Name: Lutibacter oceani 325-5
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 160747

Type strain:

Species: Lutibacter oceani

Strain Designation: 325-5

Culture col. no.: DSM 112580, KEMB 7306-529, JCM 30924

Strain history: S.-S. Lee; KEMB, Kyonggi Univ., South Korea; 325-5.

NCBI tax ID(s): 1853311 (species)

SI-ID 406087

DSM 112580

Section

Lutibacter oceani 325-5 is a mesophilic, Gram-negative bacterium that was isolated from marine sediment.

Gram-negative
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	*Lutibacter*
	Species	**Lutibacter oceani**
	Full Scientific Name (LPSN)	Lutibacter oceani Sundararaman and Lee 2017

Information on morphological and physiological properties Morphology

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

Information on culture and growth conditions Culture and growth conditions

[Ref.: #67670]

Culture medium

MARINE BROTH (ROTH CP73) (DSMZ Medium 514f)

[Ref.: #67670]

Culture medium growth

[Ref.: #67670]

Culture medium link

Medium recipe at MediaDive

[Ref.: #67670]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #67670]			growth	25 °C
[Ref.: #67770]			growth	25 °C

[Ref.: #67670]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.986
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

[Ref.: #67770]

Observation

quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	-	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	-	reduction	* from API 20NE
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE
[Ref.: #68369]	urea ChEBI	-	hydrolysis	* from API 20NE
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #68369]		indole ChEBI	no	* from API 20NE

	Physiological tests	Metabolite	Indole test
[Ref.: #68369]		indole ChEBI	-	* from API 20NE

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE
[Ref.: #68369]	gelatinase	-		* from API 20NE
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #67670]	25201	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+

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

[Ref.: #67670]	Sample type/isolated from	marine sediment
[Ref.: #67670]	Geographic location (country and/or sea, region)	Masan
[Ref.: #67670]	Country	Republic of Korea
[Ref.: #67670]	Country ISO 3 Code	KOR
[Ref.: #67670]	Continent	Asia
[Ref.: #67670]	Geographic location	35.1833°/128.5330°

[Ref.: #67770]	Sample type/isolated from	Marine sediment obtained from Masan Coast
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence KX279953 (>99% sequence identity) for Lutibacter oceani from Microbeatlas

Aquatic Samples	377
Soil Samples	7
Animal Samples
Plant Samples	5
Total Samples	389

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

[Ref.: #67670]

Biosafety level

Risk group (German classification)
According to TRBA 466

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.: #67670]	Lutibacter oceani strain 325-5 16S ribosomal RNA gene, partial sequence	KX279953	1446	ENA	1853311 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Lutibacter oceani JCM30924	GCA_003426875	contig	GenBank	1853311 tax ID	*
[Ref.: #66792]	Lutibacter oceani 325-5	GCA_003384935	scaffold	GenBank	1853311 tax ID	*
[Ref.: #66792]	Lutibacter oceani strain JCM30924	1853311.4	wgs	PATRIC	1853311 tax ID	*
[Ref.: #66792]	Lutibacter oceani 325-5	2710264748	draft	JGI IMG/M	1853311 tax ID	*
[Ref.: #66792]	Lutibacter oceani JCM 30924	2837442332	draft	JGI IMG/M	1853311 tax ID	*

[Ref.: #67770]

GC-content

33.1 mol%

high performance liquid chromatography (HPLC)

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: Lutibacter oceani 325-5 NCBI: GCA_003384935.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lutibacter oceani 325-5 NCBI: GCA_003384935.1
[Ref.: #69480]	motile	no	92.734	no
[Ref.: #69480]	flagellated	no	97.024	no
[Ref.: #69480]	gram-positive	no	98.47	no
[Ref.: #69480]	anaerobic	no	97.743	no
[Ref.: #69480]	aerobic	yes	76.932	no
[Ref.: #69480]	halophile	no	85.716	no
[Ref.: #69480]	spore-forming	no	95.866	no
[Ref.: #69480]	glucose-util	yes	83.812	yes
[Ref.: #69480]	thermophile	no	91.444	yes
[Ref.: #69480]	glucose-ferment	no	89.471	yes

Availability in culture collections External links

[Ref.: #67670]

Culture collection no.

DSM 112580, KEMB 7306-529, JCM 30924

[Ref.: #112972]

SI-ID 406087

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Lutibacter citreus sp. nov., isolated from Arctic surface sediment.	Du ZZ, Zhou LY, Wang TJ, Li HR, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.004146	2020	*
Phylogeny	Lutibacter oceani sp. nov., isolated from marine sediment in South Korea.	Sundararaman A, Lee SS	Antonie Van Leeuwenhoek	10.1007/s10482-016-0772-8	2016	*

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 )

#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) .

#67670

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 112580

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#68369

Automatically annotated from API 20NE .

#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) .

#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 )

#112972

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-ID406087.1 )

* These data were automatically processed and therefore are not curated

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