Flavobacterium frigoris (DSM 15719, CIP 108385, LMG 21922)

Name: Flavobacterium frigoris (DSM 15719, CIP 108385, LMG 21922)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5537

Type strain

Strain Designation R-9014

Culture col. no. DSM 15719 CIP 108385 LMG 21922 R-9014

NCBI tax ID(s) 229204

Special Collections DSMZ CIP Literature strains

History DSMZ <- S. Van Trappen, Univ. Ghent, Belgium; R-9014 CIP <- 2004, DSMZ <- S. Van Trappen, Univ. Ghent, Belgium: strain R-9014

Links

Flavobacterium frigoris R-9014 is a Gram-negative, rod-shaped bacterium that was isolated from microbial mat.

Gram-negative rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 127366

LMG 21922,DSM 15719,CIP 108385,NBRC 102678

@ref 20215

Last LPSN update 2026-05-29 08:26:11

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium frigoris

Full scientific name Flavobacterium frigoris Van Trappen et al. 2004

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell shape	Confidence
30030	negative	03-04 µm	rod-shaped
119466	negative		rod-shaped
125439	negative			98.509
125438				95
125438	negative			99

Pigmentation

@ref	Production	Name
30030
119466		flexirubin type pigments

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
6077	R2A MEDIUM (DSMZ Medium 830)	Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
39693	MEDIUM 372 - for Aquabacterium		Distilled water make up to (1000.000 ml);Magnesium sulphate heptahydrate (0.050 g);Agar (15.000 g);Glucose (0.500 g);Yeast extract (0.500 g);Pyruvic acid (0.300g);Tween 80 (1.000 ml);Casamino acids (0.500 g);Proteose Peptone N°3 (0.500 g);Di Potassium mon
119466	CIP Medium 372	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
6077	positive	growth	20
30030	positive	growth	05-25
30030	positive	optimum	15
39693	positive	growth	20
119466	positive	growth	5-25
119466	negative	growth	30
119466	negative	growth	37
119466	negative	growth	41
119466	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	94.088

Spore formation

@ref	Spore formation	Confidence
125438		91.785
125439		99.814

Halophily

@ref	Salt	Growth	Tested relation	Concentration
30030	NaCl	positive	growth	0-2 %
30030	NaCl	positive	optimum	1 %
119466	NaCl	positive	growth	0-4 %
119466	NaCl		growth	6 %
119466	NaCl		growth	8 %
119466	NaCl		growth	10 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
119466	16947 ChEBI	citrate	-	carbon source
30030	4853 ChEBI	esculin	+	hydrolysis
119466	4853 ChEBI	esculin	-	hydrolysis
119466	606565 ChEBI	hippurate	-	hydrolysis
119466	17632 ChEBI	nitrate	-	reduction
119466	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
119466	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
119466	15688 ChEBI	acetoin	-
119466	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
119466	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	+	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	+	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
119466	amylase	+
119466	beta-galactosidase	-	3.2.1.23
68382	beta-galactosidase	-	3.2.1.23	from API zym
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119466	caseinase	+	3.4.21.50
30030	catalase	+	1.11.1.6
119466	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
30030	cytochrome oxidase	+	1.9.3.1
119466	DNase	-
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
119466	gelatinase	-
119466	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
119466	lipase	-
68382	lipase (C 14)	-		from API zym
119466	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	+	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119466	ornithine decarboxylase	-	4.1.1.17
119466	oxidase	-
119466	phenylalanine ammonia-lyase	-	4.3.1.24
119466	protease	-
68382	trypsin	-	3.4.21.4	from API zym
119466	tryptophan deaminase	-
119466	tween esterase	-
119466	urease	-	3.5.1.5
68382	valine arylamidase	+		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
119466	-	+	+	+	-	+	+	-	-	-	+	+	-	-	-	+	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Microbial community	#Microbial mat

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent	Geographic location
6077	microbial mat			Australia and Oceania	Vestfold Hills, Watts Lake
119466	Microbial material	Antarctica	ATA	Antarctica

Taxonmaps

69479

Global distribution of 16S sequence AJ557887 (>99% sequence identity) for Flavobacterium from Microbeatlas

Aquatic Samples	920
Soil Samples	118
Animal Samples	102
Plant Samples	225
Total Samples	1365

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6077	1	Risk group (German classification) According to TRBA 466
119466	1	Risk group (French classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2693429909 annotated assembly for Flavobacterium frigoris DSM 15719	scaffold	GCA_900111075	229204.10	2693429909	229204	65.54

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6077	Flavobacterium frigoris 16S rRNA gene, strain LMG 21922	AJ557887	1468		229204

GC content

30030

GC-content (mol%)33.1-34.4

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: IMG-taxon 2693429909 annotated assembly for Flavobacterium frigoris DSM 15719
NCBI: GCA_900111075

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	94.09	no
125439	gram_stain	BacteriaNetⓘ	negative	98.51	no
125439	motility	BacteriaNetⓘ	no	73.49	no
125439	spore_formation	BacteriaNetⓘ	no	99.81	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium frigoris DSM 15719
NCBI: GCA_900111075.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	99.00	yes
125438	anaerobic	anaerobicⓘ	no	93.02	no
125438	aerobic	aerobicⓘ	yes	84.33	no
125438	spore-forming	spore-formingⓘ	no	91.79	no
125438	thermophilic	thermophileⓘ	no	98.18	no
125438	flagellated	motile2+ⓘ	no	95.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Prophages and Past Prophage-Host Interactions Revealed by CRISPR Spacer Content in a Fish Pathogen.	Laanto E, Ravantti JJ, Sundberg LR.	Microorganisms	10.3390/microorganisms8121919	2020
Phylogeny	Flavobacterium turcicum sp. nov. and Flavobacterium kayseriense sp. nov. isolated from farmed rainbow trout in Turkey.	Saticioglu IB, Ay H, Altun S, Duman M, Sahin N	Syst Appl Microbiol	10.1016/j.syapm.2021.126186	2021
Phylogeny	Flavobacterium beibuense sp. nov., isolated from marine sediment.	Fu Y, Tang X, Lai Q, Zhang C, Zhong H, Li W, Liu Y, Chen L, Sun F, Shao Z	Int J Syst Evol Microbiol	10.1099/ijs.0.018846-0	2010
Phylogeny	Flavobacterium degerlachei sp. nov., Flavobacterium frigoris sp. nov. and Flavobacterium micromati sp. nov., novel psychrophilic bacteria isolated from microbial mats in Antarctic lakes.	Van Trappen S, Vandecandelaere I, Mergaert J, Swings J	Int J Syst Evol Microbiol	10.1099/ijs.0.02857-0	2004

References

#6077	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15719
#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 )
#26394	IJSEM 85 2004 ( DOI 10.1099/ijs.0.02857-0 , PubMed 14742463 )
#30030	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 #26394
#39693	; 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) .
#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 .
#119466	Collection of Institut Pasteur ; Curators of the CIP; CIP 108385
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Flavobacterium frigoris (DSM 15719, CIP 108385, LMG 21922)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900111075

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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