Strain identifier

BacDive ID: 2268

Type strain: Yes

Species: Carnobacterium inhibens

Strain Designation: K1

Strain history: CIP <- 2000, CCUG <- 1993, A. Joborn, Univ. Göteborg, Göteborg, Sweden

NCBI tax ID(s): 1449339 (strain), 147709 (species)

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General

@ref: 4876

BacDive-ID: 2268

DSM-Number: 13024

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, Gram-positive

description: Carnobacterium inhibens K1 is a microaerophile, Gram-positive bacterium that was isolated from gastrointestinal tract of Atlantic salmon .

NCBI tax id

NCBI tax idMatching level
1449339strain
147709species

strain history

@refhistory
4876<- S. Kjelleberg <- A. Jöborn; K1
67770CIP 106863 <-- CCUG 31728 <-- A. Jöborn K1.
120117CIP <- 2000, CCUG <- 1993, A. Joborn, Univ. Göteborg, Göteborg, Sweden

doi: 10.13145/bacdive2268.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Carnobacteriaceae
  • genus: Carnobacterium
  • species: Carnobacterium inhibens
  • full scientific name: Carnobacterium inhibens Jöborn et al. 1999

@ref: 4876

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Carnobacterium

species: Carnobacterium inhibens subsp. inhibens

full scientific name: Carnobacterium inhibens subsp. inhibens (Jöborn et al. 1999) Nicholson et al. 2015

strain designation: K1

type strain: yes

Morphology

cell morphology

  • @ref: 120117
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 120117
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4876COLUMBIA 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
38657MEDIUM 45 - for Columbia agar with sheep bloodyesDistilled water make up to (1000.000 ml);Columbia agar (39.000 g);Sheepblood (100.000 ml)
120117CIP Medium 45yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=45

culture temp

@refgrowthtypetemperature
4876positivegrowth30
38657positivegrowth37
67770positivegrowth37
120117positivegrowth15-37
120117nogrowth5
120117nogrowth41

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
4876microaerophile
120117facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
120117NaClpositivegrowth0-6 %
120117NaClnogrowth8 %
120117NaClnogrowth10 %

murein

  • @ref: 4876
  • murein short key: A31
  • type: A1gamma m-Dpm-direct

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
1201174853esculin+hydrolysis
120117606565hippurate+hydrolysis
12011717632nitrate-builds gas from
12011717632nitrate-reduction
12011716301nitrite+builds gas from
12011716301nitrite-reduction
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

metabolite production

@refChebi-IDmetaboliteproduction
12011735581indoleno
6838115688acetoinno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-test
6838115688acetoin-
12011715688acetoin-

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
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
120117oxidase-
120117beta-galactosidase-3.2.1.23
120117alcohol dehydrogenase-1.1.1.1
120117gelatinase-
120117amylase-
120117DNase-
120117caseinase-3.4.21.50
120117catalase-1.11.1.6
120117tween esterase-
120117gamma-glutamyltransferase+2.3.2.2
120117lecithinase-
120117lipase-
120117lysine decarboxylase-4.1.1.18
120117ornithine decarboxylase-4.1.1.17
120117phenylalanine ammonia-lyase-4.3.1.24
120117protease-
120117tryptophan deaminase-
120117urease-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
120117--++-----+++--------

API rID32STR

@refADH Argbeta GLUbeta GARbeta GURalpha GALPALRIBMANSORLACTRERAFSACLARADARLCDEXVPAPPAbeta GALPyrAbeta NAGGTAHIPGLYGPULMALMELMLZMbeta DGTAGbeta MANURE
4876-+----++--+-+---------+--+--+---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120117------------------+--------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentgeographic location
4876gastrointestinal tract of Atlantic salmon (Salmo salar)Salmo salarSwedenSWEEurope
50699Salmon gut,Salmo salarSwedenSWEEuropeGöteborg
67770Intestine of Atlantic salmon
120117Animal, Salmon, gutSwedenSWEEuropeGöteborg

isolation source categories

Cat1Cat2Cat3
#Host#Fishes#Salmonidae
#Host Body-Site#Gastrointestinal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_5325.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_41;97_43;98_47;99_5325&stattab=map
  • Last taxonomy: Carnobacterium
  • 16S sequence: Z73313
  • Sequence Identity:
  • Total samples: 2245
  • soil counts: 136
  • aquatic counts: 366
  • animal counts: 1670
  • plant counts: 73

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
48761Risk group (German classification)
1201171Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Carnobacterium inhibens subsp. inhibens DSM 13024 large 16S-23S rRNA intergenic spacer, tRNA-Ile and tRNA-Ala genes, complete sequenceAY170837445nuccore147709
20218Carnobacterium inhibens subsp. inhibens DSM 13024 medium 16S-23S rRNA intergenic spacer and tRNA-Ala gene, complete sequenceAY170838325nuccore147709
20218Carnobacterium inhibens subsp. inhibens DSM 13024 small 16S-23S rRNA intergenic spacer, complete sequenceAY170839217nuccore147709
4876Carnobacterium inhibens subsp. inhibens DSM 13024 16S rRNA gene, type strain K1TZ733131524nuccore1449339
67770Carnobacterium inhibens gene for 16S ribosomal RNA, partial sequence, strain: JCM 16168LC2581601459nuccore147709
124043Carnobacterium inhibens subsp. inhibens DSM 13024 strain W233 16S ribosomal RNA gene, partial sequence.OP3441961369nuccore1449339
124043Carnobacterium inhibens subsp. inhibens DSM 13024 strain W301 16S ribosomal RNA gene, partial sequence.OP3442531365nuccore1449339
124043Carnobacterium inhibens subsp. inhibens DSM 13024 strain W302 16S ribosomal RNA gene, partial sequence.OP3442541350nuccore1449339
124043Carnobacterium inhibens subsp. inhibens DSM 13024 strain W303 16S ribosomal RNA gene, partial sequence.OP3442551349nuccore1449339
124043Carnobacterium inhibens subsp. inhibens DSM 13024 strain W318 16S ribosomal RNA gene, partial sequence.OP3442681398nuccore1449339

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Carnobacterium inhibens subsp. inhibens DSM 13024 K1GCA_000746825contigncbi1449339
66792Carnobacterium inhibens DSM 13024 strain K11449339.3wgspatric1449339
66792Carnobacterium inhibens K1, DSM 130242574179783draftimg1449339

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes85.936no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no88.479yes
69480spore-formingspore-formingAbility to form endo- or exosporesno63.585no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no89.727yes
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno94.781yes
69480flagellatedmotile2+Ability to perform flagellated movementyes63.979no

External links

@ref: 4876

culture collection no.: DSM 13024, CCUG 31728, CIP 106863, JCM 12490, JCM 16168, CCM 7006, CECT 5963

straininfo link

  • @ref: 71826
  • straininfo: 49389

literature

  • topic: Phylogeny
  • Pubmed-ID: 10555373
  • title: Carnobacterium inhibens sp. nov., isolated from the intestine of Atlantic salmon (Salmo salar).
  • authors: Joborn A, Dorsch M, Olsson JC, Westerdahl A, Kjelleberg S
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-49-4-1891
  • year: 1999
  • mesh: Aeromonas/growth & development, Animals, Bacterial Typing Techniques, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Intestines/*microbiology, Lactobacillaceae/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Salmo salar/*microbiology, Sequence Analysis, DNA, Vibrio/growth & development
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4876Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13024)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13024
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
38657Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19040
50699Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 31728)https://www.ccug.se/strain?id=31728
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/
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
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)
71826Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49389.1StrainInfo: A central database for resolving microbial strain identifiers
120117Curators of the CIPCollection of Institut Pasteur (CIP 106863)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106863
124043Dr. Isabel Schober, Dr. Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy