Strain identifier

BacDive ID: 6155

Type strain: Yes

Species: Ancylobacter tetraedralis

Strain Designation: Z-2821

Strain history: <- VKM; VKM B-1335 <- L. V. Vasilyeva, INMI; Z-2821. Produces two colony types.

NCBI tax ID(s): 217068 (species)

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General

@ref: 2152

BacDive-ID: 6155

DSM-Number: 5895

keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative

description: Ancylobacter tetraedralis Z-2821 is a mesophilic, Gram-negative bacterium that was isolated from bog.

NCBI tax id

  • NCBI tax id: 217068
  • Matching level: species

strain history

  • @ref: 2152
  • history: <- VKM; VKM B-1335 <- L. V. Vasilyeva, INMI; Z-2821. Produces two colony types.

doi: 10.13145/bacdive6155.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Xanthobacteraceae
  • genus: Ancylobacter
  • species: Ancylobacter tetraedralis
  • full scientific name: Ancylobacter tetraedralis (Vasil'eva et al. 1986) Doronina et al. 2023

  • synonyms

    • @ref: 20215
    • synonym: Angulomicrobium tetraedrale

@ref: 2152

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Xanthobacteraceae

genus: Angulomicrobium

species: Angulomicrobium tetraedrale

full scientific name: Angulomicrobium tetraedrale Vasil'eva et al. 1986

strain designation: Z-2821

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.959

Culture and growth conditions

culture medium

  • @ref: 2152
  • name: MMB MEDIUM (DSMZ Medium 628)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/628
  • composition: Name: MMB MEDIUM (DSMZ Medium 628) Composition: Glucose 1.0 g/l MgSO4 x 7 H2O 0.594 g/l (NH4)2SO4 0.25 g/l Nitrilotriacetic acid 0.2 g/l Yeast extract 0.15 g/l Peptone 0.15 g/l CaCl2 x 2 H2O 0.0667 g/l ZnSO4 x 7 H2O 0.001095 g/l FeSO4 x 7 H2O 0.0005 g/l Na-EDTA 0.00025 g/l (NH4)6Mo7O24 x 4 H2O 0.000185 g/l MnSO4 x H2O 0.000154 g/l Calcium pantothenate 5e-05 g/l Pyridoxine hydrochloride 5e-05 g/l Riboflavin 5e-05 g/l Nicotinamide 5e-05 g/l Thiamine-HCl x 2 H2O 5e-05 g/l CuSO4 x 5 H2O 3.92e-05 g/l Co(NO3)2 x 6 H2O 2.48e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l Na2B4O7 x 10 H2O 1.77e-05 g/l Vitamin B12 1e-06 g/l Distilled water

culture temp

  • @ref: 2152
  • growth: positive
  • type: growth
  • temperature: 28
  • range: mesophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.991

Isolation, sampling and environmental information

isolation

  • @ref: 2152
  • sample type: bog
  • geographic location: Moscow region, Abramtsevo
  • country: Russia
  • origin.country: RUS
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Wetland (Swamp)

taxonmaps

  • @ref: 69479
  • File name: preview.99_141378.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_355;96_2984;97_3669;98_93938;99_141378&stattab=map
  • Last taxonomy: Xanthobacteraceae
  • 16S sequence: AJ535708
  • Sequence Identity:
  • Total samples: 258
  • soil counts: 12
  • aquatic counts: 52
  • animal counts: 170
  • plant counts: 24

Safety information

risk assessment

  • @ref: 2152
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 2152
  • description: Angulomicrobium tetraedrale 16S rRNA gene, type strain DSM 5895T
  • accession: AJ535708
  • length: 1407
  • database: ena
  • NCBI tax ID: 217068

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Angulomicrobium tetraedrale DSM 5895GCA_014195655scaffoldncbi217068
66792Angulomicrobium tetraedrale strain DSM 5895217068.3wgspatric217068
66792Angulomicrobium tetraedrale DSM 58952827996806draftimg217068

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno95.142no
gram-positiveno97.975no
anaerobicno98.327no
aerobicyes91.588no
halophileno90.74no
spore-formingno96.043no
glucose-utilyes91.438no
thermophileno97.061yes
motileno91.649no
glucose-fermentno90.531no

External links

@ref: 2152

culture collection no.: DSM 5895, BKM B-1335, VKM B-1335

straininfo link

  • @ref: 75641
  • straininfo: 48021

literature

  • topic: Phylogeny
  • Pubmed-ID: 15143003
  • title: Phylogenetic relationships of the genera Stella, Labrys and Angulomicrobium within the 'Alphaproteobacteria' and description of Angulomicrobium amanitiforme sp. nov.
  • authors: Fritz I, Strompl C, Abraham WR
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.02746-0
  • year: 2004
  • mesh: Acetobacteraceae/*classification/genetics/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Hyphomicrobiaceae/*classification/genetics/metabolism, Lipids/analysis, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
2152Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5895)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5895
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
75641Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48021.1StrainInfo: A central database for resolving microbial strain identifiers