Name: Winogradskyella echinorum KCTC 22026
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 133461

Type strain:

Species: Winogradskyella echinorum

Culture col. no.: KCTC 22026, LMG 24757, KMM 6211

Strain history: <- OI Nedashkovskaya, Pacific Institute of Bioorganic Chemistry, Russia

NCBI tax ID(s): 538189 (species)

SI-ID 264789

LMG 24757, KCTC 22026, CECT 7944

Section

Winogradskyella echinorum KCTC 22026 is an aerobe, spore-forming, Gram-negative bacterium that was isolated from sea urchin.

Gram-negative
motile
rod-shaped
spore-forming
aerobe
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Winogradskyella*
	Species	**Winogradskyella echinorum**
	Full Scientific Name (LPSN)	Winogradskyella echinorum Nedashkovskaya et al. 2009

Information on morphological and physiological properties Morphology

[Ref.: #29068]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.979

[Ref.: #29068]	Cell length	1.95 µm

[Ref.: #29068]	Cell width	0.45 µm

[Ref.: #29068]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #29068]	Motility	yes
[Ref.: #67771]	Motility	yes

[Ref.: #29068]	Flagellum arrangement	gliding
[Ref.: #67771]	Flagellum arrangement	gliding

[Ref.: #29068]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

		Temperature
[Ref.: #29068]	growth	04-37 °C
[Ref.: #29068]	optimum	20.5 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #29068]	Temperature range	psychrophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29068]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #29068]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.99

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29068]		NaCl		growth	01-06	%
[Ref.: #29068]		NaCl		optimum	3.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29068]	esculin ChEBI	+	hydrolysis
[Ref.: #29068]	glucose ChEBI	+	carbon source
[Ref.: #29068]	mannose ChEBI	+	carbon source

	Enzyme	Enzyme activity	EC number
[Ref.: #29068]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29068]	catalase	+	1.11.1.6
[Ref.: #29068]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #29068]	Sample type/isolated from	sea urchin

[Ref.: #67771]	Sample type/isolated from	From the sea urchin `Strongylocentrotus intermedius`
[Ref.: #67771]	Geographic location (country and/or sea, region)	Troitsa Bay, Gulf of Peter the Great, East Sea
[Ref.: #67771]	Country	Russia
[Ref.: #67771]	Country ISO 3 Code	RUS
[Ref.: #67771]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Host

#Invertebrates (Other)

#Echinodermata

What are isolation sources categories?

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.: #29068]	Winogradskyella echinorum strain KMM 6211 16S ribosomal RNA gene, partial sequence	EU727254	1478	GenBank	538189 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Winogradskyella echinorum KCTC 22026	GCA_014284085	contig	GenBank	538189 tax ID	*
[Ref.: #66792]	Winogradskyella echinorum KCTC 22026	GCA_014297365	contig	GenBank	538189 tax ID	*
[Ref.: #66792]	Winogradskyella echinorum strain KCTC 22026	538189.3	wgs	PATRIC	538189 tax ID	*
[Ref.: #66792]	Winogradskyella echinorum strain KCTC 22026	538189.4	wgs	PATRIC	538189 tax ID	*

[Ref.: #29068]

GC-content

33.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Winogradskyella echinorum strain KCTC 22026 PATRIC: 538189.4
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Winogradskyella echinorum strain KCTC 22026 PATRIC: 538189.3
[Ref.: #69480]	gram-positive	no	97.642	no
[Ref.: #69480]	anaerobic	no	99.347	no
[Ref.: #69480]	halophile	no	76.656	no
[Ref.: #69480]	spore-forming	no	95.868	no
[Ref.: #69480]	glucose-util	yes	86.07	yes
[Ref.: #69480]	thermophile	no	99.103	yes
[Ref.: #69480]	aerobic	yes	90.362	yes
[Ref.: #69480]	motile	no	86.752	no
[Ref.: #69480]	glucose-ferment	no	89.047	no
[Ref.: #69480]	flagellated	no	95.361	no

Availability in culture collections External links

[Ref.: #29068]

Culture collection no.

KCTC 22026, LMG 24757, KMM 6211

[Ref.: #91448]

SI-ID 264789

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Winogradskyella ouciana sp. nov., isolated from the hadal seawater of the Mariana Trench.	He X, Liu R, Liang J, Li Y, Zhao X, Ran L, Ahmad W, Zhang XH	Int J Syst Evol Microbiol	10.1099/ijsem.0.004687	2021	*
Phylogeny	Winogradskyella jejuensis sp. nov., a marine bacterium isolated from a brown alga Carpopeltis affinis.	Kim JY, Oh DC	J Microbiol	10.1007/s12275-012-2447-0	2012	*
Phylogeny	Winogradskyella damuponensis sp. nov., isolated from seawater.	Lee DH, Cho SJ, Kim SM, Lee SB	Int J Syst Evol Microbiol	10.1099/ijs.0.041384-0	2012	*
Phylogeny	Winogradskyella ulvae sp. nov., an epiphyte of a Pacific seaweed, and emended descriptions of the genus Winogradskyella and Winogradskyella thalassocola, Winogradskyella echinorum, Winogradskyella exilis and Winogradskyella eximia.	Nedashkovskaya OI, Kukhlevskiy AD, Zhukova NV	Int J Syst Evol Microbiol	10.1099/ijs.0.032219-0	2011	*
Phylogeny	Winogradskyella flava sp. nov., isolated from the brown alga, Sargassum fulvellum.	Lee JH, Kang JW, Shin SB, Seong CN	Int J Syst Evol Microbiol	10.1099/ijsem.0.002161	2017	*
Phylogeny	Winogradskyella eckloniae sp. nov., a marine bacterium isolated from the brown alga Ecklonia cava.	Kim JY, Park SH, Seo GY, Kim YJ, Oh DC	Int J Syst Evol Microbiol	10.1099/ijs.0.000334	2015	*
Phylogeny	Winogradskyella pulchriflava sp. nov., isolated from marine sediment.	Kim SJ, Choi YR, Park SJ, Kim JG, Shin KS, Roh DH, Rhee SK	Int J Syst Evol Microbiol	10.1099/ijs.0.049502-0	2013	*
Phylogeny	Winogradskyella echinorum sp. nov., a marine bacterium of the family Flavobacteriaceae isolated from the sea urchin Strongylocentrotus intermedius.	Nedashkovskaya OI, Vancanneyt M, Kim SB, Zhukova NV	Int J Syst Evol Microbiol	10.1099/ijs.0.005421-0	2009	*

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 )

#29068

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 #25498 (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) .

#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#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) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#91448

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-ID264789.1 )

#25498

IJSEM 1465 2009 ( DOI 10.1099/ijs.0.005421-0 , PubMed 19502336 )

* These data were automatically processed and therefore are not curated

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Winogradskyella echinorum strain KCTC 22026

Winogradskyella echinorum strain KCTC 22026

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