Strain identifier
BacDive ID: 3272
Type strain: 
Species: Cystobacter fuscus
Strain Designation: M29
Strain history: <- ATCC <- H.D. McCurdy, M29 (Polyangium fuscum)
NCBI tax ID(s): 1242864 (strain), 43 (species)
version 8.1 (current version)
General
@ref: 1010
BacDive-ID: 3272
DSM-Number: 2262
keywords: genome sequence, 16S sequence, Bacteria, spore-forming, mesophilic, Gram-negative
description: Cystobacter fuscus M29 is a spore-forming, mesophilic, Gram-negative bacterium that was isolated from soil.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1242864 | strain |
| 43 | species |
strain history
- @ref: 1010
- history: <- ATCC <- H.D. McCurdy, M29 (Polyangium fuscum)
doi: 10.13145/bacdive3272.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Myxococcales
- family: Archangiaceae
- genus: Cystobacter
- species: Cystobacter fuscus
- full scientific name: Cystobacter fuscus Schroeter 1886 (Approved Lists 1980)
@ref: 1010
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Myxococcales
family: Archangiaceae
genus: Cystobacter
species: Cystobacter fuscus
full scientific name: Cystobacter fuscus Schroeter 1886
strain designation: M29
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.666
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 1010 | VY/2 AGAR (DSMZ Medium 9) | yes | https://mediadive.dsmz.de/medium/9 | Name: VY/2 AGAR (DSMZ Medium 9) Composition: Agar 15.0 g/l Baker's yeast 5.0 g/l CaCl2 x 2 H2O 1.36 g/l Vitamin B12 0.0005 g/l Distilled water |
| 1010 | SP - MEDIUM (DSMZ Medium 222) | yes | https://mediadive.dsmz.de/medium/222 | Name: SP - MEDIUM (DSMZ Medium 222) Composition: Agar 15.0 g/l Starch 5.0 g/l Casitone 2.5 g/l Galactose 1.0 g/l Sucrose 1.0 g/l Raffinose 1.0 g/l MgSO4 x 7 H2O 0.5 g/l K2HPO4 0.25 g/l Distilled water |
culture temp
- @ref: 1010
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | yes | 94 |
| 69480 | no | 97.739 |
Isolation, sampling and environmental information
isolation
- @ref: 1010
- sample type: soil
- country: Canada
- origin.country: CAN
- continent: North America
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
taxonmaps
- @ref: 69479
- File name: preview.99_1427.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_211;96_740;97_958;98_1127;99_1427&stattab=map
- Last taxonomy: Cystobacter
- 16S sequence: KP306730
- Sequence Identity:
- Total samples: 13071
- soil counts: 8866
- aquatic counts: 647
- animal counts: 1003
- plant counts: 2555
Safety information
risk assessment
- @ref: 1010
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Cystobacter fuscus 16S ribosomal RNA gene, complete sequence | M94276 | 1483 | ena | 43 |
| 20218 | Cystobacter fuscus gene for 16S rRNA, partial sequence, strain: NBRC 100088 | AB218223 | 1461 | ena | 1242864 |
| 20218 | Cystobacter fuscus gene for 16S-23S rRNA internal transcribed spacer regions, partial sequence, strain: NBRC 100088 | AB218258 | 669 | ena | 1242864 |
| 1010 | Cystobacter fuscus DSM 2262 16S ribosomal RNA gene, complete sequence | KP306730 | 1524 | ena | 1242864 |
| 1010 | Cystobacter fuscus strain DSM 2262 16S ribosomal RNA gene, partial sequence | DQ768109 | 1491 | ena | 1242864 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Cystobacter fuscus DSM 2262 | GCA_000335475 | contig | ncbi | 1242864 |
| 66792 | Cystobacter fuscus DSM 2262 | 1242864.3 | wgs | patric | 1242864 |
| 66792 | Cystobacter fuscus DSM 2262 | 2537561635 | draft | img | 1242864 |
GC content
- @ref: 1010
- GC-content: 68.5
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 94 | no |
| motile | no | 54.711 | no |
| gram-positive | no | 96.058 | no |
| anaerobic | no | 98.294 | no |
| aerobic | yes | 79.535 | no |
| halophile | no | 91.752 | no |
| spore-forming | no | 72.842 | no |
| glucose-util | yes | 84.028 | no |
| flagellated | no | 85.645 | no |
| thermophile | no | 99.445 | no |
| glucose-ferment | no | 86.472 | no |
External links
@ref: 1010
culture collection no.: DSM 2262, ATCC 25194, NBRC 100088
straininfo link
- @ref: 72785
- straininfo: 38405
literature
- topic: Phylogeny
- Pubmed-ID: 28141508
- title: Vitiosangium cumulatum gen. nov., sp. nov. and Vitiosangium subalbum sp. nov., soil myxobacteria, and emended descriptions of the genera Archangium and Angiococcus, and of the family Cystobacteraceae.
- authors: Awal RP, Garcia R, Gemperlein K, Wink J, Kunwar B, Parajuli N, Muller R
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.001829
- year: 2017
- mesh: Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Myxococcales/*classification/genetics/isolation & purification, Nepal, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology
- topic2: Transcriptome
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1010 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2262) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-2262 | |||
| 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 | |||
| 72785 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID38405.1 | StrainInfo: A central database for resolving microbial strain identifiers |