Strain identifier

BacDive ID: 1983

Type strain: Yes

Species: Burkholderia arboris

Strain Designation: ES0263A, ES0263AT

Strain history: CIP <- 2014, CCUG <- 2007, LMG <- J. LiPuma, USA: strain ES0263AT

NCBI tax ID(s): 488730 (species)

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General

@ref: 17207

BacDive-ID: 1983

DSM-Number: 23435

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, rod-shaped

description: Burkholderia arboris ES0263A is an aerobe, mesophilic, Gram-negative bacterium that was isolated from Morris Arboretum.

NCBI tax id

  • NCBI tax id: 488730
  • Matching level: species

strain history

@refhistory
17207<- CCUG <- LMG <- J. J. LiPuma; ES0263A
116473CIP <- 2014, CCUG <- 2007, LMG <- J. LiPuma, USA: strain ES0263AT

doi: 10.13145/bacdive1983.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Burkholderia
  • species: Burkholderia arboris
  • full scientific name: Burkholderia arboris Vanlaere et al. 2008

@ref: 17207

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Burkholderia

species: Burkholderia arboris

full scientific name: Burkholderia arboris Vanlaere et al. 2008

strain designation: ES0263A, ES0263AT

type strain: yes

Morphology

cell morphology

@refgram staincell shapeconfidencemotility
23365negativerod-shaped
69480negative99.993
116473negativerod-shapedyes

colony morphology

  • @ref: 17207
  • type of hemolysis: beta
  • hemolysis ability: 1

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17207COLUMBIA BLOOD MEDIUM (DSMZ Medium 693)yeshttps://mediadive.dsmz.de/medium/693Name: COLUMBIA BLOOD MEDIUM (DSMZ Medium 693) Composition: Defibrinated sheep blood 50.0 g/l Columbia agar base
17207R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
116473CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
17207positivegrowth30mesophilic
23365positivegrowth30-37mesophilic
23365positivemaximum42thermophilic
60235positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23365aerobe
60235aerobe

spore formation

@refspore formationconfidence
23365no
69481no100
69480no99.976

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336518222xylose-builds acid from
2336515963ribitol+builds acid from
2336517234glucose+builds acid from
2336517716lactose+builds acid from
2336517306maltose+builds acid from
2336517992sucrose+builds acid from
2336517128adipate+growth
2336527689decanoate+growth
2336516899D-mannitol+growth
2336530849L-arabinose+growth
2336517306maltose+growth
23365506227N-acetylglucosamine+growth
2336518401phenylacetate+growth
233654853esculin+hydrolysis
2336517632nitrate+reduction
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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

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

enzymes

@refvalueactivityec
17207catalase+1.11.1.6
17207cytochrome-c oxidase+1.9.3.1
23365arginine dihydrolase+3.5.3.6
23365arginine dihydrolase-3.5.3.6
23365beta-galactosidase+3.2.1.23
23365cytochrome oxidase+1.9.3.1
23365gelatinase+
23365lysine decarboxylase+4.1.1.18
23365ornithine decarboxylase+4.1.1.17
23365tryptophanase-4.1.99.1
23365urease+3.5.1.5
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPAC
17207+-+----+++++++++++++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
17207Morris ArboretumPhiladelphiaUSAUSANorth America
23365Arboretum soil1999
60235Morris ArboretumPhiladelphiaUSAUSANorth America2004-06-03
116473Morris ArboretumPhiladelphia, PennsylvaniaUnited States of AmericaUSANorth America2004-06-03

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Host#Plants#Shrub (Scrub)
#Host#Plants#Tree
#Environmental#Terrestrial#Forest

taxonmaps

  • @ref: 69479
  • File name: preview.99_198.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_18;97_18;98_21;99_198&stattab=map
  • Last taxonomy: Burkholderia
  • 16S sequence: AM747630
  • Sequence Identity:
  • Total samples: 5054
  • soil counts: 1055
  • aquatic counts: 564
  • animal counts: 1930
  • plant counts: 1505

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
172072Risk group (German classification)
1164731Risk group (French classification)

Sequence information

16S sequences

  • @ref: 17207
  • description: Burkholderia arboris partial 16S rRNA gene, type strain R-24201T
  • accession: AM747630
  • length: 1502
  • database: ena
  • NCBI tax ID: 488730

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Burkholderia arboris LMG 24066GCA_902499125contigncbi488730
66792Burkholderia arboris strain LMG 24066488730.9wgspatric488730

GC content

  • @ref: 23365
  • GC-content: 67.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.183yes
anaerobicno98.632yes
halophileno90.978no
spore-formingno93.855yes
glucose-utilyes92.124no
aerobicyes90.763yes
thermophileno99.589no
motileyes84.667no
flagellatedno83.953no
glucose-fermentno84.531no

External links

@ref: 17207

culture collection no.: DSM 23435, CCUG 54561, LMG 24066, CIP 110772

straininfo link

  • @ref: 71630
  • straininfo: 137149

literature

  • topic: Phylogeny
  • Pubmed-ID: 18599699
  • title: Burkholderia latens sp. nov., Burkholderia diffusa sp. nov., Burkholderia arboris sp. nov., Burkholderia seminalis sp. nov. and Burkholderia metallica sp. nov., novel species within the Burkholderia cepacia complex.
  • authors: Vanlaere E, Lipuma JJ, Baldwin A, Henry D, De Brandt E, Mahenthiralingam E, Speert D, Dowson C, Vandamme P
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.65634-0
  • year: 2008
  • mesh: Base Sequence, Burkholderia/chemistry/*classification/genetics, Burkholderia cepacia complex/*classification, Genes, Bacterial/genetics, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Species Specificity
  • topic2: Genetics

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
17207Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23435)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23435
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
23365Elke Vanlaere, John J. LiPuma, Adam Baldwin, Deborah Henry, Evie De Brandt, Eshwar Mahenthiralingam, David Speert, Chris Dowson, Peter Vandamme10.1099/ijs.0.65634-0Burkholderia latens sp. nov., Burkholderia diffusa sp. nov., Burkholderia arboris sp. nov., Burkholderia seminalis sp. nov. and Burkholderia metallica sp. nov., novel species within the Burkholderia cepacia complexIJSEM 58: 1580-1590 200818599699
60235Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54561)https://www.ccug.se/strain?id=54561
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
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
71630Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID137149.1StrainInfo: A central database for resolving microbial strain identifiers
116473Curators of the CIPCollection of Institut Pasteur (CIP 110772)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110772