Strain identifier
BacDive ID: 6184
Type strain: 
Species: Hyphomicrobium denitrificans
Strain Designation: X
Strain history: <- W. Harder, strain X <- M.M. Attwood
NCBI tax ID(s): 53399 (species)
version 9 (current version)
General
@ref: 915
BacDive-ID: 6184
DSM-Number: 1869
keywords: 16S sequence, Bacteria
description: Hyphomicrobium denitrificans X is a bacterium of the family Hyphomicrobiaceae.
NCBI tax id
- NCBI tax id: 53399
- Matching level: species
strain history
- @ref: 915
- history: <- W. Harder, strain X <- M.M. Attwood
doi: 10.13145/bacdive6184.20240510.9
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Hyphomicrobiaceae
- genus: Hyphomicrobium
- species: Hyphomicrobium denitrificans
- full scientific name: Hyphomicrobium denitrificans Urakami et al. 1995
@ref: 915
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Hyphomicrobiaceae
genus: Hyphomicrobium
species: Hyphomicrobium denitrificans
full scientific name: Hyphomicrobium denitrificans Urakami et al. 1995
strain designation: X
type strain: yes
Culture and growth conditions
culture medium
- @ref: 915
- name: HYPHOMICROBIUM STRAIN X MEDIUM (DSMZ Medium 166)
- growth: yes
- link: https://mediadive.dsmz.de/medium/166
- composition: Name: HYPHOMICROBIUM STRAIN X MEDIUM (DSMZ Medium 166) Composition: Agar 15.0 g/l Methylamine hydrochloride 3.4 g/l K2HPO4 1.55 g/l (NH4)2SO4 1.0 g/l NaH2PO4 x H2O 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Na2-EDTA 0.01 g/l ZnSO4 x 7 H2O 0.0044 g/l CaCl2 x 2 H2O 0.001108 g/l MnCl2 x 4 H2O 0.001012 g/l FeSO4 x 7 H2O 0.001 g/l CoCl2 x 6 H2O 0.000322 g/l CuSO4 x 5 H2O 0.000314 g/l (NH4)6Mo7O24 x 4 H2O 0.00022 g/l Distilled water
culture temp
- @ref: 915
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
compound production
| @ref | compound |
|---|---|
| 915 | dimethylamine dehydrogenase |
| 915 | methanol dehydrogenase |
Isolation, sampling and environmental information
isolation
- @ref: 915
- country: Netherlands
- origin.country: NLD
- continent: Europe
taxonmaps
- @ref: 69479
- File name: preview.99_1631.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_244;96_928;97_1080;98_1289;99_1631&stattab=map
- Last taxonomy: Hyphomicrobium denitrificans
- 16S sequence: Y14308
- Sequence Identity:
- Total samples: 2313
- soil counts: 841
- aquatic counts: 958
- animal counts: 335
- plant counts: 179
Safety information
risk assessment
- @ref: 915
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Hyphomicrobium denitrificans partial 16S rRNA gene | AJ854111 | 1242 | nuccore | 53399 |
| 20218 | Hyphomicrobium denitrificans partial 16S rRNA gene, strain DSM 1869 | Y14308 | 1446 | nuccore | 53399 |
| 915 | Hyphomicrobium denitrificans ATCC 51888 chromosome, complete genome | CP002083 | 3638969 | nuccore | 582899 |
External links
@ref: 915
culture collection no.: DSM 1869
straininfo link
- @ref: 75666
- straininfo: 125568
literature
- topic: Phylogeny
- Pubmed-ID: 10698787
- title: Quantification of Hyphomicrobium populations in activated sludge from an industrial wastewater treatment system as determined by 16S rRNA analysis.
- authors: Layton AC, Karanth PN, Lajoie CA, Meyers AJ, Gregory IR, Stapleton RD, Taylor DE, Sayler GS
- journal: Appl Environ Microbiol
- DOI: 10.1128/AEM.66.3.1167-1174.2000
- year: 2000
- mesh: Cloning, Molecular, Ecosystem, Hyphomicrobium/classification/genetics/*isolation & purification, In Situ Hybridization, Fluorescence, *Industrial Waste, Molecular Sequence Data, Phylogeny, Polymerase Chain Reaction, RNA, Bacterial/*analysis, RNA, Ribosomal, 16S/*analysis, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sewage/*microbiology, *Waste Disposal, Fluid
- topic2: Enzymology
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 915 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 1869) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-1869 | |||
| 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 | |
| 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 | |||
| 75666 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID125568.1 | StrainInfo: A central database for resolving microbial strain identifiers |