Strain identifier

BacDive ID: 17257

Type strain: Yes

Species: Vibrio diazotrophicus

Strain Designation: NSl

Strain history: IAM 14402 <-- ATCC 33466 <-- M. L. Guerinot NS-1.

NCBI tax ID(s): 1348635 (strain), 685 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 1150

BacDive-ID: 17257

DSM-Number: 2604

keywords: aerobe, Bacteria, 16S sequence, genome sequence, mesophilic

description: Vibrio diazotrophicus NSl is an aerobe, mesophilic bacterium that was isolated from sea urchin gastrointestinal tract.

NCBI tax id

NCBI tax idMatching level
685species
1348635strain

strain history

doi: 10.13145/bacdive17257.20220920.7

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Vibrionales
  • family: Vibrionaceae
  • genus: Vibrio
  • species: Vibrio diazotrophicus
  • full scientific name: Vibrio diazotrophicus Guerinot et al. 1982

@ref: 1150

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Vibrionales, not validated

family: Vibrionaceae

genus: Vibrio

species: Vibrio diazotrophicus

full scientific name: Vibrio diazotrophicus Guerinot et al. 1982

strain designation: NSl

type strain: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
1150VIBRIO MEDIUM (DSMZ Medium 308)yeshttps://bacmedia.dsmz.de/medium/308Name: VIBRIO MEDIUM (DSMZ Medium 308) Composition: NaCl 10.0 g/l Tryptone 10.0 g/l MgCl2 x 6 H2O 4.0 g/l KCl 1.0 g/l Distilled water
38119Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)

culture temp

@refgrowthtypetemperaturerange
1150positivegrowth25mesophilic
38119positivegrowth25mesophilic
46963positivegrowth30-37mesophilic
67770positivegrowth25mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 46963
  • oxygen tolerance: aerobe

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
1150sea urchin gastrointestinal tractNova ScotiaCanadaCANNorth America
46963Sea urchin gastrointestinal tract
67770Sea urchin gastrointestinal tractNova ScotiaCanadaCANNorth America

isolation source categories

  • Cat1: #Host
  • Cat2: #Invertebrates (Other)
  • Cat3: #Echinodermata

Safety information

risk assessment

  • @ref: 1150
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Vibrio diazotrophicus strain ATCC 33466 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Glu gene, complete sequenceAF413003461ena685
20218Vibrio diazotrophicus strain ATCC 33466 16S-23S ribosomal RNA intergenic spacer, partial sequence; tRNA-Ile and tRNA-Ala genes, complete sequenceAF413004564ena685
20218Vibrio diazotrophicus 16S rRNAD11201213ena685
20218Vibrio diazotrophicus 16S rRNAD11250213ena685
20218Vibrio diazotrophicus 16S rRNAD11299193ena685
20218V.diazotrophicus 16S ribosomal RNAX565771473ena685
20218V.diazotrophicus (ATCC 33466T) gene for 16S ribosomal RNAX747011456ena685
20218Vibrio diazotrophicus gene for 16S rRNA, partial sequence, strain: NBRC 103148AB6819571468ena685

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vibrio diazotrophicus NBRC 103148 NBRC 103148GCA_000740015contigncbi1348635
66792Vibrio diazotrophicus NBRC 1031481348635.3wgspatric1348635
66792Vibrio diazotrophicus NBRC 1031482609460176draftimg1348635
67770Vibrio diazotrophicus NBRC 103148, whole genome shotgun sequencing projectBBJY00000000ncbi1348635

GC content

@refGC-contentmethod
115045.9
6777045.9Buoyant density centrifugation (BD)

External links

@ref: 1150

culture collection no.: DSM 2604, ATCC 33466, IAM 14402, CCUG 19114, JCM 21185, CIP 103191, LMG 7893, NBRC 103148, NCIMB 2169

straininfo link

@refpassport
20218http://www.straininfo.net/strains/54085
20218http://www.straininfo.net/strains/54082
20218http://www.straininfo.net/strains/158072

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21596509Vibrio plantisponsor sp. nov., a diazotrophic bacterium isolated from a mangrove associated wild rice (Porteresia coarctata Tateoka).Rameshkumar N, Gomez-Gil B, Sproer C, Lang E, Dinesh Kumar N, Krishnamurthi S, Nair S, Roque ASyst Appl Microbiol10.1016/j.syapm.2011.02.0052011Bacterial Typing Techniques, Base Composition, Base Sequence, DNA Gyrase/genetics, Fatty Acids/chemistry, Genes, Bacterial, Genes, rRNA, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization/methods, Oxidoreductases/genetics, Phenotype, Phylogeny, Plant Roots/microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Alignment, Vibrio/chemistry/*classification/genetics/*isolation & purificationGenetics
Phylogeny26296768Vibrio oceanisediminis sp. nov., a nitrogen-fixing bacterium isolated from an artificial oil-spill marine sediment.Kang SR, Srinivasan S, Lee SSInt J Syst Evol Microbiol10.1099/ijsem.0.0004562015Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, *Petroleum Pollution, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, Vibrio/*classification/genetics/isolation & purificationGenetics
Phylogeny33887169Vibrio ziniensis sp. nov., isolated from mangrove sediments.Wu J, Qu W, Lai Q, Pei S, Zhang T, Zhuang Y, Chan Z, Zeng RInt J Syst Evol Microbiol10.1099/ijsem.0.0047772021Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Geologic Sediments/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Vibrio/*classification/isolation & purification, *WetlandsTranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
1150Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 2604)https://www.dsmz.de/collection/catalogue/details/culture/DSM-2604
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
38119Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14961
46963Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 19114)https://www.ccug.se/strain?id=19114
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
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/