Strain identifier

BacDive ID: 1986

Type strain: Yes

Species: Burkholderia metallica

Strain Designation: AU0553

Strain history: <- CCUG <- E. Vanlaere, LMG <- J. J. LiPuma; AU0553

NCBI tax ID(s): 488729 (species)

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General

@ref: 17255

BacDive-ID: 1986

DSM-Number: 23519

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

description: Burkholderia metallica AU0553 is an aerobe, mesophilic, Gram-negative bacterium that has a yellow pigmentation and was isolated from human sputum from cystic fibrosis patient.

NCBI tax id

  • NCBI tax id: 488729
  • Matching level: species

strain history

  • @ref: 17255
  • history: <- CCUG <- E. Vanlaere, LMG <- J. J. LiPuma; AU0553

doi: 10.13145/bacdive1986.20230509.8.1

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 metallica
  • full scientific name: Burkholderia metallica Vanlaere et al. 2008

@ref: 17255

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Burkholderia

species: Burkholderia metallica

full scientific name: Burkholderia metallica Vanlaere et al. 2008

strain designation: AU0553

type strain: yes

Morphology

cell morphology

  • @ref: 23365
  • gram stain: negative
  • cell shape: rod-shaped

colony morphology

@reftype of hemolysiscolony color
17255gamma
23365metallic shine

pigmentation

  • @ref: 23365
  • production: yes
  • color: yellow

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
17255COLUMBIA 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
17255R2A 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

culture temp

@refgrowthtypetemperaturerange
17255positivegrowth30mesophilic
23365positivegrowth30-42
60241positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23365aerobe
60241aerobe

spore formation

  • @ref: 23365
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336517306maltose-assimilation
2336517632nitrate-reduction
2336517128adipate+assimilation
2336527689decanoate+assimilation
2336516899D-mannitol+assimilation
2336530849L-arabinose+assimilation
23365506227N-acetylglucosamine+assimilation
2336518401phenylacetate+assimilation
2336515963ribitol+builds acid from
2336517234glucose+builds acid from
2336517716lactose+builds acid from
2336517306maltose+builds acid from
2336517992sucrose+builds acid from
2336518222xylose+builds acid from
2336516947citrate+growth
233658391D-gluconate+growth
2336516024D-mannose+growth
2336517234glucose+growth
2336515589L-malate+growth
233654853esculin+hydrolysis
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
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
17255catalase+1.11.1.6
17255cytochrome-c oxidase+1.9.3.1
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
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
17255--+/---++++++++-+++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling date
17255human sputum from cystic fibrosis patientUSAUSANorth America
233651998
60241Human sputum,cystic fibrosisUSAUSANorth America2001-09-07

isolation source categories

Cat1Cat2Cat3
#Infection#Disease#Cystic fibrosis
#Infection#Patient
#Host#Human
#Host Body Product#Fluids#Sputum

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: AM747632
  • Sequence Identity:
  • Total samples: 5054
  • soil counts: 1055
  • aquatic counts: 564
  • animal counts: 1930
  • plant counts: 1505

Safety information

risk assessment

  • @ref: 17255
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 17255
  • description: Burkholderia metallica partial 16S rRNA gene, type strain R-16017T
  • accession: AM747632
  • length: 1505
  • database: ena
  • NCBI tax ID: 488729

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Burkholderia metallica LMG 24068GCA_902832845scaffoldncbi488729
66792Burkholderia metallica LMG 24068GCA_902499065contigncbi488729
66792Burkholderia metallica strain LMG 24068488729.11wgspatric488729
66792Burkholderia metallica strain LMG 24068488729.16wgspatric488729

GC content

  • @ref: 23365
  • GC-content: 67.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno81.543no
gram-positiveno98.031no
anaerobicno98.478yes
aerobicyes89.545yes
halophileno92.513no
spore-formingno92.999yes
thermophileno99.531yes
glucose-utilyes91.604yes
motileyes89.448no
glucose-fermentno87.1no

External links

@ref: 17255

culture collection no.: DSM 23519, CCUG 54567, LMG 24068

straininfo link

  • @ref: 71633
  • straininfo: 95222

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
17255Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23519)https://www.dsmz.de/collection/catalogue/details/culture/DSM-23519
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
60241Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 54567)https://www.ccug.se/strain?id=54567
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
71633Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID95222.1StrainInfo: A central database for resolving microbial strain identifiers