Strain identifier
BacDive ID: 17058
Type strain: 
Species: Thermosipho globiformans
Strain Designation: MN14
Strain history: T. Kuwabara MN14.
NCBI tax ID(s): 380685 (species)
version 8.1 (current version)
General
@ref: 8388
BacDive-ID: 17058
DSM-Number: 19918
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, thermophilic, Gram-negative
description: Thermosipho globiformans MN14 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from hydrothermal vent, depth 1384 m.
NCBI tax id
- NCBI tax id: 380685
- Matching level: species
strain history
| @ref | history |
|---|---|
| 8388 | <- T. Kuwabara, Graduate School Life and Environmental Sci., Univ. Tsukuba, Japan; MN14 <- T. Kuwabara {2005} |
| 67770 | T. Kuwabara MN14. |
doi: 10.13145/bacdive17058.20230509.8.1
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 globiformans
- full scientific name: Thermosipho globiformans Kuwabara et al. 2011
@ref: 8388
domain: Bacteria
phylum: Thermotogae
class: Thermotogae
order: Thermotogales
family: Fervidobacteriaceae
genus: Thermosipho
species: Thermosipho globiformans
full scientific name: Thermosipho globiformans Kuwabara et al. 2011
strain designation: MN14
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.995
Culture and growth conditions
culture medium
- @ref: 8388
- name: PALAEOCOCCUS MEDIUM (DSMZ Medium 377a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/377a
- composition: Name: PALAEOCOCCUS MEDIUM (DSMZ Medium 377a) Composition: Sulfur 29.2398 g/l Peptone 4.87329 g/l MgCl2 x 6 H2O 2.68031 g/l Yeast extract 0.974659 g/l KH2PO4 0.487329 g/l Na2S x 9 H2O 0.487329 g/l KCl 0.321637 g/l NaBr 0.0487329 g/l MgSO4 x 7 H2O 0.0292398 g/l Nitrilotriacetic acid 0.0146199 g/l (NH4)2SO4 0.00974659 g/l NaCl 0.00974659 g/l SrCl2 x 6 H2O 0.00682261 g/l Citric acid 0.00487329 g/l MnSO4 x H2O 0.00487329 g/l ZnSO4 x 7 H2O 0.00175439 g/l CoSO4 x 7 H2O 0.00175439 g/l FeSO4 x 7 H2O 0.000974659 g/l CaCl2 x 2 H2O 0.000974659 g/l Sodium resazurin 0.000487329 g/l NiCl2 x 6 H2O 0.000292398 g/l AlK(SO4)2 x 12 H2O 0.000194932 g/l H3BO3 9.74659e-05 g/l CuSO4 x 5 H2O 9.74659e-05 g/l Pyridoxine hydrochloride 9.74659e-05 g/l Na2MoO4 x 2 H2O 9.74659e-05 g/l (DL)-alpha-Lipoic acid 4.87329e-05 g/l p-Aminobenzoic acid 4.87329e-05 g/l Calcium D-(+)-pantothenate 4.87329e-05 g/l Nicotinic acid 4.87329e-05 g/l Riboflavin 4.87329e-05 g/l Thiamine HCl 4.87329e-05 g/l KI 4.87329e-05 g/l Folic acid 1.94932e-05 g/l Biotin 1.94932e-05 g/l Na2WO4 x 2 H2O 3.89864e-06 g/l Na2SeO3 x 5 H2O 2.92398e-06 g/l Vitamin B12 9.74659e-07 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range | confidence |
|---|---|---|---|---|---|
| 8388 | positive | growth | 65 | thermophilic | |
| 67770 | positive | growth | 65 | thermophilic | |
| 69480 | thermophilic | 100 |
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 8388 | anaerobe | |
| 69480 | anaerobe | 100 |
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.982
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 8388 | hydrothermal vent, depth 1384 m | off the eastern coast, Suiyo Seamount | Japan | JPN | Asia | 28.5667 | 140.633 |
| 67770 | Hydrothermal vent at Suiyo Seamount | Izu-Bonin Arc | Pacific Ocean |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Hydrothermal vent |
| #Condition | #Thermophilic (>45°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_547.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_93;96_347;97_387;98_444;99_547&stattab=map
- Last taxonomy: Thermosipho
- 16S sequence: AB257289
- Sequence Identity:
- Total samples: 46
- aquatic counts: 33
- animal counts: 12
- plant counts: 1
Safety information
risk assessment
- @ref: 8388
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8388
- description: Thermosipho globiformans gene for 16S rRNA, partial sequence
- accession: AB257289
- length: 1432
- database: ena
- NCBI tax ID: 380685
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Thermosipho globiformans strain JCM 15059 | 380685.3 | wgs | patric | 380685 |
| 66792 | Thermosipho globiformans MN14 | 2894286821 | draft | img | 380685 |
| 67770 | Thermosipho globiformans JCM 15059 | GCA_003990895 | contig | ncbi | 380685 |
GC content
- @ref: 8388
- GC-content: 31.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 79 | no |
| gram-positive | no | 93.775 | no |
| anaerobic | yes | 99.282 | no |
| halophile | no | 91.687 | no |
| spore-forming | no | 88.586 | no |
| glucose-util | yes | 88.657 | no |
| aerobic | no | 98.747 | yes |
| motile | yes | 88.978 | no |
| flagellated | no | 90.39 | no |
| thermophile | yes | 100 | yes |
| glucose-ferment | no | 50 | no |
External links
@ref: 8388
culture collection no.: DSM 19918, JCM 15059, NBRC 109617
straininfo link
- @ref: 86058
- straininfo: 400092
literature
- topic: Phylogeny
- Pubmed-ID: 20693358
- title: Thermosipho globiformans sp. nov., an anaerobic thermophilic bacterium that transforms into multicellular spheroids with a defect in peptidoglycan formation.
- authors: Kuwabara T, Kawasaki A, Uda I, Sugai A
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.025106-0
- year: 2010
- mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gram-Negative Anaerobic Straight, Curved, and Helical Rods/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Pacific Ocean, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Analysis, DNA
- topic2: Genetics
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 8388 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19918) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19918 | |
| 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 | |
| 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) | |
| 86058 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID400092.1 | StrainInfo: A central database for resolving microbial strain identifiers |