Name: Pedobacter solisilvae EN12
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 158756

Type strain:

Species: Pedobacter solisilvae

Strain Designation: EN12

Culture col. no.: KCTC 42612, LMG 28820

Strain history: <- Jae-Chang Cho, Hankuk Univ. of Foreign Studies

NCBI tax ID(s): 1707435 (species)

Section

Pedobacter solisilvae EN12 is an obligate aerobe, Gram-negative, rod-shaped bacterium that was isolated from forest soil.

Gram-negative
rod-shaped
obligate aerobe
16S sequence
Bacteria

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 solisilvae**
	Full Scientific Name (LPSN)	Pedobacter solisilvae Yang and Hong 2017

Information on morphological and physiological properties Morphology

[Ref.: #65508]	Gram stain	negative

[Ref.: #65508]	Cell length	1.3-2.0 µm

[Ref.: #65508]	Cell width	0.4-0.5 µm

[Ref.: #65508]	Cell shape	rod-shaped

[Ref.: #65508]	Motility	no

[Ref.: #65508]	Colony size	1.4-4.0 mm
[Ref.: #65508]	Colony color	yellow
[Ref.: #65508]	Incubation period	2 days
[Ref.: #65508]	Cultivation medium used	TSA

Information on culture and growth conditions Culture and growth conditions

[Ref.: #65508]

Culture medium

Trypticase Soy Agar (TSA)

[Ref.: #65508]

Culture medium growth

		Temperature
[Ref.: #65508]	growth	15-35 °C
[Ref.: #65508]	optimum	28 °C
[Ref.: #67771]	growth	25-30 °C

[Ref.: #65508]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #65508]			optimum	7.0
[Ref.: #65508]			growth	5.5-9.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #65508]	Oxygen tolerance	obligate aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #65508]		NaCl		growth	0.0-1.5	%(w/v)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #65508]	2-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #65508]	5-dehydro-D-gluconate ChEBI	-	assimilation
[Ref.: #65508]	adipate ChEBI	-	assimilation
[Ref.: #65508]	amygdalin ChEBI	+	assimilation
[Ref.: #65508]	arbutin ChEBI	-	assimilation
[Ref.: #65508]	cellobiose ChEBI	-	assimilation
[Ref.: #65508]	citrate ChEBI	-	assimilation
[Ref.: #65508]	D-arabinose ChEBI	+	assimilation
[Ref.: #65508]	D-arabitol ChEBI	-	assimilation
[Ref.: #65508]	D-fructose ChEBI	-	assimilation
[Ref.: #65508]	D-fucose ChEBI	-	assimilation
[Ref.: #65508]	D-glucose ChEBI	+	assimilation
[Ref.: #65508]	D-lyxose ChEBI	-	assimilation
[Ref.: #65508]	D-mannose ChEBI	+	assimilation
[Ref.: #65508]	D-tagatose ChEBI	-	assimilation
[Ref.: #65508]	D-xylose ChEBI	+	assimilation
[Ref.: #65508]	decanoate ChEBI	-	assimilation
[Ref.: #65508]	erythritol ChEBI	-	assimilation
[Ref.: #65508]	esculin ChEBI	+	hydrolysis
[Ref.: #65508]	galactitol ChEBI	-	assimilation
[Ref.: #65508]	galactose ChEBI	-	assimilation
[Ref.: #65508]	gelatin ChEBI	-
[Ref.: #65508]	gentiobiose ChEBI	+	assimilation
[Ref.: #65508]	gluconate ChEBI	-	assimilation
[Ref.: #65508]	glycerol ChEBI	-	assimilation
[Ref.: #65508]	glycogen ChEBI	-	assimilation
[Ref.: #65508]	inulin ChEBI	-	assimilation
[Ref.: #65508]	L-arabinose ChEBI	-	assimilation
[Ref.: #65508]	L-arabitol ChEBI	-	assimilation
[Ref.: #65508]	L-fucose ChEBI	+	assimilation
[Ref.: #65508]	L-sorbose ChEBI	-	assimilation
[Ref.: #65508]	L-xylose ChEBI	-	assimilation
[Ref.: #65508]	lactose ChEBI	-	assimilation
[Ref.: #65508]	malate ChEBI	-	assimilation
[Ref.: #65508]	maltose ChEBI	+	assimilation
[Ref.: #65508]	mannitol ChEBI	-	assimilation
[Ref.: #65508]	melezitose ChEBI	-	assimilation
[Ref.: #65508]	melibiose ChEBI	+	assimilation
[Ref.: #65508]	methyl alpha-D-mannoside ChEBI	-	assimilation
[Ref.: #65508]	methyl beta-D-xylopyranoside ChEBI	-	assimilation
[Ref.: #65508]	methyl D-glucoside ChEBI	-	assimilation
[Ref.: #65508]	myo-inositol ChEBI	-	assimilation
[Ref.: #65508]	N-acetylglucosamine ChEBI	-	assimilation
[Ref.: #65508]	phenylacetate ChEBI	-	assimilation
[Ref.: #65508]	raffinose ChEBI	-	assimilation
[Ref.: #65508]	rhamnose ChEBI	-	assimilation
[Ref.: #65508]	ribitol ChEBI	-	assimilation
[Ref.: #65508]	ribose ChEBI	-	assimilation
[Ref.: #65508]	salicin ChEBI	-	assimilation
[Ref.: #65508]	sorbitol ChEBI	-	assimilation
[Ref.: #65508]	starch ChEBI	+	assimilation
[Ref.: #65508]	sucrose ChEBI	-	assimilation
[Ref.: #65508]	trehalose ChEBI	-	assimilation
[Ref.: #65508]	turanose ChEBI	-	assimilation
[Ref.: #65508]	xylitol ChEBI	-	assimilation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #65508]	ampicillin ChEBI				yes	10	µg (disc)
[Ref.: #65508]	carbenicillin ChEBI	yes	100	µg (disc)
[Ref.: #65508]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #65508]	erythromycin ChEBI	yes	10	µg (disc)
[Ref.: #65508]	penicillin g ChEBI				yes	10	Unit (disc)
[Ref.: #65508]	streptomycin ChEBI				yes	10	µg (disc)
[Ref.: #65508]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #65508]	vancomycin ChEBI				yes	30	µg (disc)

	Enzyme	Enzyme activity	EC number
[Ref.: #65508]	acid phosphatase	+	3.1.3.2
[Ref.: #65508]	alkaline phosphatase	+	3.1.3.1
[Ref.: #65508]	alpha-chymotrypsin	-	3.4.21.1
[Ref.: #65508]	alpha-fucosidase	+	3.2.1.51
[Ref.: #65508]	alpha-galactosidase	-	3.2.1.22
[Ref.: #65508]	alpha-glucosidase	+	3.2.1.20
[Ref.: #65508]	alpha-mannosidase	-	3.2.1.24
[Ref.: #65508]	beta-galactosidase	-	3.2.1.23
[Ref.: #65508]	beta-glucosidase	+	3.2.1.21
[Ref.: #65508]	beta-glucuronidase	-	3.2.1.31
[Ref.: #65508]	catalase	+	1.11.1.6
[Ref.: #65508]	cystine arylamidase	-	3.4.11.3
[Ref.: #65508]	cytochrome oxidase	+	1.9.3.1
[Ref.: #65508]	esterase (C 4)	-
[Ref.: #65508]	esterase Lipase (C 8)	-
[Ref.: #65508]	leucine arylamidase	+	3.4.11.1
[Ref.: #65508]	lipase (C 14)	-
[Ref.: #65508]	N-acetyl-beta-glucosaminidase	+	3.2.1.52
[Ref.: #65508]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #65508]	trypsin	-	3.4.21.4
[Ref.: #65508]	urease	-	3.5.1.5
[Ref.: #65508]	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.: #65508]	Sample type/isolated from	forest soil
[Ref.: #65508]	Geographic location (country and/or sea, region)	Mt. Wangsan
[Ref.: #65508]	Country	Republic of Korea
[Ref.: #65508]	Country ISO 3 Code	KOR
[Ref.: #65508]	Continent	Asia
[Ref.: #65508]	Enrichment culture composition	7.6 mM (NH4)2SO4, 2.9 mM K2HPO4 , 34.2 mM NaCl, 0.8 mM MgSO4 . 7H2O, 59.9 mM CaCO3 , 1.8 mM FeSO4 . 7H2O, and 2 ml/l trace elements
[Ref.: #65508]	Enrichment culture duration	15 weeks
[Ref.: #65508]	Enrichment culture temperature	25 ̊C

[Ref.: #67771]	Sample type/isolated from	From forest soil in the Republic of Korea
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence MF167377 (>99% sequence identity) for Pedobacter solisilvae subclade from Microbeatlas

Aquatic Samples	23
Soil Samples	46
Animal Samples	28
Plant Samples	40
Total Samples	137

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.: #65508]	16S rRNA gene sequence	MF167377		GenBank

[Ref.: #65508]

GC-content

46.12 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #65508]

Culture collection no.

KCTC 42612, LMG 28820

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pedobacter solisilvae sp. nov., isolated from forest soil.	Yang DJ, Hong JK	Int J Syst Evol Microbiol	10.1099/ijsem.0.002383	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 )

#65508

Dong Jin Yang and Jin-Kyung Hong: Pedobacter solisilvae sp. nov., isolated from forest soil. IJSEM 67: 4814 - 4819 2017 ( DOI 10.1099/ijsem.0.002383 , PubMed 28984218 )

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

* These data were automatically processed and therefore are not curated

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