Name: Flavobacterium psychrophilum 3068
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5529

Type strain:

Species: Flavobacterium psychrophilum

Strain Designation: 3068

Culture col. no.: DSM 3660, IAM 14308, NCMB 1947, JCM 8519, ATCC 49418, CCM 3594, CCUG 35200, CIP 103534, IFO 15942, LMG 13179, NBRC 100250, NBRC 15942, NCIMB 1947

Strain history: NCIMB 1947 <-- G. L. Bullock 3068 <-- E. J. Ordal.

NCBI tax ID(s): 1121894 (strain), 96345 (species)

Other strains from Flavobacterium psychrophilum

F. psychrophilum TG 02/86, DSM 21280, ATCC 49511, ...
F. psychrophilum CIP 109952
F. psychrophilum CIP 109955
F. psychrophilum CIP 109953
F. psychrophilum CIP 109954
F. psychrophilum CIP 109956
F. psychrophilum CIP 109957
F. psychrophilum CIP 103536, ATCC 49510

Section

Flavobacterium psychrophilum 3068 is an aerobe, psychrophilic, Gram-negative animal pathogen that forms circular colonies and was isolated from coho salmon Oncorhynchus kitsuch.

colony-forming
Gram-negative
motile
rod-shaped
aerobe
animal pathogen
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium psychrophilum**
	Full Scientific Name (PNU)	Flavobacterium psychrophilum (Bernardet and Grimont 1989) Bernardet et al. 1996

	Synonym	Cytophaga psychrophila
	Synonym	Flexibacter psychrophilus

Information on morphological and physiological properties Morphology

[Ref.: #43348]	Gram stain	negative
[Ref.: #43348]	Cell length	1-5 µm
[Ref.: #43348]	Cell width	0.4-0.5 µm
[Ref.: #43348]	Cell shape	rod-shaped
[Ref.: #43348]	Motility	yes
[Ref.: #43348]	Flagellum arrangement	gliding

[Ref.: #43348]

Colony shape

circular

[Ref.: #43348]	Pigment production	yes
[Ref.: #43348]	Pigment name	Flexirubin

Information on culture and growth conditions Culture and growth conditions

[Ref.: #1444]

Culture medium

R2A MEDIUM (DSMZ Medium 830)

[Ref.: #1444]

Culture medium growth

[Ref.: #1444]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #1444]

Culture medium composition

expand / minimize

[Ref.: #1444]

Culture medium

CY-AGAR (DSMZ Medium 67)

[Ref.: #1444]

Culture medium growth

[Ref.: #1444]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #1444]

Culture medium composition

expand / minimize

[Ref.: #41925]

Culture medium

MEDIUM 36 - for Flavobacterium psychrophilum

[Ref.: #41925]

Culture medium growth

[Ref.: #41925]

Culture medium composition

expand / minimize

[Ref.: #43348]

Culture medium

Nutrient agar (NA)

[Ref.: #43348]

Culture medium growth

[Ref.: #43348]

Culture medium

Marine agar (MA)

[Ref.: #43348]

Culture medium growth

[Ref.: #43348]

Culture medium

Tryptic Soy Agar

[Ref.: #43348]

Culture medium growth

		Temperature
[Ref.: #1444]	growth	20 °C
[Ref.: #41925]	growth	22 °C
[Ref.: #43348]	optimum	15-20 °C
[Ref.: #43348]	growth	5-23 °C
[Ref.: #67770]	growth	20 °C

[Ref.: #1444]	Temperature range	psychrophilic
[Ref.: #41925]	Temperature range	psychrophilic
[Ref.: #43348]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43348]

Oxygen tolerance

aerobe

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43348]		NaCl		growth	0-1	%(w/v)
[Ref.: #43348]		NaCl		optimum	0	%(w/v)

[Ref.: #67770]

Observation

quinones: MK-6

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43348]	agar ChEBI	-	degradation
[Ref.: #43348]	alginate ChEBI	-	degradation
[Ref.: #43348]	carboxymethylcellulose ChEBI	-	degradation
[Ref.: #43348]	casamino acids	+	nitrogen source
[Ref.: #43348]	casein	+	degradation
[Ref.: #43348]	chitin ChEBI	-	degradation
[Ref.: #43348]	dna ChEBI	+/-	degradation
[Ref.: #43348]	esculin ChEBI	-	degradation
[Ref.: #43348]	gelatin ChEBI	+	degradation
[Ref.: #43348]	glucose ChEBI	-	assimilation
[Ref.: #43348]	lecithin ChEBI	+	fermentation
[Ref.: #43348]	nitrate ChEBI	-	reduction
[Ref.: #43348]	pectin ChEBI	-	degradation
[Ref.: #43348]	peptone	+	nitrogen source
[Ref.: #43348]	starch ChEBI	-	degradation
[Ref.: #43348]	tributyrin ChEBI	+	hydrolysis
[Ref.: #43348]	tween 20 ChEBI	+	degradation
[Ref.: #43348]	tween 40 ChEBI	+	degradation
[Ref.: #43348]	tween 60 ChEBI	+	degradation
[Ref.: #43348]	tween 80 ChEBI	+	degradation
[Ref.: #43348]	urea ChEBI	-	degradation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite
[Ref.: #43348]		hydrogen sulfide ChEBI
[Ref.: #43348]		indole ChEBI

	Enzyme	Enzyme activity	EC number
[Ref.: #43348]	arginine dihydrolase	-	3.5.3.6
[Ref.: #43348]	beta-galactosidase	-	3.2.1.23
[Ref.: #43348]	catalase	+/-	1.11.1.6
[Ref.: #43348]	cytochrome oxidase	+/-	1.9.3.1
[Ref.: #43348]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43348]	ornithine decarboxylase	-	4.1.1.17

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

[Ref.: #1444]	Sample type/isolated from	coho salmon Oncorhynchus kitsuch
[Ref.: #1444]	Host species	Oncorhynchus kitsuch
[Ref.: #1444]	Country	USA
[Ref.: #1444]	Country ISO 3 Code	USA
[Ref.: #1444]	Continent	North America

[Ref.: #67770]	Sample type/isolated from	Coho salmon (Oncorhynchus kitsuch)
[Ref.: #67770]	Host species	Oncorhynchus kitsuch
* marker position based on {}

Isolation sources categories

#Host

#Fishes

#Salmonidae

What are isolation sources categories?

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

[Ref.: #1444]	Pathogenicity (animal)	yes
[Ref.: #1444]	Biosafety level	1	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]	Flavobacterium psychrophilum 16S ribosomal RNA gene, partial sequence	AF090991	1424	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum strain ATCC 49418 16S ribosomal RNA gene, partial sequence	AY577822	513	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum strain ATCC 49418 16S ribosomal RNA gene, partial sequence	AY662493	1344	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum strain ATCC 49418 16S-23S intergenic spacer, partial sequence	AY757361	592	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum strain DSM 3660 16S ribosomal RNA gene, partial sequence	JX657045	1259	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum gene for 16S rRNA, partial sequence, strain: NBRC 100250	AB681149	1437	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum gene for 16S ribosomal RNA, partial sequence	D12670	1256	ENA	96345 tax ID	*
[Ref.: #20218]	Flavobacterium psychrophilum 16S ribosomal RNA gene, partial sequence	AY034478	478	ENA	96345 tax ID	*
[Ref.: #43348]	16S rRNA gene sequence	AB078060		GenBank

Genome sequence information:

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

	Sequence accession description	Seq. accession number	Assembly level (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Flavobacterium psychrophilum DSM 3660 = ATCC 49418 DSM 3660	GCA_900101925	scaffold	GenBank	1121894 tax ID	*
[Ref.: #66792]	Flavobacterium psychrophilum DSM 3660 = ATCC 49418 ATCC 49418	GCA_002217405	scaffold	GenBank	1121894 tax ID	*
[Ref.: #66792]	Flavobacterium psychrophilum DSM 3660	1121894.3	wgs	PATRIC	1121894 tax ID	*
[Ref.: #66792]	Flavobacterium psychrophilum strain ATCC 49418	96345.93	wgs	PATRIC	96345 tax ID	*
[Ref.: #66792]	Flavobacterium psychrophilum DSM 3660	2622736523	draft	JGI IMG/M	1121894 tax ID	*
[Ref.: #66792]	Staphylococcus epidermidis s32	GCA_016808435	scaffold	PATRIC	1282 tax ID	*

[Ref.: #1444]	GC-content	31.0 mol%
[Ref.: #43348]	GC-content	32.3-33.8 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #43348]	GC-content	32.3-33.8 mol%	Buoyant density centrifugation (BD)
[Ref.: #67770]	GC-content	32 mol%	Buoyant density centrifugation (BD)
[Ref.: #67770]	GC-content	32.5 mol%	thermal denaturation, midpoint method (Tm)

Availability in culture collections External links

[Ref.: #1444]

Culture collection no.

DSM 3660, IAM 14308, NCMB 1947, JCM 8519, ATCC 49418, CCM 3594, CCUG 35200, CIP 103534, IFO 15942, LMG 13179, NBRC 100250, NBRC 15942, NCIMB 1947

[Ref.: #20218]

Associated Passport(s) in StrainInfo

38820, 158477, 114274

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Phenotypic and genomic studies of "Cytophaga psychrophila" isolated from diseased rainbow trout (Oncorhynchus mykiss) in France.	Bernardet JF, Kerouault B	Appl Environ Microbiol	10.1128/aem.55.7.1796-1800.1989	1989	*
Metabolism	Polymorphisms in 16S rRNA genes of Flavobacterium psychrophilum correlate with elastin hydrolysis and tetracycline resistance.	Soule M, LaFrentz S, Cain K, LaPatra S, Call DR	Dis Aquat Organ	10.3354/dao065209	2005	*
Enzymology	Identification of potential vaccine target antigens by immunoproteomic analysis of a virulent and a non-virulent strain of the fish pathogen Flavobacterium psychrophilum.	Sudheesh PS, LaFrentz BR, Call DR, Siems WF, LaPatra SE, Wiens GD, Cain KD	Dis Aquat Organ	10.3354/dao074037	2007	*
Enzymology	Molecular typing by pulsed-field gel electrophoresis of Flavobacterium psychrophilum isolates derived from Japanese fish.	Arai H, Morita Y, Izumi S, Katagiri T, Kimura H	J Fish Dis	10.1111/j.1365-2761.2007.00809.x	2007	*
Phylogeny	Flavobacterium rivuli sp. nov., Flavobacterium subsaxonicum sp. nov., Flavobacterium swingsii sp. nov. and Flavobacterium reichenbachii sp. nov., isolated from a hard water rivulet.	Ali Z, Cousin S, Fruhling A, Brambilla E, Schumann P, Yang Y, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.008771-0	2009	*
Pathogenicity	Effect of biofilm formation on antimicrobial tolerance of Flavobacterium psychrophilum.	Sundell K, Wiklund T	J Fish Dis	10.1111/j.1365-2761.2011.01250.x	2011	*
Genetics	Complete genome sequence of the fish pathogen Flavobacterium psychrophilum ATCC 49418(T.).	Wu AK, Kropinski AM, Lumsden JS, Dixon B, MacInnes JI	Stand Genomic Sci	10.1186/1944-3277-10-3	2015	*
Phenotype	Different Phenotypes of Mature Biofilm in Flavobacterium psychrophilum Share a Potential for Virulence That Differs from Planktonic State.	Levipan HA, Avendano-Herrera R	Front Cell Infect Microbiol	10.3389/fcimb.2017.00076	2017	*
Stress	Stress Tolerance-Related Genetic Traits of Fish Pathogen Flavobacterium psychrophilum in a Mature Biofilm.	Levipan HA, Quezada J, Avendano-Herrera R	Front Microbiol	10.3389/fmicb.2018.00018	2018	*
Pathogenicity	Skin bacteria of rainbow trout antagonistic to the fish pathogen Flavobacterium psychrophilum.	Takeuchi M, Fujiwara-Nagata E, Katayama T, Suetake H	Sci Rep	10.1038/s41598-021-87167-1	2021	*

References

#1444

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3660

#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 )

#41925 ; Curators of the CIP;

#43348

; 4: 146 - 177 ISBN ArrayISBN ( DOI 10.1007/978-0-387-68572-4 )

#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;

#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) .

* These data were automatically processed and therefore are not curated

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