Strain identifier

BacDive ID: 6541

Type strain: Yes

Species: Lentilactobacillus parabuchneri

Strain Designation: 6E

Strain history: CIP <- 1989, NCFB <- 1984, M.E. Sharpe, reading, UK <- 1960, NCIB <- A.C. Hayward: strain 6E, Lactobacillus buchneri

NCBI tax ID(s): 152331 (species)

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General

@ref: 2300

BacDive-ID: 6541

DSM-Number: 5707

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

description: Lentilactobacillus parabuchneri 6E is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from human saliva.

NCBI tax id

  • NCBI tax id: 152331
  • Matching level: species

strain history

@refhistory
2300<- NCDO <- M.E. Sharpe <- NCIB <- A.C. Hayward, 6E
67770CCUG 32261 <-- NCIMB 8838 <-- A. C. Hayward 6E.
121542CIP <- 1989, NCFB <- 1984, M.E. Sharpe, reading, UK <- 1960, NCIB <- A.C. Hayward: strain 6E, Lactobacillus buchneri

doi: 10.13145/bacdive6541.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lentilactobacillus
  • species: Lentilactobacillus parabuchneri
  • full scientific name: Lentilactobacillus parabuchneri (Farrow et al. 1989) Zheng et al. 2020

  • synonyms

    @refsynonym
    20215Lactobacillus parabuchneri
    20215Lactobacillus ferintoshensis

@ref: 2300

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lentilactobacillus

species: Lentilactobacillus parabuchneri

full scientific name: Lentilactobacillus parabuchneri (Farrow et al. 1989) Zheng et al. 2020

strain designation: 6E

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
125438no90
12543894.034positive

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2300MRS 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
34251MEDIUM 41- for Lactobacillus, Leuconostoc, Weissella, Pediococcus, Sporolactobacillus inulinusyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp broth (55.000 g)
121542CIP Medium 41yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=41

culture temp

@refgrowthtypetemperature
2300positivegrowth28
34251positivegrowth30
50937positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
50937anaerobe
50937microaerophile
125439microaerophile95.2

spore formation

  • @ref: 125439
  • spore formation: no
  • confidence: 98

murein

  • @ref: 2300
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837117754glycerol-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose+builds acid from
683716731melezitose+builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose+builds acid from
6837128053melibiose+builds acid from
6837117716lactose-builds acid from
6837117306maltose+builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose+builds acid from
6837130849L-arabinose+builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
2300----++----+++---------------+-++--++-----------+/--
2300----++----+++---------------+-++--++-----------+/-+/-

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
2300human saliva
50937Human salivaUnited KingdomGBREurope
67770Human saliva
121542Human, Saliva

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Oral cavity and Airways#Saliva

taxonmaps

  • @ref: 69479
  • File name: preview.99_1222.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_367;97_831;98_967;99_1222&stattab=map
  • Last taxonomy: Lentilactobacillus
  • 16S sequence: LC383822
  • Sequence Identity:
  • Total samples: 10571
  • soil counts: 1041
  • aquatic counts: 1599
  • animal counts: 7375
  • plant counts: 556

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
23001Risk group (German classification)
1215421Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus parabuchneri gene for 16S ribosomal RNA, partial sequence, strain: DSM 5707AB3708771497nuccore152331
20218Lactobacillus parabuchneri strain DSM 5707 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceEU161610521nuccore152331
20218Lactobacillus parabuchneri gene for 16S ribosomal RNA, partial sequenceAB2050561556nuccore152331
20218Lactobacillus parabuchneri gene for 16S rRNA, partial sequence, strain: JCM 12493AB289211489nuccore152331
20218Lactobacillus parabuchneri 16S rRNA gene, type strain: LMG 11457AJ9703171527nuccore152331
20218Lactobacillus parabuchneri 16S ribosomal RNA gene, partial sequenceAY0267511219nuccore152331
67770Lactobacillus parabuchneri JCM 12493 gene for 16S ribosomal RNA, partial sequenceLC3838221513nuccore152331

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lentilactobacillus parabuchneri DSM 5707 = NBRC 107865GCA_001591885contigncbi1423784
66792Lactobacillus parabuchneri DSM 5707 = NBRC 1078651423784.4wgspatric1423784
66792Lactobacillus parabuchneri DSM 5707 = NBRC 1078651423784.5wgspatric1423784
66792Lentilactobacillus parabuchneri DSM 57072667527643draftimg1423784
66792Lentilactobacillus parabuchneri NBRC 1078652731957671draftimg1423784
67770Lentilactobacillus parabuchneri DSM 5707 = NBRC 107865GCA_001435315scaffoldncbi1423784
66792Lentilactobacillus parabuchneri LMG 11457GCA_029823065scaffoldncbi152331

GC content

@refGC-contentmethod
230044.0
6777044thermal denaturation, midpoint method (Tm)
6777043.5genome sequence analysis

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes94.034no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no80.959no
125438spore-formingspore-formingAbility to form endo- or exosporesno80.143no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no90.35no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.362yes
125438motile2+flagellatedAbility to perform flagellated movementno90no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno98
125439BacteriaNetmotilityAbility to perform movementno78.1
125439BacteriaNetgram_stainReaction to gram-stainingpositive60.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthmicroaerophile95.2

External links

@ref: 2300

culture collection no.: DSM 5707, ATCC 49374, NCDO 2748, NCIB 8838, CCUG 32261, NCIMB 8838, CECT 5740, JCM 12493, BCRC 14743, CIP 103368, KCTC 3503, LMG 11457, NBRC 107865, VTT E-93503

straininfo link

  • @ref: 76012
  • straininfo: 127919

literature

  • topic: Phylogeny
  • Pubmed-ID: 35576246
  • title: Lentilactobacillus laojiaonis sp. nov., isolated from the mud in a fermentation cellar for the production of Chinese liquor.
  • authors: Zhao Q, Yang S, Bao G, Wang W, Miao L, Wang S, Shen C, Li Y
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.005349
  • year: 2022
  • mesh: Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Ethanol, *Fatty Acids/chemistry, Fermentation, Humans, *Lactobacillaceae, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Pathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2300Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5707)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5707
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
34251Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15158
50937Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32261)https://www.ccug.se/strain?id=32261
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
76012Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID127919.1StrainInfo: A central database for resolving microbial strain identifiers
121542Curators of the CIPCollection of Institut Pasteur (CIP 103368)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103368
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