Strain identifier
BacDive ID: 6566
Type strain:
Species: Lactobacillus kefiranofaciens subsp. kefirgranum
Strain Designation: 1701
Strain history: CIP <- 1994, JCM <- GCL: strain 1701
NCBI tax ID(s): 1423828 (strain), 190906 (subspecies)
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 id | Matching level |
---|---|
1423828 | strain |
190906 | subspecies |
strain history
@ref | history |
---|---|
3923 | <- JCM <- S. Takizawa, GCL 1701 |
67770 | S. Takizawa GCL 1701. |
120397 | CIP <- 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
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 90.611 | ||
69480 | 99.678 | positive | ||
120397 | no | positive | rod-shaped |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
3923 | R - CW MEDIUM (DSMZ Medium 775) | yes | https://mediadive.dsmz.de/medium/775 | Name: 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 |
40101 | MEDIUM 40- for Lactobacillus and Leuconostoc | yes | Distilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g) | |
120397 | CIP Medium 40 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
3923 | positive | growth | 30 | mesophilic |
40101 | positive | growth | 30 | mesophilic |
58522 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
120397 | positive | growth | 15-37 | |
120397 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
3923 | anaerobe |
58522 | anaerobe |
120397 | facultative anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.998 |
murein
- @ref: 3923
- murein short key: A11.31
- type: A4alpha L-Lys-D-Asp
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | + | builds acid from | 27082 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | cellobiose | + | builds acid from | 17057 |
68371 | esculin | + | builds acid from | 4853 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | - | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | + | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | - | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
120397 | esculin | + | hydrolysis | 4853 |
120397 | nitrate | - | reduction | 17632 |
120397 | nitrite | - | reduction | 16301 |
120397 | nitrate | + | respiration | 17632 |
metabolite tests
- @ref: 120397
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
120397 | oxidase | - | |
120397 | alcohol dehydrogenase | - | 1.1.1.1 |
120397 | catalase | - | 1.11.1.6 |
120397 | lysine decarboxylase | - | 4.1.1.18 |
120397 | ornithine decarboxylase | - | 4.1.1.17 |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
3923 | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | - | - | - | - | + | +/- | +/- | + | + | + | + | - | - | +/- | + | - | - | +/- | - | - | - | +/- | - | - | - | - | - | - | - | - | - | - |
120397 | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | - | - | - | - | - | + | - | - | + | - | + | +/- | +/- | - | - | + | - | - | - | - | - | - | +/- | - | - | - | - | - | - | - | - | - | +/- |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
3923 | kefir grain | Japan | JPN | Asia | |
58522 | Kefir grains from E.C.Hansen's lab.,Copenhagen,DK | ||||
67770 | Kefir grains | ||||
120397 | Plant, Kefir grains | Denmark | DNK | Europe | Copenhagen |
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
@ref | biosafety level | biosafety level comment |
---|---|---|
3923 | 1 | Risk group (German classification) |
120397 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Lactobacillus kefirgranum ATCC 51647 16S ribosomal RNA gene, partial sequence | AF429516 | 505 | ena | 190906 |
20218 | Lactobacillus kefirgranum strain ATCC 51647 16S ribosomal RNA gene, partial sequence; 16S-23S intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | AF429603 | 513 | ena | 190906 |
20218 | Lactobacillus kefirgranum 16S rRNA gene, strain CECT 5919T | AJ575742 | 1541 | ena | 190906 |
20218 | Lactobacillus kefiranofaciens subsp. kefirgranum partial 16S rRNA gene, type strain JCM 8572T | FR683093 | 1448 | ena | 190906 |
20218 | Lactobacillus kefiranofaciens subsp. kefirgranum partial 16S rRNA gene, strain type strain:DSM 10550 | AM113782 | 1551 | ena | 190906 |
20218 | Lactobacillus kefiranofaciens subsp. kefirgranum gene for 16S rRNA, partial sequence, strain: JCM 8572 | AB289186 | 652 | ena | 190906 |
20218 | Lactobacillus kefiranofaciens subsp. kefirgranum 16S rRNA gene, strain LMG 15132 | AJ575261 | 1516 | ena | 190905 |
67770 | Lactobacillus kefiranofaciens subsp. kefirgranum gene for 16S ribosomal RNA, partial sequence, strain: JCM 8572 | LC096210 | 1503 | ena | 190906 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572 | GCA_001311335 | contig | ncbi | 1423828 |
66792 | Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572 | 1423828.4 | wgs | patric | 1423828 |
66792 | Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572 | 1423828.3 | wgs | patric | 1423828 |
66792 | Lactobacillus kefiranofaciens kefirgranum DSM 10550 | 2675903544 | draft | img | 1423828 |
66792 | Lactobacillus kefiranofaciens kefirgranum JCM 8572 | 2728369681 | draft | img | 1423828 |
67770 | Lactobacillus kefiranofaciens subsp. kefirgranum DSM 10550 = JCM 8572 | GCA_001434195 | scaffold | ncbi | 1423828 |
GC content
@ref | GC-content | method |
---|---|---|
3923 | 38.1 | thermal denaturation, midpoint method (Tm) |
67770 | 37.5 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 96.456 | no |
gram-positive | yes | 94.738 | no |
anaerobic | yes | 83.62 | yes |
halophile | yes | 79.159 | no |
spore-forming | no | 95.607 | no |
glucose-util | yes | 91.376 | no |
thermophile | no | 98.642 | yes |
aerobic | no | 98.29 | yes |
flagellated | no | 97.752 | no |
glucose-ferment | yes | 88.007 | no |
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
@ref | straininfo |
---|---|
76038 | 7932 |
76039 | 312267 |
76040 | 312358 |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
3923 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10550) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10550 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
40101 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/16128 | ||||
58522 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 49353) | https://www.ccug.se/strain?id=49353 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
69479 | João 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 | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
76038 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID7932.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
76039 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID312267.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
76040 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID312358.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
120397 | Curators of the CIP | Collection of Institut Pasteur (CIP 104241) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20104241 |