Strain identifier

BacDive ID: 13113

Type strain: Yes

Species: Pseudomonas otitidis

Strain history: CIP <- 2006, DSMZ <- D.W. Stroman, Alcon Res., Fort Worth, Texas, USA: strain MCC 10330

NCBI tax ID(s): 319939 (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: 6824

BacDive-ID: 13113

DSM-Number: 17224

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

description: Pseudomonas otitidis DSM 17224 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from ear of patient with acute Otitis externa.

NCBI tax id

  • NCBI tax id: 319939
  • Matching level: species

strain history

@refhistory
6824<- D. Stroman, Alcon Research Ltd., TX, USA; MCC10330
121469CIP <- 2006, DSMZ <- D.W. Stroman, Alcon Res., Fort Worth, Texas, USA: strain MCC 10330

doi: 10.13145/bacdive13113.20230509.8.1

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 otitidis
  • full scientific name: Pseudomonas otitidis Clark et al. 2006

@ref: 6824

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas otitidis

full scientific name: Pseudomonas otitidis Clark et al. 2006

type strain: yes

Morphology

cell morphology

  • @ref: 121469
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

colony morphology

  • @ref: 121469

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6824COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium693.pdf
6824TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium92.pdf
37488MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121469CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
121469CIP Medium 566yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=566

culture temp

@refgrowthtypetemperaturerange
6824positivegrowth37mesophilic
37488positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 121469
  • oxygen tolerance: obligate aerobe

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
12146917632nitrate-reduction
12146916301nitrite-reduction

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12146935581indoleno

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
121469oxidase+
121469catalase+1.11.1.6
121469urease+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
121469-+++++----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6824---+--+-+------+-++++
6824---+--+-+------+-++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
6824ear of patient with acute Otitis externaUSAUSANorth America
121469Human, Ear

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Infection#Inflammation
#Infection#Patient
#Host Body-Site#Organ#Ear

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
68242Risk group (German classification)
1214691Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6824
  • description: Pseudomonas otitidis 16S ribosomal RNA gene, partial sequence
  • accession: AY953147
  • length: 1531
  • database: ena
  • NCBI tax ID: 319939

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas otitidis DSM 17224GCA_900111835scaffoldncbi319939
66792Pseudomonas otitidis strain DSM 17224319939.11wgspatric319939

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes90.988no
flagellatedyes85.217no
gram-positiveno98.677no
anaerobicno98.139no
aerobicyes95.695no
halophileno88.881no
spore-formingno93.352no
glucose-fermentno91.173yes
thermophileno99.777no
glucose-utilyes91.277yes

External links

@ref: 6824

culture collection no.: DSM 17224, ATCC BAA 1130, CIP 109236, MCC 10330, CCUG 55592

straininfo link

  • @ref: 82321
  • straininfo: 290994

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16585681Pseudomonas otitidis sp. nov., isolated from patients with otic infections.Clark LL, Dajcs JJ, McLean CH, Bartell JG, Stroman DWInt J Syst Evol Microbiol10.1099/ijs.0.63753-02006DNA, Bacterial/analysis, Humans, Molecular Sequence Data, Otitis Media/*microbiology, Pseudomonas/*classification/genetics/isolation & purification/metabolism, RNA, Ribosomal, 16S/analysis/geneticsPathogenicity
Phylogeny21060106Metallo-beta-lactamase production by Pseudomonas otitidis: a species-related trait.Thaller MC, Borgianni L, Di Lallo G, Chong Y, Lee K, Dajcs J, Stroman D, Rossolini GMAntimicrob Agents Chemother10.1128/AAC.01062-102010Amino Acid Sequence, Anti-Bacterial Agents/pharmacology, Bacterial Proteins/chemistry/classification/genetics/*metabolism, Carbapenems/pharmacology, Drug Resistance, Bacterial/genetics, Microbial Sensitivity Tests, Molecular Sequence Data, Phylogeny, Pseudomonas, Sequence Homology, Amino Acid, beta-Lactamases/chemistry/classification/genetics/*metabolismMetabolism
Genetics32299875Complete Genome Sequence of Pseudomonas otitidis Strain MrB4, Isolated from Lake Biwa in Japan.Miyazaki K, Hase E, Maruya TMicrobiol Resour Announc10.1128/MRA.00148-202020Phylogeny
Phylogeny34762579Pseudomonas tohonis sp. nov., isolated from the skin of a patient with burn wounds in Japan.Yamada K, Sasaki M, Aoki K, Nagasawa T, Murakami H, Ishii M, Shibuya K, Morita T, Ishii Y, Tateda KInt J Syst Evol Microbiol10.1099/ijsem.0.0051152021Bacterial Typing Techniques, Base Composition, *Burns/microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Humans, Japan, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Skin/*microbiologyPathogenicity

Reference

@idauthorscataloguedoi/urltitle
6824Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17224)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17224
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
37488Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6955
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
82321Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID290994.1StrainInfo: A central database for resolving microbial strain identifiers
121469Curators of the CIPCollection of Institut Pasteur (CIP 109236)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20109236