.6
23192chymotrypsin-3.4.4.5
23192cystine arylamidase+3.4.11.3
23192cytochrome oxidase-1.9.3.1
23192esterase+
23192esterase lipase (C 8)+
23192leucine arylamidase+3.4.11.1
23192lipase-
23192N-acetyl-beta-glucosaminidase-3.2.1.52
23192pyrazinamidase+3.5.1.B15
23192trypsin-3.4.21.4
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
117198oxidase-
117198beta-galactosidase-3.2.1.23
117198alcohol dehydrogenase-1.1.1.1
117198gelatinase-
117198amylase-
117198DNase-
117198caseinase-3.4.21.50
117198catalase+1.11.1.6
117198tween esterase-
117198gamma-glutamyltransferase-2.3.2.2
117198lecithinase-
117198lipase-
117198lysine decarboxylase-4.1.1.18
117198ornithine decarboxylase-4.1.1.17
117198phenylalanine ammonia-lyase-4.3.1.24
117198protease-
117198tryptophan deaminase-
117198urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
117198--++-+----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
117198----+-----+++-------------------------------+/-----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117198++--+--------------+------+------+---------------+-----------+--+--------+-+----------+---+---+-++-

Isolation, sampling and environmental information

isolation

@refsample typesampling dategeographic locationcountryorigin.countrycontinentisolation date
11892cheese
23192surface of a smear-ripened cheese
61235Cheese,surface of smear-ripened cheese1998CorkIrelandIRLEurope
67770Surface of a smear-ripened cheeseIrelandIRLEurope
117198Food, CheeseIrelandIRLEurope1998

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

taxonmaps

  • @ref: 69479
  • File name: preview.99_4241.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_652;97_2574;98_3193;99_4241&stattab=map
  • Last taxonomy: Corynebacterium casei subclade
  • 16S sequence: AF267152
  • Sequence Identity:
  • Total samples: 4463
  • soil counts: 272
  • aquatic counts: 402
  • animal counts: 3725
  • plant counts: 64

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
118921Risk group (German classification)
1171982Risk group (French classification)

Sequence information

16S sequences

  • @ref: 11892
  • description: Corynebacterium casei LMG S-19264 16S ribosomal RNA gene, partial sequence
  • accession: AF267152
  • length: 1343
  • database: ena
  • NCBI tax ID: 1285583

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium casei LMG S-192641285583.3completepatric1285583
66792Corynebacterium casei LMG S-19264 strain JCM 120721285583.5plasmidpatric1285583
67770Corynebacterium casei LMG S-19264GCA_000550785completencbi1285583

GC content

@refGC-contentmethod
1189251
6777051high performance liquid chromatography (HPLC)
6777055.7genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno94.008no
gram-positiveyes93.536no
anaerobicno99.205no
aerobicyes72.096no
halophileyes78.489no
spore-formingno93.585no
thermophileno98.252no
glucose-utilyes85.368no
flagellatedno97.861yes
glucose-fermentyes63.343no

External links

@ref: 11892

culture collection no.: CCUG 57201, CIP 107182, DSM 44701, DPC 5298, LMG S-19264, NCIMB 30130, JCM 12072, LMG 19264

straininfo link

  • @ref: 72722
  • straininfo: 88347

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11411705Corynebacterium mooreparkense sp. nov. and Corynebacterium casei sp. nov., isolated from the surface of a smear-ripened cheese.Brennan NM, Brown R, Goodfellow M, Ward AC, Beresford TP, Simpson PJ, Fox PF, Cogan TMInt J Syst Evol Microbiol10.1099/00207713-51-3-8432001Biomass, Cheese/*microbiology, Corynebacterium/*classification/*genetics/isolation & purification, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Electrophoresis, Gel, Pulsed-Field, Food Handling, Molecular Sequence Data, *Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/geneticsEnzymology
Metabolism17921266Growth characteristics of Brevibacterium, Corynebacterium, Microbacterium, and Staphylococcus spp. isolated from surface-ripened cheese.Mounier J, Rea MC, O'Connor PM, Fitzgerald GF, Cogan TMAppl Environ Microbiol10.1128/AEM.01260-072007Actinomycetales/*growth & development/isolation & purification/metabolism, Amino Acids/metabolism, Biotin/metabolism, Brevibacterium/*growth & development/isolation & purification/metabolism, Carbohydrate Metabolism, Cheese/*microbiology, Corynebacterium/*growth & development/isolation & purification/metabolism, Food Microbiology, L-Lactate Dehydrogenase/metabolism, Lactic Acid/metabolism, Lactose/metabolism, Staphylococcus/*growth & development/isolation & purification/metabolismEnzymology
Genetics18936936Characterization of a new 2.4-kb plasmid of Corynebacterium casei and development of stable corynebacterial cloning vector.Tsuchida Y, Kimura S, Suzuki N, Inui M, Yukawa HAppl Microbiol Biotechnol10.1007/s00253-008-1746-12008Corynebacterium/*genetics, Corynebacterium glutamicum/genetics, DNA Replication, DNA, Bacterial/genetics, Escherichia coli/genetics, Genes, Bacterial, *Genetic Vectors, Genetics, Microbial/*methods, Molecular Biology/*methods, Open Reading Frames, *Plasmids, Sequence Analysis, DNA, Sequence Homology, Amino AcidTranscriptome
Genetics25193709Complete genome sequence of Corynebacterium casei LMG S-19264T (=DSM 44701T), isolated from a smear-ripened cheese.Walter F, Albersmeier A, Kalinowski J, Ruckert CJ Biotechnol10.1016/j.jbiotec.2014.08.0382014Cheese/*microbiology, Corynebacterium/*genetics, Genome, Bacterial/*genetics, Molecular Sequence Data

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
11892Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 44701)https://www.dsmz.de/collection/catalogue/details/culture/DSM-44701
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
23192N M Brennan, R Brown, M Goodfellow, A C Ward, T P Beresford, P J Simpson, P F Fox, T M Cogan10.1099/00207713-51-3-843Corynebacterium mooreparkense sp. nov. and Corynebacterium casei sp. nov., isolated from the surface of a smear-ripened cheese.IJSEM 51: 843-852 200111411705
32858Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4589
61235Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 57201)https://www.ccug.se/strain?id=57201
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
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
72722Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID88347.1StrainInfo: A central database for resolving microbial strain identifiers
117198Curators of the CIPCollection of Institut Pasteur (CIP 107182)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107182