Strain identifier

BacDive ID: 4103

Type strain: Yes

Species: Desulfolutivibrio sulfodismutans

Strain Designation: ThAcO1

Strain history: <- F. Bak and N. Pfennig, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; ThAcO1 <- F. Bak {1985}

NCBI tax ID(s): 63561 (species)

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General

@ref: 1458

BacDive-ID: 4103

DSM-Number: 3696

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, mesophilic, motile

description: Desulfolutivibrio sulfodismutans ThAcO1 is an anaerobe, mesophilic, motile bacterium that was isolated from freshwater mud.

NCBI tax id

  • NCBI tax id: 63561
  • Matching level: species

strain history

  • @ref: 1458
  • history: <- F. Bak and N. Pfennig, Universität Konstanz, Fakultät für Biologie, Konstanz, Germany; ThAcO1 <- F. Bak {1985}

doi: 10.13145/bacdive4103.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Deltaproteobacteria
  • order: Desulfovibrionales
  • family: Desulfovibrionaceae
  • genus: Desulfolutivibrio
  • species: Desulfolutivibrio sulfodismutans
  • full scientific name: Desulfolutivibrio sulfodismutans (Bak and Pfennig 1988) Thiel et al. 2021

  • synonyms

    • @ref: 20215
    • synonym: Desulfovibrio sulfodismutans

@ref: 1458

domain: Bacteria

phylum: Proteobacteria

class: Deltaproteobacteria

order: Desulfovibrionales

family: Desulfovibrionaceae

genus: Desulfolutivibrio

species: Desulfolutivibrio sulfodismutans

full scientific name: Desulfolutivibrio sulfodismutans (Bak and Pfennig 1988) Thiel et al. 2020

strain designation: ThAcO1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes96.698
6948099.971negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1458DESULFOLUTIVIBRIO MEDIUM (DSMZ Medium 386)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium386.pdf
1458DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)yeshttps://mediadive.dsmz.de/medium/641Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641) Composition: Na-DL-lactate 2.49252 g/l Na2SO4 1.99402 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l Na2S2O3 x 5 H2O 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

culture temp

  • @ref: 1458
  • growth: positive
  • type: growth
  • temperature: 35
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
1458anaerobe
69480anaerobe100

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 98.906

Isolation, sampling and environmental information

isolation

  • @ref: 1458
  • sample type: freshwater mud
  • geographic location: Konstanz
  • country: Germany
  • origin.country: DEU
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Environmental#Terrestrial#Mud (Sludge)

taxonmaps

  • @ref: 69479
  • File name: preview.99_32268.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_120;96_10757;97_13015;98_16013;99_32268&stattab=map
  • Last taxonomy: Desulfovibrio sulfodismutans subclade
  • 16S sequence: MN596860
  • Sequence Identity:
  • Total samples: 419
  • soil counts: 18
  • aquatic counts: 321
  • animal counts: 74
  • plant counts: 6

Safety information

risk assessment

  • @ref: 1458
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
1458Desulfovibrio sulfodismutans strain 16S ribosomal DNA, partialY177641479ena63561
1458Desulfovibrio sulfodismutans strain DSM 3696 16S ribosomal RNA gene, partial sequenceMN5968601540ena63561

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Desulfolutivibrio sulfodismutans DSM 3696GCA_013376455completencbi1121464
66792Desulfolutivibrio sulfodismutans DSM 3696GCA_010499425contigncbi63561
66792Desulfovibrio sulfodismutans DSM 36961121464.3completepatric1121464
66792Desulfovibrio sulfodismutans strain DSM 369663561.4wgspatric63561
66792Desulfovibrio sulfodismutans DSM 36962901954164draftimg1121464

GC content

  • @ref: 1458
  • GC-content: 64.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno63no
motileyes86.985no
flagellatedno70.37no
gram-positiveno98.657no
anaerobicyes98.969yes
aerobicno98.015yes
halophileno84.308no
spore-formingno92.909no
thermophileno90.517yes
glucose-utilno61.94no
glucose-fermentno84.735no

External links

@ref: 1458

culture collection no.: DSM 3696, ATCC 43913, VKM B-1764

straininfo link

  • @ref: 73606
  • straininfo: 45175

literature

  • topic: Phylogeny
  • Pubmed-ID: 32847780
  • title: Desulfolutivibrio sulfoxidireducens gen. nov., sp. nov., isolated from a pyrite-forming enrichment culture and reclassification of Desulfovibrio sulfodismutans as Desulfolutivibrio sulfodismutans comb. nov.
  • authors: Thiel J, Spring S, Tindall BJ, Sproer C, Bunk B, Koeksoy E, Ngugi DK, Schink B, Pester M
  • journal: Syst Appl Microbiol
  • DOI: 10.1016/j.syapm.2020.126105
  • year: 2020
  • mesh: Bacterial Typing Techniques, Culture Media, Desulfovibrio/*classification/cytology/*isolation & purification/metabolism/physiology, Dimethyl Sulfoxide/metabolism, Fatty Acids/analysis, Genes, rRNA, Genome, Bacterial, Hydrogen-Ion Concentration, Iron/*metabolism, Oxidation-Reduction, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/microbiology, Sulfates/metabolism, Sulfides/*metabolism, Temperature
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitle
1458Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3696)https://www.dsmz.de/collection/catalogue/details/culture/DSM-3696
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)
73606Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID45175.1StrainInfo: A central database for resolving microbial strain identifiers