Strain identifier

BacDive ID: 5801

Type strain: Yes

Species: Geomonas bremensis

Strain Designation: Dfr1

Strain history: <- K. L. Straub, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; Dfr1 <- K. L. Straub {1995}

NCBI tax ID(s): 60035 (species)

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General

@ref: 4634

BacDive-ID: 5801

DSM-Number: 12179

keywords: 16S sequence, Bacteria, anaerobe, mesophilic

description: Geomonas bremensis Dfr1 is an anaerobe, mesophilic bacterium that was isolated from town ditch sediment.

NCBI tax id

  • NCBI tax id: 60035
  • Matching level: species

strain history

  • @ref: 4634
  • history: <- K. L. Straub, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; Dfr1 <- K. L. Straub {1995}

doi: 10.13145/bacdive5801.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfuromonadales
  • family: Geobacteraceae
  • genus: Geomonas
  • species: Geomonas bremensis
  • full scientific name: Geomonas bremensis (Straub and Buchholz-Cleven 2001) Xu et al. 2020

  • synonyms

    @refsynonym
    20215Citrifermentans bremense
    20215Geobacter bremensis

@ref: 4634

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfuromonadales

family: Geobacteraceae

genus: Geomonas

species: Geomonas bremensis

full scientific name: Geomonas bremensis (Straub and Buchholz-Cleven 2001) Xu et al. 2020

strain designation: Dfr1

type strain: yes

Morphology

colony morphology

  • @ref: 4634
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

  • @ref: 4634
  • name: GEOBACTER SULFURREDUCENS MEDIUM (DSMZ Medium 826)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/826
  • composition: Name: GEOBACTER SULFURREDUCENS MEDIUM (DSMZ Medium 826) Composition: Na2-fumarate 7.91296 g/l NaHCO3 2.4728 g/l NH4Cl 1.48368 g/l Na-acetate 0.811078 g/l Na2HPO4 0.593472 g/l KCl 0.098912 g/l MgSO4 x 7 H2O 0.0296736 g/l Nitrilotriacetic acid 0.0148368 g/l NaCl 0.0098912 g/l MnSO4 x H2O 0.0049456 g/l ZnSO4 x 7 H2O 0.00178042 g/l CoSO4 x 7 H2O 0.00178042 g/l CaCl2 x 2 H2O 0.00098912 g/l FeSO4 x 7 H2O 0.00098912 g/l NiCl2 x 6 H2O 0.000296736 g/l AlK(SO4)2 x 12 H2O 0.000197824 g/l CuSO4 x 5 H2O 9.8912e-05 g/l H3BO3 9.8912e-05 g/l Na2MoO4 x 2 H2O 9.8912e-05 g/l Pyridoxine hydrochloride 9.8912e-05 g/l p-Aminobenzoic acid 4.9456e-05 g/l Calcium D-(+)-pantothenate 4.9456e-05 g/l Nicotinic acid 4.9456e-05 g/l Riboflavin 4.9456e-05 g/l Thiamine HCl 4.9456e-05 g/l (DL)-alpha-Lipoic acid 4.9456e-05 g/l Folic acid 1.97824e-05 g/l Biotin 1.97824e-05 g/l Na2WO4 x 2 H2O 3.95648e-06 g/l Na2SeO3 x 5 H2O 2.96736e-06 g/l Vitamin B12 9.8912e-07 g/l Distilled water

culture temp

  • @ref: 4634
  • growth: positive
  • type: growth
  • temperature: 30
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 4634
  • oxygen tolerance: anaerobe

Isolation, sampling and environmental information

isolation

  • @ref: 4634
  • sample type: town ditch sediment
  • geographic location: Bremen
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_4757.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15357;96_1511;97_1803;98_2745;99_4757&stattab=map
  • Last taxonomy: Geobacter
  • 16S sequence: U96917
  • Sequence Identity:
  • Total samples: 423
  • soil counts: 200
  • aquatic counts: 150
  • animal counts: 25
  • plant counts: 48

Safety information

risk assessment

  • @ref: 4634
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 4634
  • description: Geobacter bremensis 16S ribosomal RNA gene, complete sequence
  • accession: U96917
  • length: 1475
  • database: ena
  • NCBI tax ID: 60035

GC content

  • @ref: 4634
  • GC-content: 60
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 4634

culture collection no.: DSM 12179, OCM 796

straininfo link

  • @ref: 75280
  • straininfo: 49246

literature

  • topic: Phylogeny
  • Pubmed-ID: 11594612
  • title: Geobacter bremensis sp. nov. and Geobacter pelophilus sp. nov., two dissimilatory ferric-iron-reducing bacteria.
  • authors: Straub KL, Buchholz-Cleven BE
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/00207713-51-5-1805
  • year: 2001
  • mesh: Cytochrome c Group/metabolism, DNA, Ribosomal/analysis, Deltaproteobacteria/*classification/enzymology/genetics, Ferric Compounds/*metabolism, Ferritins/metabolism, Fresh Water/microbiology, Geologic Sediments/microbiology, Iron/*metabolism, Oxidation-Reduction, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
4634Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 12179)https://www.dsmz.de/collection/catalogue/details/culture/DSM-12179
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
75280Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49246.1StrainInfo: A central database for resolving microbial strain identifiers