Strain identifier
BacDive ID: 14347
Type strain:
Species: Treponema parvum
Strain Designation: FO2FA
Strain history: <- C. Wyss; OMZ833
NCBI tax ID(s): 1125711 (strain), 138851 (species)
General
@ref: 6264
BacDive-ID: 14347
DSM-Number: 16260
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Treponema parvum FO2FA is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from patient with periodontitis.
NCBI tax id
NCBI tax id | Matching level |
---|---|
138851 | species |
1125711 | strain |
strain history
- @ref: 6264
- history: <- C. Wyss; OMZ833
doi: 10.13145/bacdive14347.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/spirochaetota
- domain: Bacteria
- phylum: Spirochaetota
- class: Spirochaetia
- order: Spirochaetales
- family: Treponemataceae
- genus: Treponema
- species: Treponema parvum
- full scientific name: Treponema parvum Wyss et al. 2001
@ref: 6264
domain: Bacteria
phylum: Spirochaetes
class: Spirochaetia
order: Spirochaetales
family: Treponemataceae
genus: Treponema
species: Treponema parvum
full scientific name: Treponema parvum Wyss et al. 2001
strain designation: FO2FA
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.969
colony morphology
- @ref: 6264
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 6264
- name: OMIZ-PAT (DSMZ Medium 1494)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1494
- composition: Name: . OMIZ-PAT Medium (modified) (DSMZ Medium 1494) Composition: (NH4)6Mo7O24 x 4 H2O 12.4 g/l Yeast extract 3.0 g/l Fe SO4 x 7 H2O 2.78015 g/l D-Glucose 2.0 g/l D-Mannose 2.0 g/l D-Arabinose 2.0 g/l L-Fucose 2.0 g/l D-Trehalose 2.0 g/l D-Sucrose 2.0 g/l L-Rhamnose 2.0 g/l NH4Cl 1.6 g/l Glutathione 1.5366 g/l Ascorbic acid 1.0 g/l NaHCO3 1.0 g/l Ethanol 1.0 g/l KCl 0.968 g/l D-Maltose 0.8 g/l D-glucuronic acid 0.8 g/l D-Mannitol 0.8 g/l D-galacturonic acid 0.8 g/l D-Fructose 0.8 g/l L-Glutamine 0.68 g/l L-Histidine 0.62 g/l NaVO3 0.61 g/l D 0.56 g/l Pyruvic acid 0.55 g/l L-Serine 0.525 g/l Fumaric acid 0.5 g/l HCl 0.3646 g/l L-Cysteine HCl 0.35 g/l L-Glutamic acid 0.3 g/l Formic acid 0.3 g/l ZnSO4 x 7 H2O 0.287 g/l MgSO4 x 7 H2O 0.25 g/l DL-carnitine 0.2 g/l N-Acetylglucosamine 0.2 g/l Citric acid 0.2 g/l L-Lysine HCl 0.182 g/l L-Arginine 0.175 g/l L-Ornithine HCl 0.17 g/l L-Phenylalanine 0.165 g/l CaCl2 x H2O 0.15 g/l L-Methionine 0.15 g/l L-Asparagine 0.15 g/l NaH2PO4 x H2O 0.14 g/l L-Leucine 0.131 g/l L-Isoleucine 0.131 g/l NiSO4 x 6 H2O 0.131 g/l L-Threonine 0.12 g/l L-Aspartic acid 0.118 g/l SnCl2 x 2 H2O 0.118 g/l L-Valine 0.117 g/l L-Proline 0.115 g/l L-Tryptophan 0.102 g/l Nicotinic acid 0.1 g/l Folinic acid 0.1 g/l L-Tyrosine 0.09 g/l NaOH 0.079994 g/l Glycine 0.075 g/l Nicotinamide 0.05 g/l Folic acid 0.05 g/l D-(+)-biotin 0.05 g/l Vitamine B12 0.05 g/l Choline chloride 0.05 g/l Myo-inositol 0.05 g/l L-Alanine 0.045 g/l Hemin 0.026076 g/l N-acetylmuramic acid 0.025 g/l Na2SeO3 0.0173 g/l MnSO4 x H2O 0.0169 g/l Riboflavine 0.01 g/l 2-Mercaptoethanesulfonic acid 0.01 g/l Phenol red 0.01 g/l Putrescine 2 HCl 0.005 g/l Pyridoxal hydrochloride 0.005 g/l Pyridoxal phosphate 0.005 g/l Calcium D-(+)-pantothenate 0.005 g/l Thiamine HCl 0.005 g/l Thiamin pyrophosphate 0.005 g/l Thymidine 0.0024 g/l N-(2-acetamido)-2-aminoethanesulfonic acid 0.0018 g/l Hypoxanthine 0.0014 g/l Uracil 0.0011 g/l Flavin adenine dinucleotide 0.001 g/l ß-nicotinamide adenine dinucleotide 0.001 g/l Coenzym A 0.001 g/l CuSO4 0.000789 g/l Cholesterol Asialofetuin 2-Mercaptoethanol Isovaleric acid Valeric acid 2-Methylbutyric acid Isobutyric acid DL-alpha-lipoic acid Rabbit serum Distilled water
culture temp
- @ref: 6264
- growth: positive
- type: growth
- temperature: 33-37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance | confidence |
---|---|---|
6264 | anaerobe | |
69480 | anaerobe | 99.717 |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.992 |
Isolation, sampling and environmental information
isolation
- @ref: 6264
- sample type: patient with periodontitis
- geographic location: Zürich
- country: Switzerland
- origin.country: CHE
- continent: Europe
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Infection | #Inflammation | |
#Infection | #Patient | |
#Host Body-Site | #Oral cavity and airways | #Gingiva |
taxonmaps
- @ref: 69479
- File name: preview.99_16789.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_2001;96_8607;97_10353;98_12702;99_16789&stattab=map
- Last taxonomy: Treponema parvum subclade
- 16S sequence: AF302937
- Sequence Identity:
- Total samples: 5566
- soil counts: 125
- aquatic counts: 72
- animal counts: 5310
- plant counts: 59
Safety information
risk assessment
- @ref: 6264
- biosafety level: 2
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 6264
- description: Treponema parvum OMZ833 16S ribosomal RNA gene, partial sequence
- accession: AF302937
- length: 1485
- database: ena
- NCBI tax ID: 1125711
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Treponema parvum ATCC 700770 | GCA_017893965 | complete | ncbi | 138851 |
66792 | Treponema parvum strain ATCC 700770 | 138851.4 | complete | patric | 138851 |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 78.206 | no |
flagellated | no | 85.882 | no |
gram-positive | no | 94.185 | no |
anaerobic | yes | 99.251 | no |
aerobic | no | 98.56 | yes |
halophile | no | 79.662 | no |
spore-forming | no | 94.42 | no |
thermophile | no | 87.526 | yes |
glucose-util | yes | 79.879 | no |
glucose-ferment | yes | 67.679 | no |
External links
@ref: 6264
culture collection no.: DSM 16260, ATCC 700770, OMZ 833
straininfo link
- @ref: 83491
- straininfo: 44127
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 11411720 | Treponema parvum sp. nov., a small, glucoronic or galacturonic acid-dependent oral spirochaete from lesions of human periodontitis and acute necrotizing ulcerative gingivitis. | Wyss C, Dewhirst FE, Gmur R, Thurnheer T, Xue Y, Schupbach P, Guggenheim B, Paster BJ | Int J Syst Evol Microbiol | 10.1099/00207713-51-3-955 | 2001 | Acute Disease, Adult, DNA, Ribosomal/genetics, Dental Plaque/*microbiology, Enzymes/analysis, Female, Gingivitis, Necrotizing Ulcerative/*microbiology, Glucuronic Acid/*metabolism, Hexuronic Acids/*metabolism, Humans, Male, Middle Aged, Molecular Sequence Data, Periodontitis/*microbiology, Phenotype, *Phylogeny, RNA, Ribosomal, 16S/genetics, Treponema/*classification/isolation & purification/physiology/ultrastructure, Treponemal Infections/*microbiology | Enzymology |
Phylogeny | 16014500 | Treponema berlinense sp. nov. and Treponema porcinum sp. nov., novel spirochaetes isolated from porcine faeces. | Nordhoff M, Taras D, Macha M, Tedin K, Busse HJ, Wieler LH | Int J Syst Evol Microbiol | 10.1099/ijs.0.63388-0 | 2005 | Animals, Bacterial Typing Techniques, DNA, Bacterial, DNA, Ribosomal, Feces/*microbiology, Genes, rRNA, Lipids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, Species Specificity, Swine/*microbiology, Treponema/chemistry/*classification/genetics/*isolation & purification | Genetics |
Genetics | 34236225 | Complete Genome Sequences of Three Human Oral Treponema parvum Isolates. | Zeng H, Watt RM | Microbiol Resour Announc | 10.1128/MRA.00394-21 | 2021 |
Reference
@id | authors | catalogue | doi/url | title |
---|---|---|---|---|
6264 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16260) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-16260 | |
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 | |
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 | |
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
83491 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID44127.1 | StrainInfo: A central database for resolving microbial strain identifiers |