Strain identifier

BacDive ID: 13137

Type strain: Yes

Species: Halopseudomonas pertucinogena

Strain Designation: 2205

Strain history: CIP <- 2000, CCUG <- ATCC, Rockville, USA <- P. Kendrick <- Eli Lilly and Co.: strain 2205

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General

@ref: 7467

BacDive-ID: 13137

DSM-Number: 18268

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

description: Halopseudomonas pertucinogena 2205 is an aerobe, mesophilic, motile bacterium that was isolated from clinical sample.

strain history

@refhistory
7467<- CCUG <- ATCC <- P. Kendrick <- Eli Lilly & Co.; 2205
67770IFO 14163 <-- E. Yabuuchi KM 1319 <-- Y. Kawai <-- ATCC 190 <-- P. Kendrick.
121691CIP <- 2000, CCUG <- ATCC, Rockville, USA <- P. Kendrick <- Eli Lilly and Co.: strain 2205

doi: 10.13145/bacdive13137.20230509.8.1

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 pertucinogena
  • full scientific name: Halopseudomonas pertucinogena (Kawai and Yabuuchi 1975) Rudra and Gupta 2021

  • synonyms

    @refsynonym
    20215Neopseudomonas pertucinogena
    20215Pseudomonas pertucinogena

@ref: 7467

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas pertucinogena

full scientific name: Pseudomonas pertucinogena Kawai and Yabuuchi 1975

strain designation: 2205

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes95.439
6948099.981negative
121691yesnegativerod-shaped

pigmentation

  • @ref: 121691
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
7467COLUMBIA BLOOD AGAR (DSMZ Medium 429)yeshttps://mediadive.dsmz.de/medium/429Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base
7467TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
37247MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121691CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
7467positivegrowth30mesophilic
37247positivegrowth37mesophilic
45039positivegrowth30-37mesophilic
67770positivegrowth30mesophilic
121691positivegrowth25-41
121691nogrowth5psychrophilic
121691nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
45039aerobe
121691obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
121691NaClpositivegrowth0-6 %
121691NaClnogrowth8 %
121691NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
12169116947citrate-carbon source
1216914853esculin-hydrolysis
12169117632nitrate-reduction
12169116301nitrite+reduction

antibiotic resistance

  • @ref: 121691
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12169135581indoleno

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
121691oxidase+
121691beta-galactosidase-3.2.1.23
121691alcohol dehydrogenase-1.1.1.1
121691gelatinase-
121691amylase-
121691DNase+
121691caseinase-3.4.21.50
121691catalase+1.11.1.6
121691tween esterase+
121691lecithinase+
121691lipase+
121691lysine decarboxylase-4.1.1.18
121691ornithine decarboxylase-4.1.1.17
121691phenylalanine ammonia-lyase+4.3.1.24
121691protease-
121691tryptophan deaminase-
121691urease-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
121691-++++++-+-++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
7467---------------+++/---+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
121691----------++------------------------------------++-----------------+-----------++-------+-++++--+--

Isolation, sampling and environmental information

isolation

  • @ref: 7467
  • sample type: clinical sample

isolation source categories

Cat1Cat2Cat3
#Infection#Patient
#Infection#Patient#Specimen

taxonmaps

  • @ref: 69479
  • File name: preview.99_133207.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_1057;97_1235;98_89044;99_133207&stattab=map
  • Last taxonomy: Pseudomonas pertucinogena subclade
  • 16S sequence: AB680571
  • Sequence Identity:
  • Total samples: 283
  • soil counts: 59
  • aquatic counts: 84
  • animal counts: 127
  • plant counts: 13

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
74671Risk group (German classification)
1216911Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas pertucinogena gene for 16S rRNA, strain: IFO 14163AB0213801505ena86175
20218Pseudomonas pertucinogena 16S ribosomal RNA gene, partial sequenceEF6736951497ena86175
20218Pseudomonas pertucinogena gene for 16S rRNA, partial sequence, strain: NBRC 14163AB6805711459ena86175

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Halopseudomonas pertucinogena JCM 11590GCA_014646575scaffoldncbi86175
66792Pseudomonas pertucinogena strain JCM 1159086175.3wgspatric86175
66792Pseudomonas pertucinogena DSM 182682571042921draftimg1123019

GC content

  • @ref: 67770
  • GC-content: 60
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes73.158no
gram-positiveno98.903no
anaerobicno96.506yes
aerobicyes81.169no
halophileno68.804no
spore-formingno95.164no
thermophileno99.243no
glucose-utilno83.322yes
motileyes91.503no
glucose-fermentno90.89no

External links

@ref: 7467

culture collection no.: DSM 18268, ATCC 190, CCUG 7832, CIP 106696, IFO 14163, JCM 11590, LMG 1874, NBRC 14163

straininfo link

  • @ref: 82345
  • straininfo: 4169

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
7467Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18268)https://www.dsmz.de/collection/catalogue/details/culture/DSM-18268
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
37247Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18854
45039Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 7832)https://www.ccug.se/strain?id=7832
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
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
82345Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID4169.1StrainInfo: A central database for resolving microbial strain identifiers
121691Curators of the CIPCollection of Institut Pasteur (CIP 106696)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106696