Name: Shewanella violacea CIP 106290
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 139656

Type strain:

Species: Shewanella violacea

Culture col. no.: CIP 106290, JCM 10179, LMG 19151, DSS 12

Strain history: CIP <- 1999, JCM <- Y. Nogi: strain DSS12

NCBI tax ID(s): 637905 (strain), 60217 (species)

SI-ID 13318

LMG 19151, CIP 106290, JCM 10179, NCIMB 13930

Section

Shewanella violacea CIP 106290 is a psychrophilic, Gram-negative, motile bacterium of the family Shewanellaceae.

Gram-negative
motile
rod-shaped
psychrophilic
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 violacea**
	Full Scientific Name (LPSN)	Shewanella violacea Nogi et al. 1999

Information on morphological and physiological properties Morphology

[Ref.: #42242]	Gram stain	negative

[Ref.: #42242]	Cell shape	rod-shaped

[Ref.: #42242]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #42242]

Culture medium

Marine agar (MA)

[Ref.: #42242]

Culture medium growth

[Ref.: #42242]

Culture medium composition

expand / minimize

[Ref.: #42242]

Culture medium

CIP Medium 13

[Ref.: #42242]

Culture medium growth

[Ref.: #42242]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #42242]		growth	4 °C
[Ref.: #42242]		growth	5-10 °C
[Ref.: #42242]	no	growth	22 °C
[Ref.: #42242]	no	growth	25 °C
[Ref.: #42242]	no	growth	30 °C
[Ref.: #42242]	no	growth	37 °C
[Ref.: #42242]	no	growth	41 °C
[Ref.: #67770]		growth	4 °C

[Ref.: #42242]	Temperature range	psychrophilic
[Ref.: #42242]	Temperature range	mesophilic
[Ref.: #42242]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

	Salt	Tested relation		Salt conc.
[Ref.: #42242]	NaCl		growth	2-4	%
[Ref.: #42242]	NaCl	no	growth	0	%
[Ref.: #42242]	NaCl	no	growth	6	%
[Ref.: #42242]	NaCl	no	growth	8	%
[Ref.: #42242]	NaCl	no	growth	10	%

[Ref.: #67770]

Observation

quinones: Q-8 (Q-7)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #42242]	citrate ChEBI	-	carbon source
[Ref.: #42242]	esculin ChEBI	-	hydrolysis
[Ref.: #42242]	nitrate ChEBI	+	reduction
[Ref.: #42242]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #42242]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #42242]	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.: #42242]	amylase	-
[Ref.: #42242]	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.: #42242]	caseinase	+	3.4.21.50
[Ref.: #42242]	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.: #42242]	gelatinase	+
[Ref.: #42242]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #42242]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #42242]	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.: #42242]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #42242]	oxidase	+
[Ref.: #42242]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #42242]	tryptophan deaminase	-
[Ref.: #42242]	tween esterase	-
[Ref.: #42242]	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.: #42242]	1623	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.: #42242]	9372	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #67770]	Sample type/isolated from	Marine sediment at a depth of 5,110 m
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ryukyu Trench
[Ref.: #67770]	Country	Pacific Ocean

[Ref.: #42242]	Sample type/isolated from	Environment, Deep sea sediments, Isolated from the Ryukyu Trench at a depth of 5,110 m by means of a sterilized sediment sampler using the Shinkai 6500 system operated by the Japan Marine Science and Technology Center.
[Ref.: #42242]	Country	Japan
[Ref.: #42242]	Country ISO 3 Code	JPN
[Ref.: #42242]	Continent	Asia

[Ref.: #42242]	Country	Japan
[Ref.: #42242]	Country ISO 3 Code	JPN
[Ref.: #42242]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence D21225 (>99% sequence identity) for Shewanella violacea from Microbeatlas

Aquatic Samples	253
Soil Samples	31
Animal Samples	29
Plant Samples
Total Samples	313

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

[Ref.: #42242]

Biosafety level

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.: #67770]	Shewanella violacea gene for 16S rRNA, partial sequence	D21225	1506	ENA	637905 tax ID

[Ref.: #67770]

GC-content

47 mol%

high performance liquid chromatography (HPLC)

Availability in culture collections External links

[Ref.: #42242]

Culture collection no.

CIP 106290, JCM 10179, LMG 19151, DSS 12

[Ref.: #96117]

SI-ID 13318

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella psychrophila sp. nov. and Shewanella piezotolerans sp. nov., isolated from west Pacific deep-sea sediment.	Xiao X, Wang P, Zeng X, Bartlett DH, Wang F	Int J Syst Evol Microbiol	10.1099/ijs.0.64500-0	2007	*
Phylogeny	Taxonomic studies of deep-sea barophilic Shewanella strains and description of Shewanella violacea sp. nov.	Nogi Y, Kato C, Horikoshi K	Arch Microbiol	10.1007/s002030050650	1998	*

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 )

#42242 Collection of Institut Pasteur ; Curators of the CIP; CIP 106290
#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 .

#96117

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-ID13318.1 )

* These data were automatically processed and therefore are not curated

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