Strain identifier

BacDive ID: 165142

Type strain: No

Species: Lactobacillus paragasseri

Strain Designation: B3

Strain history: CIP <- 1962, F. Gasser, Inst. Pasteur, Paris, France: strain VPI 11759, Lactobacillus acidophilus, group B1 <- 1954, NCDO, Lactobacillus sp. <- M.E. Sharpe, Reading, UK <- R. Cruickshank: strain B3

NCBI tax ID(s): 2107999 (species)

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General

@ref: 67770

BacDive-ID: 165142

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

description: Lactobacillus paragasseri B3 is a facultative anaerobe, mesophilic, Gram-positive bacterium that was isolated from Vaginal tract.

NCBI tax id

  • NCBI tax id: 2107999
  • Matching level: species

strain history

@refhistory
67770ATCC 9857 <-- NCTC 2948 (Lactobacillus acidophilus) <-- R. Cruickshank B.3 (Doderlein's bacillus).
119539CIP <- 1962, F. Gasser, Inst. Pasteur, Paris, France: strain VPI 11759, Lactobacillus acidophilus, group B1 <- 1954, NCDO, Lactobacillus sp. <- M.E. Sharpe, Reading, UK <- R. Cruickshank: strain B3

doi: 10.13145/bacdive165142.20230509.8.1

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 paragasseri
  • full scientific name: Lactobacillus paragasseri Tanizawa et al. 2018

@ref: 67770

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus paragasseri

full scientific name: Lactobacillus paragasseri Tanizawa et al. 2018

strain designation: B3

type strain: no

Morphology

cell morphology

@refgram stainconfidencemotilitycell shape
69480positive100
6948094.568no
119539positivenorod-shaped

Culture and growth conditions

culture medium

  • @ref: 119539
  • name: CIP Medium 40
  • growth: yes
  • link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
67770positivegrowth37mesophilic
119539positivegrowth30-45
119539nogrowth10psychrophilic
119539nogrowth15psychrophilic
119539nogrowth22psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119539
  • oxygen tolerance: facultative anaerobe

spore formation

@refspore formationconfidence
69480no99.991
69481no100

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11953917632nitrate-reduction
11953916301nitrite-reduction
11953917632nitrate+respiration
6837117754glycerol-builds acid from
6837117113erythritol-builds acid from
6837117108D-arabinose-builds acid from
6837130849L-arabinose-builds acid from
6837116988D-ribose-builds acid from
6837165327D-xylose-builds acid from
6837165328L-xylose-builds acid from
6837115963ribitol-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837112936D-galactose-builds acid from
6837117266L-sorbose-builds acid from
6837162345L-rhamnose-builds acid from
6837116813galactitol-builds acid from
6837117268myo-inositol-builds acid from
6837116899D-mannitol-builds acid from
6837117924D-sorbitol-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837159640N-acetylglucosamine-builds acid from
6837127613amygdalin-builds acid from
6837118305arbutin-builds acid from
6837117306maltose-builds acid from
6837128053melibiose-builds acid from
6837115443inulin-builds acid from
683716731melezitose-builds acid from
6837116634raffinose-builds acid from
6837128017starch-builds acid from
6837128087glycogen-builds acid from
6837117151xylitol-builds acid from
6837132528turanose-builds acid from
6837162318D-lyxose-builds acid from
6837116443D-tagatose-builds acid from
6837128847D-fucose-builds acid from
6837118287L-fucose-builds acid from
6837118333D-arabitol-builds acid from
6837118403L-arabitol-builds acid from
6837124265gluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371Potassium 5-ketogluconate-builds acid from

metabolite production

  • @ref: 119539
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 119539
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

enzymes

@refvalueactivityec
119539oxidase-
119539alcohol dehydrogenase-1.1.1.1
119539catalase-1.11.1.6
119539lysine decarboxylase-4.1.1.18
119539ornithine decarboxylase-4.1.1.17
119539urease-3.5.1.5
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)-
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase-
68382cystine arylamidase-3.4.11.3
68382trypsin-3.4.21.4
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase+3.2.1.21
68382N-acetyl-beta-glucosaminidase+3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119539-----+----++---+++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
119539----------+/-+/-+/------------+/-+/-+/--+/--+/-+/-------+/-----------

Isolation, sampling and environmental information

isolation

@refsample type
67770Vaginal tract
119539Vaginal tract

taxonmaps

  • @ref: 69479
  • File name: preview.99_840.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_506;97_581;98_668;99_840&stattab=map
  • Last taxonomy: Lactobacillus
  • 16S sequence: LC374364
  • Sequence Identity:
  • Total samples: 185237
  • soil counts: 4782
  • aquatic counts: 5652
  • animal counts: 173268
  • plant counts: 1535

Safety information

risk assessment

  • @ref: 119539
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 67770
  • description: Lactobacillus paragasseri gene for 16S ribosomal RNA, partial sequence
  • accession: LC374364
  • length: 1495
  • database: ena
  • NCBI tax ID: 2107999

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus gasseri strain JCM 53441596.88wgspatric1596
67770Lactobacillus paragasseri JCM 5344GCA_003307295contigncbi2107999

GC content

@refGC-contentmethod
6777034.7genome sequence analysis
6777035thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno96.17no
gram-positiveyes96.017no
anaerobicno63.88no
aerobicno96.796no
halophileyes86.326no
spore-formingno95.984no
thermophileno99.283no
glucose-utilyes92.974no
flagellatedno97.773no
glucose-fermentyes90.681no

External links

@ref: 67770

culture collection no.: JCM 5344, ATCC 9857, CIP 62.18, KCTC 3173, LMG 11444, NCFB 3, NCIMB 2948, NCTC 2948, VPI 11089, NCDO 3, VPI 11759

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
119539Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%2062.18Collection of Institut Pasteur (CIP 62.18)