Name: Shewanella kaireitica c931
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 14075

Type strain:

Species: Shewanella kaireitica

Strain Designation: c931

Culture col. no.: DSM 17170, JCM 11836, CIP 109340, KCTC 22439

Strain history: Y. Nogi c931.

NCBI tax ID(s): 212021 (species)

SI-ID 297323

DSM 17170, JCM 11836, CIP 109340

Section

Shewanella kaireitica c931 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from deep-sea sediment.

Gram-negative
motile
rod-shaped
facultative anaerobe
mesophilic
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Alteromonadales*
	Family	*Shewanellaceae*
	Genus	*Shewanella*
	Species	**Shewanella kaireitica**
	Full Scientific Name (LPSN)	Shewanella kaireitica Miyazaki et al. 2006

Information on morphological and physiological properties Morphology

[Ref.: #31747]	Gram stain	negative

[Ref.: #31747]	Cell length	2.5-3 µm

[Ref.: #31747]	Cell width	0.8-1 µm

[Ref.: #31747]	Cell shape	rod-shaped

[Ref.: #31747]	Motility	yes

[Ref.: #31747]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6805]

Culture medium

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

[Ref.: #6805]

Culture medium growth

[Ref.: #6805]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6805]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6805]	growth	25 °C
[Ref.: #31747]	growth	02-28 °C
[Ref.: #31747]	optimum	24-25 °C
[Ref.: #67770]	growth	25 °C

[Ref.: #6805]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic

	pH	Kind of pH		pH
[Ref.: #31747]			optimum	7
[Ref.: #31747]			growth	7

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31747]

Oxygen tolerance

facultative anaerobe

[Ref.: #31747]

Ability of spore formation

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31747]		NaCl		growth	03-07	%
[Ref.: #31747]		NaCl		optimum	03-05	%

[Ref.: #31747]	Observation	aggregates in chains
[Ref.: #67770]	Observation	quinones: Q-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31747]	cellobiose ChEBI	+	carbon source
[Ref.: #31747]	fructose ChEBI	+	carbon source
[Ref.: #31747]	galactose ChEBI	+	carbon source
[Ref.: #31747]	glucose ChEBI	+	carbon source
[Ref.: #31747]	maltose ChEBI	+	carbon source
[Ref.: #31747]	nitrate ChEBI	+	reduction
[Ref.: #31747]	sorbitol ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #31747]		hydrogen sulfide ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31747]		catalase	+	1.11.1.6
[Ref.: #31747]		cytochrome oxidase	+	1.9.3.1

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

[Ref.: #6805]	Sample type/isolated from	deep-sea sediment
[Ref.: #6805]	Geographic location (country and/or sea, region)	Suruga Bay
[Ref.: #6805]	Country	Japan
[Ref.: #6805]	Country ISO 3 Code	JPN
[Ref.: #6805]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Deep-sea sediment in Suruga Bay
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Marine
#Environmental	#Aquatic	#Sediment

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AB094598 (>99% sequence identity) for Shewanella piezotolerans from Microbeatlas

Aquatic Samples	924
Soil Samples	65
Animal Samples	253
Plant Samples	8
Total Samples	1250

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

[Ref.: #6805]

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.: #20218]	Shewanella kaireitica gene for 16S rRNA, partial sequence, strain: c931	AB094598	1492	ENA	212021 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Shewanella kaireitica DSM 17170	GCA_023284045	contig	GenBank	212021 tax ID	*

[Ref.: #31747]	GC-content	43 mol%
[Ref.: #67770]	GC-content	43 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Shewanella kaireitica DSM 17170 NCBI: GCA_023284045.1
[Ref.: #69480]	flagellated	yes	89.718	no
[Ref.: #69480]	gram-positive	no	99.163	no
[Ref.: #69480]	anaerobic	no	94.143	no
[Ref.: #69480]	aerobic	no	82.367	yes
[Ref.: #69480]	halophile	yes	58.186	no
[Ref.: #69480]	spore-forming	no	95.607	yes
[Ref.: #69480]	motile	yes	90.866	no
[Ref.: #69480]	glucose-ferment	no	64.87	no
[Ref.: #69480]	thermophile	no	99.539	yes
[Ref.: #69480]	glucose-util	yes	89.311	yes

Availability in culture collections External links

[Ref.: #6805]

Culture collection no.

DSM 17170, JCM 11836, CIP 109340, KCTC 22439

[Ref.: #83244]

SI-ID 297323

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Shewanella surugensis sp. nov., Shewanella kaireitica sp. nov. and Shewanella abyssi sp. nov., isolated from deep-sea sediments of Suruga Bay, Japan.	Miyazaki M, Nogi Y, Usami R, Horikoshi K	Int J Syst Evol Microbiol	10.1099/ijs.0.64173-0	2006	*

References

#6805

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17170

#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 )

#31747

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 #28021 (see below)

#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;

#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) .

#83244

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-ID297323.1 )

#28021

IJSEM 1607 2006 ( DOI 10.1099/ijs.0.64173-0 , PubMed 16825637 )

* These data were automatically processed and therefore are not curated

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Shewanella kaireitica DSM 17170

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