Strain identifier

BacDive ID: 130149

Type strain: Yes

Species: Basilea psittacipulmonis

Strain Designation: JF4266

Strain history: CIP <- 2011, J. Frey, Bern Univ., Bern, Switzerland: strain JF4266, Basilea psittacopulmonis

NCBI tax ID(s): 1072685 (strain), 1472345 (species)

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General

@ref: 22106

BacDive-ID: 130149

DSM-Number: 24701

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-negative

description: Basilea psittacipulmonis JF4266 is a microaerophile, mesophilic, Gram-negative bacterium that was isolated from lung of dead parakeet Melopsittacus undulatus kept in captivity in a petshop.

NCBI tax id

NCBI tax idMatching level
1072685strain
1472345species

strain history

@refhistory
363092011, J. Frey, Bern Univ., Bern, Switzerland: strain JF4266, Basilea psittacopulmonis
22106<- J. Frey, Univ. Berne, Switzerland; JF4266
122014CIP <- 2011, J. Frey, Bern Univ., Bern, Switzerland: strain JF4266, Basilea psittacopulmonis

doi: 10.13145/bacdive130149.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Alcaligenaceae
  • genus: Basilea
  • species: Basilea psittacipulmonis
  • full scientific name: Basilea psittacipulmonis Whiteson et al. 2014

@ref: 22106

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Alcaligenaceae

genus: Basilea

species: Basilea psittacipulmonis

full scientific name: Basilea psittacipulmonis Whiteson et al. 2014

strain designation: JF4266

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.982
122014negativerod-shapedno

colony morphology

  • @ref: 22106
  • type of hemolysis: gamma
  • incubation period: 1-2 days

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36309MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
22106COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yesName: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar basehttps://mediadive.dsmz.de/medium/693
122014CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
22106positivegrowth37mesophilic
36309positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
22106microaerophile
122014obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.997

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12201417632nitrate-reduction
12201416301nitrite-reduction
6837717634D-glucose-builds acid from
6837715824D-fructose-builds acid from
6837717306maltose-builds acid from
6837716199urea-hydrolysis
6837727897tryptophan-energy source

metabolite production

@refChebi-IDmetaboliteproduction
6837735581indoleno
12201435581indoleno

metabolite tests

  • @ref: 68377
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
22106catalase+1.11.1.6
22106cytochrome-c oxidase+1.9.3.1
68377tryptophan deaminase-4.1.99.1
68377proline-arylamidase+3.4.11.5
68377alkaline phosphatase-3.1.3.1
68377lipase-
68377urease-3.5.1.5
68377beta-lactamase-3.5.2.6
122014oxidase-
122014catalase-1.11.1.6
122014urease-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
122014--+--------+--------

API NH

@refPENGLUFRUMALSACODCURELIPPALbeta GALProAGGTIND
22106----+----++--
22106-----+----++-

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
22106lung of dead parakeet Melopsittacus undulatus kept in captivity in a petshopMelopsittacus undulatusBaselSwitzerlandCHEEurope
122014Bird lung, Melopsitttacus undulatusBernSwitzerlandCHEEurope2007

isolation source categories

Cat1Cat2Cat3
#Host#Birds
#Host Body-Site#Oral cavity and airways#Lung

taxonmaps

  • @ref: 69479
  • File name: preview.99_1400.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_7;96_809;97_943;98_1107;99_1400&stattab=map
  • Last taxonomy: Basilea psittacipulmonis subclade
  • 16S sequence: JX412111
  • Sequence Identity:
  • Total samples: 1707
  • soil counts: 24
  • aquatic counts: 103
  • animal counts: 1561
  • plant counts: 19

Safety information

risk assessment

  • @ref: 122014
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22106
  • description: Basilea psittacipulmonis DSM 24701 16S ribosomal RNA gene, partial sequence
  • accession: JX412111
  • length: 1559
  • database: ena
  • NCBI tax ID: 1072685

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Basilea psittacipulmonis DSM 24701GCA_000743945completencbi1072685
66792Basilea psittacipulmonis DSM 24701GCA_002003525contigncbi1072685
66792Basilea psittacipulmonis DSM 247011072685.4completepatric1072685
66792Basilea psittacipulmonis DSM 24701 strain DSM 247011072685.5wgspatric1072685
66792Basilea psittacipulmonis DSM 247012597490181completeimg1072685
66792Basilea psittacipulmonis DSM 247012914311346draftimg1072685

GC content

  • @ref: 22106
  • GC-content: 43
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno87.9no
flagellatedno95.269no
gram-positiveno98.837no
anaerobicno97.178yes
aerobicno89.394yes
halophileno63.257no
spore-formingno97.504no
glucose-utilno74.297no
thermophileno94.893yes
glucose-fermentno85.999no

External links

@ref: 22106

culture collection no.: DSM 24701, CIP 110308

straininfo link

  • @ref: 88702
  • straininfo: 394347

literature

  • topic: Phylogeny
  • Pubmed-ID: 24581117
  • title: A genomic perspective on a new bacterial genus and species from the Alcaligenaceae family, Basilea psittacipulmonis.
  • authors: Whiteson KL, Hernandez D, Lazarevic V, Gaia N, Farinelli L, Francois P, Pilo P, Frey J, Schrenzel J
  • journal: BMC Genomics
  • DOI: 10.1186/1471-2164-15-169
  • year: 2014
  • mesh: Alcaligenaceae/classification/*genetics, Amino Acid Sequence, Bacterial Proteins/genetics, Contig Mapping, *Genome, Bacterial, High-Throughput Nucleotide Sequencing, Molecular Sequence Annotation, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22106Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-24701Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24701)
36309Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/8153
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68377Automatically annotated from API NH
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88702Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID394347.1
122014Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110308Collection of Institut Pasteur (CIP 110308)