Strain identifier

BacDive ID: 1989

Type strain: Yes

Species: Burkholderia contaminans

Strain Designation: J2956

Strain history: <- CCUG <- E. Vanlaere, LMG <- P. Vandamme, LMG <- J. Govan, Univ. Edinburgh, UK <- E. Berriatua

NCBI tax ID(s): 1334628 (strain), 488447 (species)

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General

@ref: 16476

BacDive-ID: 1989

DSM-Number: 22706

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

description: Burkholderia contaminans J2956 is an aerobe, mesophilic, Gram-negative human pathogen that has a yellow pigmentation and was isolated from milk of a sheep with mastitis.

NCBI tax id

NCBI tax idMatching level
488447species
1334628strain

strain history

  • @ref: 16476
  • history: <- CCUG <- E. Vanlaere, LMG <- P. Vandamme, LMG <- J. Govan, Univ. Edinburgh, UK <- E. Berriatua

doi: 10.13145/bacdive1989.20230509.8.1

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 contaminans
  • full scientific name: Burkholderia contaminans Vanlaere et al. 2009

@ref: 16476

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Burkholderia

species: Burkholderia contaminans

full scientific name: Burkholderia contaminans Vanlaere et al. 2009

strain designation: J2956

type strain: yes

Morphology

cell morphology

  • @ref: 23366
  • gram stain: negative
  • cell shape: rod-shaped

colony morphology

  • @ref: 23366
  • colony color: metallic sheen

pigmentation

  • @ref: 23366
  • production: yes
  • color: yellow

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
16476COLUMBIA 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
16476TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://mediadive.dsmz.de/medium/535Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
16476positivegrowth28mesophilic
23366positivegrowth30-42
60633positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
23366aerobe
60633aerobe

spore formation

  • @ref: 23366
  • spore formation: no

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2336617306maltose-assimilation
2336617128adipate+assimilation
2336627689decanoate+assimilation
2336616947citrate+assimilation
233668391D-gluconate+assimilation
2336616899D-mannitol+assimilation
2336616024D-mannose+assimilation
2336617234glucose+assimilation
2336630849L-arabinose+assimilation
2336615589L-malate+assimilation
23366506227N-acetylglucosamine+assimilation
2336618401phenylacetate+assimilation
2336615963ribitol+builds acid from
2336617234glucose+builds acid from
2336617716lactose+builds acid from
2336617306maltose+builds acid from
2336617992sucrose+builds acid from
2336618222xylose+builds acid from
233664853esculin+hydrolysis
2336617632nitrate+/-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
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
16476catalase+1.11.1.6
16476cytochrome-c oxidase+1.9.3.1
23366arginine dihydrolase-3.5.3.6
23366beta-galactosidase+3.2.1.23
23366beta-galactosidase+/-3.2.1.23
23366cytochrome oxidase+1.9.3.1
23366lysine decarboxylase+4.1.1.18
23366ornithine decarboxylase-4.1.1.17
23366ornithine decarboxylase+/-4.1.1.17
23366tryptophanase-4.1.99.1
23366urease-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_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
16476-----+++++++--++++++-
16476--+--+++++++--+++++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
16476milk of a sheep with mastitisSpainESPEurope
23366milk of a sheep with mastitis during an outbreak in 1999-2000
60633Sheep milk,mastitisSpainESPEurope

isolation source categories

Cat1Cat2Cat3
#Infection#Disease
#Host#Mammals#Caprinae (Sheep/Goat)
#Host Body Product#Fluids#Milk

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: JX986975
  • Sequence Identity:
  • Total samples: 5054
  • soil counts: 1055
  • aquatic counts: 564
  • animal counts: 1930
  • plant counts: 1505

Safety information

risk assessment

  • @ref: 16476
  • pathogenicity human: yes
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Burkholderia contaminans strain LMG 23361 16S ribosomal RNA gene, partial sequenceJX9869751485ena488447
16476Burkholderia sp. MS14 16S ribosomal RNA gene, partial sequenceEU9386971455ena557777

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Burkholderia contaminans LMG 23361GCA_000987075contigncbi1334628
66792Burkholderia contaminans LMG 233611334628.9wgspatric1334628
66792Burkholderia contaminans strain LMG 23361488447.10wgspatric488447
66792Burkholderia contaminans LMG 233612681812996draftimg1334628
66792Burkholderia contaminans LMG 233612916563313draftimg1334628
66792Burkholderia contaminans LMG 23361GCA_029633825completencbi488447
66792Burkholderia contaminans LMG 23361GCA_001758385contigncbi488447

GC content

@refGC-content
1647667
2336667.0

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileyes86.983no
flagellatedno77.537no
gram-positiveno97.762yes
anaerobicno98.517yes
aerobicyes92.2no
halophileno91.542no
spore-formingno91.835no
glucose-fermentno89.491no
thermophileno99.701yes
glucose-utilyes89.902yes

External links

@ref: 16476

culture collection no.: DSM 22706, CCUG 55526, LMG 23361

straininfo link

  • @ref: 71636
  • straininfo: 28924

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19126732Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp. nov. and Burkholderia lata sp. nov.Vanlaere E, Baldwin A, Gevers D, Henry D, De Brandt E, LiPuma JJ, Mahenthiralingam E, Speert DP, Dowson C, Vandamme PInt J Syst Evol Microbiol10.1099/ijs.0.001123-02009Animals, Bacterial Typing Techniques, Base Composition, Burkholderia Infections/microbiology/veterinary, Burkholderia cepacia complex/*classification/genetics/*isolation & purification/physiology, Cystic Fibrosis/*microbiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Female, Genome, Bacterial, Humans, Mastitis/microbiology/*veterinary, Nucleic Acid Hybridization, Phylogeny, Polymorphism, Restriction Fragment Length, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Sequence Analysis, DNA, Sheep, Sheep Diseases/*microbiology, Species SpecificityGenetics
Genetics26251482Draft Genome Sequences of Burkholderia contaminans, a Burkholderia cepacia Complex Species That Is Increasingly Recovered from Cystic Fibrosis Patients.Bloodworth RA, Selin C, Lopez De Volder MA, Drevinek P, Galanternik L, Degrossi J, Cardona STGenome Announc10.1128/genomeA.00766-152015
Genetics28428315Improved High-Quality Draft Genome Sequence and Annotation of Burkholderia contaminans LMG 23361(T).Jung JY, Ahn Y, Kweon O, LiPuma JJ, Hussong D, Marasa BS, Cerniglia CEGenome Announc10.1128/genomeA.00245-172017
Phylogeny30813526Potential of Novel Sequence Type of Burkholderia cenocepacia for Biological Control of Root Rot of Maize (Zea mays L.) Caused by Fusarium temperatum.Tagele SB, Kim SW, Lee HG, Lee YSInt J Mol Sci10.3390/ijms200510052019Alleles, Antifungal Agents/pharmacology, Base Sequence, Biomass, Burkholderia/*classification/isolation & purification, Fusarium/drug effects/pathogenicity/*physiology/ultrastructure, Indoleacetic Acids/metabolism, Microbial Sensitivity Tests, *Multilocus Sequence Typing, *Pest Control, Biological, Phosphates/metabolism, Phylogeny, Plant Development/drug effects, Plant Diseases/*microbiology, Plant Roots/drug effects/microbiology, Plant Shoots/drug effects/microbiology, RNA, Ribosomal, 16S/genetics, Solubility, Tryptophan/metabolism, Virulence/drug effects, Zea mays/*microbiology, Zinc/metabolismPathogenicity

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
16476Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 22706)https://www.dsmz.de/collection/catalogue/details/culture/DSM-22706
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
23366Elke Vanlaere, Adam Baldwin, Dirk Gevers, Deborah Henry, Evie De Brandt, John J. LiPuma, Eshwar Mahenthiralingam, David P. Speert, Chris Dowson, Peter Vandamme10.1099/ijs.0.001123-0Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp. nov. and Burkholderia lata sp. nov.IJSEM 59: 102-111 200919126732
60633Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 55526)https://www.ccug.se/strain?id=55526
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
71636Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID28924.1StrainInfo: A central database for resolving microbial strain identifiers