Name: Psychrobacter cibarius JG-219
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 8194

Type strain:

Species: Psychrobacter cibarius

Strain Designation: JG-219

Culture col. no.: DSM 16327, KCTC 12256, CIP 108733

Strain history: CIP <- 2005, KCTC <- J. H. Yoon, KRIBB: strain JG-219

NCBI tax ID(s): 282669 (species)

SI-ID 138036

DSM 16327, KCTC 12256, CIP 108733

Special Collections

Other strains from Psychrobacter cibarius

Section

Psychrobacter cibarius JG-219 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from jeotgal, a traditional Korean fermented seafood.

Gram-negative
rod-shaped
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	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Pseudomonadales*
	Family	*Moraxellaceae*
	Genus	*Psychrobacter*
	Species	**Psychrobacter cibarius**
	Full Scientific Name (LPSN)	Psychrobacter cibarius Jung et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31359]	Gram stain	negative
[Ref.: #67771]	Gram stain	negative
[Ref.: #118273]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99

[Ref.: #31359]	Cell shape	rod-shaped
[Ref.: #118273]	Cell shape	oval-shaped

[Ref.: #31359]	Motility	no
[Ref.: #118273]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6369]

Culture medium

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

[Ref.: #6369]

Culture medium growth

[Ref.: #6369]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6369]

Culture medium composition

expand / minimize

[Ref.: #41750]

Culture medium

Marine agar (MA)

[Ref.: #41750]

Culture medium growth

[Ref.: #41750]

Culture medium composition

expand / minimize

[Ref.: #118273]

Culture medium

CIP Medium 13

[Ref.: #118273]

Culture medium growth

[Ref.: #118273]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #118273]

Culture medium

CIP Medium 72

[Ref.: #118273]

Culture medium growth

[Ref.: #118273]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6369]		growth	30 °C
[Ref.: #31359]		growth	04-32 °C
[Ref.: #31359]		optimum	27.5 °C
[Ref.: #41750]		growth	30 °C
[Ref.: #67771]		growth	30 °C
[Ref.: #118273]		growth	22-30 °C
[Ref.: #118273]	no	growth	37 °C
[Ref.: #118273]	no	growth	41 °C

	pH	Kind of pH		pH
[Ref.: #31359]			optimum	7.5
[Ref.: #31359]			growth	05-08

Information on physiology and metabolism Physiology and metabolism

[Ref.: #31359]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #118273]	Oxygen tolerance	obligate aerobe

[Ref.: #69480]	Ability of spore formation	no Confidence in %96.671
[Ref.: #69481]	Ability of spore formation	no Confidence in %91

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #31359]		NaCl		growth	<11	%
[Ref.: #31359]		NaCl		optimum	3.5	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #31359]	acetate ChEBI	+	carbon source
[Ref.: #31359]	alanine ChEBI	+	carbon source
[Ref.: #31359]	malate ChEBI	+	carbon source
[Ref.: #31359]	nitrate ChEBI	+	reduction
[Ref.: #118273]	nitrate ChEBI	+	reduction
[Ref.: #118273]	nitrate ChEBI	-	respiration
[Ref.: #118273]	nitrite ChEBI	-	reduction
[Ref.: #31359]	pyruvate ChEBI	+	carbon source
[Ref.: #31359]	serine ChEBI	+	carbon source
[Ref.: #31359]	succinate ChEBI	+	carbon source
[Ref.: #31359]	tween 80 ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	-	3.1.3.2	* from API zym
[Ref.: #118273]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #31359]	alkaline phosphatase	+	3.1.3.1
[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.: #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.: #118273]	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.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #118273]	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.: #118273]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #118273]	oxidase	+
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[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.: #118273]	11422	-	-	-	+	-	+	+	-	-	-	-	+	-	-	-	-	-	-	-	-

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

[Ref.: #6369]	Sample type/isolated from	jeotgal, a traditional Korean fermented seafood
[Ref.: #6369]	Country	Republic of Korea
[Ref.: #6369]	Country ISO 3 Code	KOR
[Ref.: #6369]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	From Jeotgal, a traditional Korean fermented seafood
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #118273]	Sample type/isolated from	Food, Jeotgal, a traditional Korean fermented seafood
[Ref.: #118273]	Country	Republic of Korea
[Ref.: #118273]	Country ISO 3 Code	KOR
[Ref.: #118273]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Engineered	#Food production	#Seafood
#Engineered	#Food production	#Fermented

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY639871 (>99% sequence identity) for Psychrobacter from Microbeatlas

Aquatic Samples	3187
Soil Samples	925
Animal Samples	3350
Plant Samples	172
Total Samples	7634

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

[Ref.: #6369]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #118273]	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.: #6369]	Psychrobacter cibarius strain JG-219 16S ribosomal RNA gene, partial sequence	AY639871	1494	GenBank ENA	282669 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Psychrobacter cibarius DSM 16327	GCA_016107535	contig	GenBank ENA	282669 tax ID	*
[Ref.: #66792]	Psychrobacter cibarius strain DSM 16327	282669.8	wgs	PATRIC	282669 tax ID	*

[Ref.: #6369]

GC-content

43.5 mol%

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Psychrobacter cibarius strain DSM 16327 PATRIC: 282669.3
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	91	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Psychrobacter cibarius strain DSM 16327 PATRIC: 282669.8
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	97.281	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	96.671	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	97.405	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	86.027	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	71.757	yes

Availability in culture collections External links

[Ref.: #6369]

Culture collection no.

DSM 16327, KCTC 12256, CIP 108733

[Ref.: #77597]

SI-ID 138036

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Psychrobacter fulvigenes sp. nov., isolated from a marine crustacean from the Sea of Japan.	Romanenko LA, Tanaka N, Frolova GM, Mikhailov VV	Int J Syst Evol Microbiol	10.1099/ijs.0.007195-0	2009	*
Phylogeny	Psychrobacter cibarius sp. nov., isolated from jeotgal, a traditional Korean fermented seafood.	Jung SY, Lee MH, Oh TK, Park YH, Yoon JH	Int J Syst Evol Microbiol	10.1099/ijs.0.63398-0	2005	*

References

#6369

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16327

#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 )

#31359

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 #27672 (see below)

#41750 ; 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) .

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

#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 )

#77597

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-ID138036.1 )

#118273 Collection of Institut Pasteur ; Curators of the CIP; CIP 108733

#27672

IJSEM 577 2005 ( DOI 10.1099/ijs.0.63398-0 , PubMed 15774627 )

* These data were automatically processed and therefore are not curated

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Psychrobacter cibarius strain DSM 16327

Psychrobacter cibarius strain DSM 16327

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