Name: Maribacter dokdonensis DSW-8
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5608

Type strain:

Species: Maribacter dokdonensis

Strain Designation: DSW-8

Culture col. no.: DSM 17201, KCTC 12393, CIP 108966

Strain history: CIP <- 2005, KCTC <- JH Yoon, KRIBB, strain DSW-8

NCBI tax ID(s): 320912 (species)

SI-ID 265610

DSM 17201, KCTC 12393, CIP 108966

Section

Maribacter dokdonensis DSW-8 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea water.

Gram-negative
motile
rod-shaped
aerobe
mesophilic
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	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Maribacter*
	Species	**Maribacter dokdonensis**
	Full Scientific Name (LPSN)	Maribacter dokdonensis Yoon et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31542]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #118953]	Gram stain	negative

[Ref.: #31542]	Cell length	2.4 µm

[Ref.: #31542]	Cell width	0.35 µm

[Ref.: #31542]	Cell shape	rod-shaped
[Ref.: #118953]	Cell shape	rod-shaped

[Ref.: #31542]	Motility	yes
[Ref.: #118953]	Motility	no

[Ref.: #31542]	Flagellum arrangement	gliding

[Ref.: #31542]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6811]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #6811]

Culture medium growth

[Ref.: #6811]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6811]

Culture medium composition

expand / minimize

[Ref.: #118953]

Culture medium

CIP Medium 13

[Ref.: #118953]

Culture medium growth

[Ref.: #118953]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6811]	growth	28 °C
[Ref.: #31542]	growth	04-35 °C
[Ref.: #31542]	optimum	30 °C
[Ref.: #67771]	growth	30 °C

[Ref.: #6811]	Temperature range	mesophilic
[Ref.: #31542]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31542]			optimum	7.5
[Ref.: #31542]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6811]	Oxygen tolerance	aerobe
[Ref.: #31542]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #31542]	Ability of spore formation	no
[Ref.: #118953]	Ability of spore formation	no

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31542]		NaCl		growth	01-10	%
[Ref.: #31542]		NaCl		optimum	2.5	%

[Ref.: #31542]	Observation	aggregates in clumps
[Ref.: #67771]	Observation	quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31542]	arabinose ChEBI	+	carbon source
[Ref.: #31542]	cellobiose ChEBI	+	carbon source
[Ref.: #31542]	galactose ChEBI	+	carbon source
[Ref.: #31542]	glucose ChEBI	+	carbon source
[Ref.: #31542]	lactose ChEBI	+	carbon source
[Ref.: #31542]	maltose ChEBI	+	carbon source
[Ref.: #31542]	mannitol ChEBI	+	carbon source
[Ref.: #31542]	mannose ChEBI	+	carbon source
[Ref.: #31542]	melibiose ChEBI	+	carbon source
[Ref.: #118953]	nitrate ChEBI	-	reduction
[Ref.: #118953]	nitrite ChEBI	-	reduction
[Ref.: #31542]	raffinose ChEBI	+	carbon source
[Ref.: #31542]	sucrose ChEBI	+	carbon source
[Ref.: #31542]	trehalose ChEBI	+	carbon source
[Ref.: #31542]	tween 20 ChEBI	+	carbon source
[Ref.: #31542]	tween 40 ChEBI	+	carbon source
[Ref.: #31542]	tween 80 ChEBI	+	carbon source
[Ref.: #31542]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #118953]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #31542]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #118953]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #31542]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	+	3.2.1.24	* from API zym
[Ref.: #68382]	beta-galactosidase	+	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	+	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #31542]	catalase	+	1.11.1.6
[Ref.: #118953]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #31542]	cytochrome oxidase	+	1.9.3.1
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #118953]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	+	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #118953]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #118953]	oxidase	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #118953]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #118953]	11580	-	+	+	+	-	+	+	-	+	-	+	+	+	+	-	+	+	+	+	-

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

[Ref.: #6811]	Sample type/isolated from	sea water
[Ref.: #6811]	Geographic location (country and/or sea, region)	Korean Island, Dokdo
[Ref.: #6811]	Country	Republic of Korea
[Ref.: #6811]	Country ISO 3 Code	KOR
[Ref.: #6811]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From seawater
[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

[Ref.: #118953]	Sample type/isolated from	Environment, Seawater
[Ref.: #118953]	Geographic location (country and/or sea, region)	Dokdo Island
[Ref.: #118953]	Country	Republic of Korea
[Ref.: #118953]	Country ISO 3 Code	KOR
[Ref.: #118953]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY960749 (>99% sequence identity) for Maribacter dokdonensis subclade from Microbeatlas

Aquatic Samples	6757
Soil Samples	164
Animal Samples	514
Plant Samples	103
Total Samples	7538

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #6811]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118953]	Biosafety level	1	Risk group (French classification)

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.: #6811]	Maribacter dokdonensis strain DSW-8 16S ribosomal RNA gene, partial sequence	AY960749	1486	ENA	320912 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Maribacter dokdonensis DSW-8	GCA_001447995	contig	GenBank	1300346 tax ID	*
[Ref.: #66792]	Maribacter dokdonensis DSW-8	1300346.8	wgs	PATRIC	1300346 tax ID	*
[Ref.: #66792]	Maribacter dokdonensis DSW-8	2690315862	draft	JGI IMG/M	1300346 tax ID	*

[Ref.: #31542]	GC-content	35.9-36.1 mol%
[Ref.: #67771]	GC-content	36.1 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Maribacter dokdonensis DSW-8 PATRIC: 1300346.8
[Ref.: #69480]	motile	no	86.239	no
[Ref.: #69480]	gram-positive	no	97.339	yes
[Ref.: #69480]	anaerobic	no	99.727	yes
[Ref.: #69480]	halophile	no	65.904	no
[Ref.: #69480]	spore-forming	no	96.593	yes
[Ref.: #69480]	thermophile	no	99.36	no
[Ref.: #69480]	glucose-util	yes	88.096	yes
[Ref.: #69480]	flagellated	no	95.436	no
[Ref.: #69480]	aerobic	yes	94.439	yes
[Ref.: #69480]	glucose-ferment	no	89.725	no

Availability in culture collections External links

[Ref.: #6811]

Culture collection no.

DSM 17201, KCTC 12393, CIP 108966

[Ref.: #75090]

SI-ID 265610

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Genome Information of Maribacter dokdonensis DSW-8 and Comparative Analysis with Other Maribacter Genomes.	Kwak MJ, Lee J, Kwon SK, Kim JF	J Microbiol Biotechnol	10.4014/jmb.1608.08044	2017	*
Phylogeny	Maribacter caenipelagi sp. nov., a member of the Flavobacteriaceae isolated from a tidal flat sediment of the Yellow Sea in Korea.	Jung YT, Lee JS, Yoon JH	Antonie Van Leeuwenhoek	10.1007/s10482-014-0243-z	2014	*
Phylogeny	Maribacter aestuarii sp. nov., isolated from tidal flat sediment, and an emended description of the genus Maribacter.	Lo N, Jin HM, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.050054-0	2013	*
Phylogeny	Maribacter dokdonensis sp. nov., isolated from sea water off a Korean island, Dokdo.	Yoon JH, Kang SJ, Lee SY, Lee CH, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.63777-0	2005	*

References

#6811

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17201

#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 )

#31542

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 #27834 (see below)

#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) .

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

#68382

Automatically annotated from API zym .

#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 .

#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) .

#75090

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-ID265610.1 )

#118953 Collection of Institut Pasteur ; Curators of the CIP; CIP 108966

#27834

IJSEM 2051 2005 ( DOI 10.1099/ijs.0.63777-0 , PubMed 16166708 )

* These data were automatically processed and therefore are not curated

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