Strain identifier

BacDive ID: 3078

Type strain: Yes

Species: Corynebacterium stationis

Strain Designation: 622

Strain history: CIP <- 1994, CCTM <- NCIB <- ATCC <- C.E. ZoBell: strain 622, Achromobacter stationis

NCBI tax ID(s): 1705 (species)

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General

@ref: 8705

BacDive-ID: 3078

DSM-Number: 20302

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

description: Corynebacterium stationis 622 is an aerobe, mesophilic bacterium that was isolated from seawater.

NCBI tax id

  • NCBI tax id: 1705
  • Matching level: species

strain history

@refhistory
8705<- H.G. Schlegel <- K. Komagata <- ATCC <- C.E. ZoBell, 622 (Achromobacter stationis)
67770CCM 317 <-- C. E. ZoBell 622.
123295CIP <- 1994, CCTM <- NCIB <- ATCC <- C.E. ZoBell: strain 622, Achromobacter stationis

doi: 10.13145/bacdive3078.20230509.8.1

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 stationis
  • full scientific name: Corynebacterium stationis (ZoBell and Upham 1944) Bernard et al. 2010

  • synonyms

    @refsynonym
    20215Brevibacterium stationis
    20215Achromobacter stationis

@ref: 8705

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Corynebacteriaceae

genus: Corynebacterium

species: Corynebacterium stationis

full scientific name: Corynebacterium stationis (ZoBell and Upham 1944) Bernard et al. 2010

strain designation: 622

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no96.152
69480100positive
123295nopositiverod-shaped

colony morphology

@refcolony colorincubation periodmedium used
19791Sand yellow10-14 daysISP 2
19791Light ivory10-14 daysISP 3
1979110-14 daysISP 4
19791Light ivory10-14 daysISP 6
1979110-14 daysISP 7
123295

multicellular morphology

@refforms multicellular complexmedium name
19791noISP 2
19791noISP 3
19791noISP 4
19791noISP 6
19791noISP 7

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
19791ISP 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
19791ISP 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:
19791ISP 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
19791ISP 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
19791ISP 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
8705CORYNEBACTERIUM AGAR (DSMZ Medium 53)yesName: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/53
34926MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123295CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
19791positiveoptimum28mesophilic
8705positivegrowth30mesophilic
34926positivegrowth30mesophilic
55900positivegrowth30mesophilic
55900positivegrowth30-37mesophilic
67770positivegrowth28mesophilic
123295positivegrowth10-41
123295nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55900aerobe
123295facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.988

halophily

@refsaltgrowthtested relationconcentration
19791NaClpositivemaximum7.5 %
123295NaClpositivegrowth0-10 %

murein

  • @ref: 8705
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1979162968cellulose-
1979116634raffinose-
1979126546rhamnose-
1979128757fructose-
1979129864mannitol-
1979117268myo-inositol+
1979118222xylose-
1979117992sucrose-
1979122599arabinose-
1979117234glucose+
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
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
683685291gelatin+hydrolysis
6836827897tryptophan+energy source
6836816199urea+hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
12329516947citrate-carbon source
1232954853esculin-hydrolysis
123295606565hippurate+hydrolysis
12329517632nitrate+reduction
12329516301nitrite-reduction
12329517632nitrate+respiration
683794853esculin-hydrolysis
6837965327D-xylose-fermentation
6837916899D-mannitol-fermentation
6837917306maltose-fermentation
6837917716lactose-fermentation
6837928087glycogen-fermentation

antibiotic resistance

  • @ref: 123295
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleyes
6836816136hydrogen sulfideno
12329535581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole+
12329515688acetoin-
12329517234glucose-

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
68382cystine arylamidase-3.4.11.3
68382lipase (C 14)-
68382esterase lipase (C 8)+
68379catalase+1.11.1.6
68379beta-glucosidase-3.2.1.21
68379N-acetyl-beta-glucosaminidase-3.2.1.52
68379alpha-glucosidase-3.2.1.20
68368gelatinase+
68368tryptophan deaminase-4.1.99.1
68368urease+3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
123295oxidase+
123295beta-galactosidase-3.2.1.23
123295alcohol dehydrogenase-1.1.1.1
123295gelatinase-
123295amylase+
123295DNase-
123295caseinase-3.4.21.50
123295catalase+1.11.1.6
123295tween esterase+
123295gamma-glutamyltransferase-2.3.2.2
123295lecithinase-
123295lipase-
123295lysine decarboxylase-4.1.1.18
123295ornithine decarboxylase-4.1.1.17
123295phenylalanine ammonia-lyase-4.3.1.24
123295tryptophan deaminase-
123295urease+3.5.1.5

API coryne

@refNITPYZPYRAPALbeta GURbeta GALalpha GLUbeta NAGESCUREGELGLURIBXYLMANMALLACSACGLYGControlCAT
19791--+-++----+------+-
55900++-+-----+-++-------+

API zym

@refAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- FucosidaseControl
19791+-+-++----+--------
55900-++-------+---------
123295+++-+--+--+---------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGEL
19791----+-+-+-+

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
123295--+/--+-----+++------------------------------++----

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123295++--+--------------+++--+-+-----+------------+--++++-+-------+-----+--+--+-+---++----++---+++++-++-

Isolation, sampling and environmental information

isolation

@refsample type
8705seawater
55900Film of marine fouling organisms
67770Film of marine-fouling organisms
123295Film of marine fouling organisms

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_1113.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_10;96_652;97_755;98_874;99_1113&stattab=map
  • Last taxonomy: Corynebacterium stationis subclade
  • 16S sequence: FJ172667
  • Sequence Identity:
  • Total samples: 7824
  • soil counts: 533
  • aquatic counts: 368
  • animal counts: 6752
  • plant counts: 171

Safety information

risk assessment

@refbiosafety levelbiosafety level commentpathogenicity human
197911Hazard group
87051Risk group (German classification)yes, in single cases
1232952Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8705Corynebacterium stationis strain ATCC 14403 16S ribosomal RNA gene, partial sequenceFJ1726671447ena1705
67770Brevibacterium stationis partial 16S rRNA gene, type strain LMG 21670TAJ6203671475ena1705

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Corynebacterium stationis 622=DSM 20302GCA_001941345completencbi1705
66792Corynebacterium stationis strain 622=DSM 203021705.8completepatric1705
66792Corynebacterium stationis strain 622=DSM 203021705.16plasmidpatric1705
66792Corynebacterium stationis DSM 203022623620535completeimg1705

GC content

@refGC-contentmethod
870553.9
6777053.9thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno97.545no
gram-positiveyes92.062no
anaerobicno99.436no
halophileyes82.202no
spore-formingno94.316no
glucose-utilyes86.796no
aerobicyes76.25yes
thermophileno98.759no
motileno93.843no
glucose-fermentyes61.799no

External links

@ref: 8705

culture collection no.: DSM 20302, ATCC 14403, CCUG 43497, CIP 104228, JCM 11611, NBRC 12144, VKM B-1228, CCTM La2748, NCIMB 565, BCRC 11885, CCM 317, CECT 4275, IFO 12144, KCCM 12153, KCTC 3254, NBIMCC 1435, VKM Ac-2184, CCTM La 2748

straininfo link

  • @ref: 72597
  • straininfo: 36066

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics2039232Identification of plasmid partition function in coryneform bacteria.Kurusu Y, Satoh Y, Inui M, Kohama K, Kobayashi M, Terasawa M, Yukawa HAppl Environ Microbiol10.1128/aem.57.3.759-764.19911991Base Sequence, Brevibacterium/*genetics, Corynebacterium/*genetics, DNA, Bacterial/genetics, Molecular Sequence Data, *Plasmids
Phylogeny19661509Assignment of Brevibacterium stationis (ZoBell and Upham 1944) Breed 1953 to the genus Corynebacterium, as Corynebacterium stationis comb. nov., and emended description of the genus Corynebacterium to include isolates that can alkalinize citrate.Bernard KA, Wiebe D, Burdz T, Reimer A, Ng B, Singh C, Schindle S, Pacheco ALInt J Syst Evol Microbiol10.1099/ijs.0.012641-02009Aged, Bacterial Typing Techniques, Blood/microbiology, Brevibacterium/*classification, Citric Acid/*metabolism, Corynebacterium/*classification/genetics/*isolation & purification/metabolism, Corynebacterium Infections/*microbiology, Culture Media, DNA, Ribosomal/analysis/genetics, Fatty Acids/analysis, Female, Genes, rRNA, Genotype, Humans, Hydrogen-Ion Concentration, Male, Middle Aged, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Species SpecificityGenetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8705Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20302)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20302
19791Wink, J.http://www.dsmz.de/microorganisms/wink_pdf/DSM20302.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
34926Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16114
55900Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43497)https://www.ccug.se/strain?id=43497
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/
68368Automatically annotated from API 20E
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
72597Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID36066.1StrainInfo: A central database for resolving microbial strain identifiers
123295Curators of the CIPCollection of Institut Pasteur (CIP 104228)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104228