Name: Pedobacter quisquiliarum C62-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158603

Type strain:

Species: Pedobacter quisquiliarum

Strain Designation: C62-2

Culture col. no.: CGMCC 1.15343, NBRC 111767

NCBI tax ID(s): 1834438 (species)

Section

Pedobacter quisquiliarum C62-2 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from activated sludge.

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

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

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Pedobacter*
	Species	**Pedobacter quisquiliarum**
	Full Scientific Name (PNU)	Pedobacter quisquiliarum Zhang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65319]	Gram stain	negative
[Ref.: #65319]	Cell length	0.7-1.8 µm
[Ref.: #65319]	Cell width	0.45-0.68 µm
[Ref.: #65319]	Cell shape	rod-shaped
[Ref.: #65319]	Motility	no

[Ref.: #65319]	Colony size	1 mm
[Ref.: #65319]	Colony color	light-yellow
[Ref.: #65319]	Colony shape	circular
[Ref.: #65319]	Incubation period	3 days
[Ref.: #65319]	Cultivation medium used	R2A

[Ref.: #65319]	Pigment production	no
[Ref.: #65319]	Pigment name	flexirubin-type pigments

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #65319]			growth	20-37 °C
[Ref.: #65319]			optimum	30 °C

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Temperature range

mesophilic

	pH	Kind of pH		pH	pH range
[Ref.: #65319]			optimum	7
[Ref.: #65319]			growth	5-8

Information on physiology and metabolism Physiology and metabolism

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Oxygen tolerance

aerobe

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Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65319]		NaCl		growth	0-3	%(w/v)
[Ref.: #65319]		NaCl		optimum	0	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65319]	2-dehydro-D-gluconate ChEBI	+	builds acid from
[Ref.: #65319]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #65319]	amygdalin ChEBI	+	builds acid from
[Ref.: #65319]	arbutin ChEBI	+	builds acid from
[Ref.: #65319]	cellobiose ChEBI	+	builds acid from
[Ref.: #65319]	D-arabinose ChEBI	-	builds acid from
[Ref.: #65319]	D-arabitol ChEBI	-	builds acid from
[Ref.: #65319]	D-fructose ChEBI	+	builds acid from
[Ref.: #65319]	D-fucose ChEBI	-	builds acid from
[Ref.: #65319]	D-galactose ChEBI	+	builds acid from
[Ref.: #65319]	D-glucose ChEBI	+	builds acid from
[Ref.: #65319]	D-lyxose ChEBI	+	builds acid from
[Ref.: #65319]	D-mannose ChEBI	+	builds acid from
[Ref.: #65319]	D-ribose ChEBI	-	builds acid from
[Ref.: #65319]	D-tagatose ChEBI	-	builds acid from
[Ref.: #65319]	D-xylose ChEBI	+	builds acid from
[Ref.: #65319]	erythritol ChEBI	-	builds acid from
[Ref.: #65319]	esculin ChEBI	+	builds acid from
[Ref.: #65319]	esculin ChEBI	+	hydrolysis
[Ref.: #65319]	galactitol ChEBI	-	builds acid from
[Ref.: #65319]	gentiobiose ChEBI	+	builds acid from
[Ref.: #65319]	gluconate ChEBI	+	builds acid from
[Ref.: #65319]	glucose ChEBI	-	fermentation
[Ref.: #65319]	glycerol ChEBI	-	builds acid from
[Ref.: #65319]	glycogen ChEBI	-	builds acid from
[Ref.: #65319]	inulin ChEBI	+	builds acid from
[Ref.: #65319]	L-arabinose ChEBI	+	builds acid from
[Ref.: #65319]	L-arabitol ChEBI	-	builds acid from
[Ref.: #65319]	L-sorbose ChEBI	-	builds acid from
[Ref.: #65319]	L-xylose ChEBI	-	builds acid from
[Ref.: #65319]	lactose ChEBI	+	builds acid from
[Ref.: #65319]	maltose ChEBI	+	builds acid from
[Ref.: #65319]	mannitol ChEBI	-	builds acid from
[Ref.: #65319]	melezitose ChEBI	+	builds acid from
[Ref.: #65319]	melibiose ChEBI	+	builds acid from
[Ref.: #65319]	methyl alpha-D-mannoside ChEBI	-	builds acid from
[Ref.: #65319]	methyl beta-D-xylopyranoside ChEBI	-	builds acid from
[Ref.: #65319]	methyl D-glucoside ChEBI	+	builds acid from
[Ref.: #65319]	myo-inositol ChEBI	-	builds acid from
[Ref.: #65319]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #65319]	nitrate ChEBI	-	reduction
[Ref.: #65319]	raffinose ChEBI	+	builds acid from
[Ref.: #65319]	ribitol ChEBI	-	builds acid from
[Ref.: #65319]	salicin ChEBI	+	builds acid from
[Ref.: #65319]	sorbitol ChEBI	-	builds acid from
[Ref.: #65319]	starch ChEBI	+	builds acid from
[Ref.: #65319]	sucrose ChEBI	+	builds acid from
[Ref.: #65319]	trehalose ChEBI	+	builds acid from
[Ref.: #65319]	turanose ChEBI	+	builds acid from
[Ref.: #65319]	tween 80 ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite
[Ref.: #65319]		acetoin ChEBI
[Ref.: #65319]		hydrogen sulfide ChEBI
[Ref.: #65319]		indole ChEBI

	Physiological tests	Metabolite	Voges-Proskauer-test
[Ref.: #65319]		acetoin ChEBI	-

	Enzyme	Enzyme activity	EC number
[Ref.: #65319]	acid phosphatase	+	3.1.3.2
[Ref.: #65319]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65319]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65319]	alpha-fucosidase	-	3.2.1.51
[Ref.: #65319]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65319]	alpha-glucosidase	-	3.2.1.20
[Ref.: #65319]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65319]	arginine dihydrolase	-	3.5.3.6
[Ref.: #65319]	beta-galactosidase	-	3.2.1.23
[Ref.: #65319]	beta-glucosidase	-	3.2.1.21
[Ref.: #65319]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65319]	catalase	+	1.11.1.6
[Ref.: #65319]	cystine arylamidase	-	3.4.11.3
[Ref.: #65319]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65319]	esterase (C 4)	+
[Ref.: #65319]	esterase Lipase (C 8)	+
[Ref.: #65319]	leucine arylamidase	+	3.4.11.1
[Ref.: #65319]	lipase (C 14)	-
[Ref.: #65319]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #65319]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65319]	urease	-	3.5.1.5
[Ref.: #65319]	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.: #65319]	Sample type/isolated from	activated sludge
[Ref.: #65319]	Geographic location (country and/or sea, region)	Shanghang county, Fujian Province
[Ref.: #65319]	Country	China
[Ref.: #65319]	Country ISO 3 Code	CHN
[Ref.: #65319]	Continent	Asia
[Ref.: #65319]	Geographic location	25.6286°/116.8200°
[Ref.: #65319]	Enrichment culture	R2A
[Ref.: #65319]	Enrichment culture temperature	30 ̊C
[Ref.: #65319]	Isolation/enrichment procedure	Activated sludge (1 g) was incubated at 30°C using R2A agar (Difco). After enriching three times, the enriched culture was serially diluted (10-fold) intubes containing 0.9 ml of R2A broth. Aliquots of 0.2 ml were spread on R2A agar plates to cultivate separated colonies.
* marker position based on {}

Isolation sources categories

#Engineered

#Waste

#Activated sludge

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.: #65319]	16S rRNA gene sequence	KU973598		GenBank

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Pedobacter quisquiliarum CGMCC 1.15343	GCA_014642175	contig	GenBank	1834438 tax ID	*
[Ref.: #66792]	Pedobacter quisquiliarum strain CGMCC 1.15343	1834438.3	wgs	PATRIC	1834438 tax ID	*
[Ref.: #66792]	Staphylococcus aureus GDX8P113A-1	GCA_024915835	scaffold	PATRIC	1280 tax ID	*

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GC-content

43.2 mol%

thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #65319]

Culture collection no.

CGMCC 1.15343, NBRC 111767

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pedobacter quisquiliarum sp. nov., isolated from activated sludge.	Zhang B, Liu ZQ, Zheng YG	Int J Syst Evol Microbiol	10.1099/ijsem.0.002531	2017	*

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 )

#65319

Bo Zhang, Zhi-Qiang Liu, Yu-Guo Zheng: Pedobacter quisquiliarum sp. nov., isolated from activated sludge. IJSEM 68: 438 - 442 2018 ( DOI 10.1099/ijsem.0.002531 , PubMed 29231155 )

#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) .

#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) .

* These data were automatically processed and therefore are not curated

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