Strain identifier
BacDive ID: 17937
Type strain: 
Species: Sphaerotilus natans
Strain Designation: 6
Strain history: <- ATCC <- J.L. Stokes, 6
NCBI tax ID(s): 1286631 (strain), 34103 (species)
version 8.1 (current version)
General
@ref: 2736
BacDive-ID: 17937
DSM-Number: 6575
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Sphaerotilus natans 6 is a mesophilic, motile bacterium that was isolated from aqueous habitat.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1286631 | strain |
| 34103 | species |
strain history
- @ref: 2736
- history: <- ATCC <- J.L. Stokes, 6
doi: 10.13145/bacdive17937.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Sphaerotilus
- species: Sphaerotilus natans
- full scientific name: Sphaerotilus natans Kützing 1833 (Approved Lists 1980)
@ref: 2736
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Sphaerotilus
species: Sphaerotilus natans subsp. natans
full scientific name: Sphaerotilus natans subsp. natans (Kützing 1833) Gridneva et al. 2011
strain designation: 6
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 93.826 | |
| 69480 | 99.996 | negative |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 2736 | SPHAEROTILUS MEDIUM (DSMZ Medium 51) | yes | https://mediadive.dsmz.de/medium/51 | Name: SPHAEROTILUS MEDIUM (DSMZ Medium 51) Composition: Agar 15.0 g/l Beef extract 5.0 g/l Distilled water |
| 2736 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium1.pdf |
culture temp
- @ref: 2736
- growth: positive
- type: growth
- temperature: 25
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 99 |
| 69480 | no | 99.973 |
Isolation, sampling and environmental information
isolation
- @ref: 2736
- sample type: aqueous habitat
isolation source categories
- Cat1: #Environmental
- Cat2: #Aquatic
taxonmaps
- @ref: 69479
- File name: preview.99_5154.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_2507;97_3061;98_3841;99_5154&stattab=map
- Last taxonomy: Sphaerotilus natans subclade
- 16S sequence: FR749902
- Sequence Identity:
- Total samples: 24715
- soil counts: 1888
- aquatic counts: 16039
- animal counts: 5244
- plant counts: 1544
Safety information
risk assessment
- @ref: 2736
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Sphaerotilus natans 16S ribosomal RNA (16S rRNA) | L33980 | 315 | ena | 34103 |
| 2736 | Sphaerotilus natans partial 16S rRNA gene, type strain DSM 6575T | FR749902 | 1513 | ena | 1286631 |
| 2736 | Sphaerotilus natans strain 6575 16S ribosomal RNA gene, partial sequence | EU642571 | 1349 | ena | 1286631 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphaerotilus natans ATCC 13338 | GCA_900156335 | scaffold | ncbi | 34103 |
| 66792 | Sphaerotilus natans subsp. natans DSM 6575 | GCA_000689195 | contig | ncbi | 1286631 |
| 66792 | Sphaerotilus natans strain ATCC 13338 | 34103.3 | wgs | patric | 34103 |
| 66792 | Sphaerotilus natans subsp. natans DSM 6575 | 1286631.3 | wgs | patric | 1286631 |
| 66792 | Sphaerotilus natans ATCC 13338 | 2681812894 | draft | img | 34103 |
| 66792 | Sphaerotilus natans natans DSM 6575 | 2576861688 | draft | img | 1286631 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 99 | no |
| motile | yes | 84.69 | no |
| gram-positive | no | 99.094 | no |
| anaerobic | no | 98.995 | no |
| aerobic | yes | 88.556 | no |
| halophile | no | 95.348 | no |
| spore-forming | no | 93.894 | no |
| glucose-util | yes | 78.576 | no |
| flagellated | yes | 75.506 | no |
| thermophile | no | 93.292 | yes |
| glucose-ferment | no | 88.81 | no |
External links
@ref: 2736
culture collection no.: DSM 6575, ATCC 13338, LMG 7172
straininfo link
- @ref: 86926
- straininfo: 4975
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 8573492 | Phylogeny of the Sphaerotilus-Leptothrix group inferred from morphological comparisons, genomic fingerprinting, and 16S ribosomal DNA sequence analyses. | Siering PL, Ghiorse WC | Int J Syst Bacteriol | 10.1099/00207713-46-1-173 | 1996 | Base Sequence, DNA Fingerprinting, DNA, Ribosomal/*genetics, Genome, Bacterial, Gram-Negative Aerobic Bacteria/*classification/genetics/ultrastructure, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/*genetics | Genetics |
| Pathogenicity | 9464396 | Prevalence of broad-host-range lytic bacteriophages of Sphaerotilus natans, Escherichia coli, and Pseudomonas aeruginosa. | Jensen EC, Schrader HS, Rieland B, Thompson TL, Lee KW, Nickerson KW, Kokjohn TA | Appl Environ Microbiol | 10.1128/AEM.64.2.575-580.1998 | 1998 | Bacteriophages/genetics/*isolation & purification/physiology, Escherichia coli/*virology, Gram-Negative Aerobic Bacteria/*virology, Pseudomonas aeruginosa/*virology | Enzymology |
| Phylogeny | 9872774 | Morphological and biochemical properties of a Sphaerotilus sp. Isolated from paper mill slimes. | Pellegrin V, Juretschko S, Wagner M, Cottenceau G | Appl Environ Microbiol | 10.1128/AEM.65.1.156-162.1999 | 1999 | Base Sequence, DNA Primers/genetics, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Gram-Negative Aerobic Bacteria/genetics/*metabolism/*ultrastructure, Hydrogen-Ion Concentration, Microscopy, Electron, Scanning, Molecular Sequence Data, Paper, Phylogeny, Polymerase Chain Reaction | Genetics |
| Phylogeny | 20495027 | Taxonomic investigation of representatives of the genus Sphaerotilus: descriptions of Sphaerotilus montanus sp. nov., Sphaerotilus hippei sp. nov., Sphaerotilus natans subsp. natans subsp. nov. and Sphaerotilus natans subsp. sulfidivorans subsp. nov., and an emended description of the genus Sphaerotilus. | Gridneva E, Chernousova E, Dubinina G, Akimov V, Kuever J, Detkova E, Grabovich M | Int J Syst Evol Microbiol | 10.1099/ijs.0.023887-0 | 2010 | Bacterial Typing Techniques, Chaperonin 60/genetics, Cluster Analysis, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sewage/*microbiology, Sphaerotilus/*classification/genetics/*isolation & purification/metabolism, Sulfur Compounds/metabolism, *Water Microbiology | Genetics |
| Metabolism | 24965827 | Sphaerotilus natans encrusted with nanoball-shaped Fe(III) oxide minerals formed by nitrate-reducing mixotrophic Fe(II) oxidation. | Park S, Kim DH, Lee JH, Hur HG | FEMS Microbiol Ecol | 10.1111/1574-6941.12372 | 2014 | Ferric Compounds/*metabolism, Ferrous Compounds/*metabolism, Minerals, Molecular Sequence Data, Nanostructures/ultrastructure, Nitrates/*metabolism, Nitrites/metabolism, Oxidation-Reduction, Sphaerotilus/*metabolism/ultrastructure | Genetics |
| Genetics | 33587121 | The first sequenced Sphaerotilus natans bacteriophage- characterization and potential to control its filamentous bacterium host. | Ferreira R, Amado R, Padrao J, Ferreira V, Dias NM, Melo LDR, Santos SB, Nicolau A | FEMS Microbiol Ecol | 10.1093/femsec/fiab029 | 2021 | *Bacteriophages/genetics, Base Sequence, Genome, Viral, *Sphaerotilus/genetics, *Water Purification | Pathogenicity |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 2736 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6575) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-6575 | |||
| 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 | |||
| 20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
| 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) | |||
| 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) | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
| 86926 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID4975.1 | StrainInfo: A central database for resolving microbial strain identifiers |