Name: Daejeonia ginsenosidivorans NP5
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140959

Type strain:

Species: Daejeonia ginsenosidivorans

Strain Designation: NP5

Culture col. no.: KACC 18626, LMG 29198

NCBI tax ID(s): 1813881 (species)

Special Collections

Literature strains

Section

Daejeonia ginsenosidivorans NP5 is an aerobe, Gram-negative, rod-shaped bacterium that forms circular colonies and was isolated from water of Kaist Duck Lake in Daejeon city, Korea.

colony-forming
Gram-negative
rod-shaped
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	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Daejeonia*
	Species	**Daejeonia ginsenosidivorans**
	Full Scientific Name (LPSN)	Daejeonia ginsenosidivorans Siddiqi et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43859]	Gram stain	negative

[Ref.: #43859]	Cell length	1.2-3.0 µm

[Ref.: #43859]	Cell width	0.2-0.5 µm

[Ref.: #43859]	Cell shape	rod-shaped

[Ref.: #43859]	Motility	no

[Ref.: #43859]	Colony color	light-yellow
[Ref.: #43859]	Colony shape	circular
[Ref.: #43859]	Incubation period	2-3 days
[Ref.: #43859]	Cultivation medium used	Tryptic soy agar

[Ref.: #43859]	Pigment production	no
[Ref.: #43859]	Pigment name	Flexirubin-type pigment

Information on culture and growth conditions Culture and growth conditions

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Culture medium

Nutrient agar (NA)

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Culture medium growth

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Culture medium

Reasoner's 2A agar (R2A)

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Culture medium growth

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Culture medium

Tryptic soy agar

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Culture medium growth

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Culture medium

LB (Luria-Bertani) MEDIUM

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Culture medium growth

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Culture medium

MacConkey agar

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Culture medium growth

	Temperatures	Kind of temperature		Temperature
[Ref.: #43859]			growth	18-37 °C
[Ref.: #43859]			optimum	30 °C

	pH	Kind of pH		pH
[Ref.: #43859]			optimum	6.0-7.0
[Ref.: #43859]			growth	5.5-8.0

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.: #43859]		NaCl		growth	0.5-3	%(w/v)
[Ref.: #43859]		NaCl		optimum	0-0.5	%(w/v)

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Observation

quinone MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43859]	2-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43859]	3-hydroxybenzoate ChEBI	-	builds acid from
[Ref.: #43859]	3-hydroxybutyrate ChEBI	-	builds acid from
[Ref.: #43859]	4-hydroxybenzoate ChEBI	-	builds acid from
[Ref.: #43859]	5-dehydro-D-gluconate ChEBI	-	builds acid from
[Ref.: #43859]	5-dehydro-D-gluconate ChEBI	-	carbon source
[Ref.: #43859]	acetate ChEBI	+	builds acid from
[Ref.: #43859]	acetate ChEBI	+	carbon source
[Ref.: #43859]	adipate ChEBI	-	builds acid from
[Ref.: #43859]	carboxymethylcellulose ChEBI	-	hydrolysis
[Ref.: #43859]	casein	+	hydrolysis
[Ref.: #43859]	citrate ChEBI	-	builds acid from
[Ref.: #43859]	citrate ChEBI	-	carbon source
[Ref.: #43859]	D-glucose ChEBI	+	builds acid from
[Ref.: #43859]	D-glucose ChEBI	+	carbon source
[Ref.: #43859]	D-mannitol ChEBI	-	builds acid from
[Ref.: #43859]	D-mannose ChEBI	+	builds acid from
[Ref.: #43859]	D-mannose ChEBI	+	carbon source
[Ref.: #43859]	D-ribose ChEBI	-	builds acid from
[Ref.: #43859]	D-sorbitol ChEBI	-	builds acid from
[Ref.: #43859]	decanoate ChEBI	-	builds acid from
[Ref.: #43859]	dna ChEBI	+	hydrolysis
[Ref.: #43859]	esculin ChEBI	+	hydrolysis
[Ref.: #43859]	gelatin ChEBI	+/-	hydrolysis
[Ref.: #43859]	gluconate ChEBI	-	builds acid from
[Ref.: #43859]	gluconate ChEBI	-	carbon source
[Ref.: #43859]	glycogen ChEBI	+	builds acid from
[Ref.: #43859]	glycogen ChEBI	+	carbon source
[Ref.: #43859]	itaconate ChEBI	-	builds acid from
[Ref.: #43859]	L-alanine ChEBI	+	carbon source
[Ref.: #43859]	L-alanine 4-nitroanilide	+	builds acid from
[Ref.: #43859]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43859]	L-fucose ChEBI	-	builds acid from
[Ref.: #43859]	L-histidine ChEBI	-	builds acid from
[Ref.: #43859]	L-proline ChEBI	+	builds acid from
[Ref.: #43859]	L-proline ChEBI	+	carbon source
[Ref.: #43859]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43859]	L-serine ChEBI	+	builds acid from
[Ref.: #43859]	L-serine ChEBI	+	carbon source
[Ref.: #43859]	lactate ChEBI	+	builds acid from
[Ref.: #43859]	lactate ChEBI	+	carbon source
[Ref.: #43859]	malate ChEBI	-	builds acid from
[Ref.: #43859]	malate ChEBI	-	carbon source
[Ref.: #43859]	malonate ChEBI	+	builds acid from
[Ref.: #43859]	malonate ChEBI	+	carbon source
[Ref.: #43859]	maltose ChEBI	+	builds acid from
[Ref.: #43859]	maltose ChEBI	+	carbon source
[Ref.: #43859]	melibiose ChEBI	+	builds acid from
[Ref.: #43859]	melibiose ChEBI	+	carbon source
[Ref.: #43859]	myo-inositol ChEBI	-	builds acid from
[Ref.: #43859]	N-acetylglucosamine ChEBI	+	builds acid from
[Ref.: #43859]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #43859]	nitrate ChEBI	-	reduction
[Ref.: #43859]	phenylacetate ChEBI	-	builds acid from
[Ref.: #43859]	propionate ChEBI	+	builds acid from
[Ref.: #43859]	propionate ChEBI	+	carbon source
[Ref.: #43859]	salicin ChEBI	-	builds acid from
[Ref.: #43859]	salicin ChEBI	-	carbon source
[Ref.: #43859]	starch ChEBI	+	hydrolysis
[Ref.: #43859]	suberic acid ChEBI	-	builds acid from
[Ref.: #43859]	sucrose ChEBI	-	builds acid from
[Ref.: #43859]	tween 20 ChEBI	-	hydrolysis
[Ref.: #43859]	valerate ChEBI	+	builds acid from
[Ref.: #43859]	valerate ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #43859]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #43859]	acid phosphatase	+	3.1.3.2
[Ref.: #43859]	alkaline phosphatase	+	3.1.3.1
[Ref.: #43859]	alpha-chymotrypsin	+	3.4.21.1
[Ref.: #43859]	alpha-fucosidase	-	3.2.1.51
[Ref.: #43859]	alpha-galactosidase	-	3.2.1.22
[Ref.: #43859]	alpha-glucosidase	+	3.2.1.20
[Ref.: #43859]	alpha-mannosidase	-	3.2.1.24
[Ref.: #43859]	beta-galactosidase	-	3.2.1.23
[Ref.: #43859]	beta-glucosidase	+	3.2.1.21
[Ref.: #43859]	beta-glucuronidase	-	3.2.1.31
[Ref.: #43859]	catalase	+	1.11.1.6
[Ref.: #43859]	cystine arylamidase	+	3.4.11.3
[Ref.: #43859]	cytochrome oxidase	+	1.9.3.1
[Ref.: #43859]	esterase (C 4)	+
[Ref.: #43859]	esterase Lipase (C 8)	+
[Ref.: #43859]	leucine arylamidase	+	3.4.11.1
[Ref.: #43859]	lipase (C 14)	+
[Ref.: #43859]	N-acetyl-beta-glucosaminidase	-	3.2.1.52
[Ref.: #43859]	naphthol-AS-BI-phosphohydrolase	+
[Ref.: #43859]	trypsin	+	3.4.21.4
[Ref.: #43859]	urease	-	3.5.1.5
[Ref.: #43859]	valine arylamidase	+
	Only first 10 entries are displayed. Click here to see all.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #43859]

Fatty acid	Percentage
C15:0 iso	27.7
C17:0 iso 3OH	13.6
C16:0 iso 3OH	11.1
C18:0 3OH	8.5
C15:0 anteiso	7.5
C16:1ω7c / C16:1ω6c	6.3
C16:0 iso	4.6
C14:0 iso	3.5
C13:0 iso	3.4
C15:0 iso 3OH	2.9
iso-C17:1ω9c/C16:0 10-methyl	2.8
C16:1 iso H	2
C17:1 iso I /C17:1 anteiso B	1.2
C16:0	1.1
C18:1ω5c	1
C17:0 2OH	0.9
C17:1ω6c	0.6
C16:0 3OH	0.6
C14:0 iso 3OH	0.5
C15:0 2OH	0.5

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

[Ref.: #43859]	Sample type/isolated from	water of Kaist Duck Lake in Daejeon city, Korea
[Ref.: #43859]	Geographic location (country and/or sea, region)	Daejeon city
[Ref.: #43859]	Country	Republic of Korea
[Ref.: #43859]	Country ISO 3 Code	KOR
[Ref.: #43859]	Continent	Asia
[Ref.: #43859]	Enrichment culture	R2A agar
[Ref.: #43859]	Enrichment culture duration	7 days
[Ref.: #43859]	Enrichment culture temperature	30 ̊C
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Lake (large)

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.: #43859]	Daejeonia ginsenosidivorans strain NP5 16S ribosomal RNA gene, partial sequence	KT950745		GenBank ENA

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GC-content

44.8 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

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Culture collection no.

KACC 18626, LMG 29198

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Daejeonia ginsenosidivorans gen. nov., sp. nov., a ginsenoside-transforming bacterium isolated from lake water.	Siddiqi MZ, Choi GM, Kim MS, Im WT	Int J Syst Evol Microbiol	10.1099/ijsem.0.001994	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 )

#43859

Muhammad Zubair Siddiqi, Gyu-Min Choi, Mi-Sun Kim, Wan-Taek Im: Daejeonia ginsenosidivorans gen. nov., sp. nov., a ginsenoside-transforming bacterium isolated from lake water. IJSEM 67: 2665 - 2671 2017 ( DOI 10.1099/ijsem.0.001994 , PubMed 28809138 )

* These data were automatically processed and therefore are not curated

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