Strain identifier
BacDive ID: 16723
Type strain: 
Species: Thermus filiformis
Strain Designation: Wai 33 A1
Strain history: NCIMB 12588 <-- J. A. Hudson Wai33 A1.
NCBI tax ID(s): 276 (species)
version 8.1 (current version)
General
@ref: 1682
BacDive-ID: 16723
DSM-Number: 4687
keywords: genome sequence, 16S sequence, Bacteria, thermophilic, Gram-negative
description: Thermus filiformis Wai 33 A1 is a thermophilic, Gram-negative bacterium that was isolated from hot spring.
NCBI tax id
- NCBI tax id: 276
- Matching level: species
strain history
| @ref | history |
|---|---|
| 1682 | <- J.A. Hudson and H.W. Morgan, Wai33 |
| 67770 | NCIMB 12588 <-- J. A. Hudson Wai33 A1. |
doi: 10.13145/bacdive16723.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/deinococcota
- domain: Bacteria
- phylum: Deinococcota
- class: Deinococci
- order: Thermales
- family: Thermaceae
- genus: Thermus
- species: Thermus filiformis
- full scientific name: Thermus filiformis Hudson et al. 1987
@ref: 1682
domain: Bacteria
phylum: Deinococcus-Thermus
class: Deinococci
order: Thermales
family: Thermaceae
genus: Thermus
species: Thermus filiformis
full scientific name: Thermus filiformis Hudson et al. 1987
strain designation: Wai 33 A1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.985
Culture and growth conditions
culture medium
- @ref: 1682
- name: THERMUS 162 MEDIUM (DSMZ Medium 878)
- growth: yes
- link: https://mediadive.dsmz.de/medium/878
- composition: Name: THERMUS 162 MEDIUM (DSMZ Medium 878) Composition: Agar 28.0 g/l Na2HPO4 x 12 H2O 4.3 g/l Yeast extract 1.0 g/l Tryptone 1.0 g/l KH2PO4 0.544 g/l MgCl2 x 6 H2O 0.2 g/l Nitrilotriacetic acid 0.1 g/l CaSO4 x 2 H2O 0.04 g/l Fe(III) citrate 0.00122472 g/l MnSO4 x H2O 0.00114 g/l ZnSO4 x 7 H2O 0.00025 g/l H3BO3 0.00025 g/l CoCl2 x 6 H2O 2.25e-05 g/l CuSO4 x 5 H2O 1.25e-05 g/l Na2MoO4 x 2 H2O 1.25e-05 g/l H2SO4 Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 1682 | positive | growth | 70 | thermophilic | |
| 67770 | positive | growth | 60 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.89
observation
- @ref: 67770
- observation: quinones: MK-8
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent |
|---|---|---|---|---|
| 1682 | hot spring | New Zealand | NZL | Australia and Oceania |
| 67770 | Hot spring in the Waimangu thermal valley | New Zealand | NZL | Australia and Oceania |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Thermal spring |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_2770.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_87;96_1473;97_1757;98_2150;99_2770&stattab=map
- Last taxonomy: Thermus filiformis subclade
- 16S sequence: FR749952
- Sequence Identity:
- Total samples: 1041
- soil counts: 30
- aquatic counts: 818
- animal counts: 191
- plant counts: 2
Safety information
risk assessment
- @ref: 1682
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | T.filiformis 16S ribosomal RNA, part | X58345 | 1144 | ena | 276 |
| 20218 | Thermus filiformis partial 16S rRNA gene, type strain DSM 4687T, clone 1 | FR749950 | 1512 | ena | 276 |
| 20218 | Thermus filiformis partial 16S rRNA gene, type strain DSM 4687T, clone 2 | FR749951 | 1513 | ena | 276 |
| 20218 | Thermus filiformis partial 16S rRNA gene, type strain DSM 4687T, clone 3 | FR749952 | 1514 | ena | 276 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermus filiformis ATCC 43280 | 276.5 | wgs | patric | 276 |
| 66792 | Thermus filiformis ATCC 43280 | 2639763100 | draft | img | 276 |
| 67770 | Thermus filiformis ATCC 43280 | GCA_000771745 | contig | ncbi | 276 |
GC content
- @ref: 67770
- GC-content: 65
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 56 | no |
| motile | no | 88.207 | no |
| gram-positive | no | 95.02 | no |
| anaerobic | no | 93.837 | no |
| halophile | no | 89.309 | no |
| spore-forming | no | 90.797 | no |
| glucose-util | yes | 89.729 | no |
| flagellated | no | 97.506 | no |
| aerobic | yes | 78.31 | no |
| thermophile | yes | 100 | yes |
| glucose-ferment | no | 86.152 | no |
External links
@ref: 1682
culture collection no.: DSM 4687, ATCC 43280, JCM 11600, BCRC 17263, CCM 4200, NCIMB 12588
straininfo link
- @ref: 85742
- straininfo: 41751
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16423651 | Distribution of F- and A/V-type ATPases in Thermus scotoductus and other closely related species. | Lapierre P, Shial R, Gogarten JP | Syst Appl Microbiol | 10.1016/j.syapm.2005.06.004 | 2005 | Adenosine Triphosphatases/*genetics/metabolism, Amino Acid Sequence, Base Sequence, Blotting, Southern, DNA, Bacterial/chemistry/genetics, Evolution, Molecular, Molecular Sequence Data, Phylogeny, Polymerase Chain Reaction, RNA, Ribosomal, 16S/chemistry/genetics, Sequence Alignment, Thermus/*enzymology/genetics, Vacuolar Proton-Translocating ATPases/genetics/metabolism | Metabolism |
| Enzymology | 25977443 | Draft Genome Sequence of the Thermophile Thermus filiformis ATCC 43280, Producer of Carotenoid-(Di)glucoside-Branched Fatty Acid (Di)esters and Source of Hyperthermostable Enzymes of Biotechnological Interest. | Mandelli F, Oliveira Ramires B, Couger MB, Paixao DA, Camilo CM, Polikarpov I, Prade R, Riano-Pachon DM, Squina FM | Genome Announc | 10.1128/genomeA.00475-15 | 2015 | Genetics |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1682 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 4687) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-4687 | |||
| 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) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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) | |||
| 85742 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID41751.1 | StrainInfo: A central database for resolving microbial strain identifiers |