Name: Pedobacter lentus DS-40
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134270

Type strain:

Species: Pedobacter lentus

Strain Designation: DS-40

Culture col. no.: KCTC 12875, JCM 14593

Strain history: <- JH Yoon, KRIBB

NCBI tax ID(s): 430683 (species)

SI-ID 309548

JCM 14593, KCTC 12875

Section

Pedobacter lentus DS-40 is an aerobe, Gram-negative, coccus-shaped bacterium that was isolated from soil.

coccus-shaped
Gram-negative
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 lentus**
	Full Scientific Name (LPSN)	Pedobacter lentus Yoon et al. 2007

Information on morphological and physiological properties Morphology

[Ref.: #32219]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative

[Ref.: #32219]	Cell length	1.7 µm

[Ref.: #32219]	Cell width	0.6 µm

[Ref.: #32219]	Cell shape	coccus-shaped
[Ref.: #67771]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	coccus-shaped

[Ref.: #32219]	Motility	no

[Ref.: #32219]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #32219]	growth	04-31 °C
[Ref.: #32219]	optimum	25 °C
[Ref.: #67770]	growth	25 °C
[Ref.: #67771]	growth	25 °C

[Ref.: #32219]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #32219]			optimum	7
[Ref.: #32219]			growth	06-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #67771]

Oxygen tolerance

aerobe

[Ref.: #32219]	Ability of spore formation	no
[Ref.: #67771]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32219]		NaCl		growth	<4	%
[Ref.: #32219]		NaCl		optimum	0.5	%

[Ref.: #67770]	Observation	quinones: MK-7
[Ref.: #67771]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32219]	esculin ChEBI	+	hydrolysis
[Ref.: #32219]	glucose ChEBI	+	carbon source
[Ref.: #32219]	glycogen ChEBI	+	carbon source
[Ref.: #32219]	lactose ChEBI	+	carbon source
[Ref.: #32219]	leucine ChEBI	+	carbon source
[Ref.: #32219]	maltose ChEBI	+	carbon source
[Ref.: #32219]	mannose ChEBI	+	carbon source
[Ref.: #32219]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #32219]	rhamnose ChEBI	+	carbon source
[Ref.: #32219]	trehalose ChEBI	+	carbon source
[Ref.: #32219]	tween 20 ChEBI	+	carbon source
[Ref.: #32219]	tween 40 ChEBI	+	carbon source
[Ref.: #32219]	tween 60 ChEBI	+	carbon source
[Ref.: #32219]	tween 80 ChEBI	+	carbon source
[Ref.: #32219]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #32219]	acid phosphatase	+	3.1.3.2
[Ref.: #32219]	alkaline phosphatase	+	3.1.3.1
[Ref.: #32219]	catalase	+	1.11.1.6
[Ref.: #32219]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #32219]	Sample type/isolated from	soil

[Ref.: #67770]	Sample type/isolated from	Soil

[Ref.: #67771]	Sample type/isolated from	From soil
[Ref.: #67771]	Geographic location (country and/or sea, region)	Dokdo
[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

#Soil

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.: #32219]	Pedobacter lentus strain DS-40 16S ribosomal RNA gene, partial sequence	EF446146	1477	GenBank	430683 tax ID

[Ref.: #32219]	GC-content	36 mol%
[Ref.: #67770]	GC-content	36 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	36.0 mol%

Availability in culture collections External links

[Ref.: #32219]

Culture collection no.

KCTC 12875, JCM 14593

[Ref.: #91856]

SI-ID 309548

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Pedobacter rivuli sp. nov., isolated from a freshwater stream.	Kang H, Kim H, Joung Y, Joh K	Int J Syst Evol Microbiol	10.1099/ijs.0.067579-0	2014	*
Phylogeny	Pedobacter aquicola sp. nov., isolated from freshwater.	Joung Y, Jang HJ, Park M, Song J, Cho JC	J Microbiol	10.1007/s12275-018-7499-3	2018	*
Phylogeny	Pedobacter lentus sp. nov. and Pedobacter terricola sp. nov., isolated from soil.	Yoon JH, Kang SJ, Park S, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.65146-0	2007	*

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 )

#32219

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28461 (see below)

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#91856

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID309548.1 )

#28461

IJSEM 2089 2007 ( DOI 10.1099/ijs.0.65146-0 , PubMed 17766877 )

* These data were automatically processed and therefore are not curated

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