Strain identifier
BacDive ID: 6459
Type strain:
Species: Limosilactobacillus fermentum
Strain Designation: 19 LC 3, L 872
Strain history: CIP <- 1987, NCFB <- 01956, ATCC <- M. Rogosa: strain 19 LC3, Lactobacillus cellobiosus <- P.A. Hansen: strain L 872
NCBI tax ID(s): 1613 (species)
General
@ref: 8486
BacDive-ID: 6459
DSM-Number: 20055
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, human pathogen
description: Limosilactobacillus fermentum 19 LC 3 is a mesophilic human pathogen that was isolated from saliva.
NCBI tax id
- NCBI tax id: 1613
- Matching level: species
strain history
@ref | history |
---|---|
8486 | <- ATCC <- M. Rogosa, 19 LC 3 |
67770 | ATCC 11739 <-- M. Rogosa 19LC3. |
119312 | CIP <- 1987, NCFB <- 01956, ATCC <- M. Rogosa: strain 19 LC3, Lactobacillus cellobiosus <- P.A. Hansen: strain L 872 |
doi: 10.13145/bacdive6459.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Limosilactobacillus
- species: Limosilactobacillus fermentum
- full scientific name: Limosilactobacillus fermentum (Beijerinck 1901) Zheng et al. 2020
synonyms
@ref synonym 20215 Lactobacillus cellobiosus 20215 Lactobacillus fermentum
@ref: 8486
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Limosilactobacillus
species: Limosilactobacillus fermentum
full scientific name: Limosilactobacillus fermentum (Beijerinck 1901) Zheng et al. 2020
strain designation: 19 LC 3, L 872
type strain: no
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 97.593 | |
69480 | 100 | positive |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
8486 | MRS MEDIUM (DSMZ Medium 11) | yes | https://mediadive.dsmz.de/medium/11 | Name: 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 |
32899 | MEDIUM 40- for Lactobacillus and Leuconostoc | yes | Distilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g) | |
35463 | MEDIUM 41- for Lactobacillus, Leuconostoc, Weissella, Pediococcus, Sporolactobacillus inulinus | yes | Distilled water make up to (1000.000 ml);Man Rogosa Sharp broth (55.000 g) | |
119312 | CIP Medium 41 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=41 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
8486 | positive | growth | 30 | mesophilic |
32899 | positive | growth | 37 | mesophilic |
35463 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 37 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.995 |
murein
- @ref: 8486
- murein short key: A21.04
- type: A4ß L-Orn-D-Asp
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | + | builds acid from | |
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 | gentiobiose | - | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | + | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | - | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
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-mannose | - | builds acid from | 16024 |
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 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
8486 | - | - | - | - | + | + | - | - | - | - | - | + | + | - | - | - | - | - | - | - | - | - | - | - | - | + | - | - | + | - | - | + | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
8486 | saliva |
67770 | Saliva |
119312 | Human, Saliva |
isolation source categories
- Cat1: #Host Body Product
- Cat2: #Oral cavity and Airways
- Cat3: #Saliva
Safety information
risk assessment
@ref | pathogenicity human | biosafety level | biosafety level comment |
---|---|---|---|
8486 | yes, in single cases | 1 | Risk group (German classification) |
119312 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 67770
- description: Lactobacillus fermentum 16S rRNA gene, specimen voucher CECT 562
- accession: AJ575812
- length: 1555
- database: ena
- NCBI tax ID: 1613
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Limosilactobacillus fermentum DSM 20055 | GCA_001436835 | scaffold | ncbi | 1613 |
66792 | Lactobacillus fermentum strain DSM 20055 | 1613.40 | wgs | patric | 1613 |
66792 | Limosilactobacillus cellobiosus DSM 20055 | 2657245627 | draft | img | 1613 |
GC content
@ref | GC-content |
---|---|
8486 | 53.1 |
67770 | 47 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
flagellated | no | 98.515 | no |
gram-positive | yes | 97.092 | no |
anaerobic | no | 75.669 | no |
aerobic | no | 96.75 | no |
halophile | yes | 92.848 | no |
spore-forming | no | 97.197 | no |
glucose-util | yes | 90.231 | no |
motile | no | 95.864 | no |
thermophile | no | 98.871 | yes |
glucose-ferment | yes | 88.978 | no |
External links
@ref: 8486
culture collection no.: DSM 20055, ATCC 11739, NCDO 928, JCM 1137, BCRC 12194, CECT 562, CIP 102981, JCM 12530, LMG 9846, NCFB 928, NRRL B-1840
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17429157 | Identification of lactic acid bacteria from fermented tea leaves (miang) in Thailand and proposals of Lactobacillus thailandensis sp. nov., Lactobacillus camelliae sp. nov., and Pediococcus siamensis sp. nov. | Tanasupawat S, Pakdeeto A, Thawai C, Yukphan P, Okada S | J Gen Appl Microbiol | 10.2323/jgam.53.7 | 2007 | Base Composition, *Fermentation, Lactobacillus/classification/genetics/*isolation & purification/metabolism, Plant Leaves/*microbiology, RNA, Ribosomal, 16S/genetics, Tea/*microbiology | Enzymology |
Metabolism | 23332852 | Antimicrobial potential for the combination of bovine lactoferrin or its hydrolysate with lactoferrin-resistant probiotics against foodborne pathogens. | Chen PW, Jheng TT, Shyu CL, Mao FC | J Dairy Sci | 10.3168/jds.2012-6112 | 2013 | Animals, Anti-Infective Agents/administration & dosage/*therapeutic use, Bifidobacterium/metabolism, Cattle, Enterococcus faecalis/drug effects, Escherichia coli/drug effects, Lactobacillus/metabolism, Lactobacillus acidophilus/metabolism, Lactobacillus rhamnosus/metabolism, Lactoferrin/administration & dosage/drug effects/*therapeutic use, Pediococcus/metabolism, Probiotics/administration & dosage/*therapeutic use, Protein Hydrolysates, Salmonella typhimurium/drug effects | Pathogenicity |
Metabolism | 24072764 | Synergistic antibacterial efficacies of the combination of bovine lactoferrin or its hydrolysate with probiotic secretion in curbing the growth of meticillin-resistant Staphylococcus aureus. | Chen PW, Jheng TT, Shyu CL, Mao FC | J Med Microbiol | 10.1099/jmm.0.052639-0 | 2013 | Animals, Anti-Bacterial Agents/*metabolism, Bifidobacterium/metabolism, Cattle, Humans, Lactobacillus fermentum/metabolism, Lactoferrin/*metabolism, Methicillin-Resistant Staphylococcus aureus/*immunology, Microbial Sensitivity Tests/methods, Probiotics/*metabolism, Protein Hydrolysates/*metabolism, Staphylococcal Infections/metabolism | Pathogenicity |
33818964 | Identification of Dairy Fungal Contamination and Reduction of Aflatoxin M1 Amount by Three Acid and Bile Resistant Probiotic Bacteria. | Faghihi Shahrestani F, Tajabadi Ebrahimi M, Bayat M, Hashemi J, Razavilar V | Arch Razi Inst | 10.22092/ari.2019.126572.1347 | 2021 | Aflatoxin M1, Animals, Bile/chemistry, Cattle, Female, Food Contamination, Fungi, Iran, *Lactobacillales, Milk/chemistry, *Probiotics, Saccharomyces |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
8486 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20055) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20055 | |||
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 | |||
32899 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/18007 | ||||
35463 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14727 | ||||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
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 | |||
119312 | Curators of the CIP | Collection of Institut Pasteur (CIP 102981) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102981 |