Strain identifier

BacDive ID: 6175

Type strain: Yes

Species: Dichotomicrobium thermohalophilum

Strain history: <- P. Hirsch and B. Hoffmann

NCBI tax ID(s): 933063 (species)

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General

@ref: 1902

BacDive-ID: 6175

DSM-Number: 5002

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

description: Dichotomicrobium thermohalophilum DSM 5002 is a thermophilic, Gram-negative bacterium that was isolated from solar lake.

NCBI tax id

  • NCBI tax id: 933063
  • Matching level: species

strain history

  • @ref: 1902
  • history: <- P. Hirsch and B. Hoffmann

doi: 10.13145/bacdive6175.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Hyphomicrobiales
  • family: Hyphomicrobiaceae
  • genus: Dichotomicrobium
  • species: Dichotomicrobium thermohalophilum
  • full scientific name: Dichotomicrobium thermohalophilum Hirsch and Hoffmann 1989

@ref: 1902

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Hyphomicrobiaceae

genus: Dichotomicrobium

species: Dichotomicrobium thermohalophilum

full scientific name: Dichotomicrobium thermohalophilum Hirsch and Hoffmann 1989

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 99.997

Culture and growth conditions

culture medium

  • @ref: 1902
  • name: DICHOTOMICROBIUM THERMOHALOPHILUM MEDIUM (DSMZ Medium 590)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/590
  • composition: Name: DICHOTOMICROBIUM THERMOHALOPHILUM MEDIUM (DSMZ Medium 590) Composition: NaCl 69.0214 g/l MgCl2 x 6 H2O 31.2228 g/l Agar 18.0 g/l Na2SO4 11.515 g/l CaCl2 x 2 H2O 4.263 g/l NaHCO3 2.8224 g/l KCl 1.9502 g/l Yeast extract 1.0 g/l Na2-DL-malate 1.0 g/l MgSO4 x 7 H2O 0.594 g/l KBr 0.2842 g/l Nitrilotriacetic acid 0.2 g/l H3BO3 0.0784 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 CuSO4 x 5 H2O 3.92e-05 g/l Co(NO3)2 x 6 H2O 2.48e-05 g/l Na2B4O7 x 10 H2O 1.77e-05 g/l Distilled water

culture temp

  • @ref: 1902
  • growth: positive
  • type: growth
  • temperature: 43-45
  • range: thermophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.979

Isolation, sampling and environmental information

isolation

  • @ref: 1902
  • sample type: solar lake
  • geographic location: Sinai, Elat
  • country: Israel
  • origin.country: ISR
  • continent: Asia

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Condition#Saline

Safety information

risk assessment

  • @ref: 1902
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Dichotomicrobium thermohalophilum partial 16S rRNA gene, type strain DSM5002T
  • accession: FR733679
  • length: 1469
  • database: ena
  • NCBI tax ID: 933063

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Dichotomicrobium thermohalophilum DSM 5002GCA_003550175contigncbi933063
66792Dichotomicrobium thermohalophilum strain DSM 5002933063.3wgspatric933063
66792Dichotomicrobium thermohalophilum DSM 50022728369273draftimg933063

GC content

  • @ref: 1902
  • GC-content: 62.0-64.0
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno89no
motileno78.289no
flagellatedno90.542no
gram-positiveno98.066no
anaerobicno86.998no
halophileyes60.752no
spore-formingno94.422no
glucose-utilyes64.636no
aerobicyes55.835no
thermophileyes68.239yes
glucose-fermentno93.406no

External links

@ref: 1902

culture collection no.: DSM 5002, ATCC 49408, IFAM 954

straininfo link

  • @ref: 75658
  • straininfo: 45217

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1902Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 5002)https://www.dsmz.de/collection/catalogue/details/culture/DSM-5002
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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)
75658Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45217.1StrainInfo: A central database for resolving microbial strain identifiers