Strain identifier
BacDive ID: 132526
Type strain: 
Species: Thermithiobacillus plumbiphilus
Strain Designation: wk12
Strain history: <- T. Watanabe, Hokkaido University, Sapporo, Japan; wk12 <- T. Watanabe {2015}
NCBI tax ID(s): 1729899 (species)
version 8.1 (current version)
General
@ref: 24315
BacDive-ID: 132526
DSM-Number: 101799
keywords: 16S sequence, Bacteria, Gram-negative, motile, rod-shaped
description: Thermithiobacillus plumbiphilus wk12 is a Gram-negative, motile, rod-shaped bacterium that was isolated from industrially synthesized lead sulfide.
NCBI tax id
- NCBI tax id: 1729899
- Matching level: species
strain history
- @ref: 24315
- history: <- T. Watanabe, Hokkaido University, Sapporo, Japan; wk12 <- T. Watanabe {2015}
doi: 10.13145/bacdive132526.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Acidithiobacillia
- order: Acidithiobacillales
- family: Thermithiobacillaceae
- genus: Thermithiobacillus
- species: Thermithiobacillus plumbiphilus
- full scientific name: Thermithiobacillus plumbiphilus Watanabe et al. 2016
@ref: 24315
domain: Bacteria
phylum: Proteobacteria
class: Acidithiobacillia
order: Acidithiobacillales
family: Thermithiobacillaceae
genus: Thermithiobacillus
species: Thermithiobacillus plumbiphilus
full scientific name: Thermithiobacillus plumbiphilus Watanabe et al. 2016
strain designation: wk12
type strain: yes
Morphology
cell morphology
- @ref: 43988
- gram stain: negative
- cell length: 0.7-2.2 µm
- cell width: 0.5-1.0 µm
- cell shape: rod-shaped
- motility: yes
Culture and growth conditions
culture medium
| @ref | name | composition | growth | link |
|---|---|---|---|---|
| 43988 | bicarbonate-buffered low-salt defined medium | 0.2 g/L MgCl2.6H2O, 0.1 g/L CaCl2.2H2O, 0.1 g/L KH4Cl, 0.1 g/L KH2PO4, 0.1 g/L KCl, 1 ml trace element solution, 1 ml selenite-tungstate solution, 1 ml vitamin solution DSM 141, 10 ml 1M Na2S2O3 solution, 30 ml 1M NaHCO3 solution | ||
| 24315 | SULFURIFERULA THIOPHILA MEDIUM (DSMZ Medium 1585a) | Name: SULFURIFERULA THIOPHILA MEDIUM (DSMZ Medium 1585a) Composition: Na2S2O3 x 5 H2O 5.0 g/l MOPS 4.2 g/l NaHCO3 2.5 g/l MgCl2 x 6 H2O 0.2 g/l KCl 0.1 g/l KH2PO4 0.1 g/l (NH4)2SO4 0.1 g/l CaCl2 x 2 H2O 0.1 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l NaOH 0.0005 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l Na2WO4 x 2 H2O 4e-06 g/l Na2SeO3 x 5 H2O 3e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water | yes | https://mediadive.dsmz.de/medium/1585a |
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 43988 | positive | growth | 5-37 | |
| 43988 | positive | optimum | 28-32 | mesophilic |
| 24315 | positive | growth | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 43988 | positive | growth | 5.8-8.7 | alkaliphile |
| 43988 | positive | optimum | 6.4-7.1 |
Physiology and metabolism
spore formation
- @ref: 43988
- spore formation: no
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 43988 | NaCl | positive | optimum | 0 M |
| 43988 | NaCl | positive | growth | 0-4-2.5 |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 43988 | catalase | - | 1.11.1.6 |
| 43988 | cytochrome oxidase | - | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | enrichment culture | enrichment culture composition | enrichment culture temperature |
|---|---|---|---|---|---|---|---|
| 24315 | industrially synthesized lead (II) sulfide | Japan | JPN | Asia | |||
| 43988 | industrially synthesized lead (II) sulfide | modified ATCC 290 S6 medium | 3 g/L Na2HPO4.12H2O, 1.8 g/L KH2PO4, 0.1 g/L MgSO4.7H2O, 0.1 g/L (NH4)2SO4, 0.04 g/L CaCl2 . 2H2O, 0.03 g FeCl3.6H2O, 0.03 g/L MnSO4.5H2O, 10 g/L Na2S2O3, with decreased thiosulfate concentration to 0.4 mM | 22 |
isolation source categories
- Cat1: #Engineered
- Cat2: #Industrial
- Cat3: #Industrial production
taxonmaps
- @ref: 69479
- File name: preview.99_98146.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_163;96_33169;97_42032;98_54867;99_98146&stattab=map
- Last taxonomy: Thermithiobacillus plumbiphilus
- 16S sequence: LC088006
- Sequence Identity:
- Total samples: 421
- soil counts: 276
- aquatic counts: 116
- animal counts: 15
- plant counts: 14
Safety information
risk assessment
- @ref: 24315
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24315
- description: Thermithiobacillus plumbiphilus gene for 16S ribosomal RNA, partial sequence
- accession: LC088006
- length: 1419
- database: ena
- NCBI tax ID: 1729899
GC content
- @ref: 24315
- GC-content: 58.5
- method: high performance liquid chromatography (HPLC)
External links
@ref: 24315
culture collection no.: DSM 101799, NBRC 111508
straininfo link
- @ref: 90852
- straininfo: 408113
literature
- topic: Phylogeny
- Pubmed-ID: 26873326
- title: Thermithiobacillus plumbiphilus sp. nov., a sulfur-oxidizing bacterium isolated from lead sulfide.
- authors: Watanabe T, Miura A, Shinohara A, Kojima H, Fukui M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000972
- year: 2016
- mesh: Autotrophic Processes, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, *Lead, Oxidation-Reduction, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Sulfides, Sulfur/*chemistry, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification
- topic2: Enzymology
Reference
| @id | authors | title | doi/url | catalogue | 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 | |||
| 24315 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101799 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 101799) | |||
| 43988 | Tomohiro Watanabe, Aya Miura, Arisa Shinohara, Hisaya Kojima, Manabu Fukui | Thermithiobacillus plumbiphilus sp. nov., a sulfur-oxidizing bacterium isolated from lead sulfide | 10.1099/ijsem.0.000972 | IJSEM 66: 1986-1989 2016 | 26873326 | |
| 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/ | |||
| 90852 | 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-ID408113.1 |