Strain identifier

BacDive ID: 4376

Type strain: Yes

Species: Kosakonia cowanii

Strain Designation: 888-76, KSK 246, UM-79, KSK246, U11-79

Strain history: CIP <- 2001, JCM, Enterobacter cowanii <- 2000, Y. Kosako, strain: KSK246 <- K. Miki, strain U11-79 <- NIH, strain: 888-76

NCBI tax ID(s): 1300165 (strain), 208223 (species)

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General

@ref: 7406

BacDive-ID: 4376

DSM-Number: 18146

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, motile

description: Kosakonia cowanii 888-76 is a facultative anaerobe, mesophilic, motile bacterium that was isolated from blood.

NCBI tax id

NCBI tax idMatching level
1300165strain
208223species

strain history

@refhistory
7406<- JCM <- Y. Kosako; KSK 246 <- K. Miki; UM-79 <- R. Sakazaki; 888-76
67770Y. Kosako KSK246 <-- K. Miki U11-79 <-- R. Sakazaki 888-76.
118771CIP <- 2001, JCM, Enterobacter cowanii <- 2000, Y. Kosako, strain: KSK246 <- K. Miki, strain U11-79 <- NIH, strain: 888-76

doi: 10.13145/bacdive4376.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Enterobacteriaceae
  • genus: Kosakonia
  • species: Kosakonia cowanii
  • full scientific name: Kosakonia cowanii (Inoue et al. 2001) Brady et al. 2013

  • synonyms

    • @ref: 20215
    • synonym: Enterobacter cowanii

@ref: 7406

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Enterobacteriaceae

genus: Kosakonia

species: Kosakonia cowanii

full scientific name: Kosakonia cowanii (Inoue et al. 2001) Brady et al. 2013

strain designation: 888-76, KSK 246, UM-79, KSK246, U11-79

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.181
6948099.962negative
118771yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7406TRYPTICASE 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
34215MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118771CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7406positivegrowth37mesophilic
34215positivegrowth30mesophilic
67770positivegrowth37mesophilic
118771positivegrowth10-41
118771nogrowth5psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 118771
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.879

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
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
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin+builds acid from27613
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
68371glycerol+builds acid from17754
68368L-arabinose+fermentation30849
68368amygdalin+fermentation27613
68368melibiose+fermentation28053
68368sucrose+fermentation17992
68368L-rhamnose+fermentation62345
68368sorbitol+fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol+fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate+assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
118771mannitol+fermentation29864
118771citrate+carbon source16947
118771glucose+fermentation17234
118771lactose+fermentation17716
118771nitrate+reduction17632
118771nitrite-reduction16301
118771malonate-assimilation15792
118771sodium thiosulfate-builds gas from132112

antibiotic resistance

  • @ref: 118771
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
11877135581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole testmethylred-test
6836815688acetoin-
6836835581indole-
11877115688acetoin-
11877117234glucose+

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-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)-
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68368cytochrome oxidase-1.9.3.1
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
118771oxidase-
118771beta-galactosidase+3.2.1.23
118771alcohol dehydrogenase-1.1.1.1
118771gelatinase-
118771catalase-1.11.1.6
118771lysine decarboxylase-4.1.1.18
118771ornithine decarboxylase-4.1.1.17
118771phenylalanine ammonia-lyase-4.3.1.24
118771tryptophan deaminase-
118771urease-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
118771-++--+--+-++-+--++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
7406+/----+------++-++++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
118771+--+++---++++-++-++--+++++++++++--++/---+-+/------++-

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
118771+++++-++++++++++++++++-+-----+-+-+--+--+---++---++++-++++--++-+--+---------+---++-----+--++++++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
7406bloodTokyoJapanJPNAsia
67770Blood
118771Blood

isolation source categories

Cat1Cat2Cat3
#Host Body Product#Fluids#Blood
#Infection#Patient

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
74062Risk group (German classification)
1187712Risk group (French classification)

Sequence information

16S sequences

  • @ref: 7406
  • description: Enterobacter cowanii partial 16S rRNA gene, strain CIP 107300
  • accession: AJ508303
  • length: 1362
  • database: ena
  • NCBI tax ID: 208223

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Kosakonia cowanii JCM 10956 = DSM 18146 888-76GCA_001975225completencbi1300165
66792Kosakonia cowanii JCM 10956 = DSM 18146GCA_001312885contigncbi1300165
66792Kosakonia cowanii JCM 109561300165.3wgspatric1300165
66792Kosakonia cowanii JCM 109562734481920draftimg1300165
66792Kosakonia cowanii 888-762773858034completeimg208223

GC content

  • @ref: 7406
  • GC-content: 53

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno68.726no
gram-positiveno98.322no
anaerobicno96.439no
aerobicno50no
halophileno88.16no
spore-formingno93.14no
glucose-utilyes96.449no
thermophileno99.378yes
motileyes91.825no
glucose-fermentyes91.893yes

External links

@ref: 7406

culture collection no.: DSM 18146, CIP 107300, JCM 10956, LMG 23569, CCUG 45998

straininfo link

  • @ref: 73867
  • straininfo: 97646

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11080391Enterobacter cowaniisp. nov., a new species of the family Enterobacteriaceae.Inoue K, Sugiyama K, Kosako Y, Sakazaki R, Yamai SCurr Microbiol10.1007/s0028400101602000Bacterial Typing Techniques, Base Composition, Enterobacter/*classification/isolation & purification, Enterobacteriaceae/*classification/isolation & purification, Enterobacteriaceae Infections/microbiology, Humans, Nucleic Acid Hybridization, PhenotypeEnzymology
Genetics28774637Complete genome sequence of human pathogen Kosakonia cowanii type strain 888-76(T).Yang XJ, Wang S, Cao JM, Hou JHBraz J Microbiol10.1016/j.bjm.2017.03.0102017Base Composition, Base Sequence, DNA, Bacterial/genetics, Enterobacteriaceae/classification/*genetics/*isolation & purification, Enterobacteriaceae Infections/*microbiology, *Genome, Bacterial, Humans, Molecular Sequence Data, Phylogeny, Plasmids/geneticsPhylogeny

Reference

@idauthorscataloguedoi/urltitle
7406Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18146)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18146
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
34215Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/4720
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/
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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
73867Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID97646.1StrainInfo: A central database for resolving microbial strain identifiers
118771Curators of the CIPCollection of Institut Pasteur (CIP 107300)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107300