Strain identifier
BacDive ID: 2945
Type strain: 
Species: Delftia acidovorans
Strain Designation: SPH-1
Strain history: <- D. Schleheck; SPH-1
NCBI tax ID(s): 80866 (species)
version 8.1 (current version)
General
@ref: 5551
BacDive-ID: 2945
DSM-Number: 14801
keywords: genome sequence, Bacteria, mesophilic, motile, human pathogen
description: Delftia acidovorans SPH-1 is a mesophilic, motile human pathogen that was isolated from sludge from communal sewage treatment plant.
NCBI tax id
- NCBI tax id: 80866
- Matching level: species
strain history
- @ref: 5551
- history: <- D. Schleheck; SPH-1
doi: 10.13145/bacdive2945.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Delftia
- species: Delftia acidovorans
- full scientific name: Delftia acidovorans (den Dooren de Jong 1926) Wen et al. 1999
synonyms
@ref synonym 20215 Pseudomonas acidovorans 20215 Comamonas acidovorans
@ref: 5551
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Delftia
species: Delftia acidovorans
full scientific name: Delftia acidovorans (den Dooren de Jong 1926) Wen et al. 1999
strain designation: SPH-1
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 94.147 | |
| 69480 | 99.997 | negative |
Culture and growth conditions
culture medium
- @ref: 5551
- name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1a
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
culture temp
- @ref: 5551
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.988 |
Isolation, sampling and environmental information
isolation
- @ref: 5551
- sample type: sludge from communal sewage treatment plant
- geographic location: Constance
- country: Germany
- origin.country: DEU
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Water treatment plant |
| #Environmental | #Terrestrial | #Mud (Sludge) |
Safety information
risk assessment
- @ref: 5551
- pathogenicity human: yes, in single cases
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Delftia acidovorans SPH-1 | GCA_000018665 | complete | ncbi | 398578 |
| 66792 | Delftia acidovorans SPH-1 | 398578.5 | complete | patric | 398578 |
| 66792 | Delftia acidovorans strain FDAARGOS_891 | 80866.55 | complete | patric | 80866 |
| 66792 | Delftia acidovorans SPH-1 | 641228489 | complete | img | 398578 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 91.795 | no |
| flagellated | yes | 63.461 | no |
| gram-positive | no | 98.547 | no |
| anaerobic | no | 98.662 | no |
| aerobic | yes | 92.857 | no |
| halophile | no | 95.702 | no |
| spore-forming | no | 94.206 | no |
| thermophile | no | 99.508 | yes |
| glucose-util | no | 55.648 | no |
| glucose-ferment | no | 88.824 | no |
External links
@ref: 5551
culture collection no.: DSM 14801
straininfo link
- @ref: 72467
- straininfo: 215405
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Metabolism | 15240283 | Mineralization of individual congeners of linear alkylbenzenesulfonate by defined pairs of heterotrophic bacteria. | Schleheck D, Knepper TP, Fischer K, Cook AM | Appl Environ Microbiol | 10.1128/AEM.70.7.4053-4063.2004 | 2004 | Bacteria/growth & development/*metabolism, Benzenesulfonates/*metabolism, Biodegradation, Environmental, Oxygenases/metabolism, Spectrophotometry, Ultraviolet, Surface-Active Agents/*metabolism | |
| Enzymology | 18174144 | Bacterial sulfite dehydrogenases in organotrophic metabolism: separation and identification in Cupriavidus necator H16 and in Delftia acidovorans SPH-1. | Denger K, Weinitschke S, Smits THM, Schleheck D, Cook AM | Microbiology (Reading) | 10.1099/mic.0.2007/011650-0 | 2008 | Bacterial Proteins/chemistry/genetics/*isolation & purification/*metabolism, Cell Fractionation, Cupriavidus necator/*enzymology, Delftia acidovorans/*enzymology, Molecular Weight, Oxidoreductases Acting on Sulfur Group Donors/chemistry/genetics/*isolation & purification/*metabolism, Periplasmic Proteins/chemistry/genetics/isolation & purification/metabolism, Sequence Analysis, Protein, Sequence Homology, Amino Acid, Transcription, Genetic | Metabolism |
| Metabolism | 18320171 | Different bacterial strategies to degrade taurocholate. | Rosch V, Denger K, Schleheck D, Smits TH, Cook AM | Arch Microbiol | 10.1007/s00203-008-0357-7 | 2008 | Amidohydrolases/metabolism, Bacteria/*enzymology/genetics/growth & development/isolation & purification, Biodegradation, Environmental, Carbon/metabolism, Cholates/*metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Genes, rRNA, Genotype, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taurocholic Acid/*metabolism | Enzymology |
| Pathogenicity | 19390985 | New mobile genetic elements in Cupriavidus metallidurans CH34, their possible roles and occurrence in other bacteria. | Van Houdt R, Monchy S, Leys N, Mergeay M | Antonie Van Leeuwenhoek | 10.1007/s10482-009-9345-4 | 2009 | Betaproteobacteria/drug effects/*genetics, Bordetella/genetics, Burkholderia/genetics, Chemoautotrophic Growth, Cupriavidus/drug effects/*genetics/metabolism, *DNA Transposable Elements, Delftia/genetics, Drug Resistance, Bacterial, Gene Expression Regulation, Bacterial, Genomic Islands, *Genomics, Integrases, Metals, Heavy/pharmacology, Recombinases, Synteny, Tyrosine | Genetics |
| Enzymology | 20843822 | Purification, characterization and amino acid sequence of a novel enzyme, D-threo-3-hydroxyaspartate dehydratase, from Delftia sp. HT23. | Maeda T, Takeda Y, Murakami T, Yokota A, Wada M | J Biochem | 10.1093/jb/mvq106 | 2010 | Amino Acid Sequence, Bacterial Proteins/chemistry/genetics/*isolation & purification/*metabolism, Base Sequence, Catalytic Domain, Cloning, Molecular, Delftia/*enzymology/genetics, Escherichia coli, Hydro-Lyases/chemistry/genetics/*isolation & purification/*metabolism, Kinetics, Lysine/*metabolism, Metals, Heavy/metabolism, Molecular Sequence Data, Molecular Weight, Pyridoxal Phosphate/chemistry/*metabolism, Recombinant Proteins/chemistry/genetics/*isolation & purification/*metabolism, Sequence Alignment, Substrate Specificity, Temperature | Metabolism |
| Metabolism | 22281521 | Molecular characterisation of phaCAB from Comamonas sp. EB172 for functional expression in Escherichia coli JM109. | Yee LN, Chuah JA, Chong ML, Phang LY, Raha AR, Sudesh K, Hassan MA | Microbiol Res | 10.1016/j.micres.2011.12.006 | 2012 | Acetyl-CoA C-Acetyltransferase/chemistry/*genetics/metabolism, Acyltransferases/chemistry/*genetics/metabolism, Alcohol Oxidoreductases/chemistry/*genetics/metabolism, Amino Acid Sequence, Bacterial Proteins/chemistry/*genetics/metabolism, Cloning, Molecular, Comamonas/chemistry/*enzymology/genetics, Escherichia coli/*genetics/metabolism, *Gene Expression, Glucose/metabolism, Hydroxybutyrates/metabolism, Molecular Sequence Data, Operon, Polyesters/metabolism, Sequence Alignment | Enzymology |
| Genetics | 28223457 | The Source and Evolutionary History of a Microbial Contaminant Identified Through Soil Metagenomic Analysis. | Olm MR, Butterfield CN, Copeland A, Boles TC, Thomas BC, Banfield JF | mBio | 10.1128/mBio.01969-16 | 2017 | Cluster Analysis, Delftia acidovorans/*classification/genetics/*isolation & purification, *Environmental Microbiology, Genotype, Germany, *Metagenomics | Phylogeny |
| 34122370 | Lead Drives Complex Dynamics of a Conjugative Plasmid in a Bacterial Community. | Cyriaque V, Madsen JS, Fievez L, Leroy B, Hansen LH, Bureau F, Sorensen SJ, Wattiez R | Front Microbiol | 10.3389/fmicb.2021.655903 | 2021 |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 5551 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14801) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14801 | |
| 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) | |
| 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 | |
| 72467 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID215405.1 | StrainInfo: A central database for resolving microbial strain identifiers |