Strain identifier
BacDive ID: 131448
Type strain: 
Species: Sulfurifustis variabilis
Strain Designation: skN76
Strain history: <- T. Watanabe, Univ. Hokkaido; skN76 <- T. Watanabe {2014}
NCBI tax ID(s): 1675686 (species)
version 8.1 (current version)
General
@ref: 22675
BacDive-ID: 131448
DSM-Number: 100313
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, thermophilic, motile
description: Sulfurifustis variabilis skN76 is a microaerophile, thermophilic, motile bacterium that was isolated from sediment of a freshwater lake.
NCBI tax id
- NCBI tax id: 1675686
- Matching level: species
strain history
- @ref: 22675
- history: <- T. Watanabe, Univ. Hokkaido; skN76 <- T. Watanabe {2014}
doi: 10.13145/bacdive131448.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Acidiferrobacterales
- family: Acidiferrobacteraceae
- genus: Sulfurifustis
- species: Sulfurifustis variabilis
- full scientific name: Sulfurifustis variabilis Kojima et al. 2015
@ref: 22675
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Acidiferrobacteraceae, not assigned to order
family: Acidiferrobacteraceae
genus: Sulfurifustis
species: Sulfurifustis variabilis
full scientific name: Sulfurifustis variabilis Kojima et al. 2015
strain designation: skN76
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 91.136 | |
| 69480 | 99.999 | negative |
colony morphology
- @ref: 22675
- incubation period: >14 days
Culture and growth conditions
culture medium
- @ref: 22675
- name: SULFURIFUSTIS MEDIUM (DSMZ Medium 1277a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1277a
- composition: Name: SULFURIFUSTIS MEDIUM (DSMZ Medium 1277a) Composition: Na2S2O3 x 5 H2O 2.49252 g/l Na2CO3 0.997009 g/l MgCl2 x 6 H2O 0.199402 g/l CaCl2 x 2 H2O 0.0997009 g/l (NH4)2SO4 0.0997009 g/l KH2PO4 0.0997009 g/l KCl 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l Pyridoxine hydrochloride 9.97009e-05 g/l MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water
culture temp
- @ref: 22675
- growth: positive
- type: growth
- temperature: 40
- range: thermophilic
Physiology and metabolism
oxygen tolerance
- @ref: 22675
- oxygen tolerance: microaerophile
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.437
Isolation, sampling and environmental information
isolation
- @ref: 22675
- sample type: sediment of a freshwater lake
- geographic location: Lake Mizugaki
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Freshwater |
| #Environmental | #Aquatic | #Lake (large) |
| #Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_108081.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_691;96_43345;97_55473;98_73420;99_108081&stattab=map
- Last taxonomy: Sulfurifustis variabilis subclade
- 16S sequence: LC062790
- Sequence Identity:
- Total samples: 1396
- soil counts: 791
- aquatic counts: 473
- animal counts: 85
- plant counts: 47
Safety information
risk assessment
- @ref: 22675
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22675
- description: Sulfurifustis variabilis gene for 16S ribosomal RNA, partial sequence
- accession: LC062790
- length: 1454
- database: ena
- NCBI tax ID: 1675686
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sulfurifustis variabilis skN76 | GCA_002355415 | complete | ncbi | 1675686 |
| 66792 | Sulfurifustis variabilis skN76 | 2775506818 | complete | img | 1675686 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 22675 | 69 | high performance liquid chromatography (HPLC) |
| 22675 | 67.5 | sequence analysis |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 73 | no |
| flagellated | no | 94.42 | no |
| gram-positive | no | 98.847 | no |
| anaerobic | no | 95.538 | yes |
| aerobic | no | 82.237 | yes |
| halophile | no | 78.028 | no |
| spore-forming | no | 94.028 | no |
| glucose-util | yes | 54.027 | no |
| thermophile | no | 95.698 | no |
| motile | no | 77.149 | no |
| glucose-ferment | no | 88.328 | no |
External links
@ref: 22675
culture collection no.: DSM 100313, NBRC 110942
straininfo link
- @ref: 89870
- straininfo: 398924
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 26220671 | Sulfurifustis variabilis gen. nov., sp. nov., a sulfur oxidizer isolated from a lake, and proposal of Acidiferrobacteraceae fam. nov. and Acidiferrobacterales ord. nov. | Kojima H, Shinohara A, Fukui M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000479 | 2015 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Japan, Lakes/*microbiology, Molecular Sequence Data, Oxidation-Reduction, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur/metabolism, *Water Microbiology | Genetics |
| Phylogeny | 26503693 | Sulfuricaulis limicola gen. nov., sp. nov., a sulfur oxidizer isolated from a lake. | Kojima H, Watanabe T, Fukui M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000709 | 2015 | Autotrophic Processes, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/metabolism, Geologic Sediments/microbiology, Japan, Lakes/*microbiology, Molecular Sequence Data, Oxidation-Reduction, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur/metabolism, Sulfur-Reducing Bacteria/*classification/genetics/isolation & purification | Metabolism |
| Genetics | 27651857 | The complete genome sequences of sulfur-oxidizing Gammaproteobacteria Sulfurifustis variabilis skN76(T) and Sulfuricaulis limicola HA5(T). | Umezawa K, Watanabe T, Miura A, Kojima H, Fukui M | Stand Genomic Sci | 10.1186/s40793-016-0196-0 | 2016 |
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 | |||
| 22675 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100313 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100313) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 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/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 89870 | 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-ID398924.1 |