Strain identifier

BacDive ID: 13091

Type strain: Yes

Species: Pseudomonas extremorientalis

Strain Designation: FEB RAS

Strain history: CIP <- 2003, E. P. Ivanova, Hawthorn, Australia

NCBI tax ID(s): 169669 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 6036

BacDive-ID: 13091

DSM-Number: 15824

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Pseudomonas extremorientalis FEB RAS is an aerobe, mesophilic, Gram-negative bacterium that was isolated from drinking water reservoir.

NCBI tax id

  • NCBI tax id: 169669
  • Matching level: species

strain history

@refhistory
6036<- LMG <- E. Ivanova; FEB RAS
366422003, E. P. Ivanova, Hawthorn, Australia
119158CIP <- 2003, E. P. Ivanova, Hawthorn, Australia

doi: 10.13145/bacdive13091.20230509.8.1

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 extremorientalis
  • full scientific name: Pseudomonas extremorientalis Ivanova et al. 2002

@ref: 6036

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas extremorientalis

full scientific name: Pseudomonas extremorientalis Ivanova et al. 2002

strain designation: FEB RAS

type strain: yes

Morphology

cell morphology

  • @ref: 119158
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 119158
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6036CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
36642MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
119158CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
6036positivegrowth28mesophilic
36642positivegrowth25mesophilic
59227positivegrowth28mesophilic
119158positivegrowth5-30
119158nogrowth37mesophilic
119158nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
59227aerobe
119158obligate aerobe

compound production

  • @ref: 6036
  • compound: cyclic depsipeptide

halophily

@refsaltgrowthtested relationconcentration
119158NaClpositivegrowth2-8 %
119158NaClnogrowth0 %
119158NaClnogrowth10 %

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
11915816947citrate-carbon source
1191584853esculin-hydrolysis
11915817632nitrate+reduction
11915816301nitrite-reduction

antibiotic resistance

  • @ref: 119158
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: yes
  • is resistant: no

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
11915835581indoleno

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
119158oxidase+
119158beta-galactosidase+3.2.1.23
119158alcohol dehydrogenase-1.1.1.1
119158gelatinase-
119158amylase-
119158DNase+
119158caseinase+3.4.21.50
119158catalase+1.11.1.6
119158tween esterase+
119158lecithinase+
119158lipase-
119158lysine decarboxylase-4.1.1.18
119158ornithine decarboxylase-4.1.1.17
119158protease+
119158tryptophan deaminase-
119158urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)-
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase-3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase-3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase+3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119158-++--++-++-+---+----

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6036---+--+-+++++-+++++-+

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6036drinking water reservoirVladivostock CityRussiaRUSAsia
59227Water,drinking water reservoirVladivostokRussiaRUSAsia
119158Environment, Driking water reservoirRussian FederationRUSEurope

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Freshwater
#Engineered#Built environment#Water reservoir (Aquarium/pool)

taxonmaps

  • @ref: 69479
  • File name: preview.99_168.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_168&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: AF405328
  • Sequence Identity:
  • Total samples: 5463
  • soil counts: 555
  • aquatic counts: 976
  • animal counts: 2173
  • plant counts: 1759

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
60361Risk group (German classification)
1191581Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6036
  • description: Pseudomonas extremorientalis 16S ribosomal RNA gene, partial sequence
  • accession: AF405328
  • length: 1516
  • database: ena
  • NCBI tax ID: 169669

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas extremorientalis LMG 19695GCA_001870465contigncbi169669
66792Pseudomonas extremorientalis CCUG 51517GCA_008801565contigncbi169669
66792Pseudomonas extremorientalis strain CCUG 51517169669.10wgspatric169669
66792Pseudomonas extremorientalis strain LMG 19695169669.5wgspatric169669
66792Pseudomonas extremorientalis LMG 196952639762715draftimg169669
66792Pseudomonas extremorientalis LMG 19695GCA_900104365chromosomencbi169669

GC content

  • @ref: 6036
  • GC-content: 61

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes91.192no
flagellatedyes83.682no
gram-positiveno98.374no
anaerobicno98.674yes
aerobicyes95.924yes
halophileno89.84no
spore-formingno96.387no
glucose-fermentno90.588yes
thermophileno99.88yes
glucose-utilyes94.752no

External links

@ref: 6036

culture collection no.: DSM 15824, KMM 3447, LMG 19695, CCUG 51517, CIP 107815

straininfo link

  • @ref: 82301
  • straininfo: 13465

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny12508877Pseudomonas extremorientalis sp. nov., isolated from a drinking water reservoir.Ivanova EP, Gorshkova NM, Sawabe T, Hayashi K, Kalinovskaya NI, Lysenko AM, Zhukova NV, Nicolau DV, Kuznetsova TA, Mikhailov VV, Christen RInt J Syst Evol Microbiol10.1099/00207713-52-6-21132002Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Molecular Sequence Data, Phenotype, Phylogeny, Pseudomonas/*classification/genetics/*isolation & purification/metabolism, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Russia, Species Specificity, Water Microbiology, Water SupplyGenetics
Phylogeny33270007Pseudomonas allii sp. nov., a pathogen causing soft rot of onion in Japan.Sawada H, Fujikawa T, Tsuji M, Satou MInt J Syst Evol Microbiol10.1099/ijsem.0.0045822020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Japan, Nucleic Acid Hybridization, Onions/*microbiology, *Phylogeny, Plant Diseases/*microbiology, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitle
6036Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15824)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15824
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
36642Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5292
59227Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51517)https://www.ccug.se/strain?id=51517
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
68382Automatically annotated from API zym
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
82301Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13465.1StrainInfo: A central database for resolving microbial strain identifiers
119158Curators of the CIPCollection of Institut Pasteur (CIP 107815)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107815