Strain identifier

BacDive ID: 13143

Type strain: Yes

Species: Pseudomonas caricapapayae

Strain Designation: ENA-328

Strain history: CIP <- 2000, NCPPB <- ICPB <- C.F. Robbs, strain ENA-328

NCBI tax ID(s): 46678 (species)

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General

@ref: 15556

BacDive-ID: 13143

DSM-Number: 21109

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile, plant pathogen

description: Pseudomonas caricapapayae ENA-328 is an obligate aerobe, mesophilic, motile plant pathogen that was isolated from Carica papaya.

NCBI tax id

  • NCBI tax id: 46678
  • Matching level: species

strain history

@refhistory
15556<- NCPPB <- ? <- C. F. Robbs
117183CIP <- 2000, NCPPB <- ICPB <- C.F. Robbs, strain ENA-328

doi: 10.13145/bacdive13143.20230509.8.1

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 caricapapayae
  • full scientific name: Pseudomonas caricapapayae Robbs 1956 (Approved Lists 1980)

@ref: 15556

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas caricapapayae

full scientific name: Pseudomonas caricapapayae Robbs 1956

strain designation: ENA-328

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes97.809
6948099.996negative
117183yesnegativerod-shaped

pigmentation

  • @ref: 117183
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15556REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)yeshttps://mediadive.dsmz.de/medium/535bName: 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
40383MEDIUM 328- for nutrient agaryesDistilled water make up to (1000.000 ml);Agar (15.000 g);Peptone (5.000g);Beef extract (3.000 g)
117183CIP Medium 328yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=328

culture temp

@refgrowthtypetemperaturerange
15556positivegrowth28mesophilic
40383positivegrowth25mesophilic
117183positivegrowth5-37
117183nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 117183
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.979

halophily

@refsaltgrowthtested relationconcentration
117183NaClpositivegrowth0-6 %
117183NaClnogrowth8 %
117183NaClnogrowth10 %

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
11718316947citrate+carbon source
1171834853esculin-hydrolysis
11718317632nitrate-reduction
11718316301nitrite-reduction
11718317632nitrate-respiration

antibiotic resistance

  • @ref: 117183
  • 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
11718335581indoleno

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
117183oxidase-
117183beta-galactosidase-3.2.1.23
117183alcohol dehydrogenase-1.1.1.1
117183gelatinase+/-
117183amylase-
117183DNase-
117183caseinase+3.4.21.50
117183catalase+1.11.1.6
117183tween esterase-
117183lecithinase-
117183lipase-
117183lysine decarboxylase-4.1.1.18
117183ornithine decarboxylase-4.1.1.17
117183protease-
117183tryptophan deaminase-
117183urease-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
117183-++++++-+-+++-------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
15556------+-++++--++-++--

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117183+++-+--+-----------+++----+----+++------+--+++-+++++-+++----+-+++-----++-+--++-++--------++++++----

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
15556Carica papayaCarica papayaBrazilBRAMiddle and South America
51175Carica papayaBrazilBRAMiddle and South America
117183Carica papayaeBrazilBRAMiddle and South America1966

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Tree

taxonmaps

  • @ref: 69479
  • File name: preview.99_108.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_61;97_89;98_98;99_108&stattab=map
  • Last taxonomy: Pseudomonas
  • 16S sequence: D84010
  • Sequence Identity:
  • Total samples: 1469
  • soil counts: 744
  • aquatic counts: 346
  • animal counts: 234
  • plant counts: 145

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
15556yes1Risk group (German classification)
1171831Risk group (French classification)

Sequence information

16S sequences

  • @ref: 15556
  • description: Pseudomonas caricapapayae 16S rRNA gene
  • accession: D84010
  • length: 1456
  • database: ena
  • NCBI tax ID: 46678

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas caricapapayae ICMP 2855GCA_001400735scaffoldncbi46678
66792Pseudomonas caricapapayae strain ICMP285546678.3wgspatric46678
66792Pseudomonas caricapapayae ICMP 28552713896847draftimg46678

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes72.403no
gram-positiveno98.339no
anaerobicno98.236no
aerobicyes95.072no
halophileno91.93no
spore-formingno94.228no
glucose-utilyes95.986yes
motileyes90.811no
glucose-fermentno88.738yes
thermophileno99.718no

External links

@ref: 15556

culture collection no.: DSM 21109, CFBP 3204, ICMP 2855, NCPPB 1873, CCUG 32775, ATCC 33615, LMG 2152, CIP 106736, NCPPB 1823, ICPB PC138

straininfo link

  • @ref: 82351
  • straininfo: 3941

Reference

@idauthorscataloguedoi/urltitle
15556Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21109)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21109
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
40383Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18899
51175Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32775)https://www.ccug.se/strain?id=32775
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
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
82351Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3941.1StrainInfo: A central database for resolving microbial strain identifiers
117183Curators of the CIPCollection of Institut Pasteur (CIP 106736)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106736