Strain identifier
BacDive ID: 3827
Type strain: 
Species: Sporocytophaga myxococcoides
Strain history: <- ATCC <- N. R. Smith, NRS 142 ("Spirochaeta cytophaga") <- P. Gray
NCBI tax ID(s): 926565 (strain), 153721 (species)
version 9.1 (current version)
General
@ref: 4212
BacDive-ID: 3827
DSM-Number: 11118
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Sporocytophaga myxococcoides DSM 11118 is a Gram-negative bacterium that was isolated from soil.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 926565 | strain |
| 153721 | species |
strain history
- @ref: 4212
- history: <- ATCC <- N. R. Smith, NRS 142 ("Spirochaeta cytophaga") <- P. Gray
doi: 10.13145/bacdive3827.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacteroidota
- domain: Bacteria
- phylum: Bacteroidota
- class: Cytophagia
- order: Cytophagales
- family: Cytophagaceae
- genus: Sporocytophaga
- species: Sporocytophaga myxococcoides
- full scientific name: Sporocytophaga myxococcoides (Krzemieniewska 1933) Stanier 1940 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Cytophaga myxococcoides
@ref: 4212
domain: Bacteria
phylum: Bacteroidetes
class: Cytophagia
order: Cytophagales
family: Cytophagaceae
genus: Sporocytophaga
species: Sporocytophaga myxococcoides
full scientific name: Sporocytophaga myxococcoides (Krzemieniewska 1933) Stanier 1940 emend. Hahnke et al. 2016
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 95
Culture and growth conditions
culture medium
- @ref: 4212
- name: SPOROCYTOPHAGA MEDIUM (DSMZ Medium 167)
- growth: yes
- link: https://mediadive.dsmz.de/medium/167
- composition: Name: SPOROCYTOPHAGA MEDIUM (DSMZ Medium 167) Composition: NaNO3 2.0 g/l K2HPO4 1.2 g/l MgSO4 x 7 H2O 1.0 g/l KCl 0.5 g/l KH2PO4 0.14 g/l Yeast extract 0.02 g/l FeSO4 x 7 H2O 0.006 g/l Distilled water
culture temp
- @ref: 4212
- growth: positive
- type: growth
- temperature: 25
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
- @ref: 4212
- sample type: soil
- geographic location: Quebec
- country: Canada
- origin.country: CAN
- continent: North America
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1094.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15996;96_638;97_741;98_860;99_1094&stattab=map
- Last taxonomy: Sporocytophaga myxococcoides subclade
- 16S sequence: AJ310654
- Sequence Identity:
- Total samples: 11911
- soil counts: 7712
- aquatic counts: 1303
- animal counts: 1399
- plant counts: 1497
Safety information
risk assessment
- @ref: 4212
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Sporocytophaga myxococcoides partial 16S rRNA gene, strain DSM 11118T | AJ319026 | 487 | nuccore | 153721 |
| 4212 | Sporocytophaga myxococcoides 16S rRNA gene, strain DSM 11118T | AJ310654 | 1488 | nuccore | 153721 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sporocytophaga myxococcoides DSM 11118 | GCA_000426725 | scaffold | ncbi | 926565 |
| 66792 | Sporocytophaga myxococcoides DSM 11118 | 926565.3 | wgs | patric | 926565 |
| 66792 | Sporocytophaga myxococcoides DSM 11118 | 2540341245 | draft | img | 926565 |
GC content
- @ref: 4212
- GC-content: 36.2
- method: sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 95 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.958 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 81.157 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 82.994 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 91.914 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 78.033 | no |
External links
@ref: 4212
culture collection no.: DSM 11118, ATCC 10010, NCIMB 9920
straininfo link
- @ref: 73338
- straininfo: 4990
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 4212 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11118) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-11118 | |||
| 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) | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 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. | 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 | |||
| 73338 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID4990.1 | StrainInfo: A central database for resolving microbial strain identifiers |