Strain identifier

BacDive ID: 17408

Type strain: Yes

Species: Ancylobacter dichloromethanicus

Strain Designation: DM16

Strain history: <- Y. A. Trotsenko, IBFM - Inst. Biochem. Physiol. Microorg., Pushchino, Russia; DM16 <- J.E. Firsova

NCBI tax ID(s): 518825 (species)

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General

@ref: 15752

BacDive-ID: 17408

DSM-Number: 21507

keywords: 16S sequence, Bacteria

description: Ancylobacter dichloromethanicus DM16 is a bacterium that was isolated from dichloromethane contaminated soil.

NCBI tax id

  • NCBI tax id: 518825
  • Matching level: species

strain history

  • @ref: 15752
  • history: <- Y. A. Trotsenko, IBFM - Inst. Biochem. Physiol. Microorg., Pushchino, Russia; DM16 <- J.E. Firsova

doi: 10.13145/bacdive17408.20240510.9

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Xanthobacteraceae
  • genus: Ancylobacter
  • species: Ancylobacter dichloromethanicus
  • full scientific name: Ancylobacter dichloromethanicus Firsova et al. 2010

@ref: 15752

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Xanthobacteraceae

genus: Ancylobacter

species: Ancylobacter dichloromethanicus

full scientific name: Ancylobacter dichloromethanicus Firsova et al. 2010

strain designation: DM16

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15752MINERAL MEDIUM WITH VITAMINS (DSMZ Medium 462)yeshttps://mediadive.dsmz.de/medium/462Name: MINERAL MEDIUM (BRUNNER) WITH VITAMINS (DSMZ Medium 462; with strain-specific modifications) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Casein peptone 15.0 g/l Methanol 5.0 g/l Soy peptone 5.0 g/l NaCl 5.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l Pyridoxamine 0.000125 g/l ZnSO4 x 7 H2O 0.0001 g/l Nicotinic acid 5e-05 g/l Vitamin B12 5e-05 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l Thiamine-HCl x 2 H2O 2.5e-05 g/l p-Aminobenzoate 2.5e-05 g/l NiCl2 x 6 H2O 2e-05 g/l Calcium pantothenate 1.25e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Biotin 5e-06 g/l Distilled water
15752NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

  • @ref: 15752
  • growth: positive
  • type: growth
  • temperature: 28

Isolation, sampling and environmental information

isolation

  • @ref: 15752
  • sample type: dichloromethane contaminated soil
  • geographic location: Volgograd
  • country: Russia
  • origin.country: RUS
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_6269.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_355;96_2984;97_3669;98_4644;99_6269&stattab=map
  • Last taxonomy: Ancylobacter
  • 16S sequence: EU589386
  • Sequence Identity:
  • Total samples: 6101
  • soil counts: 1085
  • aquatic counts: 2318
  • animal counts: 1936
  • plant counts: 762

Safety information

risk assessment

  • @ref: 15752
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15752
  • description: Ancylobacter dichloromethanicus strain DM16 16S ribosomal RNA gene, partial sequence
  • accession: EU589386
  • length: 1393
  • database: nuccore
  • NCBI tax ID: 518825

GC content

  • @ref: 15752
  • GC-content: 64.5
  • method: thermal denaturation, midpoint method (Tm)

External links

@ref: 15752

culture collection no.: DSM 21507, VKM B-2484

straininfo link

  • @ref: 86406
  • straininfo: 401477

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19346095Ancylobacter dichloromethanicus sp. nov.--a new aerobic facultatively methylotrophic bacterium utilizing dichloromethane.Firsova J, Doronina N, Lang E, Sproer C, Vuilleumier S, Trotsenko YSyst Appl Microbiol10.1016/j.syapm.2009.02.0022009Alphaproteobacteria/*classification/isolation & purification/metabolism/ultrastructure, Base Sequence, Biodegradation, Environmental, Gram-Negative Aerobic Rods and Cocci/classification/isolation & purification/metabolism/ultrastructure, Methylene Chloride/*metabolism, Molecular Sequence Data, *Soil Microbiology, Soil Pollutants/*metabolismMetabolism
Phylogeny28945527Ancylobacter pratisalsi sp. nov. with plant growth promotion abilities from the rhizosphere of Plantago winteri Wirtg.Suarez C, Ratering S, Schafer J, Schnell SInt J Syst Evol Microbiol10.1099/ijsem.0.0023202017Alphaproteobacteria/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Germany, Phospholipids/chemistry, *Phylogeny, Plantago/growth & development/*microbiology, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Salt-Tolerant Plants/growth & development/*microbiology, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
15752Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21507)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21507
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
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
86406Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401477.1StrainInfo: A central database for resolving microbial strain identifiers