Strain identifier

BacDive ID: 1943

Type strain: Yes

Species: Paraburkholderia kururiensis

Strain Designation: KP23

Strain history: CIP <- 2001, JCM <- Y. Kamagata: strain KP23

NCBI tax ID(s): 1236956 (strain), 984307 (species)

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General

@ref: 4939

BacDive-ID: 1943

DSM-Number: 13646

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

description: Paraburkholderia kururiensis KP23 is an aerobe, mesophilic, motile bacterium that was isolated from aquifer sample from TCE polluted site.

NCBI tax id

NCBI tax idMatching level
1236956strain
984307species

strain history

@refhistory
4939<- JCM <- Y. Kamagata; KP23
67770Y. Kamagata KP23.
120516CIP <- 2001, JCM <- Y. Kamagata: strain KP23

doi: 10.13145/bacdive1943.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Burkholderiaceae
  • genus: Paraburkholderia
  • species: Paraburkholderia kururiensis
  • full scientific name: Paraburkholderia kururiensis (Zhang et al. 2000) Sawana et al. 2015

  • synonyms

    • @ref: 20215
    • synonym: Burkholderia kururiensis

@ref: 4939

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Burkholderiaceae

genus: Paraburkholderia

species: Paraburkholderia kururiensis

full scientific name: Paraburkholderia kururiensis (Zhang et al. 2000) Sawana et al. 2015

strain designation: KP23

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes92.14
6948099.91negative
120516nonegativerod-shaped

colony morphology

  • @ref: 55989
  • incubation period: 2-3 days

pigmentation

  • @ref: 120516
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
4939CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
4939MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457)yeshttps://mediadive.dsmz.de/medium/457Name: MINERAL MEDIUM (BRUNNER) (DSMZ Medium 457; with strain-specific modifications) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l MgSO4 x 7 H2O 0.2 g/l Phenol 0.15 g/l CaCl2 x 2 H2O 0.05 g/l EDTA 0.005 g/l FeSO4 x 7 H2O 0.002 g/l H3BO3 0.0003 g/l CoCl2 x 6 H2O 0.0002 g/l ZnSO4 x 7 H2O 0.0001 g/l MnCl2 x 4 H2O 3e-05 g/l Na2MoO4 x 2 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
4939TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium535.pdf
4939TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)yeshttps://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium545.pdf
41962MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
120516CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
4939positivegrowth30mesophilic
41962positivegrowth37mesophilic
55989positivegrowth30mesophilic
67770positivegrowth37mesophilic
4939positivegrowth28mesophilic
120516positivegrowth25-41
120516nogrowth5psychrophilic
120516nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
55989aerobe
120516facultative anaerobe

spore formation

@refspore formationconfidence
69481no90
69480no99.996

halophily

@refsaltgrowthtested relationconcentration
120516NaClpositivegrowth0-4 %
120516NaClnogrowth6 %
120516NaClnogrowth8 %
120516NaClnogrowth10 %

observation

  • @ref: 67770
  • observation: quinones: Q-8

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12051616947citrate+carbon source
1205164853esculin+hydrolysis
12051617632nitrate+reduction
12051616301nitrite+reduction
12051617632nitrate+respiration

antibiotic resistance

  • @ref: 120516
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120516
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase+3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
120516oxidase-
120516beta-galactosidase+3.2.1.23
120516alcohol dehydrogenase-1.1.1.1
120516gelatinase+
120516amylase+
120516DNase+
120516caseinase+3.4.21.50
120516catalase+1.11.1.6
120516tween esterase-
120516lecithinase+
120516lipase-
120516lysine decarboxylase-4.1.1.18
120516ornithine decarboxylase-4.1.1.17
120516protease-
120516tryptophan deaminase-
120516urease+3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120516-+++-+----++----+---

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
120516+++++----++--+-+--++++-++-+++--+++--++-----------+++-+++++-+++++++--++++-+-+---++---+-+-++++-++--+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
4939aquifer sample from TCE polluted siteKururiJapanJPNAsia
55989Aquifer,trichloroethylene polluted siteKururi Chiba PrefectureJapanJPNAsia1996
67770Aquifer sample collected from a TCE polluted siteKururi, Chiba Pref.JapanJPNAsia
120516Aquifer sample collected from a TCE-polluted siteKururi, ChibaJapanJPNAsia1996

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Groundwater

taxonmaps

  • @ref: 69479
  • File name: preview.99_3655.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_12;96_153;97_2273;98_2796;99_3655&stattab=map
  • Last taxonomy: Paraburkholderia kururiensis subclade
  • 16S sequence: AB024310
  • Sequence Identity:
  • Total samples: 3195
  • soil counts: 1489
  • aquatic counts: 495
  • animal counts: 393
  • plant counts: 818

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
49391Risk group (German classification)
1205161Risk group (French classification)

Sequence information

16S sequences

  • @ref: 4939
  • description: Burkholderia kururiensis gene for 16S ribosomal RNA
  • accession: AB024310
  • length: 1461
  • database: ena
  • NCBI tax ID: 984307

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Paraburkholderia kururiensis JCM 10599 = LMG 19447GCA_902833705contigncbi1236956
66792Paraburkholderia kururiensis JCM 10599 = LMG 19447 KP23GCA_003986935contigncbi1236956
66792Paraburkholderia kururiensis JCM 10599 = LMG 19447GCA_000616025contigncbi1236956
66792Burkholderia kururiensis JCM 105991236956.7wgspatric1236956
66792Paraburkholderia kururiensis JCM 10599 = LMG 194471236956.13wgspatric1236956
66792Paraburkholderia kururiensis strain KP23984307.21wgspatric984307
66792Paraburkholderia kururiensis JCM 105992579778690draftimg1236956

GC content

  • @ref: 4939
  • GC-content: 64.8
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno90no
motileyes85.211no
gram-positiveno98.064no
anaerobicno98.349yes
aerobicyes83.264yes
halophileno96.366no
spore-formingno93.36no
glucose-utilyes89.071no
flagellatedno80.627no
thermophileno99.1no
glucose-fermentno90.409no

External links

@ref: 4939

culture collection no.: DSM 13646, ATCC 700977, CCUG 43663, CIP 106643, JCM 10599, LMG 19447, CCM 7121, CGMCC 1.10442

straininfo link

  • @ref: 71588
  • straininfo: 13210

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny10758884Burkholderia kururiensis sp. nov., a trichloroethylene (TCE)-degrading bacterium isolated from an aquifer polluted with TCE.Zhang H, Hanada S, Shigematsu T, Shibuya K, Kamagata Y, Kanagawa T, Kurane RInt J Syst Evol Microbiol10.1099/00207713-50-2-7432000Bacterial Typing Techniques, Benzoquinones/analysis, Biodegradation, Environmental, Burkholderia/*classification/isolation & purification/metabolism/ultrastructure, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Genes, rRNA, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Trichloroethylene/*metabolism, *Water Microbiology, Water Pollutants, Chemical/*metabolism, *Water SupplyMetabolism
Phylogeny19841903Mixotrophic metabolism in Burkholderia kururiensis subsp. thiooxydans subsp. nov., a facultative chemolithoautotrophic thiosulfate oxidizing bacterium isolated from rhizosphere soil and proposal for classification of the type strain of Burkholderia kururiensis as Burkholderia kururiensis subsp. kururiensis subsp. nov.Anandham R, Indira Gandhi P, Kwon SW, Sa TM, Kim YK, Jee HJArch Microbiol10.1007/s00203-009-0517-42009Burkholderia/*classification/genetics/growth & development/*metabolism, Chemoautotrophic Growth/*physiology, DNA, Bacterial/chemistry/genetics, Nucleic Acid Hybridization, Oxidation-Reduction, Phenotype, Phylogeny, Soil Microbiology, Thiosulfates/*metabolismMetabolism

Reference

@idauthorscataloguedoi/urltitle
4939Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 13646)https://www.dsmz.de/collection/catalogue/details/culture/DSM-13646
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
41962Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18796
55989Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 43663)https://www.ccug.se/strain?id=43663
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)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.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
71588Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID13210.1StrainInfo: A central database for resolving microbial strain identifiers
120516Curators of the CIPCollection of Institut Pasteur (CIP 106643)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106643