Shewanella psychrophila (JCM 13876, CGMCC 1.6159, WP2)

Name: Shewanella psychrophila (JCM 13876, CGMCC 1.6159, WP2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134206

Type strain

Strain Designation WP2

Culture col. no. JCM 13876 CGMCC 1.6159 WP2

NCBI tax ID(s) 225848

Special Collections JCM Literature strains

Links

Shewanella psychrophila WP2 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from marine sediment.

Gram-negative motile rod-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297325

CGMCC 1.6159,JCM 13876,CIP 109514

@ref 20215

Last LPSN update 2026-05-29 08:38:16

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Alteromonadales

Family Shewanellaceae

Genus Shewanella

Species Shewanella psychrophila

Full scientific name Shewanella psychrophila Xiao et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31844	negative	3.5 µm	0.65 µm	rod-shaped
125439	negative				92.945
125438					90.835
125438	negative				100

Pigmentation

31844

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
31844	positive	growth	0-20
31844	positive	optimum	10-15

Culture pH

@ref	Ability	Type	PH
31844	positive	optimum	7
31844	positive	growth	06-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31844	facultative anaerobe
125439	obligate aerobe	93.843

Spore formation

@ref	Spore formation	Confidence
125439		91.233

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31844	NaCl	positive	growth	1-7.2 %
31844	NaCl	positive	optimum	03-04 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31844	28644 ChEBI	2-oxopentanoate	+	carbon source
31844	18240 ChEBI	4-hydroxy-L-proline	+	carbon source
31844	16449 ChEBI	alanine	+	carbon source
31844	17126 ChEBI	DL-carnitine	+	carbon source
31844	29987 ChEBI	glutamate	+	carbon source
31844	27570 ChEBI	histidine	+	carbon source
31844	21217 ChEBI	L-alaninamide	+	carbon source
31844	25017 ChEBI	leucine	+	carbon source
31844	17306 ChEBI	maltose	+	carbon source
31844	17268 ChEBI	myo-inositol	+	carbon source
31844	506227 ChEBI	N-acetylglucosamine	+	carbon source
31844	17822 ChEBI	serine	+	carbon source
31844	17992 ChEBI	sucrose	+	carbon source
31844	26986 ChEBI	threonine	+	carbon source
31844	17748 ChEBI	thymidine	+	carbon source
31844	27082 ChEBI	trehalose	+	carbon source
31844	53423 ChEBI	tween 40	+	carbon source
31844	53426 ChEBI	tween 80	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31844	catalase	+	1.11.1.6
31844	cytochrome oxidase	+	1.9.3.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

Isolation

31844

Sample typemarine sediment

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM200530v1 assembly for Shewanella psychrophila WP2	complete	GCA_002005305	225848.8	2579779173	225848	99.05

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31844	Shewanella psychrophila partial 16S rRNA gene, type strain WP2T	AJ551089	1486		225848

GC content

31844

GC-content (mol%)51

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM200530v1 assembly for Shewanella psychrophila WP2
BV-BRC: 225848.8

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	93.84	no
125439	gram_stain	BacteriaNetⓘ	negative	92.95	no
125439	motility	BacteriaNetⓘ	yes	71.25	no
125439	spore_formation	BacteriaNetⓘ	no	91.23	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Shewanella psychrophila WP2
NCBI: GCA_002005305.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	100.00	yes
125438	anaerobic	anaerobicⓘ	no	93.86	no
125438	aerobic	aerobicⓘ	no	62.02	yes
125438	spore-forming	spore-formingⓘ	no	85.21	no
125438	thermophilic	thermophileⓘ	no	97.50	no
125438	flagellated	motile2+ⓘ	yes	90.84	no

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

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 )
#28109	IJSEM 60 2007 ( DOI 10.1099/ijs.0.64500-0 , PubMed 17220442 )
#31844	Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #28109
#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) .
#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 psychrophila (JCM 13876, CGMCC 1.6159, WP2)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Enzymes

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_002005305

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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