Strain identifier

BacDive ID: 12808

Type strain: Yes

Species: Pseudomonas asplenii

Strain history: CIP <- 2000, CECT <- LMG <- NCPPB <- ICPB <- NRRL

NCBI tax ID(s): 53407 (species)

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General

@ref: 6780

BacDive-ID: 12808

DSM-Number: 17133

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

description: Pseudomonas asplenii CCUG 32773 is an aerobe, mesophilic, motile plant pathogen that was isolated from bird's nest fern Asplenium nidus.

NCBI tax id

  • NCBI tax id: 53407
  • Matching level: species

strain history

@refhistory
6780<- NCPPB <- NRRL
116529CIP <- 2000, CECT <- LMG <- NCPPB <- ICPB <- NRRL

doi: 10.13145/bacdive12808.20230509.8.1

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 asplenii
  • full scientific name: Pseudomonas asplenii (Ark and Tompkins 1946) Savulescu 1947 (Approved Lists 1980)

  • synonyms

    @refsynonym
    20215Phytomonas asplenii
    20215Pseudomonas fuscovaginae

@ref: 6780

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas asplenii

full scientific name: Pseudomonas asplenii (Ark and Tompkins 1946) Savulescu 1947 emend. Tvrzová et al. 2006

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes98.311
6948099.998negative
116529yesnegativerod-shaped

pigmentation

  • @ref: 116529
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6780NUTRIENT 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
40387MEDIUM 357 - for Pseudomonas aspleniiyesDistilled water make up to (1000.000 ml);Agar (20.000 g);Glucose (1.000g);Yeast extract (5.000 g);Tryptone (5.000 g);Di Potassium monohydrogenophosphate (1.000g)
116529CIP Medium 357yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=357

culture temp

@refgrowthtypetemperaturerange
6780positivegrowth28mesophilic
40387positivegrowth26mesophilic
51173positivegrowth28mesophilic
116529positivegrowth5-30
116529nogrowth37mesophilic
116529nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
51173aerobe
116529obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.99

halophily

@refsaltgrowthtested relationconcentration
116529NaClpositivegrowth0-8 %
116529NaClnogrowth10 %

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
11652916947citrate+carbon source
1165294853esculin-hydrolysis
11652917632nitrate-reduction
11652916301nitrite-reduction
11652917632nitrate-respiration

antibiotic resistance

  • @ref: 116529
  • 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
11652935581indoleno

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
116529oxidase+
116529beta-galactosidase-3.2.1.23
116529alcohol dehydrogenase+1.1.1.1
116529gelatinase-
116529amylase-
116529DNase-
116529caseinase-3.4.21.50
116529catalase+1.11.1.6
116529tween esterase-
116529lecithinase-
116529lipase-
116529lysine decarboxylase-4.1.1.18
116529ornithine decarboxylase-4.1.1.17
116529protease-
116529tryptophan deaminase-
116529urease+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
116529-++++++-+-++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
6780---+----++++--++-++-+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
116529+++++--------------+++----+----+-+---------++--+++++-+++----+-+++-----++-+-+++-++++++++-+++++++++++

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
6780bird's nest fern Asplenium nidusAsplenium nidusCaliforniaUSAUSANorth America
51173Asplenium nidus
116529Asplenium nidus

isolation source categories

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

Safety information

risk assessment

@refpathogenicity plantbiosafety levelbiosafety level comment
6780yes1Risk group (German classification)
1165291Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas asplenii gene for 16S rRNA, strain: ATCC 23835AB0213971503ena53407
20218P.asplenii 16S rRNA geneZ766551491ena53407

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas asplenii ATCC 23835GCA_900105475chromosomencbi53407
66792Pseudomonas asplenii strain ATCC 2383553407.10completepatric53407
66792Pseudomonas asplenii LMG 21372667527430draftimg53407

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.388no
anaerobicno98.998yes
halophileno89.389no
spore-formingno95.099no
glucose-utilyes95.275no
thermophileno99.869yes
aerobicyes93.842no
motileyes88.26no
flagellatedyes84.312no
glucose-fermentno88.792yes

External links

@ref: 6780

culture collection no.: CCUG 32773, ATCC 10203, LMG 2137, DSM 17133, ATCC 23835, CCM 7744, ICMP 3944, NCPPB 1947, NRRL B-733, CIP 106710, CECT 4468

straininfo link

  • @ref: 82018
  • straininfo: 3932

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17082407Pseudomonas moraviensis sp. nov. and Pseudomonas vranovensis sp. nov., soil bacteria isolated on nitroaromatic compounds, and emended description of Pseudomonas asplenii.Tvrzova L, Schumann P, Sproer C, Sedlacek I, Pacova Z, Sedo O, Zdrahal Z, Steffen M, Lang EInt J Syst Evol Microbiol10.1099/ijs.0.63988-02006Amino Acids/metabolism, Bacterial Typing Techniques, Carbohydrate Metabolism, Czech Republic, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Pseudomonas/*classification/cytology/*isolation & purification/physiology, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, *Soil MicrobiologyMetabolism
Phylogeny32392123Genome analysis-based reclassification of Pseudomonas fuscovaginae and Pseudomonas shirazica as later heterotypic synonyms of Pseudomonas asplenii and Pseudomonas asiatica, respectively.Tohya M, Watanabe S, Tada T, Tin HH, Kirikae TInt J Syst Evol Microbiol10.1099/ijsem.0.0041992020Bacterial Typing Techniques, DNA, Bacterial/genetics, Genes, Bacterial, Nucleic Acid Hybridization, *Phylogeny, Pseudomonas/*classification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
6780Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17133)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17133
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
40387Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18871
51173Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32773)https://www.ccug.se/strain?id=32773
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
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
82018Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID3932.1StrainInfo: A central database for resolving microbial strain identifiers
116529Curators of the CIPCollection of Institut Pasteur (CIP 106710)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106710