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	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacteroidota*
	Class	*Sphingobacteriia*
	Order	*Sphingobacteriales*
	Family	*Sphingobacteriaceae*
	Genus	*Pedobacter*
	Species	**Pedobacter quisquiliarum**
	Full Scientific Name (LPSN)	Pedobacter quisquiliarum Zhang et al. 2018

Information on morphological and physiological properties Morphology

[Ref.: #65319]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.989

[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.: #69480]	Motility	no Confidence in %90.594

[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

[Ref.: #65319]

Culture medium

Reasoner's 2A agar (R2A)

[Ref.: #65319]

Culture medium growth

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

[Ref.: #65319]

Temperature range

mesophilic

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

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65319]

Oxygen tolerance

aerobe

[Ref.: #65319]	Ability of spore formation	no
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.998
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	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
[Ref.: #65319]	acetoin ChEBI	no
[Ref.: #65319]	hydrogen sulfide ChEBI	no
[Ref.: #65319]	indole ChEBI	no

	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	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.: #65319]

GC-content

43.2 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: Pedobacter quisquiliarum strain CGMCC 1.15343 PATRIC: 1834438.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Pedobacter quisquiliarum strain CGMCC 1.15343 PATRIC: 1834438.3
[Ref.: #69480]	motile	no	89.372	no
[Ref.: #69480]	gram-positive	no	96.509	yes
[Ref.: #69480]	anaerobic	no	99.283	yes
[Ref.: #69480]	aerobic	yes	89.375	yes
[Ref.: #69480]	halophile	no	91.635	no
[Ref.: #69480]	spore-forming	no	95.955	no
[Ref.: #69480]	glucose-util	yes	90.735	no
[Ref.: #69480]	flagellated	no	95.79	yes
[Ref.: #69480]	thermophile	no	99.184	no
[Ref.: #69480]	glucose-ferment	no	89.585	no

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) .

#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

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Pedobacter quisquiliarum in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Pedobacter quisquiliarum strain CGMCC 1.15343

Pedobacter quisquiliarum strain CGMCC 1.15343

Change proposal

Change proposal