Strain identifier
BacDive ID: 14342
Type strain: 
Species: Treponema succinifaciens
Strain Designation: 6091
Strain history: <- E. Canale-Parola, University of Massachusetts, Department of Microbiology, USA; 6091 <- D. L. Harris, Iowa State University, Ames, Iowa, USA
NCBI tax ID(s): 869209 (strain), 167 (species)
version 8.1 (current version)
General
@ref: 1095
BacDive-ID: 14342
DSM-Number: 2489
keywords: genome sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Treponema succinifaciens 6091 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from colon of swine.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 167 | species |
| 869209 | strain |
strain history
- @ref: 1095
- history: <- E. Canale-Parola, University of Massachusetts, Department of Microbiology, USA; 6091 <- D. L. Harris, Iowa State University, Ames, Iowa, USA
doi: 10.13145/bacdive14342.20230509.8.1
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 succinifaciens
- full scientific name: Treponema succinifaciens Cwyk and Canale-Parola 1981
@ref: 1095
domain: Bacteria
phylum: Spirochaetes
class: Spirochaetia
order: Spirochaetales
family: Treponemataceae
genus: Treponema
species: Treponema succinifaciens
full scientific name: Treponema succinifaciens Cwyk and Canale-Parola 1981
strain designation: 6091
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.807
colony morphology
- @ref: 1095
- incubation period: 2-3 days
multimedia
- @ref: 66793
- multimedia content: EM_DSM_2489_1.jpg
- caption: electron microscopic image
- intellectual property rights: © HZI/Manfred Rohde
Culture and growth conditions
culture medium
- @ref: 1095
- name: TREPONEMA SUCCINIFACIENS MEDIUM (DSMZ Medium 275)
- growth: yes
- link: https://mediadive.dsmz.de/medium/275
- composition: Name: TREPONEMA SUCCINIFACIENS MEDIUM (DSMZ Medium 275) Composition: Glucose 10.0 g/l Na2CO3 1.5 g/l NaCl 1.0 g/l KH2PO4 0.5 g/l K2HPO4 0.5 g/l Yeast extract 0.5 g/l Peptone 0.5 g/l (NH4)2SO4 0.5 g/l L-Cysteine HCl x H2O 0.5 g/l MgSO4 x 7 H2O 0.1 g/l CaCl2 x 2 H2O 0.1 g/l Sodium resazurin 0.0005 g/l Distilled water
culture temp
- @ref: 1095
- growth: positive
- type: growth
- temperature: 37
- range: mesophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 1095 | anaerobe | |
| 69480 | anaerobe | 99.114 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 1095
- sample type: colon of swine
- geographic location: Iowa, Ames
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Mammals | #Suidae (Pig,Swine) |
| #Host Body-Site | #Gastrointestinal tract | #Large intestine |
Safety information
risk assessment
- @ref: 1095
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Treponema succinifaciens DSM 2489 | GCA_000195275 | complete | ncbi | 869209 |
| 66792 | Treponema succinifaciens DSM 2489 | 869209.3 | complete | patric | 869209 |
| 66792 | Treponema succinifaciens DSM 2489 | 869209.9 | plasmid | patric | 869209 |
| 66792 | Treponema succinifaciens 6091, DSM 2489 | 2504557012 | complete | img | 869209 |
GC content
- @ref: 1095
- GC-content: 36.0
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 78.75 | no |
| flagellated | no | 81.099 | no |
| gram-positive | no | 89.077 | no |
| anaerobic | yes | 99.715 | no |
| aerobic | no | 99.393 | yes |
| halophile | no | 81.4 | no |
| spore-forming | no | 88.236 | no |
| glucose-util | yes | 73.596 | no |
| thermophile | no | 96.552 | yes |
| glucose-ferment | yes | 65.449 | no |
External links
@ref: 1095
culture collection no.: DSM 2489, ATCC 33096
straininfo link
- @ref: 83487
- straininfo: 38345
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1095 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2489) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-2489 | |||
| 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) | |||
| 66793 | Mukherjee et al. | 10.1038/nbt.3886 | GEBA: 1,003 reference genomes of bacterial and archaeal isolates expand coverage of the tree of life | 35: 676-683 2017 | 28604660 | |
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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 | |||
| 83487 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID38345.1 | StrainInfo: A central database for resolving microbial strain identifiers |