Flavobacterium terrigena (DSM 17934, CIP 109939, KCTC 12761)

Name: Flavobacterium terrigena (DSM 17934, CIP 109939, KCTC 12761)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5549

Type strain

Strain Designation DS-20

Culture col. no. DSM 17934 CIP 109939 KCTC 12761 DS-20

NCBI tax ID(s) 402734

Special Collections DSMZ KCTC CIP Literature strains

Links

Flavobacterium terrigena DS-20 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from soil.

Gram-negative rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 308609

DSM 17934,KCTC 12761,CIP 109939

@ref 20215

Last LPSN update 2025-12-16 09:48:05

Domain Pseudomonadati

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium terrigena

Full scientific name Flavobacterium terrigena Yoon et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31993	negative	1.6 µm	0.45 µm	rod-shaped
67771				rod-shaped
67771	negative
123476	negative			rod-shaped
125438					96
125438	negative				97.722
125439	negative				100

Pigmentation

31993

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7175	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
33340	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123476	CIP Medium 72	Medium recipe at CIP
123476	CIP Medium 566	Medium recipe at CIP
123476	CIP Medium 328	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7175	positive	growth	25	mesophilic
31993	positive	growth	10-30
31993	positive	optimum	25	mesophilic
33340	positive	growth	30	mesophilic
67771	positive	growth	25	mesophilic

Culture pH

@ref	Ability	Type	PH
31993	positive	optimum	6.75
31993	positive	growth	06-08

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31993	aerobe
67771	aerobe
123476	obligate aerobe
125439	obligate aerobe	98.5

Spore formation

@ref	Spore formation	Confidence
125438		92.285
125439		99.3

Observation

67771

Observationquinones: MK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31993	28644 ChEBI	2-oxopentanoate	+	carbon source
31993	5291 ChEBI	gelatin	+	carbon source
31993	29987 ChEBI	glutamate	+	carbon source
31993	51850 ChEBI	methyl pyruvate	+	carbon source
123476	17632 ChEBI	nitrate	-	reduction
123476	16301 ChEBI	nitrite	-	reduction
31993	18257 ChEBI	ornithine	+	carbon source
31993	26271 ChEBI	proline	+	carbon source
31993	17822 ChEBI	serine	+	carbon source
31993	30031 ChEBI	succinate	+	carbon source
31993	26986 ChEBI	threonine	+	carbon source
31993	53424 ChEBI	tween 20	+	carbon source
31993	53423 ChEBI	tween 40	+	carbon source
31993	53425 ChEBI	tween 60	+	carbon source
31993	53426 ChEBI	tween 80	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123476	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
31993	alkaline phosphatase	+	3.1.3.1
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
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
31993	catalase	+	1.11.1.6
123476	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
31993	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	+		from API zym
31993	gelatinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123476	oxidase	+
68382	trypsin	-	3.4.21.4	from API zym
123476	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
123476	-	+	-	+	-	+	+	-	-	-	+	+	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
7175	soil	Dokdo	Republic of Korea	KOR	Asia
67771	From soil	Dokdo	Republic of Korea	KOR	Asia
123476	Environment, Soil	Dokdo Island	Republic of Korea	KOR	Asia

Taxonmaps

69479

Global distribution of 16S sequence DQ889724 (>99% sequence identity) for Flavobacterium terrigena subclade from Microbeatlas

Aquatic Samples	1062
Soil Samples	62
Animal Samples	183
Plant Samples	119
Total Samples	1426

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7175	1	Risk group (German classification) According to TRBA 466
123476	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 2600255390 annotated assembly for Flavobacterium terrigena DSM 17934	scaffold	GCA_900108955	402734.4	2600255390	402734	74.54

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7175	Flavobacterium terrigena strain DS-20 16S ribosomal RNA gene, partial sequence	DQ889724	1470		402734

GC content

@ref	GC-content (mol%)	Method
7175	38.2	high performance liquid chromatography (HPLC)
31993	38.2
7175	31.2	sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavobacterium terrigena DSM 17934
NCBI: GCA_900108955

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.30	no
125439	motility	BacteriaNetⓘ	no	63.30	no
125439	gram_stain	BacteriaNetⓘ	negative	100.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium terrigena DSM 17934
NCBI: GCA_900108955.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.72	no
125438	anaerobic	anaerobicⓘ	no	97.89	yes
125438	aerobic	aerobicⓘ	yes	86.02	yes
125438	spore-forming	spore-formingⓘ	no	92.29	no
125438	thermophilic	thermophileⓘ	no	97.84	yes
125438	flagellated	motile2+ⓘ	no	96.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Flavobacterium facile sp. nov., isolated from water system of Atlantic salmon (Salmo salar) fry cultured in Chile.	Irgang R, Saldarriaga-Cordoba M, Poblete-Morales M, Avendano-Herrera R.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006468	2024
Phylogeny	Flavobacterium difficile sp. nov., isolated from a freshwater waterfall.	Chen WM, You YX, Young CC, Lin SY, Sheu SY	Arch Microbiol	10.1007/s00203-021-02440-1	2021
Phylogeny	Flavobacterium macrobrachii sp. nov., isolated from a freshwater shrimp culture pond.	Sheu SY, Chiu TF, Young CC, Arun AB, Chen WM	Int J Syst Evol Microbiol	10.1099/ijs.0.025403-0	2010
Phylogeny	Flavobacterium terrigena sp. nov., isolated from soil.	Yoon JH, Kang SJ, Lee JS, Oh TK	Int J Syst Evol Microbiol	10.1099/ijs.0.64776-0	2007

References

#7175	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17934
#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 )
#31993	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 #28247 (see below)
#33340	; 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 .
#123476	Collection of Institut Pasteur ; Curators of the CIP; CIP 109939
#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 terrigena (DSM 17934, CIP 109939, KCTC 12761)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Metabolite production

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_900108955

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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