Strain identifier
BacDive ID: 14307
Type strain: 
Species: Borrelia garinii
Strain Designation: 20047
Strain history: <- CIP; CIP 103362 <- G. Baranton; 20047 <- C. Anderson;
NCBI tax ID(s): 29519 (species)
version 8.1 (current version)
General
@ref: 3969
BacDive-ID: 14307
DSM-Number: 10534
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic
description: Borrelia garinii 20047 is a microaerophile, mesophilic bacterium that was isolated from Ixodes ricinus.
NCBI tax id
- NCBI tax id: 29519
- Matching level: species
strain history
- @ref: 3969
- history: <- CIP; CIP 103362 <- G. Baranton; 20047 <- C. Anderson;
doi: 10.13145/bacdive14307.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/spirochaetota
- domain: Bacteria
- phylum: Spirochaetota
- class: Spirochaetia
- order: Spirochaetales
- family: Borreliaceae
- genus: Borrelia
- species: Borrelia garinii
- full scientific name: Borrelia garinii Baranton et al. 1992
synonyms
- @ref: 20215
- synonym: Borreliella garinii
@ref: 3969
domain: Bacteria
phylum: Spirochaetes
class: Spirochaetia
order: Spirochaetales
family: Borreliaceae
genus: Borrelia
species: Borrelia garinii subsp. garinii
full scientific name: Borrelia garinii subsp. garinii (Baranton et al. 1992) Hördt et al. 2020
strain designation: 20047
type strain: yes
Morphology
colony morphology
- @ref: 3969
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 3969
- name: BSK-MEDIUM (DSMZ Medium 403)
- growth: yes
- link: https://mediadive.dsmz.de/medium/403
- composition: Name: BSK-MEDIUM (DSMZ Medium 403) Composition: Bovine serum albumin 35.0245 g/l Gelatine 9.79706 g/l HEPES buffer 4.19874 g/l Proteose peptone no. 2 3.49895 g/l Glucose 2.09937 g/l Proteose yeastolate 0.69979 g/l Tryptone peptone 0.69979 g/l Na-pyruvate 0.559832 g/l Sodium citrate 0.489853 g/l N-Acetylglucosamine 0.279916 g/l MgCl2 x 6 H2O 0.209937 g/l L-Glutamine 0.069979 g/l Double distilled water CMRL 1066 Rabbit serum
culture temp
- @ref: 3969
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 3969
- oxygen tolerance: microaerophile
Isolation, sampling and environmental information
isolation
- @ref: 3969
- sample type: Ixodes ricinus
- host species: Ixodes ricinus
- country: France
- origin.country: FRA
- continent: Europe
isolation source categories
- Cat1: #Host
- Cat2: #Arthropoda
- Cat3: #Tick
taxonmaps
- @ref: 69479
- File name: preview.99_427.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15870;96_290;97_320;98_355;99_427&stattab=map
- Last taxonomy: Borreliella
- 16S sequence: D67018
- Sequence Identity:
- Total samples: 1677
- soil counts: 126
- aquatic counts: 378
- animal counts: 1133
- plant counts: 40
Safety information
risk assessment
- @ref: 3969
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Borrelia garinii strain 20047 16S small subunit ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, tRNA-Ala and tRNA-Ile genes, complete sequence; methylpurine-DNA glycosylase (mag) and hydrolase (cof) genes, complete cds; and 23S large subunit ribosomal RNA gene, partial sequence | AY836549 | 5313 | ena | 29519 |
| 3969 | Borrelia garinii DNA for 16S ribosomal RNA | D67018 | 1367 | ena | 29519 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Borreliella garinii CIP 103362 | GCA_001922545 | complete | ncbi | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 | 29519.9 | complete | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.17 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.25 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.16 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.23 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.20 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.24 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.19 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.22 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.18 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.21 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii strain CIP 103362 strain 20047 | 29519.15 | plasmid | patric | 29519 |
| 66792 | Borreliella garinii CIP 103362 20047 | 2728369389 | complete | img | 29519 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| flagellated | no | 88.11 | no |
| gram-positive | no | 92.355 | no |
| anaerobic | no | 93.461 | yes |
| aerobic | no | 97.521 | yes |
| halophile | yes | 65.814 | no |
| spore-forming | no | 97.378 | no |
| thermophile | no | 81.793 | no |
| glucose-util | yes | 79.932 | no |
| motile | yes | 89.341 | no |
| glucose-ferment | yes | 69.092 | no |
External links
@ref: 3969
culture collection no.: DSM 10534, ATCC 51383, CIP 103362
straininfo link
- @ref: 83460
- straininfo: 42962
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 8513814 | Western blot analysis of sera from Lyme borreliosis patients according to the genomic species of the Borrelia strains used as antigens. | Assous MV, Postic D, Paul G, Nevot P, Baranton G | Eur J Clin Microbiol Infect Dis | 10.1007/BF01967256 | 1993 | Antibodies, Bacterial/immunology, Antigens, Bacterial/*immunology, Bacterial Proteins/analysis, Blotting, Western, Borrelia/*classification/genetics/immunology, Borrelia burgdorferi Group/*classification/genetics/immunology, Humans, Lyme Disease/immunology/*microbiology, Molecular Weight | Pathogenicity |
| Enzymology | 10612288 | Comprehensive detection of immunorelevant Borrelia garinii antigens by two-dimensional electrophoresis. | Jungblut PR, Grabher G, Stoffler G | Electrophoresis | 10.1002/(SICI)1522-2683(19991201)20:18<3611::AID-ELPS3611>3.0.CO;2-4 | 1999 | Antigens, Bacterial/*analysis/immunology, Blotting, Western, Borrelia/*immunology, Databases, Factual, Electrophoresis, Gel, Two-Dimensional/*methods, Humans, Lyme Disease/blood/immunology, Silver Staining, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization | Pathogenicity |
| Genetics | 12214528 | [Use of western-immunoblotting to determine serum IgG-antibodies to antigens of different genotypes of Borrelia--Borrelia burgdorferi sensu stricto, Borrelia afzelii, and Borrelia garinii]. | Anan'eva LP, Nasonova VA, Barskova VG, Stir AS | Med Parazitol (Mosk) | 2002 | Adolescent, Adult, Aged, Antibodies, Bacterial/*blood, *Blotting, Western, Borrelia burgdorferi Group/genetics/immunology/*isolation & purification, Female, Genotype, Humans, Immunoglobulin G/*blood, Lyme Disease/blood/*diagnosis, Male, Middle Aged, Serologic Tests, Species Specificity | Phylogeny | |
| Pathogenicity | 15623946 | Terrestrial distribution of the Lyme borreliosis agent Borrelia burgdorferi sensu lato in East Asia. | Masuzawa T | Jpn J Infect Dis | 2004 | Animals, Arachnid Vectors, Birds, Borrelia burgdorferi Group/genetics/*physiology, Disease Reservoirs, Far East/epidemiology, Humans, Ixodes/microbiology, Lyme Disease/epidemiology/*microbiology, Mammals | ||
| Phylogeny | 15715174 | Characterization of Borrelia burgdorferi sensu lato isolated in Moscow province--a sympatric region for Ixodes ricinus and Ixodes persulcatus. | Masuzawa T, Kharitonenkov IG, Kadosaka T, Hashimoto N, Kudeken M, Takada N, Kaneda K, Imai Y | Int J Med Microbiol | 10.1016/j.ijmm.2004.09.008 | 2005 | Animals, Arachnid Vectors/microbiology, Arvicolinae/*microbiology, Base Sequence, Borrelia burgdorferi Group/*classification/genetics/isolation & purification, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, DNA, Ribosomal Spacer/analysis, Flagellin/genetics, Ixodes/classification/*microbiology, Lyme Disease/microbiology/*veterinary, Molecular Sequence Data, Moscow, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, Rodent Diseases/*microbiology, Sequence Analysis, DNA, Species Specificity | Genetics |
| Pathogenicity | 19929222 | The tick Ixodes pavlovskyi as a host of spirochetes pathogenic for humans and its possible role in the epizootiology and epidemiology of borrelioses. | Korenberg EI, Nefedova VV, Romanenko VN, Gorelova NB | Vector Borne Zoonotic Dis | 10.1089/vbz.2009.0033 | 2010 | Animals, Arthropod Vectors/*microbiology, Borrelia/classification/genetics/*isolation & purification, Borrelia Infections/*epidemiology/*transmission, Humans, Ixodes/*microbiology | Phylogeny |
| Phylogeny | 20882770 | [Genetic variants of Borrelia garinii, a widely spread Eurasian pathogen of ixodic tick borreliosis]. | Nefedova VV, Korenberg EI, Gorelova NB | Mol Gen Mikrobiol Virusol | 2010 | Animals, Arachnid Vectors/microbiology, Asia, Borrelia Infections/*microbiology, Borrelia burgdorferi Group/classification/*genetics, DNA, Ribosomal Spacer/*genetics, Disease Reservoirs/microbiology, Europe, Genetic Variation, Humans, Ixodes/microbiology, Molecular Sequence Data, Phylogeny, Sequence Analysis, DNA | Pathogenicity | |
| Pathogenicity | 21913395 | [Immunochemical analysis of recombinant protein FlaA of Western Siberian Borrelia garinii isolate]. | Karavaev VS, Riabchenko AV, Beklemishev AB | Zh Mikrobiol Epidemiol Immunobiol | 2011 | Animals, Borrelia burgdorferi Group/genetics/*immunology/isolation & purification, Flagellin/genetics/*immunology, Humans, Ixodes/immunology, Lyme Disease/epidemiology/*immunology/microbiology, Recombinant Proteins/genetics/*immunology, Siberia/epidemiology | Enzymology | |
| Enzymology | 24000597 | [Evaluation of significance of Borrelia garinii spirochete recombinant protein DbpB for serodiagnostics of ixodes tick-borne borreliosis]. | Karavaev VS, Riabchenko AV, Beklemishev AB | Zh Mikrobiol Epidemiol Immunobiol | 2013 | Adhesins, Bacterial/genetics/*immunology, Animals, Arachnid Vectors/microbiology, Borrelia burgdorferi Group/*chemistry/immunology, Cloning, Molecular, Escherichia coli/genetics, Humans, Immune Sera/analysis, Immunoglobulin G/blood, Immunoglobulin M/blood, Ixodes/microbiology, Lyme Disease/blood/*diagnosis/immunology, Neutralization Tests, Open Reading Frames, Recombinant Proteins/genetics/immunology, Sensitivity and Specificity | Pathogenicity | |
| Genetics | 29944685 | Genomic and phenotypic characterization of Borrelia afzelii BO23 and Borrelia garinii CIP 103362. | Bontemps-Gallo S, Lawrence KA, Richards CL, Gherardini FC | PLoS One | 10.1371/journal.pone.0199641 | 2018 | Animals, Anti-Bacterial Agents/pharmacology, Borrelia burgdorferi Group/drug effects/*genetics/growth & development/*physiology, Cell Culture Techniques, Chromosomes, Bacterial, DNA, Bacterial, Genotype, Gentamicins/pharmacology, Lyme Disease/microbiology, Mice, Movement, Osmolar Concentration, Oxidative Stress/physiology, Oxygen/metabolism, Phenotype, Rifaximin/pharmacology, Transformation, Genetic | Phenotype |
| 30891399 | Prevalence of Borrelia burgdorferi sensu lato and Borrelia miyamotoi in ixodid ticks in the Far East of Russia. | Pukhovskaya NM, Morozova OV, Vysochina NP, Belozerova NB, Ivanov LI | Int J Parasitol Parasites Wildl | 10.1016/j.ijppaw.2019.01.005 | 2019 |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3969 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10534) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-10534 | |||
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
| 69479 | João 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 | |||
| 83460 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID42962.1 | StrainInfo: A central database for resolving microbial strain identifiers |