Strain identifier

BacDive ID: 140464

Type strain: Yes

Species: Endothiovibrio diazotrophicus

Strain Designation: S-1

Strain history: C. T. Lefèvre <-- D. A. Bazylinski S-1.

NCBI tax ID(s): 913829 (species)

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General

@ref: 43181

BacDive-ID: 140464

keywords: 16S sequence, Bacteria, microaerophile, chemolithoautotroph, mesophilic, Gram-negative, motile, rod-shaped

description: Endothiovibrio diazotrophicus S-1 is a microaerophile, chemolithoautotroph, mesophilic bacterium that was isolated from mud and water.

NCBI tax id

  • NCBI tax id: 913829
  • Matching level: species

strain history

  • @ref: 67770
  • history: C. T. Lefèvre <-- D. A. Bazylinski S-1.

doi: 10.13145/bacdive140464.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Chromatiales
  • family: Thioalkalispiraceae
  • genus: Endothiovibrio
  • species: Endothiovibrio diazotrophicus
  • full scientific name: Endothiovibrio diazotrophicus Bazylinski et al. 2017

@ref: 43181

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Chromatiales

family: Thioalkalispiraceae

genus: Endothiovibrio

species: Endothiovibrio diazotrophicus

strain designation: S-1

type strain: yes

Morphology

cell morphology

  • @ref: 43181
  • gram stain: negative
  • cell length: 3.8-6.0 µm
  • cell width: 1.0-1.4 µm
  • cell shape: rod-shaped
  • motility: yes
  • flagellum arrangement: monotrichous, polar

Culture and growth conditions

culture medium

  • @ref: 43181
  • name: semi-solid growth medium
  • growth: yes
  • composition: 0.2 ml 0.2 % aqueous resazurin, 10.0 ml 25 % Na2S2O3x5H2O, 0.25 g NH4Cl, 2.0 ml neutralized 0.43 M cysteinexHClxH2O, 2.67 ml 0.8 M NaHCO3, 5 ml modified Wolfe’s mineral elixir, 0.5 ml vitamin solution, 2.0 g Agar Noble (all per litre artificial sea water)

culture temp

@refgrowthtypetemperaturerange
43181positiveoptimum28mesophilic
43181positivegrowth5-37
67770positivegrowth25mesophilic

culture pH

  • @ref: 43181
  • ability: positive
  • type: growth
  • pH: 5.2-8.0

Physiology and metabolism

oxygen tolerance

  • @ref: 43181
  • oxygen tolerance: microaerophile

nutrition type

  • @ref: 43181
  • type: chemolithoautotroph

halophily

@refsaltgrowthtested relationconcentration
43181NaClpositivemaximum0 %(w/v)
43181Marine saltspositivegrowth10-100 %
43181Marine saltspositiveminimum10 %

observation

  • @ref: 67770
  • observation: quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
4318116526carbon dioxide+carbon source
4318115138sulfide+electron donor
4318116094thiosulfate+electron donor
4318117997dinitrogen+nitrogen source
4318115379dioxygen+electron acceptor

enzymes

@refvalueactivityec
43181nitrogenase+1.18.6.1
43181catalase-1.11.1.6
43181cytochrome oxidase-1.9.3.1

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    43181C16:1ω7c37
    43181C16:030
    43181C18:1ω7c22
    43181C18:05
    43181C18:2ω6,9c1.3
    43181C18:1ω5c1.2
    43181C17:01
  • type of FA analysis: whole cell analysis
  • incubation medium: artificial sea water (ASW)-based medium with thiosulfat as electron donor
  • incubation time: 1
  • system: MIS MIDI
  • cutoff value:

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentenrichment culture
43181mud and waterbrackish School Street Marsh, Woods Hole, MassachusettsUSAUSANorth Americasulfide-O 2 concentration gradient media
67770Coastal salt marsh in MassachusettsUSAUSANorth America

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Mud (Sludge)

taxonmaps

  • @ref: 69479
  • File name: preview.99_93521.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_159;96_38474;97_48969;98_64313;99_93521&stattab=map
  • Last taxonomy: Endothiovibrio diazotrophicus subclade
  • 16S sequence: HQ379738
  • Sequence Identity:
  • Total samples: 993
  • soil counts: 146
  • aquatic counts: 753
  • animal counts: 84
  • plant counts: 10

Sequence information

16S sequences

  • @ref: 43181
  • description: Endothiovibrio diazotrophicus strain S-1 16S ribosomal RNA gene, partial sequence
  • accession: HQ379738
  • length: 1530
  • database: nuccore
  • NCBI tax ID: 913829

GC content

  • @ref: 43181
  • GC-content: 67.6
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 43181

culture collection no.: JCM 17961, ATCC BAA 1439

literature

  • topic: Phylogeny
  • Pubmed-ID: 27983471
  • title: Endothiovibrio diazotrophicus gen. nov., sp. nov., a novel nitrogen-fixing, sulfur-oxidizing gammaproteobacterium isolated from a salt marsh.
  • authors: Bazylinski DA, Morillo V, Lefevre CT, Viloria N, Dubbels BL, Williams TJ
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.001743
  • year: 2017
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/genetics/isolation & purification, Massachusetts, Nitrogen/metabolism, *Nitrogen Fixation, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sulfur/metabolism, *Water Microbiology, *Wetlands
  • topic2: Metabolism

Reference

@idauthorstitledoi/urljournalpubmed
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
43181Dennis A. Bazylinski, Viviana Morillo, Christopher T. Lefevre, Nathan Viloria, Bradley L. Dubbels, Timothy J. WilliamsEndothiovibrio diazotrophicus gen. nov., sp. nov., a novel nitrogen-fixing, sulfur-oxidizing gammaproteobacterium isolated from a salt marsh10.1099/ijsem.0.001743IJSEM 67: 1491-1498 201727983471
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/