Strain identifier
BacDive ID: 2395
Type strain:
Species: Chlorobaculum tepidum
Strain Designation: TLS
Strain history: <- M. T. Madigan
NCBI tax ID(s): 1097 (species)
General
@ref: 4579
BacDive-ID: 2395
DSM-Number: 12025
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, phototroph, thermophilic
description: Chlorobaculum tepidum TLS is an anaerobe, phototroph, thermophilic bacterium that was isolated from acidic high sulfide hot springs.
NCBI tax id
- NCBI tax id: 1097
- Matching level: species
strain history
- @ref: 4579
- history: <- M. T. Madigan
doi: 10.13145/bacdive2395.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/chlorobiota
- domain: Bacteria
- phylum: Chlorobiota
- class: Chlorobiia
- order: Chlorobiales
- family: Chlorobiaceae
- genus: Chlorobaculum
- species: Chlorobaculum tepidum
- full scientific name: Chlorobaculum tepidum (Wahlund et al. 1996) Imhoff 2003
synonyms
- @ref: 20215
- synonym: Chlorobium tepidum
@ref: 4579
domain: Bacteria
phylum: Chlorobi
class: Chlorobia
order: Chlorobiales
family: Chlorobiaceae
genus: Chlorobaculum
species: Chlorobaculum tepidum
full scientific name: Chlorobaculum tepidum (Wahlund et al. 1996) Imhoff 2003
strain designation: TLS
type strain: yes
Morphology
cell morphology
- @ref: 23074
- cell width: 0.6-0.8 µm
Culture and growth conditions
culture medium
- @ref: 4579
- name: PFENNIG'S MEDIUM II (modified 1988, for green sulfur bacteria) (DSMZ Medium 29)
- growth: yes
- link: https://mediadive.dsmz.de/medium/29
- composition: Name: PFENNIG'S MEDIUM II (DSMZ Medium 29; with strain-specific modifications) Composition: NaHCO3 1.5 g/l Thiosulfate 1.0 g/l Na2S x 9 H2O 0.592592 g/l MgSO4 x 7 H2O 0.52 g/l Ammonium chloride 0.364 g/l KCl 0.364 g/l KH2PO4 0.364 g/l Dextrose 0.26 g/l Pyruvic acid sodium salt 0.26 g/l Ammonium acetate 0.26 g/l CaCl2 x 2 H2O 0.25 g/l Yeast extract 0.25 g/l Resazurin 0.00225 g/l HCl 0.002002 g/l FeSO4 x 7 H2O 0.00156 g/l Vitamin B12 0.001 g/l H3BO3 0.000312 g/l CoCl2 x 6 H2O 0.0001976 g/l MnCl2 x 4 H2O 0.000104 g/l ZnCl2 7.28e-05 g/l Na2MoO4 x 2 H2O 3.744e-05 g/l NiCl2 x 6 H2O 2.496e-05 g/l CuCl2 x 2 H2O 2.08e-06 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
4579 | positive | growth | 47 | thermophilic |
23074 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
4579 | anaerobe |
23074 | obligate anaerobe |
nutrition type
- @ref: 23074
- type: phototroph
metabolite utilization
- @ref: 23074
- Chebi-ID: 26710
- metabolite: sodium chloride
- utilization activity: +
- kind of utilization tested: growth
Isolation, sampling and environmental information
isolation
- @ref: 4579
- sample type: acidic high sulfide hot springs
- geographic location: Travelodge Stream, Sulphur Bay, Rotorna
- country: New Zealand
- origin.country: NZL
- continent: Australia and Oceania
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Thermal spring |
#Condition | #Acidic | |
#Condition | #Sulfuric | |
#Condition | #Thermophilic (>45°C) |
Safety information
risk assessment
- @ref: 4579
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 23074
- description: Chlorobaculum tepidum strain TLS 16S ribosomal RNA gene, partial sequence
- accession: M58468
- length: 1450
- database: nuccore
- NCBI tax ID: 1097
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Chlorobaculum tepidum TLS | GCA_000006985 | complete | ncbi | 194439 |
66792 | Chlorobaculum tepidum TLS | 637000073 | complete | img | 194439 |
GC content
- @ref: 23074
- GC-content: 56.5
- method: Buoyant density centrifugation (BD)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
motile | no | 91.792 | no |
flagellated | no | 97.969 | no |
gram-positive | no | 98.683 | no |
anaerobic | yes | 97.405 | yes |
halophile | no | 84.87 | no |
spore-forming | no | 95.459 | no |
glucose-util | yes | 56.459 | no |
aerobic | no | 96.677 | no |
thermophile | yes | 72.719 | yes |
glucose-ferment | no | 83.129 | no |
External links
@ref: 4579
culture collection no.: DSM 12025, ATCC 49652
straininfo link
- @ref: 71950
- straininfo: 49224
literature
- topic: Phylogeny
- Pubmed-ID: 12115058
- title: Phylogeny of green sulfur bacteria on the basis of gene sequences of 16S rRNA and of the Fenna-Matthews-Olson protein.
- authors: Alexander B, Andersen JH, Cox RP, Imhoff JF
- journal: Arch Microbiol
- DOI: 10.1007/s00203-002-0432-4
- year: 2002
- mesh: Amino Acid Sequence, *Bacterial Proteins, Base Sequence, Chlorobi/*classification/*genetics, DNA Primers/genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Genes, Bacterial, *Light-Harvesting Protein Complexes, Molecular Sequence Data, Photosynthetic Reaction Center Complex Proteins/*genetics, *Phylogeny, Polymerase Chain Reaction, RNA, Bacterial/*genetics, RNA, Ribosomal, 16S/*genetics, Sequence Homology, Amino Acid
- topic2: Genetics
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
4579 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12025) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-12025 | |||
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 | |||
23074 | Johannes F. Imhoff | 10.1099/ijs.0.02403-0 | Phylogenetic taxonomy of the family Chlorobiaceae on the basis of 16S rRNA and fmo (Fenna-Matthews-Olson protein) gene sequences | IJSEM 53: 941-951 2003 | 12892110 | |
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) | |||
71950 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID49224.1 | StrainInfo: A central database for resolving microbial strain identifiers |