Strain identifier
BacDive ID: 130811
Type strain: 
Species: Pseudochelatococcus contaminans
Strain history: CIP <- 2014, P. Kämpfer, Giessen, Univ., Giessen, Germany: strain MPA 1105
NCBI tax ID(s): 1538103 (species)
version 8.1 (current version)
General
@ref: 22136
BacDive-ID: 130811
DSM-Number: 28760
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Pseudochelatococcus contaminans DSM 28760 is a mesophilic, Gram-negative bacterium that was isolated from coolant .
NCBI tax id
- NCBI tax id: 1538103
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22136 | <- P. Kämpfer, Justus-Liebig-Universität, Giessen, Germany; MPA 1105 <- J. Kuever, Bremen Institute for Materials Testing |
| 118739 | CIP <- 2014, P. Kämpfer, Giessen, Univ., Giessen, Germany: strain MPA 1105 |
doi: 10.13145/bacdive130811.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Beijerinckiaceae
- genus: Pseudochelatococcus
- species: Pseudochelatococcus contaminans
- full scientific name: Pseudochelatococcus contaminans Kämpfer et al. 2015
@ref: 22136
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Beijerinckiaceae
genus: Pseudochelatococcus
species: Pseudochelatococcus contaminans
full scientific name: Pseudochelatococcus contaminans Kämpfer et al. 2015
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | cell shape | motility |
|---|---|---|---|---|
| 69480 | negative | 99.97 | ||
| 118739 | rod-shaped | no |
multimedia
- @ref: 22136
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_28760.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 22136 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water |
| 118739 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 |
culture temp
- @ref: 22136
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 98 |
| 69480 | no | 99.996 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | isolation date |
|---|---|---|---|---|---|---|
| 22136 | coolant (metal working emulsion) | Northern Germany | Germany | DEU | Europe | |
| 118739 | Coolant lubricant | Germany | DEU | Europe | 2012 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | #Heavy metal |
| #Engineered | #Industrial | #Industrial production |
taxonmaps
- @ref: 69479
- File name: preview.99_42141.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_19514;97_24213;98_30625;99_42141&stattab=map
- Last taxonomy: Pseudochelatococcus contaminans subclade
- 16S sequence: KJ886940
- Sequence Identity:
- Total samples: 110
- soil counts: 14
- aquatic counts: 57
- animal counts: 37
- plant counts: 2
Safety information
risk assessment
| @ref | biosafety level | biosafety level comment |
|---|---|---|
| 22136 | 1 | Risk group (German classification) |
| 118739 | 1 | Risk group (French classification) |
Sequence information
16S sequences
- @ref: 22136
- description: Pseudochelatococcus contaminans strain MPA 1105 16S ribosomal RNA gene, partial sequence
- accession: KJ886940
- length: 1409
- database: ena
- NCBI tax ID: 1538103
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Pseudochelatococcus contaminans DSM 28760 | GCA_014195635 | scaffold | ncbi | 1538103 |
| 66792 | Pseudochelatococcus contaminans strain DSM 28760 | 1538103.3 | wgs | patric | 1538103 |
| 66792 | Pseudochelatococcus contaminans DSM 28760 | 2827992976 | draft | img | 1538103 |
GC content
- @ref: 22136
- GC-content: 53.3
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 98 | no |
| flagellated | no | 68.466 | no |
| gram-positive | no | 97.244 | no |
| anaerobic | no | 97.582 | no |
| aerobic | yes | 81.352 | no |
| halophile | no | 82.427 | no |
| spore-forming | no | 95.323 | no |
| glucose-util | no | 53.145 | no |
| thermophile | no | 98.406 | no |
| motile | yes | 76.156 | no |
| glucose-ferment | no | 91.141 | no |
External links
@ref: 22136
culture collection no.: DSM 28760, CCM 8527, LMG 28285, MPA 1105, CIP 110803
straininfo link
- @ref: 89299
- straininfo: 404465
literature
- topic: Phylogeny
- Pubmed-ID: 25301542
- title: Pseudochelatococcus lubricantis gen. nov., sp. nov. and Pseudochelatococcus contaminans sp. nov. from coolant lubricants.
- authors: Kampfer P, Glaeser SP, Graber M, Rabenstein A, Kuever J, Busse HJ
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.067652-0
- year: 2014
- mesh: Bacterial Typing Techniques, Base Composition, Beijerinckiaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Germany, *Lubricants, Metallurgy, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/chemistry, Ubiquinone/chemistry
- topic2: Genetics
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 22136 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28760 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28760) | |
| 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 | |
| 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 | |
| 89299 | 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-ID404465.1 | |
| 118739 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110803 | Collection of Institut Pasteur (CIP 110803) |