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)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
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 8.1 (current version)

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/bacdive6558.20230509.8.1

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 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

  • @ref: 123782
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

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

@refgrowthtypetemperaturerange
2334positivegrowth37mesophilic
38591positivegrowth37mesophilic
50607positivegrowth37mesophilic
50607positivegrowth37-42
67770positivegrowth37mesophilic
123782positivegrowth30-45
123782nogrowth10psychrophilic
123782nogrowth15psychrophilic
123782nogrowth22psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
50607anaerobe
50607microaerophile
123782facultative anaerobe

murein

  • @ref: 2334
  • 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
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
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
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-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
123782nitrate-reduction17632
123782nitrite-reduction16301
123782nitrate+respiration17632
68377D-glucose+builds acid from17634
68377D-fructose+builds acid from15824
68377maltose+builds acid from17306
68377sucrose-builds acid from17992
68377ornithine-degradation18257
68377urea-hydrolysis16199
68377tryptophan-energy source27897

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
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase+3.2.1.23
68382alpha-galactosidase+3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
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
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+
68377urease-3.5.1.5
68377ornithine decarboxylase-4.1.1.17
68377beta-lactamase-3.5.2.6
123782oxidase-
123782alcohol dehydrogenase+1.1.1.1
123782catalase-1.11.1.6
123782lysine decarboxylase-4.1.1.18
123782ornithine decarboxylase-4.1.1.17

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 sequenceAF2431771541ena1633
20218Lactobacillus vaginalis strain DSM 5837 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceEU161598796ena1633
20218Lactobacillus vaginalis gene for 16S rRNA, partial sequence, strain: JCM 9505AB289311648ena1633
20218Lactobacillus vaginalis 16S ribosomal RNA, partial sequence; 16S/23S intergenic spacer region, complete sequence; and 23S ribosomal RNA partial sequenceAF182731672ena1633
20218L.vaginalis 16S rRNA geneX611361488ena1633
67770Lactobacillus vaginalis gene for 16S ribosomal RNA, partial sequence, strain: JCM 9505LC0962171513ena1633

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

traitpredictionconfidencetraining_data
gram-positiveyes95.958no
anaerobicno65.835no
halophileyes93.689no
spore-formingno96.719no
glucose-utilyes86.066no
thermophileno99.453yes
motileno96.7no
aerobicno96.651yes
flagellatedno98.576no
glucose-fermentyes87.727no

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