Strain identifier

BacDive ID: 2271

Type strain: Yes

Species: Carnobacterium jeotgali

Strain Designation: MS3

Strain history: <- JW Bae, KRIBB

NCBI tax ID(s): 545534 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 16824

BacDive-ID: 2271

DSM-Number: 23388

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

description: Carnobacterium jeotgali MS3 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from traditional Korean fermented food "toha jeotgal".

NCBI tax id

  • NCBI tax id: 545534
  • Matching level: species

strain history

@refhistory
16824<- JCM/RIKEN <- M.-S. Kim, Kyung Hee Univ., Seoul, Republic of Korea; MS3
67770M.-S. Kim MS3.
67771<- JW Bae, KRIBB

doi: 10.13145/bacdive2271.20230509.8.1

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 jeotgali
  • full scientific name: Carnobacterium jeotgali Kim et al. 2009

@ref: 16824

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Carnobacteriaceae

genus: Carnobacterium

species: Carnobacterium jeotgali

full scientific name: Carnobacterium jeotgali Kim et al. 2009

strain designation: MS3

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthmotilitycell shape
29280positive3.5 µm0.75 µmno
67771norod-shaped
67771positive

Culture and growth conditions

culture medium

  • @ref: 16824
  • name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/92
  • composition: Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16824positivegrowth30mesophilic
29280positivegrowth04-37
29280positiveoptimum30mesophilic
67770positivegrowth30mesophilic
67771positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
29280positivegrowth5.5-9.0alkaliphile
29280positiveoptimum8.5

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
16824microaerophile
29280facultative anaerobe
67771facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
29280NaClpositivegrowth0-5 %
29280NaClpositiveoptimum2 %

observation

  • @ref: 29280
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2928028757fructose+carbon source
2928029864mannitol+carbon source
292804853esculin+hydrolysis
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
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
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
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

enzymes

  • @ref: 29280
  • value: acid phosphatase
  • activity: +
  • ec: 3.1.3.2

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
16824-----+/------+++----+/----+-+++++--++------+/----------+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
16824traditional Korean fermented food "toha jeotgal"Republic of KoreaKORAsia
67770Korean traditional fermented food (jeotgal)Republic of KoreaKORAsia
67771From Korean traditional fermented foodRepublic of KoreaKORAsiatoha jeotgal

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Seafood
#Engineered#Food production#Fermented

taxonmaps

  • @ref: 69479
  • File name: preview.99_1588.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_41;97_43;98_47;99_1588&stattab=map
  • Last taxonomy: Carnobacterium jeotgali
  • 16S sequence: LC258159
  • Sequence Identity:
  • Total samples: 2038
  • soil counts: 200
  • aquatic counts: 510
  • animal counts: 1225
  • plant counts: 103

Safety information

risk assessment

  • @ref: 16824
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
16824Carnobacterium jeotgali strain MS3 16S ribosomal RNA gene, partial sequenceEU8175001431ena1449340
67771Carnobacterium jeotgali gene for 16S ribosomal RNA, partial sequence, strain: JCM 15539LC2581591412ena545534

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Carnobacterium jeotgali MS3GCA_000745125contigncbi1449340
66792Carnobacterium jeotgali MS3GCA_000708655contigncbi545534
66792Carnobacterium jeotgali MS31449340.3wgspatric1449340
66792Carnobacterium jeotgali MS32579778522draftimg545534
66792Carnobacterium jeotgali MS32585427852draftimg545534

GC content

@refGC-contentmethod
1682443.9
6777043.9thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno73.08yes
gram-positiveyes90.844yes
anaerobicno96.148yes
halophileyes84.361no
spore-formingno75.503no
thermophileno98.032no
glucose-utilyes90.026no
aerobicno93.168yes
flagellatedno87.496yes
glucose-fermentyes77.078no

External links

@ref: 16824

culture collection no.: DSM 23388, JCM 15539, KCTC 13251

straininfo link

  • @ref: 71829
  • straininfo: 364827

literature

  • topic: Phylogeny
  • Pubmed-ID: 19643884
  • title: Carnobacterium jeotgali sp. nov., isolated from a Korean traditional fermented food.
  • authors: Kim MS, Roh SW, Nam YD, Yoon JH, Bae JW
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.010116-0
  • year: 2009
  • mesh: Animals, Carnobacterium/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, *Fermentation, Korea, Molecular Sequence Data, Penaeidae/metabolism/*microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Saccharopolyspora/*classification/genetics/*isolation & purification
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
16824Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23388)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23388
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
29280Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2569628776041
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/
67771Curators of the KCTChttps://kctc.kribb.re.kr/En/Kctc
68371Automatically annotated from API 50CH acid
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
71829Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364827.1StrainInfo: A central database for resolving microbial strain identifiers