Strain identifier

BacDive ID: 13052

Type strain: Yes

Species: Pseudomonas cannabina

Strain Designation: L01

Strain history: CIP <- 1999, CFBP <- NCPPB <- Z. Clement, Pseudomonas syringae pv cannabina: strain L01

NCBI tax ID(s): 86840 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 6614

BacDive-ID: 13052

DSM-Number: 16822

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

description: Pseudomonas cannabina L01 is an aerobe, mesophilic, motile bacterium that was isolated from Cannabis sativa.

NCBI tax id

  • NCBI tax id: 86840
  • Matching level: species

strain history

@refhistory
6614<- CFBP <- NCPPB <- Z. Klement; L01
117145CIP <- 1999, CFBP <- NCPPB <- Z. Clement, Pseudomonas syringae pv cannabina: strain L01

doi: 10.13145/bacdive13052.20230509.8.1

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 cannabina
  • full scientific name: Pseudomonas cannabina (ex Šuti? and Dowson 1959) Gardan et al. 1999

@ref: 6614

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas cannabina

full scientific name: Pseudomonas cannabina (ex Šuti? and Dowson 1959) Gardan et al. 1999 emend. Bull et al. 2010

strain designation: L01

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.243
6948099.997negative
117145yesnegativerod-shaped

colony morphology

  • @ref: 59232
  • incubation period: 2 days

pigmentation

  • @ref: 117145
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6614YPGA (DSMZ Medium 1015)yeshttps://mediadive.dsmz.de/medium/1015Name: YPGA (DSMZ Medium 1015) Composition: Agar 15.0 g/l Glucose 7.0 g/l Bacto peptone 7.0 g/l Yeast extract 7.0 g/l Distilled water
39480MEDIUM 3 - Columbia agaryesColumbia agar (39.000 g);distilled water (1000.000 ml)
117145CIP Medium 3yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=3

culture temp

@refgrowthtypetemperaturerange
6614positivegrowth28mesophilic
39480positivegrowth25mesophilic
59232positivegrowth30mesophilic
117145positivegrowth5-30
117145nogrowth37mesophilic
117145nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
59232aerobe
117145obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.929

halophily

@refsaltgrowthtested relationconcentration
117145NaClpositivegrowth0 %
117145NaClnogrowth2 %
117145NaClnogrowth4 %
117145NaClnogrowth6 %
117145NaClnogrowth8 %
117145NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11714516947citrate+carbon source
1171454853esculin-hydrolysis
11714517632nitrate-reduction
11714516301nitrite-reduction
11714517632nitrate-respiration

antibiotic resistance

  • @ref: 117145
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 117145
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
117145oxidase-
117145beta-galactosidase-3.2.1.23
117145alcohol dehydrogenase-1.1.1.1
117145gelatinase-
117145amylase-
117145DNase-
117145caseinase-3.4.21.50
117145catalase+1.11.1.6
117145tween esterase+
117145lecithinase-
117145lipase-
117145lysine decarboxylase-4.1.1.18
117145ornithine decarboxylase-4.1.1.17
117145protease-
117145tryptophan deaminase-
117145urease-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
117145-+++-+--+-++--------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
117145+++-+--+------------+----------+-----------++---++---++-----+----------+-+--+--++--------+++-+++---

Isolation, sampling and environmental information

isolation

@refsample typehost speciescountryorigin.countrycontinentisolation date
6614Cannabis sativaCannabis sativaHungaryHUNEurope
59232Cannabis sativaHungaryHUNEurope
117145Cannabis sativaHungaryHUNEurope1957

isolation source categories

  • Cat1: #Host
  • Cat2: #Plants
  • Cat3: #Herbaceous plants (Grass,Crops)

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: AJ492827
  • Sequence Identity:
  • Total samples: 1469
  • soil counts: 744
  • aquatic counts: 346
  • animal counts: 234
  • plant counts: 145

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
66141Risk group (German classification)
1171451Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6614
  • description: Pseudomonas cannabina partial 16S rRNA gene, type strain CFBP 2341T
  • accession: AJ492827
  • length: 1531
  • database: ena
  • NCBI tax ID: 86840

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas cannabina ICMP 2823GCA_900100365contigncbi86840
66792Pseudomonas cannabina ICMP 2823GCA_001400175scaffoldncbi86840
66792Pseudomonas cannabina strain ICMP 282386840.5wgspatric86840
66792Pseudomonas cannabina strain ICMP282386840.3wgspatric86840
66792Pseudomonas cannabina ICMP 28232713896848draftimg86840
66792Pseudomonas cannabina CFBP 23412667527432draftimg86840

GC content

  • @ref: 6614
  • GC-content: 60.2
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes65.95no
gram-positiveno98.436no
anaerobicno98.375yes
aerobicyes92.752no
halophileno94.442no
spore-formingno93.178no
glucose-utilyes95.951no
thermophileno99.785yes
motileyes89.158no
glucose-fermentno90.2no

External links

@ref: 6614

culture collection no.: DSM 16822, CFBP 2341, CIP 106140, ICMP 2823, LMG 5096, NCPPB 1437, CCUG 51523

straininfo link

  • @ref: 82262
  • straininfo: 13788

Reference

@idauthorscataloguedoi/urltitle
6614Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16822)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16822
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
39480Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18238
59232Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 51523)https://www.ccug.se/strain?id=51523
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)
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
82262Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13788.1StrainInfo: A central database for resolving microbial strain identifiers
117145Curators of the CIPCollection of Institut Pasteur (CIP 106140)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106140