Strain identifier
BacDive ID: 23848
Type strain: 
Species: Thermochromatium tepidum
Strain history: <- M.T. Madigan, strain MC
NCBI tax ID(s): 316276 (strain), 1050 (species)
version 8.1 (current version)
General
@ref: 20867
BacDive-ID: 23848
DSM-Number: 3771
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, motile
description: Thermochromatium tepidum DSM 3771 is an anaerobe, thermophilic, motile bacterium that was isolated from stygian springs.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 316276 | strain |
| 1050 | species |
strain history
- @ref: 20867
- history: <- M.T. Madigan, strain MC
doi: 10.13145/bacdive23848.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Chromatiales
- family: Chromatiaceae
- genus: Thermochromatium
- species: Thermochromatium tepidum
- full scientific name: Thermochromatium tepidum (Madigan 1986) Imhoff et al. 1998
synonyms
- @ref: 20215
- synonym: Chromatium tepidum
@ref: 20867
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Chromatiales
family: Chromatiaceae
genus: Thermochromatium
species: Thermochromatium tepidum
full scientific name: Thermochromatium tepidum (Madigan 1986) Imhoff et al. 1998
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 96.613 | |
| 69480 | 100 | negative |
Culture and growth conditions
culture medium
- @ref: 20867
- name: CHROMATIUM TEPIDUM MEDIUM (DSMZ Medium 379)
- growth: yes
- link: https://mediadive.dsmz.de/medium/379
- composition: Name: CHROMATIUM TEPIDUM MEDIUM (DSMZ Medium 379) Composition: NaHCO3 2.0 g/l Na2S x 9 H2O 1.0 g/l NaCl 0.4 g/l NH4Cl 0.4 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l Na2-EDTA 0.0052 g/l FeCl2 x 4 H2O 0.0015 g/l Ammonium acetate 0.0005 g/l Na pyruvate 0.0005 g/l KH2PO4 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l Na2MoO4 x 2 H2O 0.000188 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l VOSO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2.5e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Na2WO4 x 2 H2O 2e-06 g/l Distilled water
culture temp
- @ref: 20867
- growth: positive
- type: growth
- temperature: 48
- range: thermophilic
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 20867 | anaerobe | |
| 69480 | anaerobe | 98.858 |
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.948 |
Isolation, sampling and environmental information
isolation
- @ref: 20867
- sample type: stygian springs
- geographic location: upper Terraces of Mammoth Hot Springs
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
- Cat3: #Spring
Safety information
risk assessment
- @ref: 20867
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: Chromatium tepidum 16S ribosomal RNA
- accession: M59150
- length: 1468
- database: ena
- NCBI tax ID: 316276
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermochromatium tepidum ATCC 43061 | GCA_009664085 | complete | ncbi | 316276 |
| 66792 | Thermochromatium tepidum ATCC 43061 | 316276.3 | complete | patric | 316276 |
GC content
- @ref: 20867
- GC-content: 61.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 89.685 | no |
| flagellated | no | 53.971 | no |
| gram-positive | no | 99.275 | no |
| anaerobic | yes | 96.807 | no |
| aerobic | no | 97.259 | yes |
| halophile | no | 88.484 | no |
| spore-forming | no | 91.05 | no |
| glucose-util | yes | 56.571 | no |
| thermophile | yes | 87.139 | yes |
| glucose-ferment | no | 82.365 | no |
External links
@ref: 20867
culture collection no.: DSM 3771, ATCC 43061
straininfo link
- @ref: 87867
- straininfo: 47757
literature
- topic: Transcriptome
- Pubmed-ID: 34669148
- title: Complete genome of the thermophilic purple sulfur Bacterium Thermochromatium tepidum compared to Allochromatium vinosum and other Chromatiaceae.
- authors: Sattley WM, Swingley WD, Burchell BM, Dewey ED, Hayward MK, Renbarger TL, Shaffer KN, Stokes LM, Gurbani SA, Kujawa CM, Nuccio DA, Schladweiler J, Touchman JW, Wang-Otomo ZY, Blankenship RE, Madigan MT
- journal: Photosynth Res
- DOI: 10.1007/s11120-021-00870-y
- year: 2021
- mesh: *Chromatiaceae/genetics, Sequence Analysis, DNA, Sulfur
Reference
| @id | authors | title | doi/url | journal | pubmed | catalogue |
|---|---|---|---|---|---|---|
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | 10.1099/ijsem.0.004332 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | StrainInfo introduces electronic passports for microorganisms. | 10.1016/j.syapm.2013.11.002 | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 20867 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3771 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3771) | |||
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 87867 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID47757.1 |