Strain identifier
BacDive ID: 24529
Type strain: 
Species: Sulfurisoma sediminicola
Strain Designation: BSN1
Strain history: <- M. Watanabe, Univ. Hokkaido; BSN1 <- H. Kojima {2012}
NCBI tax ID(s): 1381557 (species)
version 8.1 (current version)
General
@ref: 21328
BacDive-ID: 24529
DSM-Number: 26916
keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative
description: Sulfurisoma sediminicola BSN1 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater lake sediment.
NCBI tax id
- NCBI tax id: 1381557
- Matching level: species
strain history
- @ref: 21328
- history: <- M. Watanabe, Univ. Hokkaido; BSN1 <- H. Kojima {2012}
doi: 10.13145/bacdive24529.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Nitrosomonadales
- family: Sterolibacteriaceae
- genus: Sulfurisoma
- species: Sulfurisoma sediminicola
- full scientific name: Sulfurisoma sediminicola Kojima and Fukui 2014
@ref: 21328
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Rhizobiales
family: Sterolibacteriaceae
genus: Sulfurisoma
species: Sulfurisoma sediminicola
full scientific name: Sulfurisoma sediminicola Kojima and Fukui 2014
strain designation: BSN1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 100
colony morphology
- @ref: 21328
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 21328
- name: SULFURITALEA MEDIUM (DSMZ Medium 1304)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1304
- composition: Name: SULFURITALEA MEDIUM (DSMZ Medium 1304) Composition: NaHCO3 4.98504 g/l NaNO3 1.69492 g/l Na2S2O3 x 5 H2O 0.398804 g/l MgCl2 x 6 H2O 0.199402 g/l KCl 0.0997009 g/l KH2PO4 0.0997009 g/l (NH4)2SO4 0.0997009 g/l CaCl2 x 2 H2O 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 MnCl2 x 4 H2O 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Pyridoxine hydrochloride 9.97009e-06 g/l H3BO3 5.98205e-06 g/l p-Aminobenzoic acid 4.98505e-06 g/l (DL)-alpha-Lipoic acid 4.98505e-06 g/l Calcium D-(+)-pantothenate 4.98505e-06 g/l Nicotinic acid 4.98505e-06 g/l Riboflavin 4.98505e-06 g/l Thiamine HCl 4.98505e-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 Folic acid 1.99402e-06 g/l Biotin 1.99402e-06 g/l Vitamin B12 9.97009e-08 g/l Distilled water
culture temp
- @ref: 21328
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 21328
- oxygen tolerance: anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.96 |
Isolation, sampling and environmental information
isolation
- @ref: 21328
- sample type: freshwater lake sediment
- geographic location: Shiga Prefecture, Lake Biwa
- 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_16337.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_8334;97_10033;98_12329;99_16337&stattab=map
- Last taxonomy: Sulfurisoma sediminicola subclade
- 16S sequence: AB842427
- Sequence Identity:
- Total samples: 2877
- soil counts: 348
- aquatic counts: 2305
- animal counts: 82
- plant counts: 142
Safety information
risk assessment
- @ref: 21328
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21328
- description: Sulfurisoma sediminicola gene for 16S rRNA, partial sequence, strain: BSN1
- accession: AB842427
- length: 1460
- database: ena
- NCBI tax ID: 1381557
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sulfurisoma sediminicola BSN1 | GCA_003865015 | contig | ncbi | 1381557 |
| 66792 | Sulfurisoma sediminicola DSM 26916 | GCA_003663955 | scaffold | ncbi | 1381557 |
| 66792 | Sulfurisoma sediminicola strain DSM 26916 | 1381557.3 | wgs | patric | 1381557 |
| 66792 | Sulfurisoma sediminicola BSN1 | 2837014545 | draft | img | 1381557 |
| 66792 | Sulfurisoma sediminicola DSM 26916 | 2770939616 | draft | img | 1381557 |
GC content
- @ref: 21328
- GC-content: 67
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | no | 84.529 | no |
| flagellated | no | 85.762 | no |
| gram-positive | no | 99.363 | no |
| anaerobic | yes | 58.212 | yes |
| aerobic | no | 95.315 | yes |
| halophile | no | 94.338 | no |
| spore-forming | no | 96.766 | no |
| glucose-util | no | 72.031 | no |
| thermophile | no | 95.867 | no |
| glucose-ferment | no | 89.661 | no |
External links
@ref: 21328
culture collection no.: DSM 26916, NBRC 109412
straininfo link
- @ref: 88384
- straininfo: 405409
literature
- topic: Phylogeny
- Pubmed-ID: 24480906
- title: Sulfurisoma sediminicola gen. nov., sp. nov., a facultative autotroph isolated from a freshwater lake.
- authors: Kojima H, Fukui M
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.057281-0
- year: 2014
- mesh: Autotrophic Processes, Bacterial Typing Techniques, Base Composition, Betaproteobacteria/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fresh Water/microbiology, Geologic Sediments/microbiology, Japan, Lakes/*microbiology, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Genetics
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 | |||
| 21328 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26916 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26916) | |||
| 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 | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 88384 | 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-ID405409.1 |