Strain identifier

BacDive ID: 6566

Type strain: Yes

Species: Lactobacillus kefiranofaciens subsp. kefirgranum

Strain Designation: 1701

Strain history: CIP <- 1994, JCM <- GCL: strain 1701

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General

@ref: 3923

BacDive-ID: 6566

DSM-Number: 10550

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

description: Lactobacillus kefiranofaciens subsp. kefirgranum 1701 is an anaerobe, mesophilic bacterium that was isolated from kefir grain.

NCBI tax id

NCBI tax idMatching level
1423828strain
190906subspecies

strain history

@refhistory
3923<- JCM <- S. Takizawa, GCL 1701
67770S. Takizawa GCL 1701.
120397CIP <- 1994, JCM <- GCL: strain 1701

doi: 10.13145/bacdive6566.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lactobacillus
  • species: Lactobacillus kefiranofaciens subsp. kefirgranum
  • full scientific name: Lactobacillus kefiranofaciens subsp. kefirgranum (Takizawa et al. 1994) Vancanneyt et al. 2004
  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus kefirgranum

@ref: 3923

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus kefiranofaciens subsp. kefirgranum

full scientific name: Lactobacillus kefiranofaciens subsp. kefirgranum (Takizawa et al. 1994) Vancanneyt et al. 2004

strain designation: 1701

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.611
6948099.678positive
120397nopositiverod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3923R - CW MEDIUM (DSMZ Medium 775)yeshttps://mediadive.dsmz.de/medium/775Name: R - CW MEDIUM (DSMZ Medium 775) Composition: Yeast extract 5.0 g/l Na-acetate 5.0 g/l KH2PO4 5.0 g/l Trypticase 5.0 g/l Tryptone 5.0 g/l (NH4)2 citrate 2.0 g/l MgSO4 x 7 H2O 0.5 g/l MnSO4 x H2O 0.2 g/l Tween 80 Cheese whey
40101MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
120397CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
3923positivegrowth30mesophilic
40101positivegrowth30mesophilic
58522positivegrowth30mesophilic
67770positivegrowth30mesophilic
120397positivegrowth15-37
120397nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
3923anaerobe
58522anaerobe
120397facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

murein

  • @ref: 3923
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
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
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371melibiose-builds acid from28053
68371cellobiose+builds acid from17057
68371esculin+builds acid from4853
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-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
120397esculin+hydrolysis4853
120397nitrate-reduction17632
120397nitrite-reduction16301
120397nitrate+respiration17632

metabolite tests

  • @ref: 120397
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
120397oxidase-
120397alcohol dehydrogenase-1.1.1.1
120397catalase-1.11.1.6
120397lysine decarboxylase-4.1.1.18
120397ornithine decarboxylase-4.1.1.17

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
3923----------++++--------++/-+/-++++--+/-+--+/----+/-----------
120397---------+++---------+--+-++/-+/---+------+/----------+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic location
3923kefir grainJapanJPNAsia
58522Kefir grains from E.C.Hansen's lab.,Copenhagen,DK
67770Kefir grains
120397Plant, Kefir grainsDenmarkDNKEuropeCopenhagen

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production

taxonmaps

  • @ref: 69479
  • File name: preview.99_4347.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_146;97_157;98_3269;99_4347&stattab=map
  • Last taxonomy: Lactobacillus kefiranofaciens subclade
  • 16S sequence: LC096210
  • Sequence Identity:
  • Total samples: 4633
  • soil counts: 80
  • aquatic counts: 146
  • animal counts: 4348
  • plant counts: 59

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
39231Risk group (German classification)
1203971Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus kefirgranum ATCC 51647 16S ribosomal RNA gene, partial sequenceAF429516505ena190906
20218Lactobacillus kefirgranum strain ATCC 51647 16S ribosomal RNA gene, partial sequence; 16S-23S intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequenceAF429603513ena190906
20218Lactobacillus kefirgranum 16S rRNA gene, strain CECT 5919TAJ5757421541ena190906
20218Lactobacillus kefiranofaciens subsp. kefirgranum partial 16S rRNA gene, type strain JCM 8572TFR6830931448ena190906
20218Lactobacillus kefiranofaciens subsp. kefirgranum partial 16S rRNA gene, strain type strain:DSM 10550AM1137821551ena190906
20218Lactobacillus kefiranofaciens subsp. kefirgranum gene for 16S rRNA, partial sequence, strain: JCM 8572AB289186652ena190906
20218Lactobacillus kefiranofaciens subsp. kefirgranum 16S rRNA gene, strain LMG 15132AJ5752611516ena190905
67770Lactobacillus kefiranofaciens subsp. kefirgranum gene for 16S ribosomal RNA, partial sequence, strain: JCM 8572LC0962101503ena190906

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572GCA_001311335contigncbi1423828
66792Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 85721423828.4wgspatric1423828
66792Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 85721423828.3wgspatric1423828
66792Lactobacillus kefiranofaciens kefirgranum DSM 105502675903544draftimg1423828
66792Lactobacillus kefiranofaciens kefirgranum JCM 85722728369681draftimg1423828
67770Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572GCA_001434195scaffoldncbi1423828

GC content

@refGC-contentmethod
392338.1thermal denaturation, midpoint method (Tm)
6777037.5

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno96.456no
gram-positiveyes94.738no
anaerobicyes83.62yes
halophileyes79.159no
spore-formingno95.607no
glucose-utilyes91.376no
thermophileno98.642yes
aerobicno98.29yes
flagellatedno97.752no
glucose-fermentyes88.007no

External links

@ref: 3923

culture collection no.: DSM 10550, JCM 8572, CCUG 49353, ATCC 51647, LMG 19819, CIP 104241, LMG 15132, GCL 1701, CCUG 39467, CECT 5919, CGMCC 1.3398, CGMCC 1.3689, KCTC 5086, LMG 19150, NCIMB 13720

straininfo link

@refstraininfo
760387932
76039312267
76040312358

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3923Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10550)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10550
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
40101Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/16128
58522Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 49353)https://www.ccug.se/strain?id=49353
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
76038Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID7932.1StrainInfo: A central database for resolving microbial strain identifiers
76039Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID312267.1StrainInfo: A central database for resolving microbial strain identifiers
76040Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID312358.1StrainInfo: A central database for resolving microbial strain identifiers
120397Curators of the CIPCollection of Institut Pasteur (CIP 104241)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104241