Strain identifier

BacDive ID: 6459

Type strain: No

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)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.3 (current version):
version 9.2:
version 9.1:
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 9.3 (current version)

General

@ref: 8486

BacDive-ID: 6459

DSM-Number: 20055

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-positive

description: Limosilactobacillus fermentum 19 LC 3 is a mesophilic, Gram-positive bacterium that was isolated from saliva.

NCBI tax id

  • NCBI tax id: 1613
  • Matching level: species

strain history

@refhistory
8486<- ATCC <- M. Rogosa, 19 LC 3
67770ATCC 11739 <-- M. Rogosa 19LC3.
119312CIP <- 1987, NCFB <- 01956, ATCC <- M. Rogosa: strain 19 LC3, Lactobacillus cellobiosus <- P.A. Hansen: strain L 872

doi: 10.13145/bacdive6459.20250331.9.3

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

    @refsynonym
    20215Lactobacillus fermentum
    20215Lactobacillus cellobiosus

@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

@refmotilityconfidencegram stain
125438no90
12543892.654positive

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8486MRS 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
32899MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
35463MEDIUM 41- for Lactobacillus, Leuconostoc, Weissella, Pediococcus, Sporolactobacillus inulinusyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp broth (55.000 g)
119312CIP Medium 41yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=41

culture temp

@refgrowthtypetemperature
8486positivegrowth30
32899positivegrowth37
35463positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

  • @ref: 125439
  • oxygen tolerance: anaerobe
  • confidence: 99

spore formation

@refspore formationconfidence
125438no90.861
125439no97.9

murein

  • @ref: 8486
  • murein short key: A21.04
  • type: A4ß L-Orn-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371methyl alpha-D-glucopyranoside-builds acid from320061
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
68371N-acetylglucosamine-builds acid from59640
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8486----++-----++------------+--+--+---------------+-+

Isolation, sampling and environmental information

isolation

@refsample type
8486saliva
67770Saliva
119312Human, Saliva

isolation source categories

  • Cat1: #Host Body Product
  • Cat2: #Oral cavity and Airways
  • Cat3: #Saliva

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
8486yes, in single cases1Risk group (German classification)
1193121Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Lactobacillus fermentum 16S rRNA gene, specimen voucher CECT 562AJ5758121555nuccore1613
124043Limosilactobacillus fermentum strain CECT 562 16S ribosomal RNA gene, partial sequence.OQ2915871475nuccore1613

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Limosilactobacillus fermentum DSM 20055GCA_001436835scaffoldncbi1613
66792Lactobacillus fermentum strain DSM 200551613.40wgspatric1613
66792Limosilactobacillus cellobiosus DSM 200552657245627draftimg1613

GC content

@refGC-content
848653.1
6777047

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes92.654no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no80.645no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no95.08no
125438spore-formingspore-formingAbility to form endo- or exosporesno90.861no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno95.5no
125438motile2+flagellatedAbility to perform flagellated movementno90no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno97.9
125439BacteriaNetmotilityAbility to perform movementno79.2
125439BacteriaNetgram_stainReaction to gram-stainingnegative70.3
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthanaerobe99

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

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17429157Identification 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 SJ Gen Appl Microbiol10.2323/jgam.53.72007Base Composition, *Fermentation, Lactobacillus/classification/genetics/*isolation & purification/metabolism, Plant Leaves/*microbiology, RNA, Ribosomal, 16S/genetics, Tea/*microbiologyEnzymology
Metabolism23332852Antimicrobial potential for the combination of bovine lactoferrin or its hydrolysate with lactoferrin-resistant probiotics against foodborne pathogens.Chen PW, Jheng TT, Shyu CL, Mao FCJ Dairy Sci10.3168/jds.2012-61122013Animals, 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 effectsPathogenicity
Metabolism24072764Synergistic 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 FCJ Med Microbiol10.1099/jmm.0.052639-02013Animals, 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/metabolismPathogenicity
33818964Identification 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 VArch Razi Inst10.22092/ari.2019.126572.13472021Aflatoxin M1, Animals, Bile/chemistry, Cattle, Female, Food Contamination, Fungi, Iran, *Lactobacillales, Milk/chemistry, *Probiotics, Saccharomyces

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8486Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20055)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20055
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
32899Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18007
35463Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14727
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
119312Curators of the CIPCollection of Institut Pasteur (CIP 102981)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102981
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1