Flavobacterium aquidurense (DSM 18293, CCUG 59847, CIP 109242)

Name: Flavobacterium aquidurense (DSM 18293, CCUG 59847, CIP 109242)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5550

Type strain

Strain Designation WB1.1-56, 1.1-56

Culture col. no. DSM 18293 CCUG 59847 CIP 109242 KCTC 22840 WB1.1-56 2 more

NCBI tax ID(s) 362413

Special Collections DSMZ CCUG KCTC CIP Literature strains

History <- S. Cousin <- O. Päuker; WB1.1-56 <- CIP <- 2006, DSM <- O P?uker, strain WB 1.1-56 CIP <- 2006, DSMZ <- O. Päuker: strain 1.1-56

Links

Flavobacterium aquidurense WB1.1-56 is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from stream water.

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

Name and taxonomic classification

SI-ID 297162

CIP 109242,DSM 18293,KCTC 22840,CCUG 59847

@ref 20215

Last LPSN update 2026-02-09 11:18:59

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Flavobacteriaceae

Genus Flavobacterium

Species Flavobacterium aquidurense

Full scientific name Flavobacterium aquidurense Cousin et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
31865	negative	2.8 µm	0.9 µm	rod-shaped
67771	negative
116449	negative			rod-shaped
125439	negative				99.9
125438					91.5
125438	negative				97.682

Pigmentation

31865

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7489	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
36274	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
116449	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
7489	positive	growth	25
31865	positive	growth	13-30
31865	positive	optimum	23.5
36274	positive	growth	25
62130	positive	growth	30
67771	positive	growth	25

Culture pH

@ref	Ability	Type	PH
31865	positive	optimum	6.4
31865	positive	growth	6.0-6.6

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31865	aerobe
62130	aerobe
67771	aerobe
116449	obligate aerobe
125439	aerobe	97.1

Spore formation

@ref	Spore formation	Confidence
125439		99.5

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31865	NaCl	positive	growth	0-1 %
31865	NaCl	positive	optimum	0.5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31865	40585 ChEBI	alpha-cyclodextrin	+	carbon source
31865	22653 ChEBI	asparagine	+	carbon source
31865	35391 ChEBI	aspartate	+	carbon source
31865	4853 ChEBI	esculin	+	hydrolysis
31865	28757 ChEBI	fructose	+	carbon source
116449	17632 ChEBI	nitrate	-	reduction
116449	16301 ChEBI	nitrite	-	reduction
31865	18257 ChEBI	ornithine	+	carbon source
31865	26986 ChEBI	threonine	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
116449	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
31865	acid phosphatase	+	3.1.3.2
68382	acid phosphatase	+	3.1.3.2	from API zym
116449	alcohol dehydrogenase	-	1.1.1.1
31865	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
31865	catalase	+	1.11.1.6
116449	catalase	+	1.11.1.6
68382	cystine arylamidase	+	3.4.11.3	from API zym
31865	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
116449	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
116449	ornithine decarboxylase	-	4.1.1.17
116449	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
116449	urease	-	3.5.1.5
68382	valine arylamidase	+		from API zym

Fatty acid profile

Metadata FA analysis

@ref

62130

Fatty acid	Percentage	ECL
C15:0 ISO	27.6	14.621
C15:0	9.3	15
C15:1 ω6c	8.8	14.856
C15:0 ISO 3OH	8.2	16.135
C17:0 iso 3OH	7.2	18.161
C16:1 ω7c	6.7	15.819
C17:1 ω9c ISO	6.4	16.416
unknown 13.566	4.3	13.566
C17:1 ISO I/C16:0 DMA	3.7	16.481
C17:1 ω6c	3.4	16.862
unknown 11.541	1.8	11.541
C16:0	1.8	16
C16:0 iso 3OH	1.6	17.145
C15:0 ANTEISO	1.6	14.711
C15:1 ISO G	1.3	14.441
unknown 12.555	1.2	12.555
C13:0 3OH/C15:1 i I/H	1.1	14.469
C16:0 3OH	1	17.52
C18:2 ω6,9c/C18:0 ANTE	0.8	17.724
C17:1 ω8c	0.6	16.792
C16:0 iso	0.6	15.626
C12:1 at 11-12	0.6	11.925
C13:1 at 12-13	0.5	12.931
C16:1 ISO H	0.3	15.461

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
116449	-	+	+	+	-	+	+	+	+	-	+	+	-	+	-	+	+	+	-	+

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#River (Creek)

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
7489	stream water		Lower Saxony, Westhöfer Bach	Germany	DEU	Europe
62130	Stream water	2005	Lower Saxony,Westhöfer Bach	Germany	DEU	Europe
67771	From hard water creek			Germany	DEU	Europe
116449	Environment, Hard water creek			Germany	DEU	Europe	2005

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7489	1	Risk group (German classification) According to TRBA 466
116449	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	ASM221719v1 assembly for Flavobacterium aquidurense DSM 18293	scaffold	GCA_002217195	362413.7	8004245109	362413	60.01
66792	IMG-taxon 2693429908 annotated assembly for Flavobacterium aquidurense DSM 18293	scaffold	GCA_900107365	362413.16	2693429908	362413	47.8

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	Flavobacterium aquidurense strain DSM 18293 16S ribosomal RNA gene, partial sequence	JX657043	1256		362413
7489	Flavobacterium aquidurense 16S rRNA gene, type strain WB 1.1-56	AM177392	1494		362413

GC content

31865

GC-content (mol%)33.5

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Flavobacterium aquidurense DSM 18293
NCBI: GCA_002217195

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.50	no
125439	motility	BacteriaNetⓘ	no	68.60	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	97.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Flavobacterium aquidurense DSM 18293
NCBI: GCA_002217195.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.68	yes
125438	anaerobic	anaerobicⓘ	no	98.34	no
125438	aerobic	aerobicⓘ	yes	88.61	yes
125438	spore-forming	spore-formingⓘ	no	88.68	no
125438	thermophilic	thermophileⓘ	no	99.42	no
125438	flagellated	motile2+ⓘ	no	91.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	The C-terminal domain of T9SS component protein SprA assists Flavobacterium psychrophilum bacteriophage endolysin Ely174 to lyse Gram-negative bacteria.	Xie S, Lu Y, Li X, Xu Y, Cao X, Chen J.	Appl Environ Microbiol	10.1128/aem.01891-25	2025
Genetics	Draft genome sequence of Flavobacterium aquidurense strain, isolated from untreated wastewater.	Kingdon ADH, D'Arcy K, Breen A, McKeown C, Allman E, Sharma P, McLeman A, Roberts AP.	Access Microbiol	10.1099/acmi.0.000976.v3	2025
	Use of beneficial bacterial endophytes: A practical strategy to achieve sustainable agriculture.	Medison RG, Tan L, Medison MB, Chiwina KE.	AIMS Microbiol	10.3934/microbiol.2022040	2022
	Genetic manipulation of structural color in bacterial colonies.	Johansen VE, Caton L, Hamidjaja R, Oosterink E, Wilts BD, Rasmussen TS, Sherlock MM, Ingham CJ, Vignolini S.	Proc Natl Acad Sci U S A	10.1073/pnas.1716214115	2018
	Low-Temperature Sulfidic-Ice Microbial Communities, Borup Fiord Pass, Canadian High Arctic.	Trivedi CB, Lau GE, Grasby SE, Templeton AS, Spear JR.	Front Microbiol	10.3389/fmicb.2018.01622	2018
Phylogeny	Flavobacterium gyeonganense sp. nov., isolated from freshwater, and emended descriptions of Flavobacterium chungangense, Flavobacterium aquidurense, Flavobacterium tructae and Flavobacterium granuli.	Kim H, Kang H, Joung Y, Joh K.	Int J Syst Evol Microbiol	10.1099/ijs.0.066480-0	2014
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	2014
Phylogeny	Flavobacterium chilense sp. nov. and Flavobacterium araucananum sp. nov., isolated from farmed salmonid fish.	Kampfer P, Lodders N, Martin K, Avendano-Herrera R.	Int J Syst Evol Microbiol	10.1099/ijs.0.033431-0	2012
Phylogeny	Flavobacterium ceti sp. nov., isolated from beaked whales (Ziphius cavirostris).	Vela AI, Fernandez A, Sanchez-Porro C, Sierra E, Mendez M, Arbelo M, Ventosa A, Dominguez L, Fernandez-Garayzabal JF.	Int J Syst Evol Microbiol	10.1099/ijs.0.65154-0	2007
Phylogeny	Flavobacterium circumlabens sp. nov. and Flavobacterium cupreum sp. nov., two psychrotrophic species isolated from Antarctic environmental samples.	Kralova S, Busse HJ, Svec P, Maslanova I, Stankova E, Bartak M, Sedlacek I	Syst Appl Microbiol	10.1016/j.syapm.2018.12.005	2018
Phylogeny	Flavobacterium chryseum sp. nov. and Flavobacterium psychroterrae sp. nov., novel environmental bacteria isolated from Antarctica.	Kralova S, Svec P, Busse HJ, Stankova E, Vaczi P, Sedlacek I	Int J Syst Evol Microbiol	10.1099/ijsem.0.002952	2018
Phylogeny	Flavobacterium spartansii sp. nov., a pathogen of fishes, and emended descriptions of Flavobacterium aquidurense and Flavobacterium araucananum.	Loch TP, Faisal M	Int J Syst Evol Microbiol	10.1099/ijs.0.051433-0	2013
Phylogeny	Flavobacterium resistens sp. nov., isolated from stream sediment.	Ryu SH, Park JH, Moon JC, Sung Y, Lee SS, Jeon CO	Int J Syst Evol Microbiol	10.1099/ijs.0.65720-0	2008
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

References

#7489	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18293
#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 )
#28125	IJSEM 243 2007 ( DOI 10.1099/ijs.0.64556-0 , PubMed 17267958 )
#31865	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 #28125
#36274	; Curators of the CIP;
#62130	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 59847
#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 .
#116449	Collection of Institut Pasteur ; Curators of the CIP; CIP 109242
#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 aquidurense (DSM 18293, CCUG 59847, CIP 109242)

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

Halophily

Metabolite utilization

Metabolite production

Enzymes

Fatty acid profile

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_002217195

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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