Strain identifier

BacDive ID: 3970

Type strain: Yes

Species: Desulfosudis oleivorans

Strain Designation: Hxd3

Strain history: DSM 6200 <-- F. Widdel; Univ. of Konstanz, Germany; Hxd3.

NCBI tax ID(s): 181663 (species)

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General

@ref: 2527

BacDive-ID: 3970

DSM-Number: 6200

keywords: genome sequence, Bacteria, anaerobe, mesophilic, Gram-negative

description: Desulfosudis oleivorans Hxd3 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from mud, oil/water separator.

NCBI tax id

  • NCBI tax id: 181663
  • Matching level: species

strain history

@refhistory
2527<- J. Harder, Max-Planck-Inst. Marine Microbiology, Bremen, Germany; Hxd3 <- F. Widdel, Ludwig-Maximilians-Universität München, Lehrstuhl für Mikrobiologie <- F. Widdel {1989}
67770DSM 6200 <-- F. Widdel; Univ. of Konstanz, Germany; Hxd3.

doi: 10.13145/bacdive3970.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfobacterales
  • family: Desulfosudaceae
  • genus: Desulfosudis
  • species: Desulfosudis oleivorans
  • full scientific name: Desulfosudis oleivorans Galushko and Kuever 2021

@ref: 2527

domain: Bacteria

phylum: Pseudomonadota

class: Deltaproteobacteria

order: Desulfobacterales

family: Desulfosudaceae

genus: Desulfosudis

species: Desulfosudis oleivorans

full scientific name: Desulfosudis oleivorans

strain designation: Hxd3

type strain: yes

Morphology

cell morphology

  • @ref: 69480
  • gram stain: negative
  • confidence: 100

multimedia

  • @ref: 2527
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_6200.jpg
  • caption: Medium 517, 28°C
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 2527
  • name: DESULFOBACTERIUM OLEOVORANS MEDIUM (DSMZ Medium 517)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/517
  • composition: Name: DESULFOSUDIS MEDIUM (DSMZ Medium 517) Composition: NaCl 19.9005 g/l Na2SO4 3.9801 g/l MgCl2 x 6 H2O 3.38309 g/l Na2CO3 1.49254 g/l Na2S x 9 H2O 0.39801 g/l Stearic acid 0.358209 g/l NH4Cl 0.248756 g/l CaCl2 x 2 H2O 0.248756 g/l KH2PO4 0.199005 g/l HCl 0.00248756 g/l FeCl2 x 4 H2O 0.00149254 g/l Sodium resazurin 0.000497512 g/l CoCl2 x 6 H2O 0.000189055 g/l Pyridoxine hydrochloride 9.95025e-05 g/l MnCl2 x 4 H2O 9.95025e-05 g/l ZnCl2 6.96517e-05 g/l p-Aminobenzoic acid 4.97512e-05 g/l Riboflavin 4.97512e-05 g/l Calcium D-(+)-pantothenate 4.97512e-05 g/l (DL)-alpha-Lipoic acid 4.97512e-05 g/l Thiamine HCl 4.97512e-05 g/l Nicotinic acid 4.97512e-05 g/l Na2MoO4 x 2 H2O 3.58209e-05 g/l NiCl2 x 6 H2O 2.38806e-05 g/l Folic acid 1.99005e-05 g/l Biotin 1.99005e-05 g/l H3BO3 5.97015e-06 g/l Na2WO4 x 2 H2O 3.9801e-06 g/l Na2SeO3 x 5 H2O 2.98507e-06 g/l CuCl2 x 2 H2O 1.99005e-06 g/l Vitamin B12 NaOH Distilled water

culture temp

@refgrowthtypetemperaturerange
2527positivegrowth28mesophilic
67770positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
2527anaerobe
69480anaerobe99.999

spore formation

@refspore formationconfidence
69481no100
69480no99.993

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
2527mud, oil/water separatoroilfield near HamburgGermanyDEUEurope
67770Oil field near HamburgGermanyDEUEurope

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Engineered product
#Environmental#Aquatic
#Environmental#Terrestrial#Mud (Sludge)

Sequence information

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Desulfococcus oleovorans Hxd396561.5completepatric96561
67770Desulfosudis oleivorans Hxd3GCA_000018405completencbi96561

GC content

  • @ref: 2527
  • GC-content: 56
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno86.465no
flagellatedno97.742no
gram-positiveno99.046no
anaerobicyes99.635yes
halophileno56.567no
spore-formingno94.594no
thermophileno85.587no
glucose-utilno52.552no
aerobicno97.98yes
glucose-fermentno83.692no

External links

@ref: 2527

culture collection no.: DSM 6200, JCM 39069

straininfo link

  • @ref: 73478
  • straininfo: 48119

Reference

@idauthorscataloguedoi/urltitle
2527Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 6200)https://www.dsmz.de/collection/catalogue/details/culture/DSM-6200
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
73478Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48119.1StrainInfo: A central database for resolving microbial strain identifiers