Name: Flavobacterium frigidimaris KUC-1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 5538

Type strain:

Species: Flavobacterium frigidimaris

Strain Designation: KUC-1

Culture col. no.: DSM 15937, CCUG 59364, JCM 12218, CIP 109029

Strain history: CIP <- 2005, JCM <- 2003, Y. Nogi, JAMSTEC, Yokosuka, Japan: strain KUC-1

NCBI tax ID(s): 262320 (species)

SI-ID 265601

JCM 12218, DSM 15937, CIP 109029, CCUG 59364

Section

Flavobacterium frigidimaris KUC-1 is an aerobe, psychrophilic, Gram-negative bacterium that was isolated from sea water.

Gram-negative
aerobe
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	*Bacteroidota*
	Class	*Flavobacteriia*
	Order	*Flavobacteriales*
	Family	*Flavobacteriaceae*
	Genus	*Flavobacterium*
	Species	**Flavobacterium frigidimaris**
	Full Scientific Name (LPSN)	Flavobacterium frigidimaris Nogi et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #119464]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.992

[Ref.: #119464]	Cell shape	rod-shaped

[Ref.: #119464]	Motility	no

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6196]

Culture medium

NUTRIENT AGAR (DSMZ Medium 1)

[Ref.: #6196]

Culture medium growth

[Ref.: #6196]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6196]

Culture medium composition

expand / minimize

[Ref.: #119464]

Culture medium

CIP Medium 72

[Ref.: #119464]

Culture medium growth

[Ref.: #119464]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119464]

Culture medium

CIP Medium 328

[Ref.: #119464]

Culture medium growth

[Ref.: #119464]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #119464]

Culture medium

CIP Medium 566

[Ref.: #119464]

Culture medium growth

[Ref.: #119464]

Culture medium link

Medium recipe provided by DSMZ

		Temperature
[Ref.: #6196]	growth	20 °C
[Ref.: #61941]	growth	20-30 °C
[Ref.: #67770]	growth	20 °C

[Ref.: #6196]	Temperature range	psychrophilic
[Ref.: #67770]	Temperature range	psychrophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #61941]	Oxygen tolerance	aerobe
[Ref.: #119464]	Oxygen tolerance	obligate aerobe

[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.995

[Ref.: #67770]

Observation

quinones: MK-6

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[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.: #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.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[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.

Fatty acid profile

Metadata FA analysis

Reference

[Ref.: #61941]

Fatty acid	Percentage	ECL
C15:0 ISO	28.2	14.621
C16:1 ω7c	19.2	15.819
C15:0 ISO 3OH	7.7	16.135
C17:0 iso 3OH	5.9	18.161
C15:0	5.5	15
C17:1 ω9c ISO	4.3	16.416
C15:1 ω6c	4.1	14.856
C15:1 ISO G	3.7	14.441
C16:0 3OH	3.5	17.52
C17:1 ω6c	3.5	16.862
C15:0 ANTEISO	3.2	14.711
C16:0	2.3	16
C17:1 ISO I/C16:0 DMA	2	16.481
C16:0 iso 3OH	1.6	17.145
unknown 13.566	1.3	13.566
C14:0	1.1	14
C16:1 ISO H	1	15.461
C16:0 iso	1	15.626
unknown 11.541	0.8	11.541

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.: #119464]	11625	-	+	+	+	-	+	+	-	-	-	+	+	+	+	+	+	+	-	-	-

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

[Ref.: #6196]	Sample type/isolated from	sea water
[Ref.: #6196]	Continent	Australia and Oceania

[Ref.: #61941]	Sample type/isolated from	Seawater
[Ref.: #61941]	Sampling date	2003
[Ref.: #61941]	Country	Antarctica
[Ref.: #61941]	Country ISO 3 Code	ATA
[Ref.: #61941]	Continent	Australia and Oceania

[Ref.: #67770]	Sample type/isolated from	Antarctic seawater

[Ref.: #119464]	Sample type/isolated from	Environment, Seawater
[Ref.: #119464]	Country	Antarctica
[Ref.: #119464]	Country ISO 3 Code	ATA
[Ref.: #119464]	Continent	Antarctica
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Marine

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence JX657051 (>99% sequence identity) for Flavobacterium from Microbeatlas

Aquatic Samples	282
Soil Samples	399
Animal Samples	390
Plant Samples	88
Total Samples	1159

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

[Ref.: #6196]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119464]	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]	Flavobacterium frigidimaris gene for 16S ribosomal RNA, partial sequence	AB183888	1424	ENA	262320 tax ID	*
[Ref.: #20218]	Flavobacterium frigidimaris strain KUC-1 16S ribosomal RNA gene, partial sequence	JX657051	1222	ENA	262320 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Flavobacterium frigidimaris DSM 15937	GCA_900129595	scaffold	GenBank	262320 tax ID
[Ref.: #67770]	Flavobacterium frigidimaris DSM 15937	GCA_002217275	scaffold	GenBank	262320 tax ID
[Ref.: #66792]	Flavobacterium frigidimaris strain DSM 15937	262320.7	wgs	PATRIC	262320 tax ID	*
[Ref.: #66792]	Flavobacterium frigidimaris strain DSM 15937	262320.5	wgs	PATRIC	262320 tax ID	*
[Ref.: #66792]	Flavobacterium frigidimaris DSM 15937	2695420960	draft	JGI IMG/M	262320 tax ID	*

[Ref.: #67770]

GC-content

34.5 mol%

high performance liquid chromatography (HPLC)

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: Flavobacterium frigidimaris DSM 15937 NCBI: GCA_002217275.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Flavobacterium frigidimaris strain DSM 15937 PATRIC: 262320.7
[Ref.: #69480]	motile	no	80.522	no
[Ref.: #69480]	gram-positive	no	98.342	no
[Ref.: #69480]	anaerobic	no	99.791	yes
[Ref.: #69480]	aerobic	yes	93.151	yes
[Ref.: #69480]	halophile	no	96.019	no
[Ref.: #69480]	spore-forming	no	94.559	no
[Ref.: #69480]	glucose-util	yes	92.219	no
[Ref.: #69480]	thermophile	no	99.754	yes
[Ref.: #69480]	flagellated	no	93.99	no
[Ref.: #69480]	glucose-ferment	no	90.744	no

Availability in culture collections External links

[Ref.: #6196]

Culture collection no.

DSM 15937, CCUG 59364, JCM 12218, CIP 109029

[Ref.: #75021]

SI-ID 265601

Literature:

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

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium tructae sp. nov. and Flavobacterium piscis sp. nov., isolated from farmed rainbow trout (Oncorhynchus mykiss).	Zamora L, Vela AI, Sanchez-Porro C, Palacios MA, Moore ERB, Dominguez L, Ventosa A, Fernandez-Garayzabal JF	Int J Syst Evol Microbiol	10.1099/ijs.0.056341-0	2013	*
Metabolism	Crystal structure of binary and ternary complexes of archaeal UDP-galactose 4-epimerase-like L-threonine dehydrogenase from Thermoplasma volcanium.	Yoneda K, Sakuraba H, Araki T, Ohshima T	J Biol Chem	10.1074/jbc.M111.336958	2012	*
Enzymology	Crystal structure of UDP-galactose 4-epimerase-like L-threonine dehydrogenase belonging to the intermediate short-chain dehydrogenase-reductase superfamily.	Yoneda K, Sakuraba H, Muraoka I, Oikawa T, Ohshima T	FEBS J	10.1111/j.1742-4658.2010.07916.x	2010	*
Enzymology	Crystallization and preliminary X-ray diffraction studies of tetrameric malate dehydrogenase from the novel Antarctic psychrophile Flavobacterium frigidimaris KUC-1.	Fujii T, Oikawa T, Muraoka I, Soda K, Hata Y	Acta Crystallogr Sect F Struct Biol Cryst Commun	10.1107/S1744309107051524	2007	*
Phylogeny	Flavobacterium aquidurense sp. nov. and Flavobacterium hercynium sp. nov., from a hard-water creek.	Cousin S, Pauker O, Stackebrandt E	Int J Syst Evol Microbiol	10.1099/ijs.0.64556-0	2007	*
Enzymology	A cold-active and thermostable alcohol dehydrogenase of a psychrotorelant from Antarctic seawater, Flavobacterium frigidimaris KUC-1.	Kazuoka T, Oikawa T, Muraoka I, Kuroda S, Soda K	Extremophiles	10.1007/s00792-006-0034-1	2006	*
Enzymology	Purification, characterization, and overexpression of psychrophilic and thermolabile malate dehydrogenase of a novel antarctic psychrotolerant, Flavobacterium frigidimaris KUC-1.	Oikawa T, Yamamoto N, Shimoke K, Uesato S, Ikeuchi T, Fujioka T	Biosci Biotechnol Biochem	10.1271/bbb.69.2146	2005	*
Phylogeny	Flavobacterium frigidimaris sp. nov., isolated from Antarctic seawater.	Nogi Y, Soda K, Oikawa T	Syst Appl Microbiol	10.1016/j.syapm.2005.01.001	2005	*

References

#6196

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15937

#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 )

#61941 Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59364

#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 )

#75021

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-ID265601.1 )

#119464 Collection of Institut Pasteur ; Curators of the CIP; CIP 109029
* These data were automatically processed and therefore are not curated

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Flavobacterium frigidimaris DSM 15937

Flavobacterium frigidimaris strain DSM 15937

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