Strain identifier
BacDive ID: 16704
Type strain: 
Species: Calidithermus chliarophilus
Strain Designation: ALT-8
Strain history: <- M. S. Da Costa, University of Coimbra
NCBI tax ID(s): 926560 (strain), 52023 (species)
version 8.1 (current version)
General
@ref: 3765
BacDive-ID: 16704
DSM-Number: 9957
keywords: genome sequence, 16S sequence, Bacteria, thermophilic, Gram-negative
description: Calidithermus chliarophilus ALT-8 is a thermophilic, Gram-negative bacterium that was isolated from hot spring.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 52023 | species |
| 926560 | strain |
strain history
- @ref: 3765
- history: <- M. S. Da Costa, University of Coimbra
doi: 10.13145/bacdive16704.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/deinococcota
- domain: Bacteria
- phylum: Deinococcota
- class: Deinococci
- order: Thermales
- family: Thermaceae
- genus: Calidithermus
- species: Calidithermus chliarophilus
- full scientific name: Calidithermus chliarophilus (Tenreiro et al. 1995) Raposo et al. 2019
synonyms
@ref synonym 20215 Thermus chliarophilus 20215 Meiothermus chliarophilus
@ref: 3765
domain: Bacteria
phylum: Deinococcus-Thermus
class: Deinococci
order: Thermales
family: Thermaceae
genus: Calidithermus
species: Calidithermus chliarophilus
full scientific name: Calidithermus chliarophilus (Tenreiro et al. 1995) Raposo et al. 2019
strain designation: ALT-8
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98.833
Culture and growth conditions
culture medium
- @ref: 3765
- name: CASTENHOLZ MEDIUM (DSMZ Medium 86)
- growth: yes
- link: https://mediadive.dsmz.de/medium/86
- composition: Name: CASTENHOLZ MEDIUM (DSMZ Medium 86) Composition: Yeast extract 1.0 g/l Tryptone 1.0 g/l NaNO3 0.689 g/l Na2HPO4 x 2 H2O 0.14 g/l KNO3 0.103 g/l MgSO4 x 7 H2O 0.1 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.06 g/l NaCl 0.008 g/l MnSO4 x H2O 0.0022 g/l H3BO3 0.0005 g/l ZnSO4 x 7 H2O 0.0005 g/l FeCl3 x 6 H2O 0.00047 g/l CoCl2 x 6 H2O 4.6e-05 g/l CuSO4 x 5 H2O 2.5e-05 g/l Na2MoO4 x 2 H2O 2.5e-05 g/l Distilled water
culture temp
- @ref: 3765
- growth: positive
- type: growth
- temperature: 50
- range: thermophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.938
Isolation, sampling and environmental information
isolation
- @ref: 3765
- sample type: hot spring
- geographic location: Alcafache
- country: Portugal
- origin.country: PRT
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_17580.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_16211;96_1539;97_1836;98_2254;99_17580&stattab=map
- Last taxonomy: Calidithermus chliarophilus subclade
- 16S sequence: X84212
- Sequence Identity:
- Total samples: 2
- animal counts: 2
Safety information
risk assessment
- @ref: 3765
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20218
- description: T.chliarophilus 16S rRNA gene
- accession: X84212
- length: 1421
- database: ena
- NCBI tax ID: 52023
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Calidithermus chliarophilus DSM 9957 | GCA_000430045 | scaffold | ncbi | 926560 |
| 66792 | Meiothermus chliarophilus DSM 9957 | 926560.3 | wgs | patric | 926560 |
| 66792 | Meiothermus chliarophilus ALT-8, DSM 9957 | 2510065032 | draft | img | 926560 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 84 | no |
| motile | no | 89.079 | no |
| flagellated | no | 96.797 | no |
| gram-positive | no | 77.291 | no |
| anaerobic | no | 98.219 | no |
| aerobic | yes | 88.982 | no |
| halophile | no | 94.53 | no |
| spore-forming | no | 91.285 | no |
| thermophile | yes | 98.437 | yes |
| glucose-util | yes | 85.403 | no |
| glucose-ferment | no | 91.524 | no |
External links
@ref: 3765
culture collection no.: DSM 9957
straininfo link
- @ref: 85723
- straininfo: 43992
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 7547281 | Thermus silvanus sp. nov. and Thermus chliarophilus sp. nov., two new species related to thermus ruber but with lower growth temperatures. | Tenreiro S, Nobre MF, da Costa MS | Int J Syst Bacteriol | 10.1099/00207713-45-4-633 | 1995 | Base Sequence, DNA, Ribosomal/chemistry, Fatty Acids/analysis, Molecular Sequence Data, RNA, Ribosomal, 16S/genetics, Thermus/*classification/genetics/growth & development | Genetics |
| Phylogeny | 9741106 | F-and V-ATPases in the genus Thermus and related species. | Radax C, Sigurdsson O, Hreggvidsson GO, Aichinger N, Gruber C, Kristjansson JK, Stan-Lotter H | Syst Appl Microbiol | 10.1016/S0723-2020(98)80003-9 | 1998 | Amino Acid Sequence, Animals, DNA, Ribosomal/analysis, Electrophoresis, Polyacrylamide Gel, Gene Transfer, Horizontal, Phylogeny, Proton-Translocating ATPases/chemistry/genetics/isolation & purification/*metabolism, RNA, Ribosomal, 16S/genetics, Rabbits, Sequence Alignment, Sequence Analysis, DNA, Temperature, Thermus/*enzymology/genetics/immunology/isolation & purification, Thermus thermophilus/*enzymology/genetics/isolation & purification, *Vacuolar Proton-Translocating ATPases | Enzymology |
| Phylogeny | 24215822 | Meiothermus terrae sp. nov., isolated from a geothermally heated soil sample. | Yu TT, Yin YR, Zhang YG, Yao JC, Klenk HP, Wang HF, Ming H, Zhou EM, Li WJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.055392-0 | 2013 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Gram-Negative Aerobic Rods and Cocci/*classification/genetics/isolation & purification, Hot Temperature, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/analogs & derivatives/chemistry | Stress |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 3765 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9957) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-9957 | |||
| 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 | |||
| 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) | |||
| 85723 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID43992.1 | StrainInfo: A central database for resolving microbial strain identifiers |