Strain identifier

BacDive ID: 6570

Type strain: Yes

Species: Latilactobacillus sakei

Strain Designation: T.S.

Strain history: CIP <- 1988, DSM <- ATCC <- K. Kitahara: strain T.S.

NCBI tax ID(s): 1599 (species)

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General

@ref: 8430

BacDive-ID: 6570

DSM-Number: 20017

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

description: Latilactobacillus sakei T.S. is a microaerophile, mesophilic bacterium that was isolated from "Moto" starter of sake.

NCBI tax id

  • NCBI tax id: 1599
  • Matching level: species

strain history

@refhistory
8430<- ATCC <- K. Kitahara, T.S.
67770ATCC 15521 <-- K. Kitahara strain T.S (=37).
122357CIP <- 1988, DSM <- ATCC <- K. Kitahara: strain T.S.

doi: 10.13145/bacdive6570.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Latilactobacillus
  • species: Latilactobacillus sakei
  • full scientific name: Latilactobacillus sakei (Katagiri et al. 1934) Zheng et al. 2020

  • synonyms

    @refsynonym
    20215Lactobacillus sakei
    20215Lactobacillus bavaricus
    20215Lactobacillus sake

@ref: 8430

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Latilactobacillus

species: Latilactobacillus sakei subsp. sakei

full scientific name: Latilactobacillus sakei subsp. sakei (Katagiri et al. 1934) Zheng et al. 2020

strain designation: T.S.

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no93.173
69480100positive
122357nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8430MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 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
41837MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
122357CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
8430positivegrowth30mesophilic
41837positivegrowth37mesophilic
50121positivegrowth37mesophilic
67770positivegrowth30mesophilic
122357positivegrowth10-37
122357nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
50121microaerophile
122357facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.993

compound production

  • @ref: 8430
  • compound: lactic acid racemase

murein

  • @ref: 8430
  • 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
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
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
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
122357nitrate-builds gas from17632
122357nitrate-reduction17632
122357nitrite-builds gas from16301
122357nitrite-reduction16301
122357nitrate+respiration17632

antibiotic resistance

  • @ref: 122357
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite tests

  • @ref: 122357
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: +

enzymes

@refvalueactivityec
122357oxidase-
122357alcohol dehydrogenase-1.1.1.1
122357catalase-1.11.1.6
122357lysine decarboxylase-4.1.1.18
122357ornithine decarboxylase-4.1.1.17

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8430----++----++++--------+--+--+-+++------+----------
8430----++----++++--------+--+--+-++--------+---------
8430----++----++++--------+-----+-++------------------
8430----++----++++--------+--+/---+-++-------+----------
8430----++----++++--------+-----+-++------------------
8430----++----++++--------+--+--+-++---------------+/---

Isolation, sampling and environmental information

isolation

@refsample type
8430"Moto" starter of sake
50121Sake starter,'Moto'
67770Moto (starter of sake)
122357Food, Starter of sake

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Fermented
#Engineered#Food production#Beverage

taxonmaps

  • @ref: 69479
  • File name: preview.99_668.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_411;97_466;98_537;99_668&stattab=map
  • Last taxonomy: Latilactobacillus
  • 16S sequence: AM113784
  • Sequence Identity:
  • Total samples: 26696
  • soil counts: 1455
  • aquatic counts: 2674
  • animal counts: 21518
  • plant counts: 1049

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
84301Risk group (German classification)
1223571Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus sakei ATCC 15521 16S ribosomal RNA gene, partial sequenceAF429523512ena1599
20218Lactobacillus sakei strain ATCC 15521 16S ribosomal RNA gene, partial sequence; 16S-23S intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF429610548ena1599
20218Lactobacillus sake 16S/23S ribosomal RNA small intergenic spacer region, complete sequenceU97131226ena1599
20218Lactobacillus sake 16S/23S ribosomal RNA large intergenic spacer region, tRNA-Ile and tRNA-Ala genes, complete sequenceU97137436ena1599
20218Lactobacillus sakei partial 16S rRNA gene, strain type strain:DSM 20017AM1137841561ena1599
20218Lactobacillus sakei subsp. sakei strain DSM 20017 16S small subunit ribosomal RNA gene, partial sequenceAY2048931406ena214326
20218Lactobacillus sake 16S ribosomal RNAM588291523ena1599
20218Lactobacillus sakei subsp. sakei gene for 16S rRNA, partial sequence, strain: JCM 1157AB289292653ena214326
67770Lactobacillus sakei subsp. sakei gene for 16S ribosomal RNA, partial sequence, strain: JCM 1157LC0648991521ena214326

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Latilactobacillus sakei subsp. sakei DSM 20017 = JCM 1157 LT-13GCA_002370355completencbi1423833
66792Latilactobacillus sakei subsp. sakei NBRC 15893GCA_007989165contigncbi214326
66792Lactobacillus sakei subsp. sakei DSM 20017 = JCM 11571423833.3wgspatric1423833
66792Lactobacillus sakei subsp. sakei DSM 20017 = JCM 1157 strain LT-131423833.6plasmidpatric1423833
66792Lactobacillus sakei subsp. sakei DSM 20017 = JCM 1157 strain LT-131423833.5completepatric1423833
66792Lactobacillus sakei subsp. sakei JCM 11571236943.3wgspatric1423833
66792Lactobacillus sakei subsp. sakei strain ATCC 15521214326.6wgspatric214326
66792Lactobacillus sakei subsp. sakei strain NBRC 15893214326.8wgspatric214326
66792Lactobacillus sakei DSM 200172690316289draftimg1423833
66792Lactobacillus sakei sakei JCM 11572585427929draftimg1423833
66792Lactobacillus sakei ATCC 155212916471385draftimg1599
67770Latilactobacillus sakei subsp. sakei DSM 20017 = JCM 1157GCA_001434065contigncbi1423833
67770Latilactobacillus sakei subsp. sakei DSM 20017 = JCM 1157GCA_000615365contigncbi1423833
67770Latilactobacillus sakei subsp. sakei ATCC 15521GCA_004354475contigncbi214326
66792Latilactobacillus sakei LMG 9468GCA_029823535contigncbi1599

GC content

@refGC-contentmethod
843042.2
6777041.1genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno98.759no
gram-positiveyes96.329no
anaerobicno95.053yes
aerobicno97.064no
halophileyes94.794no
spore-formingno93.798no
glucose-utilyes92.077no
thermophileno99.675yes
motileno95.515no
glucose-fermentyes83.972no

External links

@ref: 8430

culture collection no.: CCUG 30501, DSM 20017, ATCC 15521, WDCM 00015, JCM 1157, BCRC 14622, CECT 906, CGMCC 1.2142, CIP 103139, IFO 15893, KCTC 3603, LMG 9468, NBRC 15893, NCFB 2714, NCIMB 13090, NRIC 1071, VTT E-991032, NCDO 2714, CCM 7203, NCTC 13636

straininfo link

  • @ref: 76044
  • straininfo: 370255

literature

  • topic: Metabolism
  • Pubmed-ID: 35140055
  • title: Identification and characterization of bacteriocin biosynthetic gene clusters found in multiple bacteriocins producing Lactiplantibacillus plantarum PUK6.
  • authors: Kawahara A, Zendo T, Matsusaki H
  • journal: J Biosci Bioeng
  • DOI: 10.1016/j.jbiosc.2022.01.008
  • year: 2022
  • mesh: Anti-Bacterial Agents/pharmacology, *Bacteriocins/genetics, *Lactobacillus plantarum/metabolism, Multigene Family, Peptides/metabolism

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8430Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20017)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20017
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
41837Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14904
50121Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30501)https://www.ccug.se/strain?id=30501
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
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
76044Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID370255.1StrainInfo: A central database for resolving microbial strain identifiers
122357Curators of the CIPCollection of Institut Pasteur (CIP 103139)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103139