Name: Piscinibacter defluvii SH-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133221

Type strain:

Species: Piscinibacter defluvii

Strain Designation: SH-1

Culture col. no.: KACC 18594, JCM 31230

Strain history: C. O. Jeon; Chung-Ang Univ., South Korea; SH-1.

NCBI tax ID(s): 1796922 (species)

Section

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

colony-forming
Gram-negative
motile
rod-shaped
aerobe
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	*Betaproteobacteria*
	Order	*Burkholderiales*
	Family	[Burkholderiales, not assigned to family]
	Genus	*Piscinibacter*
	Species	**Piscinibacter defluvii**
	Full Scientific Name (LPSN)	Piscinibacter defluvii Cho et al. 2016

Information on morphological and physiological properties Morphology

[Ref.: #25008]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #25008]	Cell length	1.8-2.1 µm

[Ref.: #25008]	Cell width	0.7-0.8 µm

[Ref.: #25008]	Cell shape	rod-shaped

[Ref.: #25008]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %92.263

[Ref.: #25008]	Flagellum arrangement	polar

[Ref.: #25008]	Colony color	Creamwhite to yellowish
[Ref.: #25008]	Colony shape	circular
[Ref.: #25008]	Cultivation medium used	R2A

Information on culture and growth conditions Culture and growth conditions

[Ref.: #25008]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #25008]

Culture medium growth

		Temperature
[Ref.: #25008]	growth	25-40 °C
[Ref.: #25008]	optimum	7 °C
[Ref.: #67770]	growth	30 °C

[Ref.: #25008]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #25008]			optimum	7
[Ref.: #25008]			growth	6.0-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #25008]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.825

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #25008]		NaCl		optimum	0	%
[Ref.: #25008]		NaCl		growth	0-0.5	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #25008]	2-oxoglutarate ChEBI	+	respiration
[Ref.: #25008]	4-hydroxybutyrate ChEBI	+	respiration
[Ref.: #25008]	acetate ChEBI	+	respiration
[Ref.: #25008]	adipate ChEBI	-	assimilation
[Ref.: #25008]	agar ChEBI	-	hydrolysis
[Ref.: #25008]	alpha-cyclodextrin ChEBI	+	respiration
[Ref.: #25008]	alpha-D-glucose ChEBI	+	respiration
[Ref.: #25008]	casein	-	hydrolysis
[Ref.: #25008]	D-glucose ChEBI	-	assimilation
[Ref.: #25008]	D-mannitol ChEBI	-	assimilation
[Ref.: #25008]	D-mannose ChEBI	-	assimilation
[Ref.: #25008]	decanoate ChEBI	-	assimilation
[Ref.: #25008]	dextrin ChEBI	+	respiration
[Ref.: #25008]	esculin ChEBI	+	hydrolysis
[Ref.: #25008]	glucose ChEBI	-	fermentation
[Ref.: #25008]	glycogen ChEBI	+	respiration
[Ref.: #25008]	L-arabinose ChEBI	-	assimilation
[Ref.: #25008]	L-asparagine ChEBI	+	respiration
[Ref.: #25008]	malate ChEBI	-	assimilation
[Ref.: #25008]	maltose ChEBI	+	assimilation
[Ref.: #25008]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #25008]	nitrate ChEBI	+	reduction
[Ref.: #25008]	phenylacetate ChEBI	-	assimilation
[Ref.: #25008]	potassium gluconate ChEBI	+	assimilation
[Ref.: #25008]	sodium citrate ChEBI	-	assimilation
[Ref.: #25008]	starch ChEBI	+	hydrolysis
[Ref.: #25008]	succinamate ChEBI	+	respiration
[Ref.: #25008]	tryptophan ChEBI	-	energy source
[Ref.: #25008]	tween 20 ChEBI	+	hydrolysis
[Ref.: #25008]	tween 40 ChEBI	-	respiration
[Ref.: #25008]	tween 80 ChEBI	-	respiration
[Ref.: #25008]	tween 80 ChEBI	+	hydrolysis
[Ref.: #25008]	tyrosine ChEBI	+	hydrolysis
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #25008]		indole ChEBI	no

	Physiological tests	Metabolite	Methylred-test	Indole test
[Ref.: #25008]		glucose ChEBI	-
[Ref.: #25008]		indole ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #25008]	acid phosphatase	+	3.1.3.2
[Ref.: #25008]	alkaline phosphatase	+	3.1.3.1
[Ref.: #25008]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #25008]	alpha-fucosidase	-	3.2.1.51
[Ref.: #25008]	alpha-galactosidase	-	3.2.1.22
[Ref.: #25008]	alpha-glucosidase	+	3.2.1.20
[Ref.: #25008]	alpha-mannosidase	-	3.2.1.24
[Ref.: #25008]	beta-galactosidase	+	3.2.1.23
[Ref.: #25008]	beta-glucosidase	+	3.2.1.21
[Ref.: #25008]	beta-glucuronidase	-	3.2.1.31
[Ref.: #25008]	catalase	-	1.11.1.6
[Ref.: #25008]	cystine arylamidase	-	3.4.11.3
[Ref.: #25008]	cytochrome oxidase	+	1.9.3.1
[Ref.: #25008]	esterase (C 4)	+
[Ref.: #25008]	esterase lipase (C 8)	+
[Ref.: #25008]	leucine arylamidase	+	3.4.11.1
[Ref.: #25008]	lipase (C 14)	-
[Ref.: #25008]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #25008]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #25008]	trypsin	-	3.4.21.4
[Ref.: #25008]	tryptophan deaminase	-	4.1.99.1
[Ref.: #25008]	urease	+	3.5.1.5
[Ref.: #25008]	valine arylamidase	-
	Only first 10 entries are displayed. Click here to see all.

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

[Ref.: #25008]	Sample type/isolated from	sewage treatment plant
[Ref.: #25008]	Country	Republic of Korea
[Ref.: #25008]	Country ISO 3 Code	KOR
[Ref.: #25008]	Continent	Asia
[Ref.: #25008]	Enrichment culture duration	3 days
[Ref.: #25008]	Enrichment culture temperature	37 ̊C

[Ref.: #67770]	Sample type/isolated from	Activated sludge in Korea
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Water treatment plant

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 length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #25008]	16S rRNA	KU667249		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Piscinibacter defluvii SH-1	GCA_004011805	scaffold	GenBank	1796922 tax ID
[Ref.: #66792]	Piscinibacter defluvii SH-1	2881658920	draft	JGI IMG/M	1796922 tax ID	*

[Ref.: #25008]	GC-content	69.9 mol%	Thermal denaturation, fluorometry
[Ref.: #67770]	GC-content	69.9 mol%	thermal denaturation, midpoint method (Tm)

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: Piscinibacter defluvii SH-1 NCBI: GCA_004011805.1
[Ref.: #69481]	spore-forming	no	100	no

Availability in culture collections External links

[Ref.: #25008]

Culture collection no.

KACC 18594, JCM 31230

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 )

#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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 )

* These data were automatically processed and therefore are not curated

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