Strain identifier

BacDive ID: 5257

Type strain: Yes

Species: Tetragenococcus muriaticus

Strain Designation: X-1

Strain history: CIP <- 1998, JCM <- T. Fujii: strain X-1

NCBI tax ID(s): 1123359 (strain), 64642 (species)

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General

@ref: 6045

BacDive-ID: 5257

DSM-Number: 15685

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

description: Tetragenococcus muriaticus X-1 is an anaerobe, mesophilic bacterium that was isolated from japanese local traditional fermented seafood.

NCBI tax id

NCBI tax idMatching level
64642species
1123359strain

strain history

@refhistory
6045<- Y. Benno <- T. Fujii; X-1 <- M. Satomi
67770T. Fujii X-1.
121193CIP <- 1998, JCM <- T. Fujii: strain X-1

doi: 10.13145/bacdive5257.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Enterococcaceae
  • genus: Tetragenococcus
  • species: Tetragenococcus muriaticus
  • full scientific name: Tetragenococcus muriaticus Satomi et al. 1997

@ref: 6045

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Enterococcaceae

genus: Tetragenococcus

species: Tetragenococcus muriaticus

full scientific name: Tetragenococcus muriaticus Satomi et al. 1997

strain designation: X-1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no95.747
6948099.719positive
121193nopositivecoccus-shaped

colony morphology

  • @ref: 121193

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6045MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: MRS MEDIUM (DSMZ Medium 11; with strain-specific modifications) Composition: NaCl 100.0 g/l Glucose 20.0 g/l Meat extract 10.0 g/l Casein peptone 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water
37226MEDIUM 290 - for TetragenococcusyesDistilled water make up to (1000.000 ml);Sodium chloride (100.000 g);Agar (15.000 g);Man Rogosa Sharp broth (55.000 g)
121193CIP Medium 290yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=290

culture temp

@refgrowthtypetemperaturerange
6045positivegrowth30mesophilic
37226positivegrowth30mesophilic
55250positivegrowth37mesophilic
67770positivegrowth30mesophilic
121193positivegrowth22-41
121193nogrowth10psychrophilic
121193nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55250anaerobe
121193facultative anaerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.973

murein

  • @ref: 6045
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

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
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
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
121193hippurate+hydrolysis606565
121193nitrate-reduction17632
121193nitrite-reduction16301

metabolite production

  • @ref: 121193
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 121193
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

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
121193oxidase-
121193beta-galactosidase+3.2.1.23
121193alcohol dehydrogenase-1.1.1.1
121193gelatinase-
121193amylase-
121193DNase-
121193caseinase-3.4.21.50
121193catalase-1.11.1.6
121193tween esterase-
121193gamma-glutamyltransferase-2.3.2.2
121193lecithinase-
121193lipase-
121193lysine decarboxylase-4.1.1.18
121193ornithine decarboxylase-4.1.1.17
121193phenylalanine ammonia-lyase-4.3.1.24
121193urease-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
121193--+--------+---+----

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
121193------------------------+------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121193---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6045japanese local traditional fermented seafoodJapanJPNAsia
67770Squid liver sauce, Japanese local traditional fermented seafoodJapanJPNAsia

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_7732.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_13;96_184;97_4414;98_5654;99_7732&stattab=map
  • Last taxonomy: Tetragenococcus muriaticus
  • 16S sequence: LC096225
  • Sequence Identity:
  • Total samples: 3850
  • soil counts: 200
  • aquatic counts: 321
  • animal counts: 3188
  • plant counts: 141

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
60451Risk group (German classification)
1211931Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
6045Tetragenococcus muriaticae DNA for 16S rRNAD888241512ena64642
67770Tetragenococcus muriaticus gene for 16S ribosomal RNA, partial sequence, strain: JCM 10006LC0962251437ena64642

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Tetragenococcus muriaticus DSM 156851123359.3wgspatric1123359
66792Tetragenococcus muriaticus strain JCM 1000664642.7plasmidpatric64642
66792Tetragenococcus muriaticus DSM 156852524614634draftimg1123359
67770Tetragenococcus muriaticus DSM 15685GCA_000423785scaffoldncbi1123359

GC content

@refGC-contentmethod
604536.5
6777036thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno83no
motileno96.761no
flagellatedno98.486no
gram-positiveyes93.159no
anaerobicno94.111yes
aerobicno96.213no
halophileyes97.784no
spore-formingno93.401no
thermophileno98.507no
glucose-utilyes92.46no
glucose-fermentyes87.223no

External links

@ref: 6045

culture collection no.: DSM 15685, JCM 10006, CCUG 41880, CIP 105747, LMG 18498, KCTC 21008, NBRC 100499

straininfo link

  • @ref: 74747
  • straininfo: 12151

literature

  • topic: Phylogeny
  • Pubmed-ID: 9226914
  • title: Tetragenococcus muriaticus sp. nov., a new moderately halophilic lactic acid bacterium isolated from fermented squid liver sauce.
  • authors: Satomi M, Kimura B, Mizoi M, Sato T, Fujii T
  • journal: Int J Syst Bacteriol
  • DOI: 10.1099/00207713-47-3-832
  • year: 1997
  • mesh: Animals, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Decapodiformes/*microbiology, Fatty Acids/analysis, Fermentation, *Food Microbiology, Lactic Acid/metabolism, Lactobacillus/*classification/genetics/metabolism, Liver/microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Pediococcus/*classification/genetics/metabolism, Polymorphism, Restriction Fragment Length, Salts/metabolism
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
6045Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15685)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15685
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
37226Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17801
55250Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 41880)https://www.ccug.se/strain?id=41880
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)
74747Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12151.1StrainInfo: A central database for resolving microbial strain identifiers
121193Curators of the CIPCollection of Institut Pasteur (CIP 105747)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105747