Name: Pseudomonas furukawaii KF707
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 12966

Type strain:

Species: Pseudomonas furukawaii

Strain Designation: KF707

Culture col. no.: DSM 10086, NBRC 110670

Strain history: <- K. Furukawa; KF 707

NCBI tax ID(s): 1149133 (species)

SI-ID 48745

DSM 10086, KCTC 12118, NCIMB 13494

Section

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

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pseudomonadales*
	Family	*Pseudomonadaceae*
	Genus	*Pseudomonas*
	Species	**Pseudomonas furukawaii**
	Full Scientific Name (LPSN)	Pseudomonas furukawaii Kimura et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65464]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.998

[Ref.: #65464]	Cell length	1.5-2.0 µm

[Ref.: #65464]	Cell width	0.7-0.9 µm

[Ref.: #65464]	Cell shape	rod-shaped

[Ref.: #65464]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %98.391

[Ref.: #65464]	Colony color	white
[Ref.: #65464]	Colony shape	circular

Information on culture and growth conditions Culture and growth conditions

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Culture medium

REACTIVATION WITH LIQUID MEDIUM (DSMZ Medium 535b)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

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Culture medium

MEDIUM WITH BIPHENYL (DSMZ Medium 457d)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

R2A MEDIUM (DSMZ Medium 830)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

	Kind of temperature		Temperature
[Ref.: #3795]		growth	30 °C
[Ref.: #65464]		growth	30-37 °C
[Ref.: #65464]	no	growth	42 °C
[Ref.: #65464]	no	growth	45 °C

[Ref.: #3795]	Temperature range	mesophilic
[Ref.: #65464]	Temperature range	mesophilic
[Ref.: #65464]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

[Ref.: #65464]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.977

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Name of produced compound

2,3 dihydroxybiphenyl dioxygenase

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65464]		NaCl	no	growth	8	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #65464]	D-mannitol ChEBI	-	carbon source
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #65464]	D-mannose ChEBI	+	assimilation
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #65464]	decanoate ChEBI	-	carbon source
[Ref.: #68369]	decanoate ChEBI	+	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #65464]	gelatin ChEBI	+	assimilation
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	+	assimilation	* from API 20NE
[Ref.: #65464]	glucose ChEBI	-	builds acid from
[Ref.: #65464]	glucose ChEBI	+	assimilation
[Ref.: #65464]	L-arabinose ChEBI	-	carbon source
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #65464]	malate ChEBI	-	carbon source
[Ref.: #68369]	malate ChEBI	+	assimilation	* from API 20NE
[Ref.: #65464]	maltose ChEBI	+	assimilation
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #65464]	N-acetylglucosamine ChEBI	+	assimilation
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #65464]	nitrate ChEBI	+	reduction
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #65464]	potassium gluconate ChEBI	-	carbon source
[Ref.: #65464]	sodium citrate ChEBI	+	assimilation
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #65464]		indole ChEBI	no
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #65464]	arginine dihydrolase	-	3.5.3.6
[Ref.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE
[Ref.: #65464]	catalase	+	1.11.1.6
[Ref.: #65464]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #65464]

Fatty acid	Percentage
C15:0 anteiso	40.13
C16:1ω7c/C16:1ω6c	11.28
C15:0 anteiso	9.01
C16:0	8.16
C17:0 anteiso	4.52
C13:0 iso 3OH	3.52
C12:0	3.32
C16:1ω7c/C16:1ω6c	3.07
C12:0 3OH	2.17
C16:1ω9c	1.84
C18:1ω9c	1.51
C11:0 iso 3OH	1.4
C18:1ω7c	1.18
C13:0 anteiso	0.67
C11:0 anteiso	0.57
C19:0 iso	0.44
C10:0	0.43
C17:0 anteiso	0.32
C13:0 2OH	0.28
C18:0	0.27
C17:0 cyclo	0.15
C17:1ω8c	0.13
C10:0 3OH	0.12
C12:0 iso 3OH	0.11
C10:0 2OH	0.09
C18:0 iso	0.09
C14:1ω5c	0.07
C13:0 anteiso	0.07
C11:0 anteiso	0.04
C12:0 2OH	0.04

API® 20NE:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #3795]	22986	+	-	-	+	-	-	-	-	+	-	-	-	-	-	+	+	-	+	+	+	+

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #3795]	Sample type/isolated from	soil near a biphenyl manufacturing plant
[Ref.: #3795]	Country	Japan
[Ref.: #3795]	Country ISO 3 Code	JPN
[Ref.: #3795]	Continent	Asia

[Ref.: #65464]	Sample type/isolated from	from biphenyl-contaminated sites in a biphenyl-manufacturing factory
[Ref.: #65464]	Geographic location (country and/or sea, region)	Kitakyushu
[Ref.: #65464]	Country	Japan
[Ref.: #65464]	Country ISO 3 Code	JPN
[Ref.: #65464]	Continent	Asia
[Ref.: #65464]	Enrichment culture composition	(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^-1
[Ref.: #65464]	Enrichment culture duration	7 days
[Ref.: #65464]	Enrichment culture temperature	30 ̊C
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence database
[Ref.: #65464]	16S rRNA gene sequence	AB109887	GenBank
[Ref.: #65464]	16S rRNA gene sequence	AB039481	GenBank
[Ref.: #65464]	16S rRNA gene sequence	AP014862	GenBank
[Ref.: #65464]	16S rRNA gene sequence	AP014863	GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pseudomonas furukawaii KF707	GCA_002355475	complete	GenBank	1149133 tax ID	*
[Ref.: #66792]	Pseudomonas furukawaii KF707	GCA_000262065	scaffold	GenBank	1149133 tax ID	*
[Ref.: #66792]	Pseudomonas pseudoalcaligenes KF707 = NBRC 110670	1149133.19	complete	PATRIC	1149133 tax ID	*
[Ref.: #66792]	Pseudomonas pseudoalcaligenes KF707 = NBRC 110670	1149133.20	plasmid	PATRIC	1149133 tax ID	*
[Ref.: #66792]	Pseudomonas furukawaii KF707	2531839224	draft	JGI IMG/M	1149133 tax ID	*

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GC-content

60.5 mol%

sequence analysis

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Pseudomonas furukawaii KF707 NCBI: GCA_002355475.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pseudomonas furukawaii KF707 NCBI: GCA_002355475.1
[Ref.: #69480]	flagellated	yes	87.808	no
[Ref.: #69480]	gram-positive	no	98.717	yes
[Ref.: #69480]	anaerobic	no	98.326	no
[Ref.: #69480]	aerobic	yes	93.82	yes
[Ref.: #69480]	halophile	no	78.963	no
[Ref.: #69480]	spore-forming	no	96.085	yes
[Ref.: #69480]	glucose-util	yes	88.258	yes
[Ref.: #69480]	thermophile	no	99.684	no
[Ref.: #69480]	motile	yes	91.857	yes
[Ref.: #69480]	glucose-ferment	no	91.173	yes

Availability in culture collections External links

[Ref.: #3795]

Culture collection no.

DSM 10086, NBRC 110670

[Ref.: #82177]

SI-ID 48745

Literature:

Only first 10 entries are displayed. Click here to see all.

	Title	Authors	Journal	DOI	Year
Enzymology	A 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 L	Proc Natl Acad Sci U S A	10.1073/pnas.2103378118	2021	*
Phylogeny	Pseudomonas 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 A	Int J Syst Evol Microbiol	10.1099/ijsem.0.004559	2020	*
Phylogeny	Pseudomonas mangiferae sp. nov., isolated from bark of mango tree in Thailand.	Anurat P, Duangmal K, Srisuk N	Int J Syst Evol Microbiol	10.1099/ijsem.0.003657	2019	*
Metabolism	Biphenyl/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 K	Genes (Basel)	10.3390/genes10050404	2019	*
Phylogeny	Pseudomonas urumqiensis sp. nov., isolated from rhizosphere soil of Alhagi sparsifolia.	Zou Y, He S, Sun Y, Zhang X, Liu Y, Cheng Q	Int J Syst Evol Microbiol	10.1099/ijsem.0.003390	2019	*
Phylogeny	Some 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 D	Int J Syst Evol Microbiol	10.1099/ijsem.0.002923	2018	*
Phylogeny	Pseudomonas 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 J	Int J Syst Evol Microbiol	10.1099/ijsem.0.002670	2018	*
	Predominant 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 O	Front Microbiol	10.3389/fmicb.2021.644708	2021	*

References

#3795

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 10086

#20215

Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )

#65464

Nobutada Kimura, Takahito Watanabe, Hikaru Suenaga, Hidehiko Fujihara, Taiki Futagami, Masatoshi Goto, Satoshi Hanada, Jun Hirose: Pseudomonas furukawaii sp. nov., a polychlorinated biphenyl-degrading bacterium isolated from biphenyl-contaminated soil in Japan. IJSEM 68: 1429 - 1435 2018 ( DOI 10.1099/ijsem.0.002670 , PubMed 29595413 )

#66792

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#68369

Automatically annotated from API 20NE .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#82177

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID48745.1 )

* These data were automatically processed and therefore are not curated

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