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

Special Collections

DSMZ
JCM

Section

Lutibacter oceani 325-5 is a bacterium that was isolated from marine sediment.

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 %97.5

[Ref.: #69480]	Motility	no Confidence in %96

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

Information on physiology and metabolism Physiology and metabolism

[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	GenBank 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 ENA	1853311 tax ID	*
[Ref.: #66792]	Lutibacter oceani 325-5	GCA_003384935	scaffold	GenBank ENA	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	Model	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	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Lutibacter oceani 325-5 NCBI: GCA_003384935.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	97.5	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	93.494	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	74.744	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	88.533	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	93.928	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	96	no

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

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Lutibacter oceani in external resources:
SILVA
BRENDA
PANGAEA
GBIF