Strain identifier

BacDive ID: 13185

Type strain: Yes

Species: Pseudomonas deceptionensis

Strain Designation: M1

Strain history: <- CECT <- E. Mercadé, Univ. Barcelona, Spain

NCBI tax ID(s): 882211 (species)

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General

@ref: 18251

BacDive-ID: 13185

DSM-Number: 26521

keywords: genome sequence, 16S sequence, Bacteria, psychrophilic, motile

description: Pseudomonas deceptionensis M1 is a psychrophilic, motile bacterium that was isolated from marine sediment.

NCBI tax id

  • NCBI tax id: 882211
  • Matching level: species

strain history

  • @ref: 18251
  • history: <- CECT <- E. Mercadé, Univ. Barcelona, Spain

doi: 10.13145/bacdive13185.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Pseudomonas
  • species: Pseudomonas deceptionensis
  • full scientific name: Pseudomonas deceptionensis Carrión et al. 2011

@ref: 18251

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas deceptionensis

full scientific name: Pseudomonas deceptionensis Carrión et al. 2011

strain designation: M1

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes95.406
6948099.998negative

multimedia

  • @ref: 18251
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_26521.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 18251
  • name: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535b
  • composition: Name: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b) Composition: Trypticase soy broth 30.0 g/l Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l K2HPO4 2.5 g/l D(+)-Glucose 2.5 g/l Distilled water

culture temp

  • @ref: 18251
  • growth: positive
  • type: growth
  • temperature: 20
  • range: psychrophilic

Physiology and metabolism

spore formation

@refspore formationconfidence
69481no100
69480no99.988

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
683694853esculin-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-
68369beta-glucosidase-3.2.1.21
68369urease+3.5.1.5
68369arginine dihydrolase+3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
18251---++---++++--++-++-+
18251---++---++++--++-++-+

Isolation, sampling and environmental information

isolation

  • @ref: 18251
  • sample type: marine sediment
  • geographic location: South Shetland Islands, Deception Island
  • continent: Australia and Oceania

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Marine
#Environmental#Aquatic#Sediment

taxonmaps

  • @ref: 69479
  • File name: preview.99_442.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_368;99_442&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: GU936597
  • Sequence Identity:
  • Total samples: 2942
  • soil counts: 460
  • aquatic counts: 830
  • animal counts: 1081
  • plant counts: 571

Safety information

risk assessment

  • @ref: 18251
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 18251
  • description: Pseudomonas deceptionensis strain M1 16S ribosomal RNA gene, partial sequence
  • accession: GU936597
  • length: 1452
  • database: ena
  • NCBI tax ID: 882211

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas deceptionensis LMG 25555GCA_900106095contigncbi882211
66792Pseudomonas deceptionensis DSM 26521GCA_001042895contigncbi882211
66792Pseudomonas deceptionensis strain DSM 26521882211.3wgspatric882211
66792Pseudomonas deceptionensis strain LMG 25555882211.6wgspatric882211
66792Pseudomonas deceptionensis LMG 255552636416038draftimg882211
66792Pseudomonas deceptionensis DSM 265212663763209draftimg882211

GC content

  • @ref: 18251
  • GC-content: 58.3

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes90.779no
flagellatedyes85.28no
gram-positiveno98.41no
anaerobicno98.583no
halophileno86.582no
spore-formingno96.523no
thermophileno99.798yes
glucose-utilyes91.625yes
aerobicyes94.213no
glucose-fermentno89.494yes

External links

@ref: 18251

culture collection no.: DSM 26521, CECT 7677, LMG 25555

straininfo link

  • @ref: 82393
  • straininfo: 369191

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21062736Pseudomonas deceptionensis sp. nov., a psychrotolerant bacterium from the Antarctic.Carrion O, Minana-Galbis D, Montes MJ, Mercade EInt J Syst Evol Microbiol10.1099/ijs.0.024919-02010Aerobiosis, Antarctic Regions, Bacterial Proteins/genetics, Bacterial Typing Techniques, Catalase/metabolism, Cluster Analysis, Cold Temperature, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Flagella/physiology, Geologic Sediments/*microbiology, Locomotion, Molecular Sequence Data, Nucleic Acid Hybridization, Oxidoreductases/metabolism, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAMetabolism
Phylogeny34097596Pseudomonas paraversuta sp. nov. isolated from refrigerated dry-aged beef.Lick S, Wibberg D, Winkler A, Blom J, Grimmler C, Goesmann A, Kalinowski J, Krockel LInt J Syst Evol Microbiol10.1099/ijsem.0.0048222021Animals, Bacterial Typing Techniques, Base Composition, Cattle, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Food Microbiology, Genes, Bacterial, Germany, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Red Meat/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistryBiotechnology

Reference

@idauthorscataloguedoi/urltitle
18251Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26521)https://www.dsmz.de/collection/catalogue/details/culture/DSM-26521
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)
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.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)
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
82393Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID369191.1StrainInfo: A central database for resolving microbial strain identifiers