Strain identifier

BacDive ID: 4168

Type strain: Yes

Species: Humidesulfovibrio idahonensis

Strain history: DSM 15450 <-- R. F. Rosenzweig CY1.

NCBI tax ID(s): 1121452 (strain), 575978 (species)

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General

@ref: 5809

BacDive-ID: 4168

DSM-Number: 15450

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Humidesulfovibrio idahonensis DSM 15450 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from freshwater sediment.

NCBI tax id

NCBI tax idMatching level
575978species
1121452strain

strain history

@refhistory
5809<- R. F. Rosenzweig, Div. Biol. Sci., Univ. Montana, Missoula, USA; CY1 <- S. Ramamoorthy <- C. Yarwood
67770DSM 15450 <-- R. F. Rosenzweig CY1.

doi: 10.13145/bacdive4168.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfovibrionales
  • family: Desulfovibrionaceae
  • genus: Humidesulfovibrio
  • species: Humidesulfovibrio idahonensis
  • full scientific name: Humidesulfovibrio idahonensis (Sass et al. 2009) Waite et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Desulfovibrio idahonensis

@ref: 5809

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Humidesulfovibrio

species: Humidesulfovibrio idahonensis

full scientific name: Humidesulfovibrio idahonensis (Sass et al. 2009) Waite et al. 2020

type strain: yes

Morphology

cell morphology

  • @ref: 23216
  • gram stain: negative
  • cell length: 1.0-3.3 µm
  • cell width: 0.4-0.6 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: polar

Culture and growth conditions

culture medium

  • @ref: 5809
  • name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/63
  • composition: Name: DESULFOVIBRIO (POSTGATE) MEDIUM (DSMZ Medium 63) Composition: MgSO4 x 7 H2O 2.0 g/l Na-DL-lactate 2.0 g/l NH4Cl 1.0 g/l Yeast extract 1.0 g/l Na2SO4 1.0 g/l FeSO4 x 7 H2O 0.5 g/l K2HPO4 0.5 g/l CaCl2 x 2 H2O 0.1 g/l Na-thioglycolate 0.1 g/l Ascorbic acid 0.1 g/l Sodium resazurin 0.0005 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
5809positivegrowth30mesophilic
23216positivegrowth10-37
23216positiveoptimum28mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepH
23216positivegrowth6.5-7.5
23216positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 5809
  • oxygen tolerance: anaerobe

halophily

  • @ref: 23216
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-0.75 %

observation

  • @ref: 67770
  • observation: quinones: MK-6(H2)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
23216169971,2-propandiol-carbon source
2321630089acetate-carbon source
2321633709amino acid-carbon source
2321616150benzoate-carbon source
2321628885butanol-carbon source
2321617968butyrate-carbon source
2321615354choline-carbon source
2321616000ethanolamine-carbon source
2321630742ethylene glycol-carbon source
2321615978glycerol 3-phosphate-carbon source
2321617790methanol-carbon source
2321628831propanol-carbon source
2321617272propionate-carbon source
23216yeast extract-carbon source
23216169971,2-propandiol-electron donor
2321630089acetate-electron donor
2321633709amino acid-electron donor
2321616150benzoate-electron donor
2321628885butanol-electron donor
2321617968butyrate-electron donor
2321615354choline-electron donor
2321616000ethanolamine-electron donor
2321630742ethylene glycol-electron donor
2321615978glycerol 3-phosphate-electron donor
2321617790methanol-electron donor
2321628831propanol-electron donor
2321617272propionate-electron donor
23216yeast extract-electron donor

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5809freshwater sedimentIdaho, Lake Coeur d’AleneUSAUSANorth America
67770Heavy-metal-contaminated sediments of Lake Coeur d'AleneIDUSAUSANorth America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Sediment
#Environmental#Aquatic#Freshwater

Safety information

risk assessment

  • @ref: 5809
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5809
  • description: Desulfovibrio idahonensis 16S rRNA gene, type strain CY1
  • accession: AJ582755
  • length: 1529
  • database: ena
  • NCBI tax ID: 575978

Genome sequences

  • @ref: 66792
  • description: Desulfovibrio idahonensis DSM 15450
  • accession: 2574180452
  • assembly level: draft
  • database: img
  • NCBI tax ID: 1121452

GC content

  • @ref: 5809
  • GC-content: 63.5
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 5809

culture collection no.: DSM 15450, JCM 14124, CY 1

straininfo link

  • @ref: 73670
  • straininfo: 403762

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19605721Desulfovibrio idahonensis sp. nov., sulfate-reducing bacteria isolated from a metal(loid)-contaminated freshwater sediment.Sass H, Ramamoorthy S, Yarwood C, Langner H, Schumann P, Kroppenstedt RM, Spring S, Rosenzweig RFInt J Syst Evol Microbiol10.1099/ijs.0.016709-02009Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desulfovibrio/*classification/genetics/*isolation & purification/metabolism, Fatty Acids/analysis, *Fresh Water, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Idaho, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Sulfur Compounds/*metabolism, TemperatureMetabolism
Phylogeny21317277Desulfovibrio arcticus sp. nov., a psychrotolerant sulfate-reducing bacterium from a cryopeg.Pecheritsyna SA, Rivkina EM, Akimov VN, Shcherbakova VAInt J Syst Evol Microbiol10.1099/ijs.0.021451-02011Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Desulfovibrio/*classification/genetics/*isolation & purification/physiology, *Environmental Microbiology, Flagella/physiology, Hydrogensulfite Reductase/analysis, Molecular Sequence Data, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride/metabolism, Sulfates/*metabolism, TemperatureEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
5809Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15450)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15450
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
23216H. Sass, S. Ramamoorthy, C. Yarwood, H. Langner, P. Schumann, R. M. Kroppenstedt, S. Spring, R. F. Rosenzweig10.1099/ijs.0.016709-0Desulfovibrio idahonensis sp. nov., sulfate-reducing bacteria isolated from a metal(loid)-contaminated freshwater sedimentIJSEM 59: 2208-2214 200919605721
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
73670Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID403762.1StrainInfo: A central database for resolving microbial strain identifiers