Strain identifier
BacDive ID: 3697
Type strain: 
Species: Stigmatella hybrida
Strain Designation: Sg h20
Strain history: CIP <- 2006, DSMZ <- H. Reichenbach, GBF, Braunschweig, Germany: strain Sg h20
NCBI tax ID(s): 394097 (species)
version 9.1 (current version)
General
@ref: 5507
BacDive-ID: 3697
DSM-Number: 14722
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Stigmatella hybrida Sg h20 is a Gram-negative bacterium that builds a fruiting body and was isolated from soil with decaying plant material.
NCBI tax id
- NCBI tax id: 394097
- Matching level: species
strain history
| @ref | history |
|---|---|
| 5507 | <- H. Reichenbach; Sg h20 |
| 67770 | DSM 14722 <-- H. Reichenbach Sg h20. |
| 119995 | CIP <- 2006, DSMZ <- H. Reichenbach, GBF, Braunschweig, Germany: strain Sg h20 |
doi: 10.13145/bacdive3697.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Deltaproteobacteria
- order: Myxococcales
- family: Archangiaceae
- genus: Stigmatella
- species: Stigmatella hybrida
- full scientific name: Stigmatella hybrida Reichenbach 2007
@ref: 5507
domain: Bacteria
phylum: Proteobacteria
class: Deltaproteobacteria
order: Myxococcales
family: Archangiaceae
genus: Stigmatella
species: Stigmatella hybrida
full scientific name: Stigmatella hybrida Reichenbach 2007
strain designation: Sg h20
type strain: yes
Morphology
cell morphology
- @ref: 119995
- gram stain: negative
- cell shape: rod-shaped
- motility: no
multicellular morphology
- @ref: 18281
- forms multicellular complex: yes
- complex name: fruiting body
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 5507 | AGAR WITH E. COLI AS FEED (DSMZ Medium 942) | yes | https://mediadive.dsmz.de/medium/942 | Name: AGAR WITH E. COLI AS FEED (DSMZ Medium 942) Composition: Agar 15.0 g/l CaCl2 x 2 H2O 1.0 g/l Distilled water |
| 5507 | 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 |
| 119995 | CIP Medium 684 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=684 |
culture temp
| @ref | growth | type | temperature |
|---|---|---|---|
| 5507 | positive | growth | 30 |
| 67770 | positive | growth | 30 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | isolation date |
|---|---|---|---|---|---|---|
| 5507 | soil with decaying plant material | Rhodos | Greece | GRC | Europe | |
| 67770 | Soil with plant residues | Greece | GRC | Europe | ||
| 119995 | Environment, Soil with decaying plant material | Rhodos | Greece | GRC | Europe | 2000 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Host | #Plants | #Decomposing plant |
taxonmaps
- @ref: 69479
- File name: preview.99_5311.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_211;96_740;97_2503;98_3958;99_5311&stattab=map
- Last taxonomy: Stigmatella
- 16S sequence: DQ768129
- Sequence Identity:
- Total samples: 19328
- soil counts: 13615
- aquatic counts: 2171
- animal counts: 1422
- plant counts: 2120
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 5507 | 1 | Risk group (German classification) |
| 119995 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 5507
- description: Stigmatella hybrida strain DSM 14722 16S ribosomal RNA gene, partial sequence
- accession: DQ768129
- length: 1502
- database: nuccore
- NCBI tax ID: 394097
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Stigmatella hybrida DSM 14722 | GCA_020103775 | contig | ncbi | 394097 |
| 66792 | Stigmatella hybrida strain DSM 14722 | 394097.3 | wgs | patric | 394097 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 52 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 89.976 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 91.905 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 73.832 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 75.176 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.739 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 67.466 | no |
External links
@ref: 5507
culture collection no.: DSM 14722, CIP 109130, JCM 12640, Sg h20
straininfo link
- @ref: 73209
- straininfo: 293885
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 5507 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14722) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14722 | |
| 18281 | Reichenbach, H. | Collection description and documentation of myxobacteria by H. Reichenbach, HZI (formerly GBF); Collection curr. located at the DSMZ | ||
| 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 | |
| 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) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 73209 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID293885.1 | StrainInfo: A central database for resolving microbial strain identifiers | |
| 119995 | Curators of the CIP | Collection of Institut Pasteur (CIP 109130) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109130 |