Name: Shewanella japonica DSM 15915
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14071

Type strain:

Species: Shewanella japonica

Culture col. no.: DSM 15915, CIP 106860, KMM 3299, LMG 19691, JCM 21433, ATCC BAA-316, IAM 14956, NBRC 103171, NCIMB 13823

Strain history: CIP <- 2001, E. Ivanova, Russian Academy Sci., Vladivostok, Russia: strain KMM 3299

NCBI tax ID(s): 93973 (species)

SI-ID 13461

LMG 19691, CIP 106860, KCTC 12923, NCIMB 13823, ATCC BAA-316, IAM 14956, DSM 15915, JCM 21433, NBRC 103171

Section

Shewanella japonica DSM 15915 is a mesophilic, Gram-negative, motile bacterium that was isolated from seawater.

Gram-negative
motile
rod-shaped
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Alteromonadales*
	Family	*Shewanellaceae*
	Genus	*Shewanella*
	Species	**Shewanella japonica**
	Full Scientific Name (LPSN)	Shewanella japonica Ivanova et al. 2001

Synonym

Shewanella pacifica

Information on morphological and physiological properties Morphology

[Ref.: #120315]	Gram stain	negative

[Ref.: #120315]	Cell shape	rod-shaped

[Ref.: #120315]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6181]

Culture medium

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

[Ref.: #6181]

Culture medium growth

[Ref.: #6181]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6181]

Culture medium composition

expand / minimize

[Ref.: #39595]

Culture medium

Marine agar (MA)

[Ref.: #39595]

Culture medium growth

[Ref.: #39595]

Culture medium composition

expand / minimize

[Ref.: #120315]

Culture medium

CIP Medium 13

[Ref.: #120315]

Culture medium growth

[Ref.: #120315]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6181]		growth	25 °C
[Ref.: #39595]		growth	30 °C
[Ref.: #67770]		growth	25 °C
[Ref.: #120315]		growth	25-30 °C
[Ref.: #120315]	no	growth	5 °C
[Ref.: #120315]	no	growth	10 °C
[Ref.: #120315]	no	growth	37 °C
[Ref.: #120315]	no	growth	41 °C

[Ref.: #6181]	Temperature range	mesophilic
[Ref.: #39595]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #120315]	Temperature range	mesophilic
[Ref.: #120315]	Temperature range	psychrophilic
[Ref.: #120315]	Temperature range	mesophilic
[Ref.: #120315]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

	Salt	Tested relation		Salt conc.
[Ref.: #120315]	NaCl		growth	4-10	%
[Ref.: #120315]	NaCl	no	growth	0	%
[Ref.: #120315]	NaCl	no	growth	2	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #120315]	citrate ChEBI	-	carbon source
[Ref.: #120315]	esculin ChEBI	+	hydrolysis
[Ref.: #120315]	nitrate ChEBI	+	reduction
[Ref.: #120315]	nitrite ChEBI	-	reduction
[Ref.: #120315]	sodium thiosulfate ChEBI	-	builds gas from

	Metabolite production	Metabolite	Production
[Ref.: #120315]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #120315]	alcohol dehydrogenase	-	1.1.1.1
[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.: #120315]	amylase	+
[Ref.: #120315]	beta-galactosidase	-	3.2.1.23
[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.: #120315]	caseinase	+	3.4.21.50
[Ref.: #120315]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #120315]	gelatinase	+/-
[Ref.: #120315]	lecithinase	+
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #120315]	lipase	+
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #120315]	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.: #120315]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #120315]	oxidase	+
[Ref.: #120315]	protease	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #120315]	tryptophan deaminase	-
[Ref.: #120315]	tween esterase	+
[Ref.: #120315]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

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

	API ID	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
[Ref.: #120315]	1883	not determinedn.d.	-	+	-	-	-	-	-	-	-	-	+	-	-	-	-	+	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	+	+	-	-	+	+	+	-	-	-	+	-	+	-	-	-	+	+	-	-	-	+	-	+	-

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.: #120315]	9868	-	+	+	+	-	+	-	-	-	+	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #6181]	Sample type/isolated from	seawater
[Ref.: #6181]	Country	Japan
[Ref.: #6181]	Country ISO 3 Code	JPN
[Ref.: #6181]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Seawater
[Ref.: #67770]	Geographic location (country and/or sea, region)	Sea of Japan

[Ref.: #120315]	Sample type/isolated from	Environment, Sea water
[Ref.: #120315]	Country	Sea of Japan
[Ref.: #120315]	Isolation date	1994
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AF145921 (>99% sequence identity) for Shewanella japonica from Microbeatlas

Aquatic Samples	2532
Soil Samples	182
Animal Samples	2105
Plant Samples	39
Total Samples	4858

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

[Ref.: #6181]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120315]	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.: #20218]	Shewanella sp. KMM3299 16S ribosomal RNA gene, partial sequence	AF145921	1462	ENA	93973 tax ID	*
[Ref.: #20218]	Shewanella japonica gene for 16S rRNA, partial sequence, strain: NBRC 103171	AB681978	1406	ENA	93973 tax ID	*

[Ref.: #6181]	GC-content	43-44 mol%
[Ref.: #67770]	GC-content	43-43.8 mol%	thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #6181]

Culture collection no.

DSM 15915, CIP 106860, KMM 3299, LMG 19691, JCM 21433, ATCC BAA-316, IAM 14956, NBRC 103171, NCIMB 13823

[Ref.: #83240]

SI-ID 13461

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella intestini sp. nov., isolated from the intestine of abalone, Haliotis diversicolor.	Gai Y, Huang Z, Lai Q, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001878	2017	*
Genetics	Structure of the O-specific polysaccharide from Shewanella japonica type strain KMM 3299T containing the rare amino sugar Fuc4NAc.	Kilcoyne M, Shashkov AS, Perepelov AV, Nazarenko EL, Gorshkova RP, Ivanova EP, Widmalm G, Savage AV	Carbohydr Res	10.1016/j.carres.2005.01.040	2005	*
Phylogeny	Shewanella pacifica sp. nov., a polyunsaturated fatty acid-producing bacterium isolated from sea water.	Ivanova EP, Gorshkova NM, Bowman JP, Lysenko AM, Zhukova NV, Sergeev AF, Mikhailov VV, Nicolau DV	Int J Syst Evol Microbiol	10.1099/ijs.0.02993-0	2004	*
Phylogeny	Shewanella japonica sp. nov.	Ivanova EP, Sawabe T, Gorshkova NM, Svetashev VI, Mikhailov VV, Nicolau DV, Christen R	Int J Syst Evol Microbiol	10.1099/00207713-51-3-1027	2001	*

References

#6181

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15915

#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 )

#20218

Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )

#39595 ; Curators of the CIP;
#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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 .

#83240

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-ID13461.1 )

#120315 Collection of Institut Pasteur ; Curators of the CIP; CIP 106860
* These data were automatically processed and therefore are not curated

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