Strain identifier

BacDive ID: 6442

Type strain: Yes

Species: Lactobacillus crispatus

Strain history: CIP <- 1987, DSM <- E.P. Cato: strain VPI 3199, Lactobacillus acidophilus, group A2 <- A. Prévot, Inst. Pasteur, Paris, France strain IPP II, Eubacterium crispatus

NCBI tax ID(s): 1423736 (strain), 47770 (species)

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General

@ref: 8934

BacDive-ID: 6442

DSM-Number: 20584

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

description: Lactobacillus crispatus DSM 20584 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from eye.

NCBI tax id

NCBI tax idMatching level
1423736strain
47770species

strain history

@refhistory
8934<- E.P. Cato, VPI 3199 <- A. Prévot (Eubacterium crispatum)
67770VPI 3199 <-- A. Prévot ("Eubacterium crispatum").
118786CIP <- 1987, DSM <- E.P. Cato: strain VPI 3199, Lactobacillus acidophilus, group A2 <- A. Prévot, Inst. Pasteur, Paris, France strain IPP II, Eubacterium crispatus

doi: 10.13145/bacdive6442.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Lactobacillus
  • species: Lactobacillus crispatus
  • full scientific name: Lactobacillus crispatus (Brygoo and Aladame 1953) Moore and Holdeman 1970 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Eubacterium crispatum

@ref: 8934

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus crispatus

full scientific name: Lactobacillus crispatus (Brygoo and Aladame 1953) Moore and Holdeman 1970 emend. Cato et al. 1983

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
118786positiverod-shapedno
125438no93
125438positive92.048

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8934BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58)yeshttps://mediadive.dsmz.de/medium/58Name: BIFIDOBACTERIUM MEDIUM (DSMZ Medium 58) Composition: Glucose 10.0 g/l Casein peptone 10.0 g/l Bacto Soytone 5.0 g/l Meat extract 5.0 g/l Yeast extract 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l MnSO4 x H2O 0.05 g/l KH2PO4 0.04 g/l K2HPO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Tween 80 Resazurin Distilled water
8934PYG MEDIUM (MODIFIED) (DSMZ Medium 104)yeshttps://mediadive.dsmz.de/medium/104Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
40499MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
118786CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
8934positivegrowth37
40499positivegrowth37
50243positivegrowth37
67770positivegrowth37
118786positivegrowth37-45
118786nogrowth15

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
8934anaerobe
50243anaerobe
50243microaerophile
118786facultative anaerobe
125439microaerophile96.2

spore formation

  • @ref: 125438
  • spore formation: no
  • confidence: 90.444

murein

  • @ref: 8934
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11878617632nitrate-reduction
11878616301nitrite-reduction
11878617632nitrate+respiration
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin+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
6837117151xylitol-builds acid from
6837128017starch+builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837117992sucrose+builds acid from
6837117716lactose+builds acid from
6837117306maltose+builds acid from
6837117057cellobiose+builds acid from
6837117814salicin+builds acid from
683714853esculin+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
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 tests

  • @ref: 118786
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

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
68382alpha-galactosidase+3.2.1.22
68382beta-galactosidase+3.2.1.23
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
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase-3.1.3.1
68382esterase (C 4)+
118786oxidase-
118786alcohol dehydrogenase-1.1.1.1
118786catalase-1.11.1.6
118786lysine decarboxylase-4.1.1.18
118786ornithine decarboxylase-4.1.1.17
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
118786--++-+----+-++-++---

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8934----------++++--------+-++++++++---+++------------
8934----------+++---------++/-+++++++++/---+++------------
8934-----------++---------+-+++++++++--+++------------
8934----------+/-+++-------+/-++/-++++++++---+++/--+/-----------
8934----------+/-++--------+++++++++-++---++-+----------
8934-----------++-----------++++++-++---++------------
8934----------++++-------+++++++++-++--+++-+----------
118786---------++++-------+/-++++++++-++---++-++/----------
8934-----------++---------+++++++++++/---+++------------

Isolation, sampling and environmental information

isolation

@refsample type
8934eye
50243Eye
67770Eye
118786Human, Eye, conjunctiva

isolation source categories

  • Cat1: #Host Body-Site
  • Cat2: #Organ
  • Cat3: #Eye

taxonmaps

  • @ref: 69479
  • File name: preview.99_805.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_46;96_146;97_157;98_175;99_805&stattab=map
  • Last taxonomy: Lactobacillus
  • 16S sequence: LC065039
  • Sequence Identity:
  • Total samples: 97415
  • soil counts: 4210
  • aquatic counts: 4168
  • animal counts: 87492
  • plant counts: 1545

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
89341Risk group (German classification)
1187861Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus crispatus 16S-23S rRNA intergenic spacer regionAF074857203nuccore47770
20218Lactobacillus crispatus 16S ribosomal RNA gene, partial sequenceAF133265485nuccore47770
20218Lactobacillus crispatus strain ATCC33820 16S ribosomal RNA gene, partial sequenceAF2570971518nuccore47770
20218Lactobacillus crispatus partial 16S rRNA gene, type strain DSM 20584TFR6830881516nuccore47770
20218Lactobacillus crispatus strain DSM 20584 16S ribosomal RNA gene, partial sequenceEF468095391nuccore47770
20218Lactobacillus crispatus strain DSM 20584 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceEU161625793nuccore47770
20218Lactobacillus crispatus 16S rRNA geneY173621559nuccore47770
20218Lactobacillus crispatus gene for 16S rRNA, partial sequence, strain: YIT 0212 (= JCM 1185)AB0082061556nuccore47770
20218Lactobacillus crispatus gene for 16S rRNA, partial sequence, strain: JCM 1185AB289067694nuccore1423736
20218Lactobacillus crispatus 16S ribosomal RNA, partial sequence; 16S/23S intergenic spacer region, complete sequence; and 23S ribosomal RNA partial sequenceAF182719662nuccore1423736
67770Lactobacillus crispatus gene for 16S ribosomal RNA, partial sequence, strain: JCM 1185LC0650391464nuccore1423736
124043Lactobacillus crispatus DSM 20584 gene for 16S rRNA, partial sequence.LC752457588nuccore47770

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus crispatus ATCC 33820GCA_018987235completencbi47770
66792Lactobacillus crispatus DSM 20584 = JCM 11851423736.4wgspatric1423736
66792Lactobacillus crispatus DSM 20584 = JCM 11851423736.3wgspatric1423736
66792Lactobacillus crispatus strain ATCC 3382047770.840completepatric47770
66792Lactobacillus crispatus strain ATCC 3382047770.64wgspatric47770
66792Lactobacillus crispatus strain NCK248847770.576wgspatric47770
66792Lactobacillus crispatus DSM 205842690315996draftimg1423736
66792Lactobacillus crispatus JCM 11852728369695draftimg1423736
67770Lactobacillus crispatus DSM 20584 = JCM 1185 = ATCC 33820GCA_001434005scaffoldncbi1423736
67770Lactobacillus crispatus DSM 20584 = JCM 1185 = ATCC 33820GCA_001311685contigncbi1423736
67770Lactobacillus crispatus ATCC 33820GCA_002088015scaffoldncbi47770

GC content

@refGC-contentmethod
893435.0
6777036.6genome sequence analysis
6777035thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes92.048no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no67.014no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no97.099no
125438spore-formingspore-formingAbility to form endo- or exosporesno90.444no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno97no
125438motile2+flagellatedAbility to perform flagellated movementno93no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno62.6
125439BacteriaNetmotilityAbility to perform movementno54.6
125439BacteriaNetgram_stainReaction to gram-stainingpositive73.7
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthmicroaerophile96.2

External links

@ref: 8934

culture collection no.: DSM 20584, ATCC 33820, CCUG 30722, JCM 1185, LMG 9479, CIP 102990, VPI 3199, BCRC 14618, CECT 4840, NCFB 2752, NRIC 1717, NCDO 2752

straininfo link

  • @ref: 75916
  • straininfo: 3273

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Pathogenicity11200668Isolation and characterization of beta-galactosidase from Lactobacillus crispatus.Kim JW, Rajagopal SNFolia Microbiol (Praha)10.1007/BF028174462000Animals, Carbohydrates, Chickens, Humans, Hydrogen-Ion Concentration, Iron/pharmacology, Lactobacillus/drug effects/*enzymology, Manganese/pharmacology, Temperature, Zinc/pharmacology, beta-Galactosidase/*isolation & purification/metabolismPhylogeny
Phylogeny14761083Characterization and electrotransformation of Lactobacillus crispatus isolated from chicken crop and intestine.Beasley SS, Takala TM, Reunanen J, Apajalahti J, Saris PEPoult Sci10.1093/ps/83.1.452004Animals, Base Sequence, Chickens/*microbiology, Crop, Avian/*microbiology, DNA, Bacterial/chemistry/genetics, Electroporation, Glycine/metabolism, Intestine, Small/*microbiology, *Lactobacillus/classification/genetics/isolation & purification, Molecular Sequence Data, Phylogeny, Plasmids, *Probiotics, RNA, Ribosomal, 16S/*analysis/chemistry, Sequence Homology, Nucleic Acid, Species Specificity, Transformation, BacterialGenetics
Metabolism24120511Lactobacillus crispatus modulates epithelial cell defense against Candida albicans through Toll-like receptors 2 and 4, interleukin 8 and human beta-defensins 2 and 3.Rizzo A, Losacco A, Carratelli CRImmunol Lett10.1016/j.imlet.2013.08.0132013Bacterial Adhesion/immunology, Blotting, Western, Candida albicans/*immunology/physiology, Enzyme-Linked Immunosorbent Assay, Epithelial Cells/*immunology/metabolism/microbiology, HeLa Cells, Host-Pathogen Interactions/immunology, Humans, Interleukin-8/*immunology/metabolism, Lactobacillus/*immunology/physiology, Microbial Interactions/immunology, Toll-Like Receptor 2/immunology/metabolism, Toll-Like Receptor 4/immunology/metabolism, Toll-Like Receptors/*immunology/metabolism, beta-Defensins/*immunology/metabolismPathogenicity
Metabolism31525453Differential cytokine and metabolite production by cervicovaginal epithelial cells infected with Lactobacillus crispatus and Ureaplasma urealyticum.Cavanagh M, Amabebe E, Anumba DOCAnaerobe10.1016/j.anaerobe.2019.1021012019Biomarkers, Cytokines/*metabolism, Epithelial Cells/metabolism/microbiology, Female, Gram-Negative Bacterial Infections/microbiology, HeLa Cells, Host-Pathogen Interactions, Humans, L-Lactate Dehydrogenase/metabolism, Lactobacillus crispatus/*physiology, Mucous Membrane/*metabolism/*microbiology, Ureaplasma Infections/microbiology, Ureaplasma urealyticum/*physiology, Vagina/*metabolism/*microbiologyPathogenicity
Genetics34382824Complete Genome Sequence of Lactobacillus crispatus Type Strain ATCC 33820.Teodori L, Colombini L, Cuppone AM, Lazzeri E, Pinzauti D, Santoro F, Iannelli F, Pozzi GMicrobiol Resour Announc10.1128/MRA.00634-212021
Pathogenicity34948426Engineering of Vaginal Lactobacilli to Express Fluorescent Proteins Enables the Analysis of Their Mixture in Nanofibers.Stojanov S, Plavec TV, Kristl J, Zupancic S, Berlec AInt J Mol Sci10.3390/ijms2224136312021Female, Green Fluorescent Proteins/genetics, Humans, Lactobacillus/*genetics, Lactobacillus crispatus/genetics, Lactobacillus gasseri/genetics, Lactobacillus plantarum, Luminescent Proteins/*genetics, *Microorganisms, Genetically-Modified, *Probiotics, Vagina/*microbiologyBiotechnology
36333643Characterization of lactic acid bacteria isolated from the poultry intestinal environment with anti-Salmonella activity in vitro.Hidalgo VM, Babot JD, Fernandez MM, Perez Chaia A, Audisio C, Apella MCBraz J Microbiol10.1007/s42770-022-00860-92022

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8934Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20584)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20584
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
40499Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14737
50243Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 30722)https://www.ccug.se/strain?id=30722
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
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
75916Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3273.1StrainInfo: A central database for resolving microbial strain identifiers
118786Curators of the CIPCollection of Institut Pasteur (CIP 102990)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102990
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