Strain identifier

BacDive ID: 13894

Type strain: Yes

Species: Dechloromonas agitata

Strain Designation: CKB

Strain history: <- J. D. Coates; CKB

NCBI tax ID(s): 73030 (species)

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General

@ref: 5029

BacDive-ID: 13894

DSM-Number: 13637

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic

description: Dechloromonas agitata CKB is an aerobe, mesophilic bacterium that was isolated from waste from pulp and paper plant.

NCBI tax id

  • NCBI tax id: 73030
  • Matching level: species

strain history

  • @ref: 5029
  • history: <- J. D. Coates; CKB

doi: 10.13145/bacdive13894.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Rhodocyclales
  • family: Azonexaceae
  • genus: Dechloromonas
  • species: Dechloromonas agitata
  • full scientific name: Dechloromonas agitata Achenbach et al. 2001
  • synonyms

    • @ref: 20215
    • synonym: Dechlorimonas agitatus

@ref: 5029

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Rhizobiales

family: Azonexaceae

genus: Dechloromonas

species: Dechloromonas agitata

full scientific name: Dechloromonas agitata Achenbach et al. 2001

strain designation: CKB

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 5029
  • name: MEDIUM FOR CHLORATE RESPIRERS (DSMZ Medium 908)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/908
  • composition: Name: MEDIUM FOR CHLORATE RESPIRERS (DSMZ Medium 908) Composition: NaHCO3 2.43665 g/l Na-acetate 1.32554 g/l NaClO3 0.974659 g/l NaH2PO4 0.584795 g/l NH4Cl 0.243665 g/l KCl 0.0974659 g/l MgSO4 0.0292398 g/l CaCl2 x 2 H2O 0.00974659 g/l HCl 0.00243665 g/l FeCl2 x 4 H2O 0.00146199 g/l alpha-lipoic acid 0.000243665 g/l p-Aminobenzoic acid 0.000243665 g/l Na2MoO4 0.000243665 g/l Thiamine-HCl x 2 H2O 0.000243665 g/l Na2WO4 x 2 H2O 0.000243665 g/l Vitamin B12 0.000243665 g/l Riboflavin 0.000243665 g/l Pantothenic acid 0.000243665 g/l CoCl2 x 6 H2O 0.000185185 g/l Nicotine amide 0.000121832 g/l Nicotinic acid 0.000121832 g/l Folic acid 9.74659e-05 g/l Biotin 9.74659e-05 g/l MnCl2 x 4 H2O 9.74659e-05 g/l ZnCl2 6.82261e-05 g/l Pyridoxamine hydrochloride 4.87329e-05 g/l Na2MoO4 x 2 H2O 3.50877e-05 g/l NiCl2 x 6 H2O 2.33918e-05 g/l H3BO3 5.84795e-06 g/l CuCl2 x 2 H2O 1.94932e-06 g/l Distilled water

culture temp

  • @ref: 5029
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
5029aerobe
5029anaerobe

compound production

  • @ref: 5029
  • compound: chlorite dismutase

Isolation, sampling and environmental information

isolation

  • @ref: 5029
  • sample type: waste from pulp and paper plant
  • geographic location: Pennsylvania, York
  • country: USA
  • origin.country: USA
  • continent: North America

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Plant (Factory)
#Engineered#Waste

taxonmaps

  • @ref: 69479
  • File name: preview.99_8152.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_129;96_2421;97_2948;98_5934;99_8152&stattab=map
  • Last taxonomy: Dechloromonas
  • 16S sequence: AF047462
  • Sequence Identity:
  • Total samples: 652
  • soil counts: 40
  • aquatic counts: 324
  • animal counts: 182
  • plant counts: 106

Safety information

risk assessment

  • @ref: 5029
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5029
  • description: Dechlorimonas agitatus 16S ribosomal RNA gene, complete sequence
  • accession: AF047462
  • length: 1506
  • database: ena
  • NCBI tax ID: 73030

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dechloromonas agitata CKB2506520023draftimg73030
66792Dechloromonas agitata DSM 13637GCA_028864255contigncbi73030

External links

@ref: 5029

culture collection no.: DSM 13637, ATCC 700666

straininfo link

  • @ref: 83069
  • straininfo: 44066

literature

  • topic: Phylogeny
  • Pubmed-ID: 16166710
  • title: Dechloromonas hortensis sp. nov. and strain ASK-1, two novel (per)chlorate-reducing bacteria, and taxonomic description of strain GR-1.
  • authors: Wolterink A, Kim S, Muusse M, Kim IS, Roholl PJM, van Ginkel CG, Stams AJM, Kengen SWM
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63404-0
  • year: 2005
  • mesh: Chlorates/*metabolism, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidation-Reduction, Perchlorates/*metabolism, RNA, Ribosomal, 16S/genetics, Rhodocyclaceae/*classification/genetics/isolation & purification/metabolism, Sequence Analysis, DNA, Sewage/*microbiology, *Soil Microbiology, Species Specificity, Waste Disposal, Fluid/methods, Water Pollution, Chemical
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
5029Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13637)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13637
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69479João 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
83069Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID44066.1StrainInfo: A central database for resolving microbial strain identifiers