Strain identifier

BacDive ID: 6558

Type strain: Yes

Species: Limosilactobacillus vaginalis

Strain Designation: Lac 19

Strain history: CIP <- 1999, C. Phillips, AFISC, Highett, Australia: strain CSCC 5252 <- LMG <- 1992, ATCC <- NCTC

NCBI tax ID(s): 1633 (species)

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General

@ref: 2334

BacDive-ID: 6558

DSM-Number: 5837

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

description: Limosilactobacillus vaginalis Lac 19 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from vaginal swab from patient with trichomoniasis.

NCBI tax id

  • NCBI tax id: 1633
  • Matching level: species

strain history

@refhistory
2334<- T.M. Embley, Lac 19
67770NCTC 12197 <-- T. M. Embley Lac 19 <-- W. Bossart.
123782CIP <- 1999, C. Phillips, AFISC, Highett, Australia: strain CSCC 5252 <- LMG <- 1992, ATCC <- NCTC

doi: 10.13145/bacdive6558.20250331.9.3

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 vaginalis
  • full scientific name: Limosilactobacillus vaginalis (Embley et al. 1989) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus vaginalis

@ref: 2334

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Limosilactobacillus

species: Limosilactobacillus vaginalis

full scientific name: Limosilactobacillus vaginalis (Embley et al. 1989) Zheng et al. 2020

strain designation: Lac 19

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
123782positiverod-shapedno
125438no91
125438positive95.062

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2334MRS 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
38591MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
123782CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
2334positivegrowth37
38591positivegrowth37
50607positivegrowth37
50607positivegrowth37-42
67770positivegrowth37
123782positivegrowth30-45
123782nogrowth10
123782nogrowth15
123782nogrowth22

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
50607anaerobe
50607microaerophile
123782facultative anaerobe
125439microaerophile97

spore formation

  • @ref: 125438
  • spore formation: no
  • confidence: 92.017

murein

  • @ref: 2334
  • murein short key: A21.04
  • type: A4ß L-Orn-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6837727897tryptophan-energy source
6837716199urea-hydrolysis
6837718257ornithine-degradation
6837717992sucrose-builds acid from
6837717306maltose+builds acid from
12378217632nitrate-reduction
12378216301nitrite-reduction
12378217632nitrate+respiration
68371Potassium 5-ketogluconate-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837715824D-fructose+builds acid from
6837717634D-glucose+builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-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
6837118305arbutin-builds acid from
6837127613amygdalin-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
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
6837117754glycerol-builds acid from

metabolite production

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetaboliteindole testvoges-proskauer-test
6837735581indole-
12378215688acetoin-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-chymotrypsin-3.4.21.1
68382acid phosphatase+3.1.3.2
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase-3.1.3.1
123782oxidase-
123782alcohol dehydrogenase+1.1.1.1
123782catalase-1.11.1.6
123782lysine decarboxylase-4.1.1.18
123782ornithine decarboxylase-4.1.1.17
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase-3.5.2.6
68382alpha-galactosidase+3.2.1.22
68377tryptophan deaminase-4.1.99.1
68377gamma-glutamyltransferase-2.3.2.2
68377proline-arylamidase-3.4.11.5
68377beta-galactosidase-3.2.1.23
68377alkaline phosphatase-3.1.3.1
68377lipase+

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    50607C14:07.414
    50607C16:023.716
    50607C16:1 ω7c4.415.819
    50607C18:1 ω7c /12t/9t15.517.824
    50607C18:1 ω9c33.317.769
    50607C19:0 CYCLO ω9c15.718.87
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123782--++-+----++++------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
2334----------++++--------------++++---+--------------
2334----------+++------------+--++++---+--------------
2334----------++++--------------++++---+--------------

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
50607-+++---+-----

Isolation, sampling and environmental information

isolation

@refsample type
2334vaginal swab from patient with trichomoniasis
50607Human vagina,patient with trichomoniasis
67770Vagina of patients suffering from trichomonaiasis
123782Human, Vagina

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Infection#Patient
#Infection#Patient#Swab
#Host Body-Site#Urogenital tract#Vagina

taxonmaps

  • @ref: 69479
  • File name: preview.99_8772.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_369;97_416;98_6419;99_8772&stattab=map
  • Last taxonomy: Limosilactobacillus
  • 16S sequence: LC096217
  • Sequence Identity:
  • Total samples: 57801
  • soil counts: 1438
  • aquatic counts: 719
  • animal counts: 55246
  • plant counts: 398

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
23341Risk group (German classification)
1237821Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequenceAF2431771541nuccore1633
20218Lactobacillus vaginalis strain DSM 5837 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceEU161598796nuccore1633
20218Lactobacillus vaginalis gene for 16S rRNA, partial sequence, strain: JCM 9505AB289311648nuccore1633
20218Lactobacillus vaginalis 16S ribosomal RNA, partial sequence; 16S/23S intergenic spacer region, complete sequence; and 23S ribosomal RNA partial sequenceAF182731672nuccore1633
20218L.vaginalis 16S rRNA geneX611361488nuccore1633
67770Lactobacillus vaginalis gene for 16S ribosomal RNA, partial sequence, strain: JCM 9505LC0962171513nuccore1633
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431411505nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431421521nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431431502nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431441521nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431451524nuccore97478
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431461517nuccore47715
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431471518nuccore47714
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431481524nuccore97478
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431491525nuccore1613
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431501508nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431511521nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431521509nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431531513nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431541523nuccore1633
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431551511nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431561509nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431571508nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431581510nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431591511nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431601509nuccore120548
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431611512nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431621512nuccore109790
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431631502nuccore120549
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431641511nuccore120476
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431651522nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431661525nuccore1613
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431671497nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431681513nuccore47714
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431691512nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431701508nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431711510nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431721509nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431731518nuccore1596
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431741509nuccore47770
124043Lactobacillus vaginalis strain ATCC49540 16S ribosomal RNA gene, partial sequence.AF2431751513nuccore47770

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Limosilactobacillus vaginalis DSM 5837 = ATCC 49540 SRR9217392-mag-bin.4GCA_905371805contigncbi1423814
66792Lactobacillus vaginalis ATCC 49540525366.3wgspatric1423814
66792Lactobacillus vaginalis DSM 5837 = ATCC 495401423814.6wgspatric1423814
66792Lactobacillus vaginalis DSM 5837 = ATCC 49540 strain SRR9217392-mag-bin.41423814.24wgspatric1423814
66792Limosilactobacillus vaginalis ATCC 49540643886050draftimg1423814
66792Limosilactobacillus vaginalis DSM 58372667527865draftimg1423814
67770Limosilactobacillus vaginalis DSM 5837 = ATCC 49540GCA_000159435scaffoldncbi1423814
67770Limosilactobacillus vaginalis DSM 5837 = ATCC 49540GCA_001435915scaffoldncbi1423814

GC content

@refGC-contentmethod
233439.0
6777040.5genome sequence analysis
6777039thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes95.062no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no76.768no
125438spore-formingspore-formingAbility to form endo- or exosporesno92.017no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no93.627yes
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.875no
125438motile2+flagellatedAbility to perform flagellated movementno91no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno83.8
125439BacteriaNetmotilityAbility to perform movementno69
125439BacteriaNetgram_stainReaction to gram-stainingpositive66.8
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthmicroaerophile97

External links

@ref: 2334

culture collection no.: DSM 5837, ATCC 49540, NCTC 12197, CCUG 31452, JCM 9505, BCRC 14735, CECT 4089, CIP 105932, KCTC 3515, LMG 12891, NCFB 2810, NCIMB 702810, CSCC 5252

straininfo link

  • @ref: 76029
  • straininfo: 277603

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24308641The genome of the Lactobacillus sanfranciscensis temperate phage EV3.Ehrmann MA, Angelov A, Picozzi C, Foschino R, Vogel RFBMC Res Notes10.1186/1756-0500-6-5142013Bacteriophages/classification/*genetics, Base Sequence, *Genome, Viral, Lactobacillus/*virology, Open Reading Frames, PhylogenyGenetics
Phylogeny33646933Limosilactobacillus urinaemulieris sp. nov. and Limosilactobacillus portuensis sp. nov. isolated from urine of healthy women.Ksiezarek M, Ribeiro TG, Rocha J, Grosso F, Perovic SU, Peixe LInt J Syst Evol Microbiol10.1099/ijsem.0.0047262021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2334Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5837)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5837
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
38591Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18006
50607Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 31452)https://www.ccug.se/strain?id=31452
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
68377Automatically annotated from API NH
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
76029Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID277603.1StrainInfo: A central database for resolving microbial strain identifiers
123782Curators of the CIPCollection of Institut Pasteur (CIP 105932)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105932
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