Name: Bizionia echini DSM 23925
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5715

Type strain:

Species: Bizionia echini

Culture col. no.: DSM 23925, KCTC 22015, KMM 6177, LMG 25220

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

NCBI tax ID(s): 649333 (species)

SI-ID 264738

LMG 25220, KCTC 22015, DSM 23925

Section

Bizionia echini DSM 23925 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from sea urchin Strongylocentrotus intermedius.

Gram-negative
motile
rod-shaped
aerobe
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Bizionia*
	Species	**Bizionia echini**
	Full Scientific Name (LPSN)	Bizionia echini Nedashkovskaya et al. 2010

Synonym

"Algorimicrobium echini"

Information on morphological and physiological properties Morphology

[Ref.: #29440]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #29440]	Cell length	1.4-3.5 µm

[Ref.: #29440]	Cell width	0.4-0.5 µm

[Ref.: #29440]	Cell shape	rod-shaped
[Ref.: #67771]	Cell shape	rod-shaped

[Ref.: #29440]	Motility	yes
[Ref.: #67771]	Motility	no

[Ref.: #29440]	Flagellum arrangement	gliding

[Ref.: #29440]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #17308]

Culture medium

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

[Ref.: #17308]

Culture medium growth

[Ref.: #17308]

Culture medium link

Medium recipe at MediaDive

[Ref.: #17308]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #17308]	growth	28 °C
[Ref.: #29440]	growth	04-39 °C
[Ref.: #29440]	optimum	30-37 °C
[Ref.: #67771]	growth	28 °C

[Ref.: #17308]	Temperature range	mesophilic
[Ref.: #29440]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29440]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.999

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29440]		NaCl		growth	01-08	%
[Ref.: #29440]		NaCl		optimum	02-03	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29440]	citrate ChEBI	+	carbon source
[Ref.: #29440]	glucose ChEBI	+	carbon source
[Ref.: #29440]	mannose ChEBI	+	carbon source

	Metabolite production	Metabolite	Production
[Ref.: #29440]		hydrogen sulfide ChEBI	yes

	Enzyme	Enzyme activity	EC number
[Ref.: #29440]	alkaline phosphatase	+	3.1.3.1
[Ref.: #29440]	catalase	+	1.11.1.6
[Ref.: #29440]	cytochrome oxidase	+	1.9.3.1

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

[Ref.: #17308]	Sample type/isolated from	sea urchin Strongylocentrotus intermedius
[Ref.: #17308]	Host species	Strongylocentrotus intermedius
[Ref.: #17308]	Geographic location (country and/or sea, region)	Sea of Japan, Gulf of Peter the Great, Troitsa Bay
[Ref.: #17308]	Country	Russia
[Ref.: #17308]	Country ISO 3 Code	RUS
[Ref.: #17308]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From 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
#Environmental	#Aquatic	#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence FJ716799 (>99% sequence identity) for Bizionia from Microbeatlas

Aquatic Samples	616
Soil Samples	12
Animal Samples	125
Plant Samples	7
Total Samples	760

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

[Ref.: #17308]

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.: #17308]	Bizionia echini 16S ribosomal RNA gene, partial sequence	FJ716799	1478	ENA	649333 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Bizionia echini DSM 23925	GCA_900115185	scaffold	GenBank	649333 tax ID	*
[Ref.: #66792]	Bizionia echini strain DSM 23925	649333.4	wgs	PATRIC	649333 tax ID	*
[Ref.: #66792]	Bizionia echini DSM 23925	2622736504	draft	JGI IMG/M	649333 tax ID	*

[Ref.: #17308]	GC-content	34.4 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #29440]	GC-content	34.4 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: Bizionia echini DSM 23925 NCBI: GCA_900115185.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Bizionia echini DSM 23925 NCBI: GCA_900115185.1
[Ref.: #69480]	motile	no	88.535	yes
[Ref.: #69480]	flagellated	no	95.096	yes
[Ref.: #69480]	gram-positive	no	98.195	yes
[Ref.: #69480]	anaerobic	no	99.364	yes
[Ref.: #69480]	aerobic	yes	91.569	no
[Ref.: #69480]	halophile	no	69.093	no
[Ref.: #69480]	spore-forming	no	95.475	no
[Ref.: #69480]	glucose-ferment	no	91.694	no
[Ref.: #69480]	thermophile	no	98.284	no
[Ref.: #69480]	glucose-util	yes	83.818	no

Availability in culture collections External links

[Ref.: #17308]

Culture collection no.

DSM 23925, KCTC 22015, KMM 6177, LMG 25220

[Ref.: #75197]

SI-ID 264738

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Hanstruepera crassostreae sp. nov., a novel marine bacterium of the family Flavobacteriaceae isolated from an oyster.	He RH, Liang QY, Zhao JX, Du ZJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.003053	2018	*
Phylogeny	Bizionia psychrotolerans sp. nov., a psychrophilic bacterium isolated from the intestine of a sea cucumber (Apostichopus japonicus).	Song EJ, Lee MH, Seo MJ, Yim KJ, Hyun DW, Bae JW, Park SL, Roh SW, Nam YD	Antonie Van Leeuwenhoek	10.1007/s10482-014-0253-x	2014	*
Phylogeny	Bizionia echini sp. nov., isolated from a sea urchin.	Nedashkovskaya OI, Vancanneyt M, Kim SB	Int J Syst Evol Microbiol	10.1099/ijs.0.013193-0	2009	*

References

#17308

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 23925

#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 )

#29440

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 #25846 (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;

#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) .

#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 )

#75197

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-ID264738.1 )

#25846

IJSEM 928 2010 ( DOI 10.1099/ijs.0.013193-0 , PubMed 19661492 )

* These data were automatically processed and therefore are not curated

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