Shewanella psychromarinicola (KCCM 43257, JCM 32090, M2)

Name: Shewanella psychromarinicola (KCCM 43257, JCM 32090, M2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 164190

Type strain

Strain Designation M2

Culture col. no. KCCM 43257 JCM 32090 M2

NCBI tax ID(s) 2487742

Special Collections JCM Literature strains

Links

Shewanella psychromarinicola M2 is a facultative anaerobe, psychrophilic, Gram-negative prokaryote that forms circular colonies and was isolated from Pelagic surface sediment of the Ross Sea.

Gram-negative motile rod-shaped colony-forming facultative anaerobe psychrophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 132642

JCM 32090

@ref 20215

Last LPSN update 2025-12-16 10:09:24

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Shewanellaceae

Genus Shewanella

Species Shewanella psychromarinicola

Full scientific name Shewanella psychromarinicola Hwang et al. 2019

BacDive ID	Other strains from **Shewanella psychromarinicola** (1)	Type strain
164189	S. psychromarinicola JCM 32089, KCCM 43258

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Flagellum arrangement	Confidence
67981	negative	0.6-5.7 µm	0.2-1.3 µm	rod-shaped	monotrichous, polar
125439	negative					99.4
125438						91.521
125438	negative					98.5

Colony morphology

@ref	Colony size	Colony color	Colony shape	Incubation period	Medium used
67981	2.0-3.0 mm	orange	circular	3-5 days	Marine agar (MA)

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	15	psychrophilic
67981	positive	growth	4-20	psychrophilic
67981	positive	optimum	10-15	psychrophilic

Culture pH

@ref	Ability	Type	PH	PH range
67981	positive	optimum	6.5
67981	positive	growth	5.5-8.5	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
67981	facultative anaerobe
125439	obligate aerobe	98.2

Spore formation

@ref	Spore formation	Confidence
125439		99.7

Halophily

@ref	Salt	Growth	Tested relation	Concentration
67981	Marine salts	positive	growth	0.5-10.0 %(w/v)
67981	Marine salts	positive	optimum	2.0-3.0 %(w/v)

Observation

@ref	Observation
67981	Major polar lipids comprise phosphatidylglycerol and phosphatidylethanolamine. Depending on strains, one or two unidentified aminophospholipids, one or two unidentified phospholipids and an unidentified aminolipid may be detected in small amounts.
67981	Quinones are Q-7, Q-8, MK-7 and MMK-7.

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
67981	27613 ChEBI	amygdalin	-	builds acid from
67981	18305 ChEBI	arbutin	-	builds acid from
67981	17968 ChEBI	butyrate	+	carbon source
67981		casein	+	hydrolysis
67981	17057 ChEBI	cellobiose	+	builds acid from
67981	17057 ChEBI	cellobiose	-	carbon source
67981	17108 ChEBI	D-arabinose	-	builds acid from
67981	18333 ChEBI	D-arabitol	-	builds acid from
67981	15824 ChEBI	D-fructose	-	builds acid from
67981	15824 ChEBI	D-fructose	+	carbon source
67981	28847 ChEBI	D-fucose	-	builds acid from
67981	12936 ChEBI	D-galactose	+/-	builds acid from
67981	12936 ChEBI	D-galactose	+	carbon source
67981	17634 ChEBI	D-glucose	+	builds acid from
67981	17634 ChEBI	D-glucose	+	carbon source
67981	62318 ChEBI	D-lyxose	-	builds acid from
67981	62318 ChEBI	D-lyxose	+	carbon source
67981	15588 ChEBI	D-malate	-	carbon source
67981	16899 ChEBI	D-mannitol	+	builds acid from
67981	16899 ChEBI	D-mannitol	+	carbon source
67981	16024 ChEBI	D-mannose	-	builds acid from
67981	16988 ChEBI	D-ribose	+	builds acid from
67981	16988 ChEBI	D-ribose	-	carbon source
67981	17924 ChEBI	D-sorbitol	-	builds acid from
67981	17924 ChEBI	D-sorbitol	+	carbon source
67981	16443 ChEBI	D-tagatose	-	builds acid from
67981	65327 ChEBI	D-xylose	-	builds acid from
67981	65327 ChEBI	D-xylose	+	carbon source
67981	16991 ChEBI	dna	-	hydrolysis
67981	17113 ChEBI	erythritol	-	builds acid from
67981	4853 ChEBI	esculin	+	hydrolysis
67981		esculin ferric citrate	+	builds acid from
67981	29806 ChEBI	fumarate	+	carbon source
67981	16813 ChEBI	galactitol	-	builds acid from
67981	28066 ChEBI	gentiobiose	+/-	builds acid from
67981	17234 ChEBI	glucose	-	fermentation
67981	17754 ChEBI	glycerol	-	builds acid from
67981	17754 ChEBI	glycerol	+	carbon source
67981	28087 ChEBI	glycogen	-	builds acid from
67981	15443 ChEBI	inulin	-	builds acid from
67981	18248 ChEBI	iron	+	reduction
67981	30849 ChEBI	L-arabinose	-	builds acid from
67981	30849 ChEBI	L-arabinose	+	carbon source
67981	18403 ChEBI	L-arabitol	-	builds acid from
67981	18287 ChEBI	L-fucose	-	builds acid from
67981		L-lactate	+	carbon source
67981	17203 ChEBI	L-proline	+	carbon source
67981	62345 ChEBI	L-rhamnose	-	builds acid from
67981	17266 ChEBI	L-sorbose	-	builds acid from
67981	65328 ChEBI	L-xylose	-	builds acid from
67981	17716 ChEBI	lactose	-	builds acid from
67981	17716 ChEBI	lactose	+	carbon source
67981	17306 ChEBI	maltose	+/-	builds acid from
67981	17306 ChEBI	maltose	+	carbon source
67981	6731 ChEBI	melezitose	-	builds acid from
67981	28053 ChEBI	melibiose	-	builds acid from
67981	28053 ChEBI	melibiose	+	carbon source
67981	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from
67981	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from
67981	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from
67981	17268 ChEBI	myo-inositol	-	builds acid from
67981	59640 ChEBI	N-acetylglucosamine	+	builds acid from
67981	59640 ChEBI	N-acetylglucosamine	+	carbon source
67981	17632 ChEBI	nitrate	+	reduction
67981		potassium 2-dehydro-D-gluconate	-	builds acid from
67981		potassium 5-dehydro-D-gluconate	-	builds acid from
67981	32032 ChEBI	potassium gluconate	-	builds acid from
67981	16634 ChEBI	raffinose	-	builds acid from
67981	15963 ChEBI	ribitol	-	builds acid from
67981	17814 ChEBI	salicin	-	builds acid from
67981	132106 ChEBI	sodium propionate	+	carbon source
67981	28017 ChEBI	starch	-	hydrolysis
67981	28017 ChEBI	starch	+/-	builds acid from
67981	28017 ChEBI	starch	+	carbon source
67981	17992 ChEBI	sucrose	+	builds acid from
67981	17992 ChEBI	sucrose	+/-	carbon source
67981	27082 ChEBI	trehalose	-	builds acid from
67981	27082 ChEBI	trehalose	+	carbon source
67981	32528 ChEBI	turanose	-	builds acid from
67981	53426 ChEBI	tween 80	+	hydrolysis
67981	17151 ChEBI	xylitol	-	builds acid from

Metabolite production

@ref	Chebi-ID	Metabolite	Production
67981	16136 ChEBI	hydrogen sulfide
67981	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
67981	acid phosphatase	+	3.1.3.2
67981	alkaline phosphatase	+	3.1.3.1
67981	alpha-chymotrypsin	-	3.4.21.1
67981	alpha-fucosidase	-	3.2.1.51
67981	alpha-galactosidase	-	3.2.1.22
67981	alpha-glucosidase	+	3.2.1.20
67981	alpha-mannosidase	-	3.2.1.24
67981	arginine dihydrolase	-	3.5.3.6
67981	beta-galactosidase	+	3.2.1.23
67981	beta-galactosidase	-	3.2.1.23
67981	beta-glucosidase	-	3.2.1.21
67981	beta-glucuronidase	-	3.2.1.31
67981	cystine arylamidase	+	3.4.11.3
67981	esterase (C 4)	+
67981	esterase Lipase (C 8)	-
67981	gelatinase	-
67981	leucine arylamidase	-	3.4.11.1
67981	lipase (C 14)	-
67981	N-acetyl-beta-glucosaminidase	+	3.2.1.52
67981	naphthol-AS-BI-phosphohydrolase	-
67981	trypsin	-	3.4.21.4
67981	urease	-	3.5.1.5
67981	valine arylamidase	-

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
67770	Pelagic surface sediment of the Ross Sea		Antarctica	ATA	Antarctica
67981	pelagic surface sediment	Ross Sea	Antarctica	ATA	Australia and Oceania	-75.6595	165.483 -75.6595/165.483

Taxonmaps

69479

Global distribution of 16S sequence MH630172 (>99% sequence identity) for Shewanella from Microbeatlas

Aquatic Samples	692
Soil Samples	13
Animal Samples	131
Plant Samples	6
Total Samples	842

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM385515v1 assembly for Shewanella psychromarinicola M2	chromosome	GCA_003855155	2487742.3	8111857600	2487742	88.76
66792	ASM2328386v1 assembly for Shewanella psychromarinicola JCM 32090	contig	GCA_023283865	2487742.6	8113428912	2487742	45.91

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Shewanella psychromarinicola strain M2 16S ribosomal RNA gene, partial sequence	MH630172	1488		50422

GC content

@ref	GC-content (mol%)	Method
67981	42.1-41.2	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Shewanella psychromarinicola JCM 32090
NCBI: GCA_023283865

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.70	no
125439	motility	BacteriaNetⓘ	yes	78.40	no
125439	gram_stain	BacteriaNetⓘ	negative	99.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Shewanella psychromarinicola M2
NCBI: GCA_003855155.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	yes
125438	anaerobic	anaerobicⓘ	no	90.30	yes
125438	aerobic	aerobicⓘ	no	54.61	yes
125438	spore-forming	spore-formingⓘ	no	87.29	no
125438	thermophilic	thermophileⓘ	no	98.00	yes
125438	flagellated	motile2+ⓘ	yes	91.52	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella psychromarinicola sp. nov., a psychrophilic bacterium isolated from pelagic sediment of the Ross Sea (Antarctica), and reclassification of Shewanella arctica Kim et al. 2012 as a later heterotypic synonym of Shewanella frigidimarina Bowman et al. 1997.	Hwang YJ, Jang GI, Cho BC, Lee JI, Hwang CY	Int J Syst Evol Microbiol	10.1099/ijsem.0.003490	2019

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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#67981	Yeon Ju Hwang, Gwang Il Jang, Byung Cheol Cho, Jae Il Lee, Chung Yeon Hwang: Shewanella psychromarinicola sp. nov., a psychrophilic bacterium isolated from pelagic sediment of the Ross Sea (Antarctica), and reclassification of Shewanella arctica Kim et al. 2012 as a later heterotypic synonym of Shewanella frigidimarina Bowman et al. 1997. IJSEM 69: 2415 - 2423 2019 ( DOI 10.1099/ijsem.0.003490 )
#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 .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Shewanella psychromarinicola (KCCM 43257, JCM 32090, M2)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Metabolite production

Enzymes

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_003855155

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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