Strain identifier

BacDive ID: 13058

Type strain: Yes

Species: Pseudomonas avellanae

Strain Designation: ISPAVE B.062, B. O62, F11

Strain history: CIP <- 1997, J.D. Janse, Plant Protection Serv., The Netherlands: strain F11 <- ISPAVE: strain B. O62 <- NCPPB <- P.G. Psallidas

NCBI tax ID(s): 1154758 (strain), 46257 (species)

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General

@ref: 4496

BacDive-ID: 13058

DSM-Number: 11809

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

description: Pseudomonas avellanae ISPAVE B.062 is an obligate aerobe, mesophilic, Gram-negative plant pathogen that was isolated from hazelnut .

NCBI tax id

NCBI tax idMatching level
46257species
1154758strain

strain history

@refhistory
4496<- J.D. Janse; PD 2378 <- P.G. Psallidas, BPIC
67770DSM 11809 <-- J. D. Janse PD 2378 <-- P. G. Psallidas BPIC 631.
116658CIP <- 1997, J.D. Janse, Plant Protection Serv., The Netherlands: strain F11 <- ISPAVE: strain B. O62 <- NCPPB <- P.G. Psallidas

doi: 10.13145/bacdive13058.20230509.8.1

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 avellanae
  • full scientific name: Pseudomonas avellanae Janse et al. 1997

@ref: 4496

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas avellanae

full scientific name: Pseudomonas avellanae Janse et al. 1997

strain designation: ISPAVE B.062, B. O62, F11

type strain: yes

Morphology

cell morphology

  • @ref: 116658
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 116658
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4496NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
39216MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
116658CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
116658CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
4496positivegrowth25mesophilic
39216positivegrowth25mesophilic
67770positivegrowth25mesophilic
116658positivegrowth25-30mesophilic
116658nogrowth10psychrophilic
116658nogrowth37mesophilic
116658nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116658
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
116658NaClpositivegrowth0-4 %
116658NaClnogrowth6 %
116658NaClnogrowth8 %
116658NaClnogrowth10 %

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
11665816947citrate+carbon source
1166584853esculin-hydrolysis
11665817632nitrate-reduction
11665816301nitrite-reduction
11665817632nitrate-respiration

antibiotic resistance

  • @ref: 116658
  • 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
11665835581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
116658oxidase-
116658beta-galactosidase-3.2.1.23
116658alcohol dehydrogenase-1.1.1.1
116658gelatinase-
116658amylase-
116658DNase-
116658caseinase-3.4.21.50
116658catalase+1.11.1.6
116658tween esterase+
116658lecithinase-
116658lipase-
116658lysine decarboxylase-4.1.1.18
116658ornithine decarboxylase-4.1.1.17
116658protease-
116658tryptophan deaminase-
116658urease-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
116658--++-+----++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
4496--------+-++---+-++--
4496--------+-++---+-++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116658++--+--+--+---------------+--+-+++---------+--++++++-+--+-------+++------+----+++---------++-+-+---

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
4496hazelnut (Corylus avellana)Corylus avellanaGreeceGRCEurope
59216Hazelnut (Corylus avellana)GreeceGRCEurope
67770Corylus avellataCorylus avellataGreeceGRCEurope
116658Corylus avellanaGreeceGRCEurope1976

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body-Site#Plant#Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_266.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_226;99_266&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: X95745
  • Sequence Identity:
  • Total samples: 1423
  • soil counts: 435
  • aquatic counts: 325
  • animal counts: 369
  • plant counts: 294

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
4496yes1Risk group (German classification)
1166581Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas avellanae 16S-23S rRNA ITS1, strain BPIC 631AM489489534ena1154758
4496Pseudomonas avellanae 16S rRNA geneX957451384ena46257
67770Pseudomonas avellanae partial 16S rRNA gene, strain PD 2378HF5583911512ena46257

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas avellanae JCM 11937GCA_014646595scaffoldncbi46257
66792Pseudomonas avellanae BPIC 631GCA_000444135contigncbi1154758
66792Pseudomonas avellanae BPIC 631GCA_000302915scaffoldncbi1154758
66792Pseudomonas avellanae BPIC 6311154758.6wgspatric1154758
66792Pseudomonas avellanae BPIC 6311154758.3wgspatric1154758
66792Pseudomonas avellanae strain JCM 1193746257.13wgspatric46257
66792Pseudomonas avellanae BPIC 6312505313060draftimg1154758
66792Pseudomonas avellanae BPIC 6312531839710draftimg1154758
66792Pseudomonas avellanae BPIC 6312554235217draftimg1154758

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes89.624no
flagellatedyes66.487no
gram-positiveno98.479no
anaerobicno98.246no
aerobicyes94.98no
halophileno92.398no
spore-formingno93.85no
glucose-utilyes96.176yes
thermophileno99.744no
glucose-fermentno90.157no

External links

@ref: 4496

culture collection no.: DSM 11809, BPIC 631, ICPB 9746, NCPPB 3487, CCUG 51505, CIP 105176, PD 2378, JCM 11937, CFBP 4060, ICMP 9746, LMG 21662

straininfo link

  • @ref: 82268
  • straininfo: 49183

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
4496Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 11809)https://www.dsmz.de/collection/catalogue/details/culture/DSM-11809
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
39216Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/17166
59216Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51505)https://www.ccug.se/strain?id=51505
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
82268Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID49183.1StrainInfo: A central database for resolving microbial strain identifiers
116658Curators of the CIPCollection of Institut Pasteur (CIP 105176)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20105176