Strain identifier
BacDive ID: 140917
Type strain: 
Species: Dissulfurimicrobium hydrothermale
Strain Designation: Sh68
Strain history: A. I. Slobodkin; Winogradsky Inst. of Microbiol., RAS, Russia; Sh68.
NCBI tax ID(s): 1750598 (species)
version 9.3 (current version)
General
@ref: 43784
BacDive-ID: 140917
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, chemoautolithotroph, Gram-negative, motile, rod-shaped
description: Dissulfurimicrobium hydrothermale Sh68 is an anaerobe, chemoautolithotroph, Gram-negative bacterium that was isolated from A terrestrial hydrothermal pond 'Kuchonnyi' at Uzon Caldera.
NCBI tax id
- NCBI tax id: 1750598
- Matching level: species
strain history
- @ref: 67770
- history: A. I. Slobodkin; Winogradsky Inst. of Microbiol., RAS, Russia; Sh68.
doi: 10.13145/bacdive140917.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Deltaproteobacteria, not assigned to order
- family: Deltaproteobacteria, not assigned to family
- genus: Dissulfurimicrobium
- species: Dissulfurimicrobium hydrothermale
- full scientific name: Dissulfurimicrobium hydrothermale Slobodkin et al. 2016
@ref: 43784
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Deltaproteobacteria, not assigned to order
family: Deltaproteobacteria, not assigned to family
genus: Dissulfurimicrobium
species: Dissulfurimicrobium hydrothermale
strain designation: Sh68
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 43784 | negative | 1.2-2 µm | 0.5-0.8 µm | rod-shaped | yes | |
| 125438 | negative | 97.469 |
Culture and growth conditions
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 43784 | positive | growth | 30-65 |
| 43784 | positive | optimum | 50-52 |
| 67770 | positive | growth | 50 |
culture pH
| @ref | ability | type | pH |
|---|---|---|---|
| 43784 | positive | growth | 5.2-7.5 |
| 43784 | positive | optimum | 6-6.2 |
Physiology and metabolism
oxygen tolerance
- @ref: 43784
- oxygen tolerance: anaerobe
nutrition type
- @ref: 43784
- type: chemoautolithotroph
halophily
- @ref: 43784
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-2.3 %(w/v)
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 43784 | 22599 | arabinose | - | fermentation |
| 43784 | 28757 | fructose | - | fermentation |
| 43784 | 17234 | glucose | - | fermentation |
| 43784 | 17306 | maltose | - | fermentation |
| 43784 | peptone | - | fermentation | |
| 43784 | 15361 | pyruvate | - | fermentation |
| 43784 | 17992 | sucrose | - | fermentation |
| 43784 | 85115 | anthraquinone-2,6-disulfonic acid | - | reduction |
| 43784 | 15379 | dioxygen | - | reduction |
| 43784 | 31605 | ferric citrate | - | reduction |
| 43784 | ferrihydrite | - | reduction | |
| 43784 | 29806 | fumarate | - | reduction |
| 43784 | 17632 | nitrate | - | reduction |
| 43784 | 16189 | sulfate | - | reduction |
| 43784 | 16526 | carbon dioxide | + | carbon source |
| 43784 | 33403 | elemental sulfur | + | energy source |
| 43784 | 30031 | succinate | + | growth |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | isolation date |
|---|---|---|---|---|---|---|
| 43784 | A terrestrial hydrothermal pond 'Kuchonnyi' at Uzon Caldera | Kronotsky Nature Reserve, Kamchatka | Russia | RUS | Asia | 2009-09 |
| 67770 | Hydrothermal pond at Uzon Caldera | Kamchatka | Russia | RUS |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Condition | #Thermophilic (>45°C) | |
| #Environmental | #Aquatic | #Pond (small) |
| #Environmental | #Terrestrial |
taxonmaps
- @ref: 69479
- File name: preview.99_171094.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_474;96_63790;97_82736;98_112107;99_171094&stattab=map
- Last taxonomy: Dissulfurimicrobium hydrothermale subclade
- 16S sequence: KT159733
- Sequence Identity:
- Total samples: 68
- soil counts: 12
- aquatic counts: 52
- animal counts: 2
- plant counts: 2
Sequence information
16S sequences
- @ref: 43784
- description: Dissulfurimicrobium hydrothermale strain Sh68 16S ribosomal RNA gene, partial sequence
- accession: KT159733
- database: nuccore
Genome sequences
- @ref: 66792
- description: Dissulfurimicrobium hydrothermale Sh68
- accession: GCA_022026155
- assembly level: complete
- database: ncbi
- NCBI tax ID: 1750598
GC content
- @ref: 43784
- GC-content: 49
- method: thermal denaturation, midpoint method (Tm)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.469 | yes |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 85.527 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 86.901 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 86.671 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | yes | 69.18 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 66.222 | no |
External links
@ref: 43784
culture collection no.: JCM 19990, VKM B-2854
literature
- topic: Phylogeny
- Pubmed-ID: 26646853
- title: Dissulfurimicrobium hydrothermale gen. nov., sp. nov., a thermophilic, autotrophic, sulfur-disproportionating deltaproteobacterium isolated from a hydrothermal pond.
- authors: Slobodkin AI, Slobodkina GB, Panteleeva AN, Chernyh NA, Novikov AA, Bonch-Osmolovskaya EA
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000828
- year: 2015
Reference
| @id | authors | title | doi/url | journal | pubmed |
|---|---|---|---|---|---|
| 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 | ||
| 43784 | A. I. Slobodkin, G. B. Slobodkina, A. N. Panteleeva, N. A. Chernyh, A. A. Novikov, E. A. Bonch-Osmolovskaya | Dissulfurimicrobium hydrothermale gen. nov., sp. nov., a thermophilic, autotrophic, sulfur-disproportionating deltaproteobacterium isolated from a hydrothermal pond | 10.1099/ijsem.0.000828 | IJSEM 66: 1022-1026 2016 | 26646853 |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | ||
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | ||
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 |