Strain identifier

BacDive ID: 132179

Type strain: Yes

Species: Halopseudomonas aestusnigri

Strain Designation: VGXO14

Strain history: <- CECT <- E. Garcia-Valdes, Universitat de les Illes Balears, Microbiologia, Departament de Biologia; VGXO14

NCBI tax ID(s): 857252 (species)

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General

@ref: 23968

BacDive-ID: 132179

DSM-Number: 103065

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

description: Halopseudomonas aestusnigri VGXO14 is an aerobe, mesophilic, motile bacterium that was isolated from intertidal sand contaminated with crude oil after the the Prestige oil spill.

NCBI tax id

  • NCBI tax id: 857252
  • Matching level: species

strain history

  • @ref: 23968
  • history: <- CECT <- E. Garcia-Valdes, Universitat de les Illes Balears, Microbiologia, Departament de Biologia; VGXO14

doi: 10.13145/bacdive132179.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Halopseudomonas
  • species: Halopseudomonas aestusnigri
  • full scientific name: Halopseudomonas aestusnigri (Sánchez et al. 2014) Rudra and Gupta 2021

  • synonyms

    @refsynonym
    20215Neopseudomonas aestusnigri
    20215Pseudomonas aestusnigri

@ref: 23968

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas aestusnigri

full scientific name: Pseudomonas aestusnigri Sánchez et al. 2014

strain designation: VGXO14

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes99.223
6948099.994negative

colony morphology

  • @ref: 63091
  • incubation period: 1 day

Culture and growth conditions

culture medium

  • @ref: 23968
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
23968positivegrowth28mesophilic
63091positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 63091
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.998

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836925115malate-assimilation
6836917128adipate+assimilation
6836927689decanoate+assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose-assimilation
6836930849L-arabinose-assimilation
6836917634D-glucose-assimilation
683695291gelatin-hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
23968-----+---------++---+
23968---------------++---+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling date
23968intertidal sand contaminated with crude oil after the the Prestige oil spillGalicia, CarnotaSpainESPEurope
63091Intertidal sand contaminated by crude oilGalicia,Lariño beachSpainESPEurope2004-09-01

isolation source categories

Cat1Cat2Cat3
#Engineered#Contamination#Oil (Fuel)
#Environmental#Terrestrial#Tidal flat
#Environmental#Terrestrial#Sandy
#Environmental#Terrestrial#Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_17836.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_1501;97_4381;98_5610;99_17836&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: HG004395
  • Sequence Identity:
  • Total samples: 3464
  • soil counts: 134
  • aquatic counts: 2461
  • animal counts: 444
  • plant counts: 425

Safety information

risk assessment

  • @ref: 23968
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 23968
  • description: Pseudomonas aestusnigri partial 16S rRNA gene, isolate Vi1
  • accession: HG004395
  • length: 1405
  • database: ena
  • NCBI tax ID: 857252

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halopseudomonas aestusnigri CECT 8317GCA_900108005scaffoldncbi857252
66792Pseudomonas aestusnigri strain CECT 8317857252.4wgspatric857252
66792Halopseudomonas aestusnigri VGXO14GCA_002197985scaffoldncbi857252

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
glucose-fermentno89.173yes
motileyes92.8no
flagellatedyes93.52no
gram-positiveno98.385no
anaerobicno98.002yes
aerobicyes94.455yes
halophileyes62.971no
spore-formingno96.037no
thermophileno99.766yes
glucose-utilno78.665yes

External links

@ref: 23968

culture collection no.: DSM 103065, CCUG 64165, CECT 8317

straininfo link

  • @ref: 90534
  • straininfo: 394467

Reference

@idauthorstitledoi/urlcatalogue
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
23968Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-103065Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103065)
63091Curators of the CCUGhttps://www.ccug.se/strain?id=64165Culture Collection University of Gothenburg (CCUG) (CCUG 64165)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68369Automatically annotated from API 20NE
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/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
90534Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID394467.1