Strain identifier
BacDive ID: 24815
Type strain: 
Species: Thermosipho activus
Strain Designation: Rift-s3
Strain history: <- O. A. Podosocorskaya, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; Rift-s3 <- O. A. Podosokorskaya {2010}
NCBI tax ID(s): 1462921 (species)
version 8.1 (current version)
General
@ref: 21063
BacDive-ID: 24815
DSM-Number: 26467
keywords: 16S sequence, Bacteria, anaerobe, thermophilic
description: Thermosipho activus Rift-s3 is an anaerobe, thermophilic bacterium that was isolated from Riftia pachyptila sheath scraping, 2004 m depth.
NCBI tax id
- NCBI tax id: 1462921
- Matching level: species
strain history
- @ref: 21063
- history: <- O. A. Podosocorskaya, Winogradsky Inst. Microbiol., RAS, Moscow, Russia; Rift-s3 <- O. A. Podosokorskaya {2010}
doi: 10.13145/bacdive24815.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/thermotogota
- domain: Bacteria
- phylum: Thermotogota
- class: Thermotogae
- order: Thermotogales
- family: Fervidobacteriaceae
- genus: Thermosipho
- species: Thermosipho activus
- full scientific name: Thermosipho activus Podosokorskaya et al. 2014
@ref: 21063
domain: Bacteria
phylum: Thermotogae
class: Thermotogae
order: Fervidobacteriaceae, not assigned to order
family: Fervidobacteriaceae
genus: Thermosipho
species: Thermosipho activus
full scientific name: Thermosipho activus Podosokorskaya et al. 2014
strain designation: Rift-s3
type strain: yes
Culture and growth conditions
culture medium
- @ref: 21063
- name: THERMOSIPHO MJ MEDIUM (DSMZ Medium 1011b)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1011b
- composition: Name: THERMOSIPHO MJ MEDIUM (DSMZ Medium 1011b) Composition: NaCl 19.9601 g/l MgSO4 x 7 H2O 3.44311 g/l MgCl2 x 6 H2O 2.74451 g/l D-Glucose 1.99601 g/l Na2CO3 0.998004 g/l KCl 0.329341 g/l Na2S x 9 H2O 0.299401 g/l L-Cysteine HCl x H2O 0.299401 g/l NH4Cl 0.249501 g/l K2HPO4 0.149701 g/l CaCl2 x 2 H2O 0.149701 g/l Yeast extract 0.0998004 g/l Fe(NH4)2(SO4)2 x 6 H2O 0.00998004 g/l Sodium resazurin 0.000499002 g/l H3BO3 0.000299401 g/l CoCl2 x 6 H2O 0.000199601 g/l Pyridoxine hydrochloride 9.98004e-05 g/l ZnSO4 x 7 H2O 9.98004e-05 g/l (DL)-alpha-Lipoic acid 4.99002e-05 g/l p-Aminobenzoic acid 4.99002e-05 g/l Calcium D-(+)-pantothenate 4.99002e-05 g/l Nicotinic acid 4.99002e-05 g/l Riboflavin 4.99002e-05 g/l Thiamine HCl 4.99002e-05 g/l Na2MoO4 x 2 H2O 2.99401e-05 g/l MnCl2 x 4 H2O 2.99401e-05 g/l Folic acid 1.99601e-05 g/l Biotin 1.99601e-05 g/l NiCl2 x 6 H2O 1.99601e-05 g/l CuCl2 x 2 H2O 9.98004e-06 g/l Vitamin B12 9.98004e-07 g/l Distilled water
culture temp
- @ref: 21063
- growth: positive
- type: growth
- temperature: 65
- range: thermophilic
Physiology and metabolism
oxygen tolerance
- @ref: 21063
- oxygen tolerance: anaerobe
Isolation, sampling and environmental information
isolation
- @ref: 21063
- sample type: Riftia pachyptila sheath scraping, 2004 m depth
- host species: Riftia pachyptila
- geographic location: Gulf of California, Guaymas Basin
- country: Mexico
- origin.country: MEX
- continent: North America
- latitude: 27.0065
- longitude: -111.425
isolation source categories
- Cat1: #Host
- Cat2: #Invertebrates (Other)
- Cat3: #Annelida
taxonmaps
- @ref: 69479
- File name: preview.99_156728.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_93;96_2192;97_2651;98_103299;99_156728&stattab=map
- Last taxonomy: Thermosipho activus subclade
- 16S sequence: KF931642
- Sequence Identity:
- Total samples: 24
- aquatic counts: 24
Safety information
risk assessment
- @ref: 21063
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21063
- description: Thermosipho activus strain Rift-s3 16S ribosomal RNA gene, partial sequence
- accession: KF931642
- length: 1519
- database: ena
- NCBI tax ID: 1462921
GC content
- @ref: 21063
- GC-content: 30
- method: sequence analysis
External links
@ref: 21063
culture collection no.: DSM 26467, VKM B-2803
straininfo link
- @ref: 88636
- straininfo: 405362
literature
- topic: Phylogeny
- Pubmed-ID: 24994778
- title: Thermosipho activus sp. nov., a thermophilic, anaerobic, hydrolytic bacterium isolated from a deep-sea sample.
- authors: Podosokorskaya OA, Bonch-Osmolovskaya EA, Godfroy A, Gavrilov SN, Beskorovaynaya DA, Sokolova TG, Kolganova TV, Toshchakov SV, Kublanov IV
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.063156-0
- year: 2014
- mesh: Bacterial Typing Techniques, Base Composition, California, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Gram-Negative Anaerobic Straight, Curved, and Helical Rods/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA
- topic2: Genetics
Reference
| @id | authors | title | doi/url | 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 | |
| 21063 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26467 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26467) | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 88636 | 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-ID405362.1 |