Name: Photobacterium iliopiscarium PS1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 17224

Type strain:

Species: Photobacterium iliopiscarium

Strain Designation: PS1

Culture col. no.: DSM 9896, ATCC 51760, CIP 104755, KCTC 12376

Strain history: CIP <- 1996, ATCC <- A.M. Onarheim

NCBI tax ID(s): 56192 (species)

SI-ID 10417

LMG 16848, ATCC 51760, DSM 9896, LMG 19543, CIP 104755, NCIMB 13355, KCTC 12376

Section

Photobacterium iliopiscarium PS1 is a facultative anaerobe, psychrophilic, Gram-negative bacterium that was isolated from pyloric ceca of herring.

Gram-negative
motile
oval-shaped
facultative anaerobe
psychrophilic
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	"Vibrionales"
	Family	*Vibrionaceae*
	Genus	*Photobacterium*
	Species	**Photobacterium iliopiscarium**
	Full Scientific Name (LPSN)	Photobacterium iliopiscarium (Onarheim et al. 1995) Urakawa et al. 1999

Synonym

Vibrio iliopiscarius

Information on morphological and physiological properties Morphology

[Ref.: #120048]	Gram stain	negative

[Ref.: #120048]	Cell shape	oval-shaped

[Ref.: #120048]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #3757]

Culture medium

REACTIVATION WITH LIQUID MEDIUM 115 (DSMZ Medium 115a)

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Culture medium growth

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Culture medium link

Medium recipe at MediaDive

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Culture medium composition

expand / minimize

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Culture medium

Marine agar (MA)

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Culture medium growth

[Ref.: #39087]

Culture medium composition

expand / minimize

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Culture medium

MARINE BROTH (ROTH CP73) (DSMZ Medium 514f)

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

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Culture medium

CIP Medium 13

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Culture medium growth

[Ref.: #120048]

Culture medium link

Medium recipe provided by DSMZ

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Culture medium

CIP Medium 72

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Culture medium growth

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Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #3757]		growth	20 °C
[Ref.: #39087]		growth	15 °C
[Ref.: #120048]		growth	5-22 °C
[Ref.: #120048]	no	growth	30 °C
[Ref.: #120048]	no	growth	37 °C
[Ref.: #120048]	no	growth	41 °C

[Ref.: #3757]	Temperature range	psychrophilic
[Ref.: #39087]	Temperature range	psychrophilic
[Ref.: #120048]	Temperature range	psychrophilic
[Ref.: #120048]	Temperature range	mesophilic
[Ref.: #120048]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #120048]

Oxygen tolerance

facultative anaerobe

	Salt	Tested relation		Salt conc.
[Ref.: #120048]	NaCl		growth	2-6	%
[Ref.: #120048]	NaCl	no	growth	0	%
[Ref.: #120048]	NaCl	no	growth	8	%
[Ref.: #120048]	NaCl	no	growth	10	%

	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	+	assimilation	* from API 20NE
[Ref.: #68369]	D-glucose ChEBI	+	fermentation	* from API 20NE
[Ref.: #68369]	D-mannitol ChEBI	-	assimilation	* from API 20NE
[Ref.: #68368]	D-mannitol ChEBI	-	fermentation	* from API 20E
[Ref.: #68369]	D-mannose ChEBI	-	assimilation	* from API 20NE
[Ref.: #68369]	decanoate ChEBI	-	assimilation	* from API 20NE
[Ref.: #120048]	esculin ChEBI	-	hydrolysis
[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.: #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.: #120048]	nitrate ChEBI	+	reduction
[Ref.: #120048]	nitrate ChEBI	+	respiration
[Ref.: #68369]	nitrate ChEBI	+	reduction	* from API 20NE
[Ref.: #120048]	nitrite ChEBI	-	reduction
[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	Production
[Ref.: #120048]	indole ChEBI	no
[Ref.: #68368]	hydrogen sulfide ChEBI	no	* from API 20E
[Ref.: #68369]	indole ChEBI	no	* from API 20NE, API 20E

	Metabolite	Voges-Proskauer-test	Methylred-test	Indole test
[Ref.: #120048]	acetoin ChEBI	-
[Ref.: #120048]	glucose ChEBI		-
[Ref.: #68369]	indole ChEBI			-	* from API 20NE, API 20E

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #120048]	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.: #120048]	amylase	+
[Ref.: #68369]	arginine dihydrolase	+	3.5.3.6	* from API 20NE, API 20E
[Ref.: #120048]	beta-galactosidase	-	3.2.1.23
[Ref.: #68368]	beta-galactosidase	-	3.2.1.23	* from API 20E, API zym
[Ref.: #68369]	beta-glucosidase	-	3.2.1.21	* from API 20NE, API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #120048]	caseinase	-	3.4.21.50
[Ref.: #120048]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68369]	cytochrome oxidase	-	1.9.3.1	* from API 20NE, API 20E
[Ref.: #120048]	DNase	-
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #120048]	gamma-glutamyltransferase	-	2.3.2.2
[Ref.: #120048]	gelatinase	-
[Ref.: #68369]	gelatinase	-		* from API 20NE, API 20E
[Ref.: #120048]	lecithinase	+
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #120048]	lipase	+
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #120048]	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.: #120048]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #68368]	ornithine decarboxylase	-	4.1.1.17	* from API 20E
[Ref.: #120048]	oxidase	+
[Ref.: #120048]	phenylalanine ammonia-lyase	-	4.3.1.24
[Ref.: #120048]	protease	-
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #120048]	tryptophan deaminase	-
[Ref.: #68368]	tryptophan deaminase	-	4.1.99.1	* from API 20E
[Ref.: #120048]	tween esterase	-
[Ref.: #120048]	urease	-	3.5.1.5
[Ref.: #68369]	urease	-	3.5.1.5	* from API 20NE, API 20E
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

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.: #3757]	17710	-	+	+	-	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #3757]	16580	-	+	-	-	-	-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.
[Ref.: #3757]	18242	-	+	+	-	-	-	-	-	-	+	-	+	-	-	-	-	-	-	-	-	-	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.: #3757]	23434	+	-	+	+	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-

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.: #120048]	8174	-	+	+	+	-	+	-	-	-	-	+	+	-	-	-	-	-	+	-	-

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

[Ref.: #3757]	Sample type/isolated from	pyloric ceca of herring
[Ref.: #3757]	Geographic location (country and/or sea, region)	Tromsö
[Ref.: #3757]	Country	Norway
[Ref.: #3757]	Country ISO 3 Code	NOR
[Ref.: #3757]	Continent	Europe

[Ref.: #120048]	Sample type/isolated from	Herring, pyloric ceca
[Ref.: #120048]	Country	Norway
[Ref.: #120048]	Country ISO 3 Code	NOR
[Ref.: #120048]	Continent	Europe
* marker position based on {}

Isolation sources categories

#Host	#Fishes	-
#Host Body-Site	#Gastrointestinal tract	#Stomach

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY643710 (>99% sequence identity) for Photobacterium from Microbeatlas

Aquatic Samples	2884
Soil Samples	73
Animal Samples	2251
Plant Samples	55
Total Samples	5263

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

[Ref.: #3757]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #120048]	Biosafety level	1	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.: #20218]	Photobacterium iliopiscarium gene for 16S ribosomal RNA, partial sequence	AB000278	1410	ENA	56192 tax ID	*
[Ref.: #20218]	Photobacterium iliopiscarium strain ATCC 51760 16S ribosomal RNA gene, partial sequence	AY643710	1467	ENA	56192 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.: #66792]	Photobacterium iliopiscarium ATCC 51760	GCA_003026395	contig	GenBank	56192 tax ID	*
[Ref.: #66792]	Photobacterium iliopiscarium ATCC 51760	GCA_000950265	contig	GenBank	56192 tax ID	*
[Ref.: #66792]	Photobacterium iliopiscarium strain ATCC 51760	56192.4	wgs	PATRIC	56192 tax ID	*
[Ref.: #66792]	Photobacterium iliopiscarium strain ATCC 51760	56192.15	wgs	PATRIC	56192 tax ID	*
[Ref.: #66792]	Photobacterium iliopiscarium ATCC 51760	2868861791	draft	JGI IMG/M	56192 tax ID	*
[Ref.: #66792]	Photobacterium iliopiscarium ATCC 51760	2751185812	draft	JGI IMG/M	56192 tax ID	*

[Ref.: #3757]

GC-content

39 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: Photobacterium iliopiscarium strain ATCC 51760 PATRIC: 56192.4
[Ref.: #69480]	gram-positive	no	99.025	no
[Ref.: #69480]	anaerobic	no	97.762	no
[Ref.: #69480]	halophile	no	58.201	no
[Ref.: #69480]	spore-forming	no	95.686	no
[Ref.: #69480]	glucose-util	yes	89.596	yes
[Ref.: #69480]	aerobic	yes	65.681	no
[Ref.: #69480]	thermophile	no	98.887	no
[Ref.: #69480]	motile	yes	90.332	no
[Ref.: #69480]	flagellated	yes	79.858	no
[Ref.: #69480]	glucose-ferment	yes	85.282	no

Availability in culture collections External links

[Ref.: #3757]

Culture collection no.

DSM 9896, ATCC 51760, CIP 104755, KCTC 12376

[Ref.: #86223]

SI-ID 10417

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Paraphotobacterium marinum gen. nov., sp. nov., a member of the family Vibrionaceae, isolated from surface seawater.	Huang Z, Dong C, Shao Z	Int J Syst Evol Microbiol	10.1099/ijsem.0.001142	2016	*
Phylogeny	Genomic and phylogenetic characterization of luminous bacteria symbiotic with the deep-sea fish Chlorophthalmus albatrossis (Aulopiformes: Chlorophthalmidae).	Dunlap PV, Ast JC	Appl Environ Microbiol	10.1128/AEM.71.2.930-939.2005	2005	*
Phylogeny	Reassessment of the taxonomic position of Vibrio iliopiscarius (Onarheim et al. 1994) and proposal for Photobacterium iliopiscarium comb. nov.	Urakawa H, Kita-Tsukamoto K, Ohwada K	Int J Syst Bacteriol	10.1099/00207713-49-1-257	1999	*

References

#3757

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 9896

#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 )

#39087 ; Curators of the CIP;

#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) .

#68368

Automatically annotated from API 20E .

#68369

Automatically annotated from API 20NE .

#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) .

#86223

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-ID10417.1 )

#120048 Collection of Institut Pasteur ; Curators of the CIP; CIP 104755
* These data were automatically processed and therefore are not curated

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Photobacterium iliopiscarium strain ATCC 51760

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