Piscinibacter defluvii (SH-1, KACC 18594, JCM 31230)

Name: Piscinibacter defluvii (SH-1, KACC 18594, JCM 31230)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133221

Type strain

Strain Designation SH-1

Culture col. no. SH-1 KACC 18594 JCM 31230

NCBI tax ID(s) 1796922

Special Collections JCM Literature strains

History JCM <-- C. O. Jeon; Chung-Ang Univ., South Korea; SH-1.

Links

Piscinibacter defluvii SH-1 is an aerobe, Gram-negative, motile bacterium that forms circular colonies and was isolated from sewage treatment plant.

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

Name and taxonomic classification

SI-ID 133304

JCM 31230

@ref 20215

Last LPSN update 2026-05-29 08:38:02

Domain Bacteria

Phylum Pseudomonadota

Class Betaproteobacteria

Order Burkholderiales

Family Sphaerotilaceae

Genus Piscinibacter

Species Piscinibacter defluvii

Full scientific name Piscinibacter defluvii Cho et al. 2016

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Flagellum arrangement	Confidence
25008	negative	1.8-2.1 µm	0.7-0.8 µm	rod-shaped		polar
125439	negative						94.901

Colony morphology

@ref	Colony color	Colony shape	Medium used
25008	Creamwhite to yellowish	circular	R2A

Culture and growth conditions

Culture medium

@ref	Name	Growth
25008	Reasoner's 2A agar (R2A)

Culture temp

@ref	Growth	Type	Temperature (°C)
25008	positive	growth	25-40
25008	positive	optimum	7
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH	PH range
25008	positive	optimum	7
25008	positive	growth	6.0-9.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
25008	aerobe
125439	obligate aerobe	99.85

Spore formation

@ref	Spore formation	Confidence
125439		99.18

Halophily

@ref	Salt	Growth	Tested relation	Concentration
25008	NaCl		optimum	0 %
25008	NaCl	positive	growth	0-0.5 %(w/v)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
25008	30916 ChEBI	2-oxoglutarate	+	respiration
25008	16724 ChEBI	4-hydroxybutyrate	+	respiration
25008	30089 ChEBI	acetate	+	respiration
25008	17128 ChEBI	adipate	-	assimilation
25008	2509 ChEBI	agar	-	hydrolysis
25008	40585 ChEBI	alpha-cyclodextrin	+	respiration
25008	17925 ChEBI	alpha-D-glucose	+	respiration
25008		casein	-	hydrolysis
25008	17634 ChEBI	D-glucose	-	assimilation
25008	16899 ChEBI	D-mannitol	-	assimilation
25008	16024 ChEBI	D-mannose	-	assimilation
25008	27689 ChEBI	decanoate	-	assimilation
25008	23652 ChEBI	dextrin	+	respiration
25008	4853 ChEBI	esculin	+	hydrolysis
25008	17234 ChEBI	glucose	-	fermentation
25008	28087 ChEBI	glycogen	+	respiration
25008	30849 ChEBI	L-arabinose	-	assimilation
25008	17196 ChEBI	L-asparagine	+	respiration
25008	25115 ChEBI	malate	-	assimilation
25008	17306 ChEBI	maltose	+	assimilation
25008	506227 ChEBI	N-acetylglucosamine	-	assimilation
25008	17632 ChEBI	nitrate	+	reduction
25008	18401 ChEBI	phenylacetate	-	assimilation
25008	32032 ChEBI	potassium gluconate	+	assimilation
25008	53258 ChEBI	sodium citrate	-	assimilation
25008	28017 ChEBI	starch	+	hydrolysis
25008	143136 ChEBI	succinamate	+	respiration
25008	27897 ChEBI	tryptophan	-	energy source
25008	53424 ChEBI	tween 20	+	hydrolysis
25008	53423 ChEBI	tween 40	-	respiration
25008	53426 ChEBI	tween 80	-	respiration
25008	53426 ChEBI	tween 80	+	hydrolysis
25008	18186 ChEBI	tyrosine	+	hydrolysis

Metabolite production

@ref	Chebi-ID	Metabolite	Production
25008	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Methylred-test	Indole test
25008	17234 ChEBI	glucose	-
25008	35581 ChEBI	indole		-

Enzymes

@ref	Value	Activity	Ec
25008	acid phosphatase	+	3.1.3.2
25008	alkaline phosphatase	+	3.1.3.1
25008	alpha-chymotrypsin	-	3.4.21.1
25008	alpha-fucosidase	-	3.2.1.51
25008	alpha-galactosidase	-	3.2.1.22
25008	alpha-glucosidase	+	3.2.1.20
25008	alpha-mannosidase	-	3.2.1.24
25008	beta-galactosidase	+	3.2.1.23
25008	beta-glucosidase	+	3.2.1.21
25008	beta-glucuronidase	-	3.2.1.31
25008	catalase	-	1.11.1.6
25008	cystine arylamidase	-	3.4.11.3
25008	cytochrome oxidase	+	1.9.3.1
25008	esterase (C 4)	+
25008	esterase lipase (C 8)	+
25008	leucine arylamidase	+	3.4.11.1
25008	lipase (C 14)	-
25008	N-acetyl-beta-glucosaminidase	-	3.2.1.52
25008	naphthol-AS-BI-phosphohydrolase	+
25008	trypsin	-	3.4.21.4
25008	tryptophan deaminase	-	4.1.99.1
25008	urease	+	3.5.1.5
25008	valine arylamidase	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Water treatment plant

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent	Enrichment culture duration	Enrichment culture temperature
25008	sewage treatment plant	Republic of Korea	KOR	Asia	3 days	37
67770	Activated sludge in Korea

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	ASM401180v1 assembly for Piscinibacter defluvii SH-1	scaffold	GCA_004011805	1796922.3	2881658920	1796922	48.66

16S sequences

@ref	Description	Accession	Database
25008	Piscinibacter defluvii strain SH-1 16S ribosomal RNA gene, partial sequence	KU667249

GC content

@ref	GC-content (mol%)	Method
25008	69.9	Thermal denaturation, fluorometry
67770	69.9	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM401180v1 assembly for Piscinibacter defluvii SH-1
NCBI: GCA_004011805

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.85	no
125439	gram_stain	BacteriaNetⓘ	negative	94.90	no
125439	motility	BacteriaNetⓘ	yes	70.50	no
125439	spore_formation	BacteriaNetⓘ	no	99.18	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Calidifontimicrobium sediminis gen. nov., sp. nov., a new member of the family Comamonadaceae.	Ding YP, Khan IU, Li MM, Xian WD, Liu L, Zhou EM, Salam N, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003167	2019
Phylogeny	Piscinibacter caeni sp. nov., isolated from activated sludge.	Chen DZ, Yu NN, Chu QY, Chen J, Ye JX, Cheng ZW, Zhang SH, Chen JM	Int J Syst Evol Microbiol	10.1099/ijsem.0.002891	2018
Phylogeny	Piscinibacter defluvii sp. nov., isolated from a sewage treatment plant, and emended description of the genus Piscinibacter Stackebrandt et al. 2009.	Cho SH, Lee HJ, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijsem.0.001438	2016

References

#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 )
#25008	S. H. L. Cho, H. J.,Jeon, C. O.: Piscinibacter defluvii sp. nov., isolated from a sewage treatment plant, and emended description of the genus Piscinibacter Stackebrandt et al. 2009. IJSEM 66: 4839 - 4843 2016 ( DOI 10.1099/ijsem.0.001438 , PubMed 27550187 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

Content

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Piscinibacter defluvii (SH-1, KACC 18594, JCM 31230)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_004011805

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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