Strain identifier

BacDive ID: 12966

Type strain: Yes

Species: Pseudomonas furukawaii

Strain Designation: KF707

Strain history: <- K. Furukawa; KF 707

NCBI tax ID(s): 1149133 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 3795

BacDive-ID: 12966

DSM-Number: 10086

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

description: Pseudomonas furukawaii KF707 is an aerobe, mesophilic, Gram-negative bacterium that forms circular colonies and was isolated from soil near a biphenyl manufacturing plant.

NCBI tax id

  • NCBI tax id: 1149133
  • Matching level: species

strain history

  • @ref: 3795
  • history: <- K. Furukawa; KF 707

doi: 10.13145/bacdive12966.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Pseudomonadales
  • family: Pseudomonadaceae
  • genus: Pseudomonas
  • species: Pseudomonas furukawaii
  • full scientific name: Pseudomonas furukawaii Kimura et al. 2018

@ref: 3795

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Pseudomonadales

family: Pseudomonadaceae

genus: Pseudomonas

species: Pseudomonas furukawaii

full scientific name: Pseudomonas furukawaii Kimura et al. 2018

strain designation: KF707

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
65464negative1.5-2.0 µm0.7-0.9 µmrod-shapedyes
69480yes98.391
69480negative99.998

colony morphology

  • @ref: 65464
  • colony color: white
  • colony shape: circular

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3795REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)yeshttps://mediadive.dsmz.de/medium/535bName: REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b) Composition: Trypticase soy broth 30.0 g/l Casein peptone 17.0 g/l Agar 15.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l K2HPO4 2.5 g/l D(+)-Glucose 2.5 g/l Distilled water
3795MEDIUM WITH BIPHENYL (DSMZ Medium 457d)yeshttps://mediadive.dsmz.de/medium/457dName: MEDIUM WITH BIPHENYL (DSMZ Medium 457d) Composition: Na2HPO4 2.44 g/l KH2PO4 1.52 g/l (NH4)2SO4 0.5 g/l Biphenyl 0.25 g/l MgSO4 x 7 H2O 0.2 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 Na2MoO4 x 2 H2O 3e-05 g/l MnCl2 x 4 H2O 3e-05 g/l NiCl2 x 6 H2O 2e-05 g/l CuCl2 x 2 H2O 1e-05 g/l Distilled water
3795R2A 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
3795positivegrowth30mesophilic
65464positivegrowth30-37mesophilic
65464nogrowth42thermophilic
65464nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 65464
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
65464no
69481no100
69480no99.977

compound production

  • @ref: 3795
  • compound: 2,3 dihydroxybiphenyl dioxygenase

halophily

  • @ref: 65464
  • salt: NaCl
  • growth: no
  • tested relation: growth
  • concentration: 8 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6546427689decanoate-carbon source
6546416899D-mannitol-carbon source
6546416024D-mannose+assimilation
654645291gelatin+assimilation
6546417234glucose-builds acid from
6546417234glucose+assimilation
6546430849L-arabinose-carbon source
6546425115malate-carbon source
6546417306maltose+assimilation
65464506227N-acetylglucosamine+assimilation
6546417632nitrate+reduction
6546432032potassium gluconate-carbon source
6546453258sodium citrate+assimilation
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

@refChebi-IDmetaboliteproduction
6546435581indoleno
6836935581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
65464catalase+1.11.1.6
65464cytochrome oxidase+1.9.3.1
65464arginine dihydrolase-3.5.3.6
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase+3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    65464C10:00.43
    65464C12:03.32
    65464C16:08.16
    65464C18:00.27
    65464C14:1ω5c0.07
    65464C16:1ω9c1.84
    65464C18:1ω9c1.51
    65464C18:1ω7c1.18
    65464C17:1ω8c0.13
    65464C10:0 2OH0.09
    65464C10:0 3OH0.12
    65464C12:0 2OH0.04
    65464C12:0 3OH2.17
    65464C13:0 2OH0.28
    65464C11:0 iso 3OH1.4
    65464C12:0 iso 3OH0.11
    65464C13:0 iso 3OH3.52
    65464C17:0 cyclo0.15
    65464C16:1ω7c/C16:1ω6c3.07
    65464C11:0 anteiso0.57
    65464C13:0 anteiso0.67
    65464C15:0 anteiso40.13
    65464C17:0 anteiso4.52
    65464C18:0 iso0.09
    65464C19:0 iso0.44
    65464C16:1ω7c/C16:1ω6c11.28
    65464C11:0 anteiso0.04
    65464C13:0 anteiso0.07
    65464C15:0 anteiso9.01
    65464C17:0 anteiso0.32
  • type of FA analysis: whole cell analysis
  • incubation medium: nutrient broth
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation pH: 1
  • software version: Sherlock 6.0
  • system: MIS MIDI

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
3795+--+----+-----++-++++

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentgeographic locationenrichment culture compositionenrichment culture durationenrichment culture temperature
3795soil near a biphenyl manufacturing plantJapanJPNAsia
65464from biphenyl-contaminated sites in a biphenyl-manufacturing factoryJapanJPNAsiaKitakyushu(in g l^-1): 4.3 K2HPO4 ; 3.4 KH2PO4 ; 2.0 (NH4) SO4; 0.16 MgCl2 ; 0.001 MnCl2 4H2O; 0.0006 FeSO4 7H2O; 0.026 CaCl2 2H2O; and 0.02Na2MoO4 2H2O. Substrate (biphenyl or succinate) was added at a concentration of 1g l^-17 days30

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Plant (Factory)
#Environmental#Terrestrial#Soil

Sequence information

16S sequences

@refdescriptionaccessiondatabase
6546416S rRNA gene sequenceAB109887nuccore
6546416S rRNA gene sequenceAB039481nuccore
6546416S rRNA gene sequenceAP014862nuccore
6546416S rRNA gene sequenceAP014863nuccore

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Pseudomonas furukawaii KF707GCA_002355475completencbi1149133
66792Pseudomonas furukawaii KF707GCA_000262065scaffoldncbi1149133
66792Pseudomonas pseudoalcaligenes KF707 = NBRC 1106701149133.19completepatric1149133
66792Pseudomonas pseudoalcaligenes KF707 = NBRC 1106701149133.20plasmidpatric1149133
66792Pseudomonas furukawaii KF7072531839224draftimg1149133

GC content

  • @ref: 65464
  • GC-content: 60.5
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedyes87.808no
gram-positiveno98.717yes
anaerobicno98.326no
aerobicyes93.82yes
halophileno78.963no
spore-formingno96.085yes
glucose-utilyes88.258yes
thermophileno99.684no
motileyes91.857yes
glucose-fermentno91.173yes

External links

@ref: 3795

culture collection no.: DSM 10086, NBRC 110670

straininfo link

  • @ref: 82177
  • straininfo: 48745

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny29595413Pseudomonas furukawaii sp. nov., a polychlorinated biphenyl-degrading bacterium isolated from biphenyl-contaminated soil in Japan.Kimura N, Watanabe T, Suenaga H, Fujihara H, Futagami T, Goto M, Hanada S, Hirose JInt J Syst Evol Microbiol10.1099/ijsem.0.0026702018Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Environmental Pollution, Fatty Acids/chemistry, Japan, Nucleic Acid Hybridization, *Phylogeny, Polychlorinated Biphenyls/*metabolism, Pseudomonas/*classification/genetics/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Phylogeny30024361Some facts about the respiratory enzymes of Pseudomonas pseudoalcaligenes KF707 recently renamed as Pseudomonas furukawaii sp. nov., type strain KF707.Fedi S, Cappelletti M, Sandri F, Turner RJ, Zannoni DInt J Syst Evol Microbiol10.1099/ijsem.0.0029232018Bacterial Typing Techniques, Oxidation-Reduction, *Phylogeny, Pseudomonas pseudoalcaligenes/classification/*enzymologyEnzymology
Phylogeny30950783Pseudomonas urumqiensis sp. nov., isolated from rhizosphere soil of Alhagi sparsifolia.Zou Y, He S, Sun Y, Zhang X, Liu Y, Cheng QInt J Syst Evol Microbiol10.1099/ijsem.0.0033902019Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fabaceae/*microbiology, Fatty Acids/chemistry, Genes, Bacterial, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil MicrobiologyTranscriptome
Metabolism31137913Biphenyl/PCB Degrading bph Genes of Ten Bacterial Strains Isolated from Biphenyl-Contaminated Soil in Kitakyushu, Japan: Comparative and Dynamic Features as Integrative Conjugative Elements (ICEs).Hirose J, Fujihara H, Watanabe T, Kimura N, Suenaga H, Futagami T, Goto M, Suyama A, Furukawa KGenes (Basel)10.3390/genes100504042019Biphenyl Compounds/*metabolism/toxicity, Environmental Pollution/analysis, Gram-Negative Bacteria/drug effects/*metabolism, Proteobacteria/drug effects/metabolism, Pseudomonas putida/*metabolism, Soil Microbiology, Soil Pollutants/*metabolism/toxicityPathogenicity
Phylogeny31429815Pseudomonas mangiferae sp. nov., isolated from bark of mango tree in Thailand.Anurat P, Duangmal K, Srisuk NInt J Syst Evol Microbiol10.1099/ijsem.0.0036572019Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Mangifera/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Ubiquinone/chemistryTranscriptome
Phylogeny33174829Pseudomonas lalkuanensis sp. nov., isolated from a bacterial consortia of contaminated soil enriched for the remediation of e-waste.Thorat V, Kirdat K, Tiwarekar B, DaCosta E, Debbarma P, Shouche Y, Sathe S, Goel R, Lodha T, Yadav AInt J Syst Evol Microbiol10.1099/ijsem.0.0045592020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, *Electronic Waste, Fatty Acids/chemistry, Genes, Bacterial, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pseudomonas/*classification/isolation & purification, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, *Soil PollutantsTranscriptome
Enzymology34446553A poplar short-chain dehydrogenase reductase plays a potential key role in biphenyl detoxification.Contreras A, Merino I, Alvarez E, Bolonio D, Ortiz JE, Onate-Sanchez L, Gomez LProc Natl Acad Sci U S A10.1073/pnas.21033781182021Arabidopsis/*drug effects/growth & development/microbiology, *Biodegradation, Environmental, Plant Proteins/genetics/*metabolism, Polychlorinated Biphenyls/*metabolism, Populus/*enzymology, Pseudomonas/*physiology, Short Chain Dehydrogenase-Reductases/genetics/*metabolismMetabolism
34721309Predominant Biphenyl Dioxygenase From Legacy Polychlorinated Biphenyl (PCB)-Contaminated Soil Is a Part of Unusual Gene Cluster and Transforms Flavone and Flavanone.Suman J, Strejcek M, Zubrova A, Capek J, Wald J, Michalikova K, Hradilova M, Sredlova K, Semerad J, Cajthaml T, Uhlik OFront Microbiol10.3389/fmicb.2021.6447082021

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3795Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 10086)https://www.dsmz.de/collection/catalogue/details/culture/DSM-10086
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
65464Nobutada Kimura, Takahito Watanabe, Hikaru Suenaga, Hidehiko Fujihara, Taiki Futagami, Masatoshi Goto, Satoshi Hanada, Jun Hirose10.1099/ijsem.0.002670Pseudomonas furukawaii sp. nov., a polychlorinated biphenyl-degrading bacterium isolated from biphenyl-contaminated soil in JapanIJSEM 68: 1429-1435 201829595413
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
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
82177Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID48745.1StrainInfo: A central database for resolving microbial strain identifiers