Name: Aequorivita vladivostokensis CIP 108845
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 139663

Type strain:

Species: Aequorivita vladivostokensis

Culture col. no.: CIP 108845, KMM 3516, IFO 16718, NBRC 16718, JCM 11732

Strain history: CIP <- 2005, KMM

NCBI tax ID(s): 171194 (species)

SI-ID 99606

NBRC 16718, JCM 11732, IFO 16718, CIP 108845

Section

Aequorivita vladivostokensis CIP 108845 is a mesophilic, Gram-negative bacterium of the family Flavobacteriaceae.

Gram-negative
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	*Aequorivita*
	Species	**Aequorivita vladivostokensis**
	Full Scientific Name (LPSN)	Aequorivita vladivostokensis (Nedashkovskaya et al. 2003) Hahnke et al. 2017

Synonym

Vitellibacter vladivostokensis

Information on morphological and physiological properties Morphology

[Ref.: #42261]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.996

[Ref.: #42261]	Cell shape	rod-shaped

[Ref.: #42261]	Motility	no

[Ref.: #42261]	Pigment production	yes
[Ref.: #42261]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #42261]

Culture medium

Marine agar (MA)

[Ref.: #42261]

Culture medium growth

[Ref.: #42261]

Culture medium composition

expand / minimize

[Ref.: #42261]

Culture medium

CIP Medium 13

[Ref.: #42261]

Culture medium growth

[Ref.: #42261]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #42261]

Culture medium

CIP Medium 72

[Ref.: #42261]

Culture medium growth

[Ref.: #42261]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #42261]		growth	25 °C
[Ref.: #42261]		growth	15-37 °C
[Ref.: #42261]	no	growth	5 °C
[Ref.: #42261]	no	growth	41 °C
[Ref.: #42261]	no	growth	45 °C
[Ref.: #67770]		growth	25 °C

[Ref.: #42261]	Temperature range	mesophilic
[Ref.: #42261]	Temperature range	psychrophilic
[Ref.: #42261]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.991

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #42261]		NaCl		growth	0-10	%

[Ref.: #67770]

Observation

quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #42261]	esculin ChEBI	-	hydrolysis
[Ref.: #42261]	hippurate ChEBI	+	hydrolysis
[Ref.: #42261]	malonate ChEBI	-	assimilation
[Ref.: #42261]	nitrate ChEBI	-	reduction
[Ref.: #42261]	nitrate ChEBI	-	respiration
[Ref.: #42261]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #42261]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #42261]		acetoin ChEBI	-
[Ref.: #42261]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #42261]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	+	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	-	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #42261]	amylase	-
[Ref.: #42261]	beta-galactosidase	+	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #42261]	caseinase	+	3.4.21.50
[Ref.: #42261]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #42261]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #42261]	gelatinase	+
[Ref.: #42261]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #42261]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #42261]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #42261]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #42261]	oxidase	-
[Ref.: #42261]	phenylalanine ammonia-lyase	+	4.3.1.24
[Ref.: #42261]	protease	+
[Ref.: #68382]	trypsin	+	3.4.21.4	* from API zym
[Ref.: #42261]	tryptophan deaminase	-
[Ref.: #42261]	tween esterase	+
[Ref.: #42261]	urease	-	3.5.1.5
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #42261]	11504	-	+	+	+	-	+	+	-	+	+	+	+	-	-	-	-	-	-	-	-

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

[Ref.: #67770]	Sample type/isolated from	Holothurian (Apostichopus japonicus) collected from Troitsa Bay in the Gulf of Peter the Great
[Ref.: #67770]	Host species	Apostichopus japonicus
[Ref.: #67770]	Geographic location (country and/or sea, region)	Sea of Japan

[Ref.: #42261]	Sample type/isolated from	Holothurian, Apostichopus japonicus
[Ref.: #42261]	Geographic location (country and/or sea, region)	Troitsa bay, Sea of Japan
[Ref.: #42261]	Country	Russian Federation
[Ref.: #42261]	Country ISO 3 Code	RUS
[Ref.: #42261]	Continent	Europe
[Ref.: #42261]	Isolation date	1997

[Ref.: #42261]	Geographic location (country and/or sea, region)	Troitsa bay
[Ref.: #42261]	Country	Sea of Japan
[Ref.: #42261]	Country ISO 3 Code	RUS
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB071382 (>99% sequence identity) for Aequorivita from Microbeatlas

Aquatic Samples	702
Soil Samples	138
Animal Samples	135
Plant Samples	22
Total Samples	997

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

[Ref.: #42261]

Biosafety level

Risk group (French classification)

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.: #67770]	Vitellibacter vladivostokensis gene for 16S rRNA, partial sequence	AB071382	1400	ENA	171194 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Aequorivita vladivostokensis KMM 3516	GCA_000952855	contig	GenBank	171194 tax ID
[Ref.: #66792]	Aequorivita vladivostokensis strain KMM 3516	171194.13	wgs	PATRIC	171194 tax ID	*
[Ref.: #66792]	Aequorivita vladivostokensis KMM 3516	2627853707	draft	JGI IMG/M	171194 tax ID	*

[Ref.: #67770]

GC-content

41.3 mol%

thermal denaturation, midpoint method (Tm)

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: Aequorivita vladivostokensis strain KMM 3516 PATRIC: 171194.13
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Aequorivita vladivostokensis strain KMM 3516 PATRIC: 171194.13
[Ref.: #69480]	motile	no	85.567	no
[Ref.: #69480]	gram-positive	no	98.503	no
[Ref.: #69480]	anaerobic	no	99.182	no
[Ref.: #69480]	aerobic	yes	92.33	no
[Ref.: #69480]	halophile	yes	66.421	no
[Ref.: #69480]	spore-forming	no	94.926	no
[Ref.: #69480]	thermophile	no	99.342	yes
[Ref.: #69480]	glucose-util	yes	75.138	no
[Ref.: #69480]	flagellated	no	95.188	no
[Ref.: #69480]	glucose-ferment	no	91.914	no

Availability in culture collections External links

[Ref.: #42261]

Culture collection no.

CIP 108845, KMM 3516, IFO 16718, NBRC 16718, JCM 11732

[Ref.: #96123]

SI-ID 99606

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Aequorivita iocasae sp. nov., a halophilic bacterium isolated from sediment collected at a cold seep field in the South China Sea.	Zhang H, Wang H, Cao L, Chen H, Zhong Z, Wang M, Lian C, Liu R, Zhou L, Li C	Int J Syst Evol Microbiol	10.1099/ijsem.0.005199	2022	*
Genetics	Draft genome sequence of Vitellibacter vladivostokensis KMM 3516(T): a protease-producing bacterium.	Thevarajoo S, Selvaratnam C, Chan KG, Goh KM, Chong CS	Mar Genomics	10.1016/j.margen.2015.04.009	2015	*
Phylogeny	Vitellibacter echinoideorum sp. nov., isolated from a sea urchin (Tripneustes gratilla).	Lin SY, Hameed A, Wen CZ, Liu YC, Hsu YH, Shen FT, Lai WA, Young CC	Int J Syst Evol Microbiol	10.1099/ijs.0.000258	2015	*
Phylogeny	Vitellibacter vladivostokensis gen. nov., sp. nov., a new member of the phylum Cytophaga-Flavobacterium-Bacteroides.	Nedashkovskaya OI, Suzuki M, Vysotskii MV, Mikhailov VV	Int J Syst Evol Microbiol	10.1099/ijs.0.02302-0	2003	*

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 )

#42261 Collection of Institut Pasteur ; Curators of the CIP; CIP 108845

#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;

#68382

Automatically annotated from API zym .

#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 )

#96123

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-ID99606.1 )

* These data were automatically processed and therefore are not curated

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Aequorivita vladivostokensis strain KMM 3516

Aequorivita vladivostokensis strain KMM 3516

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