Name: Aliivibrio fischeri 398
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17248

Type strain:

Species: Aliivibrio fischeri

Strain Designation: 398

Culture col. no.: DSM 507, ATCC 7744, JCM 18803, NCMB 1281, CCUG 13450, CAIM 329, LMG 4414, CIP 103206, NCCB 80039, BCRC 12900, CCUG 16305, CECT 524, CIP 75.08, CIP 75.8, KCTC 12272, KCTC 12386, NCIMB 1281, NRRL B-41164, NRRL B-761

Strain history: DSM 507 <-- ATCC 7744 <-- F. H. Johnson.

NCBI tax ID(s): 1298605 (strain), 668 (species)

Other strains from Aliivibrio fischeri

A. fischeri 395, DSM 2168, ATCC 14546, CCM ...
A. fischeri DSM 7151, CIP 105356, NRRL B-11177
A. fischeri STI40142(IMET), INA6786/54, IMET ...
A. fischeri CCUG 16309, ATCC 33983
A. fischeri CCUG 16312
A. fischeri CCUG 16313
A. fischeri CCUG 16314

Section

Aliivibrio fischeri 398 is an aerobe, psychrophilic bacterium of the family Vibrionaceae.

aerobe
psychrophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	07-12-2022 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	"Vibrionales"
	Family	*Vibrionaceae*
	Genus	*Aliivibrio*
	Species	**Aliivibrio fischeri**
	Full Scientific Name (LPSN)	Aliivibrio fischeri (Beijerinck 1889) Urbanczyk et al. 2007

	Synonym	Vibrio fischeri
	Synonym	Photobacterium fischeri

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.978

[Ref.: #69480]	Motility	yes Confidence in %93.888

Information on culture and growth conditions Culture and growth conditions

[Ref.: #254]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 514 (DSMZ Medium 514c)

[Ref.: #254]

Culture medium growth

[Ref.: #254]

Culture medium link

Medium recipe at MediaDive

[Ref.: #254]

Culture medium composition

expand / minimize

[Ref.: #41758]

Culture medium

Marine agar (MA)

[Ref.: #41758]

Culture medium growth

[Ref.: #41758]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #254]	growth	22 °C
[Ref.: #41758]	growth	25 °C
[Ref.: #45953]	growth	26 °C
[Ref.: #67770]	growth	22 °C

[Ref.: #254]	Temperature range	psychrophilic
[Ref.: #41758]	Temperature range	mesophilic
[Ref.: #45953]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #45953]

Oxygen tolerance

aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %94
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.748

[Ref.: #254]

Name of produced compound

luciferase

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #68369]	adipate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	amygdalin ChEBI	+	fermentation	* from API 20E
[Ref.: #68369]	arginine ChEBI	-	hydrolysis	* from API 20NE, API 20E
[Ref.: #68368]	citrate ChEBI	-	assimilation	* from API 20E
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE, API 20E
[Ref.: #68369]	D-glucose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	D-mannitol ChEBI	+	fermentation	* from API 20E
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	esculin ChEBI	+	hydrolysis	* from API 20NE
[Ref.: #68369]	gelatin ChEBI	-	hydrolysis	* from API 20NE, API 20E
[Ref.: #68369]	gluconate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	L-arabinose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	L-arabinose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	L-rhamnose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	lysine ChEBI	+	degradation	* from API 20E
[Ref.: #68369]	malate ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	maltose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	melibiose ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	myo-inositol ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	N-acetylglucosamine ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE, API 20E
[Ref.: #68368]	ornithine ChEBI	-	degradation	* from API 20E
[Ref.: #68368]	sorbitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68368]	sucrose ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	tryptophan ChEBI	-	energy source	* from API 20NE, API 20E
[Ref.: #68369]	urea ChEBI	+	hydrolysis	* from API 20NE, API 20E
	Only first 10 entries are displayed. Click here to see all.

	Metabolite
[Ref.: #68368]	acetoin ChEBI	* from API 20E
[Ref.: #68368]	dinitrogen ChEBI	* from API 20E
[Ref.: #68368]	hydrogen sulfide ChEBI	* from API 20E
[Ref.: #68369]	indole ChEBI	* from API 20NE, API 20E
[Ref.: #68368]	nitrite ChEBI	* from API 20E

	Physiological tests	Metabolite	Voges-Proskauer-test	Indole test
[Ref.: #68368]		acetoin ChEBI	-		* from API 20E
[Ref.: #68369]		indole ChEBI		-	* from API 20NE, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68369]	arginine dihydrolase	-	3.5.3.6	* from API 20NE, API 20E
[Ref.: #68368]	beta-galactosidase	-	3.2.1.23	* from API 20E
[Ref.: #68369]	beta-glucosidase	+	3.2.1.21	* from API 20NE
[Ref.: #68369]	cytochrome oxidase	+	1.9.3.1	* from API 20NE, API 20E
[Ref.: #68369]	gelatinase	-		* from API 20NE, API 20E
[Ref.: #68368]	lysine decarboxylase	+	4.1.1.18	* from API 20E
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #68369]	urease	+	3.5.1.5	* from API 20NE, API 20E

API® 20E:

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

	API ID	beta-GalactosidaseONPG	Arginine dihydrolaseADH (Arg)	Lysine decarboxylaseLDC (Lys)	Ornithine decarboxylaseODC	Citrate utilizationCIT	H2S productionH2S	Urease/urea hydrolysisURE	Tryptophan deaminaseTDA (Trp)	Indole productionIND	Acetoin production (Voges Proskauer test)VP	Gelatinase/gelatin hydrolysisGEL	Fermentation/oxidation of D-glucoseGLU	Fermentation/oxidation of D-mannitolMAN	Fermentation/oxidation of inositolINO	Fermentation/oxidation of sorbitolSor	Fermentation/oxidation of L-rhamnoseRHA	Fermentation/oxidation of sucroseSAC	Fermentation/oxidation of melibioseMEL	Fermentation/oxidation of amygdalinAMY	Fermentation/oxidation of L-arabinoseARA	Cytochrome oxidaseOX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	Oxidative catabolisation of D-glucoseOF-O	Fermentation of D-glucoseOF-F
[Ref.: #254]	15509	-	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #254]	15313	-	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #254]	15152	-	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #254]	14288	-	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #254]	14231	-	-	+	-	-	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.

API® 20NE:

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

	API ID	Reduction of nitratesNO3	Indole productionTRP	Fermentation of D-glucoseGLU_ Ferm	Arginine dihydrolaseADH (Arg)	Urease/urea hydrolysisURE	Esculin hydrolysis/beta-GlucosidaseESC	Gelatinase/gelatin hydrolysisGEL	beta-GalactosidasePNPG	Assimilation of D-glucoseGLU_ Assim	Assimilation of L-arabinoseARA	Assimilation of D-mannoseMNE	Assimilation of D-mannitolMAN	Assimilation of N-acetyl-glucosamineNAG	Assimilation of maltoseMAL	Assimilation of gluconateGNT	Assimilation of capric acidCAP	Assimilation adipic acidADI	Assimilation of malic acidMLT	Assimilation of citric acidCIT	Assimilation of phenyl-acetic acidPAC	Cytochrome oxidaseOX
[Ref.: #254]	20821	+	-	+	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+
[Ref.: #254]	20818	+	-	+	-	+	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+

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

[Ref.: #254]

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:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #20218]	Vibrio fischeri isolate 7744 16S ribosomal RNA gene, partial sequence	AY292938	1227	ENA	668 tax ID	*
[Ref.: #20218]	Vibrio fischeri strain ATCC 7744 16S ribosomal RNA gene, partial sequence	AY341436	1475	ENA	668 tax ID	*
[Ref.: #20218]	Vibrio fischeri 16S rRNA	D11202	159	ENA	668 tax ID	*
[Ref.: #20218]	Vibrio fischeri 16S rRNA	D11251	205	ENA	668 tax ID	*
[Ref.: #20218]	Vibrio fischeri 16S rRNA	D11300	193	ENA	668 tax ID	*
[Ref.: #20218]	V.fisheri (ATCC 7744T) gene for 16S ribosomal RNA	X74702	1467	ENA	668 tax ID	*
[Ref.: #20218]	V.fischeri gamma subclass (NCMB 1281) gene for 16S rRNA	X70640	1486	ENA	668 tax ID	*

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Aliivibrio fischeri ATCC 7744 = JCM 18803 = DSM 507 JCM 18803	GCA_001312625	contig	GenBank	1298605 tax ID
[Ref.: #66792]	Aliivibrio fischeri ATCC 7744 = JCM 18803 = DSM 507 DSM 507	GCA_023983475	complete	GenBank	1298605 tax ID	*
[Ref.: #66792]	Aliivibrio fischeri JCM 18803	GCA_014647395	scaffold	GenBank	668 tax ID	*
[Ref.: #66792]	Aliivibrio fischeri JCM 18803	1298605.61	wgs	PATRIC	1298605 tax ID	*
[Ref.: #66792]	Aliivibrio fischeri strain ATCC 7744	668.164	wgs	PATRIC	668 tax ID	*
[Ref.: #66792]	Aliivibrio fischeri strain JCM 18803	668.149	wgs	PATRIC	668 tax ID	*

[Ref.: #254]	GC-content	39.7 mol%
[Ref.: #67770]	GC-content	39.7 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 Diaspora project based on: Aliivibrio fischeri JCM 18803 PATRIC: 1298605.61
[Ref.: #69480]	anaerobic	no	97.646	no
[Ref.: #69480]	gram-positive	no	99.978	yes
[Ref.: #69480]	spore-forming	no	99.748	no
[Ref.: #69480]	thermophile	no	99.995	no
[Ref.: #69480]	motile	yes	93.888	yes

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Aliivibrio fischeri JCM 18803 PATRIC: 1298605.61
[Ref.: #69481]	spore-forming	no	94	no

Availability in culture collections External links

[Ref.: #254]

Culture collection no.

DSM 507, ATCC 7744, JCM 18803, NCMB 1281, CCUG 13450, CAIM 329, LMG 4414, CIP 103206, NCCB 80039, BCRC 12900, CCUG 16305, CECT 524, CIP 75.08, CIP 75.8, KCTC 12272, KCTC 12386, NCIMB 1281, NRRL B-41164, NRRL B-761

Literature:

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

	Title	Authors	Journal	DOI	Year
Genetics	Identification of the cobalamin-dependent methionine synthase gene, metH, in Vibrio fischeri ATCC 7744 by sequencing using genomic DNA as a template.	Kasai S, Yamazaki T	Gene	10.1016/s0378-1119(01)00339-0	2001	*
Genetics	Identification and analysis of the sap genes from Vibrio fischeri belonging to the ATP-binding cassette gene family required for peptide transport and resistance to antimicrobial peptides.	Chen HY, Weng SF, Lin JW	Biochem Biophys Res Commun	10.1006/bbrc.1999.1506	2000	*
Enzymology	Identification of the genes encoding NAD(P)H-flavin oxidoreductases that are similar in sequence to Escherichia coli Fre in four species of luminous bacteria: Photorhabdus luminescens, Vibrio fischeri, Vibrio harveyi, and Vibrio orientalis.	Zenno S, Saigo K	J Bacteriol	10.1128/jb.176.12.3544-3551.1994	1994	*
Enzymology	Identification of the gene encoding the major NAD(P)H-flavin oxidoreductase of the bioluminescent bacterium Vibrio fischeri ATCC 7744.	Zenno S, Saigo K, Kanoh H, Inouye S	J Bacteriol	10.1128/jb.176.12.3536-3543.1994	1994	*
Genetics	Sequence of the luxD gene encoding acyltransferase of the lux operon from Photobacterium leiognathi.	Chao YF, Weng SF, Lin JW	Gene	10.1016/0378-1119(93)90606-4	1993	*
Genetics	Draft Genome Sequence of the Marine Bioluminescent Bacterium Aliivibrio fischeri ATCC 7744.	Low EKJ, Goh AEL, Logis J, Lee SW, Fatima A, Yap WS, Lim CSY	Microbiol Resour Announc	10.1128/mra.01117-21	2022	*
Metabolism	Enzymatic conversion of dehydrocoelenterazine to coelenterazine using FMN-bound flavin reductase of NAD(P)H:FMN oxidoreductase.	Inouye S, Nakamura M, Hosoya T	Biochem Biophys Res Commun	10.1016/j.bbrc.2021.11.089	2021	*
Cultivation	Impact of the freeze-drying process on product appearance, residual moisture content, viability, and batch uniformity of freeze-dried bacterial cultures safeguarded at culture collections.	Peiren J, Hellemans A, De Vos P	Appl Microbiol Biotechnol	10.1007/s00253-016-7359-1	2016	*
Pathogenicity	Broad-Host Range Gene Transporter Particles Produced by Aliivibrio fischeri.	Chiura HX, Uchiyama N, Kogure K	Microbes Environ	10.1264/jsme2.me09153	2009	*
Phylogeny	Reclassification of Vibrio fischeri, Vibrio logei, Vibrio salmonicida and Vibrio wodanis as Aliivibrio fischeri gen. nov., comb. nov., Aliivibrio logei comb. nov., Aliivibrio salmonicida comb. nov. and Aliivibrio wodanis comb. nov.	Urbanczyk H, Ast JC, Higgins MJ, Carson J, Dunlap PV	Int J Syst Evol Microbiol	10.1099/ijs.0.65081-0	2007	*
Genetics	Identification and characteristic analysis of the ampC gene encoding beta-lactamase from Vibrio fischeri.	Weng SF, Chao YF, Lin JW	Biochem Biophys Res Commun	10.1016/j.bbrc.2003.12.171	2004	*
Metabolism	Occurrence of P-flavin binding protein in Vibrio fischeri and properties of the protein.	Kasai S	J Biochem	10.1093/oxfordjournals.jbchem.a022450	1999	*
Genetics	Identification and analysis of the regulatory region R&R* with the cnf1 gene encoding the cytotoxic necrotizing factor type 1 that closely links to the lux regulon of Vibrio fischeri.	Lin JW, Chen LM, Chen HY, Weng SF	Biochem Biophys Res Commun	10.1006/bbrc.1998.9325	1998	*
Enzymology	Crystallization and preliminary crystallographic analysis of the major NAD(P)H: FMN oxidoreductase of Vibrio fischeri ATCC 7744.	Koike H, Sasaki H, Tanokura M, Zenno S, Saigo K	J Struct Biol	10.1006/jsbi.1996.0070	1996	*
Enzymology	Stereospecificity of hydride transfer and substrate specificity for FMN-containing NAD(P)H-flavin oxidoreductase from the luminescent bacterium, Vibrio fischeri ATCC 7744.	Inouye S, Nakamura H	Biochem Biophys Res Commun	10.1006/bbrc.1994.2661	1994	*
Enzymology	NAD(P)H-flavin oxidoreductase from the bioluminescent bacterium, Vibrio fischeri ATCC 7744, is a flavoprotein.	Inouye S	FEBS Lett	10.1016/0014-5793(94)00528-1	1994	*
Enzymology	Nucleotide sequence of the luxC gene encoding fatty acid reductase of the lux operon from Photobacterium leiognathi.	Lin JW, Chao YF, Weng SF	Biochem Biophys Res Commun	10.1006/bbrc.1993.1219	1993	*
Enzymology	Physical and functional maps of the luminescence gene cluster in an autoinducer-deficient Vibrio fischeri strain isolated from a squid light organ.	Gray KM, Greenberg EP	J Bacteriol	10.1128/jb.174.13.4384-4390.1992	1992	*
Genetics	Use of regulated cell lysis in a lethal genetic selection in Escherichia coli: identification of the autoinducer-binding region of the LuxR protein from Vibrio fischeri ATCC 7744.	Shadel GS, Young R, Baldwin TO	J Bacteriol	10.1128/jb.172.7.3980-3987.1990	1990	*
Genetics	Identification of the operator of the lux regulon from the Vibrio fischeri strain ATCC7744.	Devine JH, Shadel GS, Baldwin TO	Proc Natl Acad Sci U S A	10.1073/pnas.86.15.5688	1989	*
Genetics	The complete nucleotide sequence of the lux regulon of Vibrio fischeri and the luxABN region of Photobacterium leiognathi and the mechanism of control of bacterial bioluminescence.	Baldwin TO, Devine JH, Heckel RC, Lin JW, Shadel GS	J Biolumin Chemilumin	10.1002/bio.1170040145	1989	*
Enzymology	Interaction between luciferases from various species of bioluminescent bacteria and the yellow fluorescent protein of Vibrio fischeri strain Y-1.	Daubner SC, Baldwin TO	Biochem Biophys Res Commun	10.1016/0006-291x(89)91368-5	1989	*
Enzymology	Functional identification of the fatty acid reductase components encoded in the luminescence operon of Vibrio fischeri.	Boylan M, Graham AF, Meighen EA	J Bacteriol	10.1128/jb.163.3.1186-1190.1985	1985	*
Genetics	Complete Genome Sequence of the Type Strain Aliivibrio fischeri DSM 507.	Papaioannou KK, Hollensteiner J, Witte JKH, Poehlein A, Daniel R	Microbiol Resour Announc	10.1128/mra.00801-22	2022	*
	Improving survival and storage stability of bacteria recalcitrant to freeze-drying: a coordinated study by European culture collections.	Peiren J, Buyse J, De Vos P, Lang E, Clermont D, Hamon S, Begaud E, Bizet C, Pascual J, Ruvira MA, Macian MC, Arahal DR	Appl Microbiol Biotechnol	10.1007/s00253-015-6476-6	2015	*

References

#254	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 507

#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 )

#41758 ; Curators of the CIP;
#45953 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 13450

#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;

#68368

Automatically annotated from API 20E .

#68369

Automatically annotated from API 20NE .

#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 )

* These data were automatically processed and therefore are not curated

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Aliivibrio fischeri JCM 18803

Aliivibrio fischeri JCM 18803

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