Chryseobacterium defluvii (DSM 14219, CIP 107207, CCUG 47675)

Name: Chryseobacterium defluvii (DSM 14219, CIP 107207, CCUG 47675)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5668

Type strain

Strain Designation B2, B2T

Culture col. no. DSM 14219 CIP 107207 CCUG 47675 KCTC 12434 B2 1 more

NCBI tax ID(s) 160396

Special Collections DSMZ CCUG KCTC CIP

Links

Chryseobacterium defluvii B2 is an aerobe, mesophilic, rod-shaped prokaryote that was isolated from wastewater.

rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 20512

DSM 14219,CIP 107207,CCUG 47675,LMG 22469,BCRC 17335,CCRC 17335,KCTC 12434,KACC 11392

@ref 20215

Last LPSN update 2025-12-16 09:48:07

Domain Pseudomonadati

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Weeksellaceae

Genus Chryseobacterium

Species Chryseobacterium defluvii

Full scientific name Chryseobacterium defluvii Kämpfer et al. 2003

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
67771		rod-shaped
67771	negative
118866	negative	rod-shaped
125439	negative		99.3
125438			90
125438	negative		97.4

Colony morphology

118866

Hemolysis ability1

Pigmentation

@ref	Production	Name
118866		Flexirubin

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
5257	NUTRIENT AGAR (DSMZ Medium 1)	Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40560	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118866	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
5257	positive	growth	28	mesophilic
40560	positive	growth	30	mesophilic
57814	positive	growth	30-42
67771	positive	growth	28	mesophilic
118866	positive	growth	15-41
118866	negative	growth	5
118866	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
57814	aerobe
67771	aerobe
118866	obligate aerobe
125439	obligate aerobe	91.7

Spore formation

@ref	Spore formation	Confidence
67771
125439		92.5

Halophily

@ref	Salt	Growth	Tested relation	Concentration
118866	NaCl	positive	growth	0 %
118866	NaCl		growth	2 %
118866	NaCl		growth	4 %
118866	NaCl		growth	6 %
118866	NaCl		growth	8 %
118866	NaCl		growth	10 %

Observation

67771

Observationquinones: MK-6

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
118866	16947 ChEBI	citrate	-	carbon source
118866	4853 ChEBI	esculin	+	hydrolysis
118866	606565 ChEBI	hippurate	+	hydrolysis
118866	15792 ChEBI	malonate	-	assimilation
118866	17632 ChEBI	nitrate	-	builds gas from
118866	17632 ChEBI	nitrate	-	reduction
118866	17632 ChEBI	nitrate	-	respiration
118866	16301 ChEBI	nitrite	-	builds gas from
118866	16301 ChEBI	nitrite	-	reduction

Antibiotic resistance

@ref	Metabolite	Is antibiotic	Is sensitive	Is resistant
118866	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite	Production
118866	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
118866	15688 ChEBI	acetoin	-
118866	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
118866	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
118866	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
118866	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
118866	caseinase	+	3.4.21.50
118866	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
118866	DNase	-
68382	esterase (C 4)	-		from API zym
68382	esterase lipase (C 8)	+		from API zym
118866	gamma-glutamyltransferase	+	2.3.2.2
118866	gelatinase	+
118866	lecithinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
118866	lipase	-
68382	lipase (C 14)	-		from API zym
118866	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
118866	ornithine decarboxylase	-	4.1.1.17
118866	oxidase	+
118866	phenylalanine ammonia-lyase	-	4.3.1.24
118866	protease	+
68382	trypsin	+	3.4.21.4	from API zym
118866	tryptophan deaminase	-
118866	tween esterase	+
118866	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
118866	-	+	-	+	-	+	+	-	+	-	+	+	-	-	-	+	-	+	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
118866	not determinedn.d.	+	-	-	+	+	-	-	-	-	+	+	-	-	-	-	-	+	-	+	-	+	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	+	+	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Waste	#Wastewater

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
5257	wastewater		Berlin	Germany	DEU	Europe
57814	Wastewater	1998	Berlin	Germany	DEU	Europe
67771	From Wastewater		Berlin	Germany	DEU	Europe
118866	Environment, Wastewater		Berlin	Germany	DEU	Europe	1998

Taxonmaps

69479

Global distribution of 16S sequence AJ309324 (>99% sequence identity) for Chryseobacterium defluvii from Microbeatlas

Aquatic Samples	4
Soil Samples	8
Animal Samples	2
Plant Samples	5
Total Samples	19

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
5257	1	Risk group (German classification) According to TRBA 466
118866	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	ASM363477v1 assembly for Chryseobacterium defluvii DSM 14219	scaffold	GCA_003634775	160396.5	2681812957	160396	77.59

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
5257	Chryseobacterium defluvium 16S rRNA gene, isolate B2	AJ309324	1415		160396

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Chryseobacterium defluvii DSM 14219
NCBI: GCA_003634775

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	92.50	no
125439	motility	BacteriaNetⓘ	no	75.30	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	91.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Chryseobacterium defluvii DSM 14219
NCBI: GCA_003634775.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.40	yes
125438	anaerobic	anaerobicⓘ	no	97.08	no
125438	aerobic	aerobicⓘ	yes	84.58	yes
125438	spore-forming	spore-formingⓘ	no	89.26	no
125438	thermophilic	thermophileⓘ	no	97.14	yes
125438	flagellated	motile2+ⓘ	no	90.00	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
	Polychlorinated Biphenyl Transformation, Peroxidase and Oxidase Activities of Fungi and Bacteria Isolated from a Historically Contaminated Site.	Maucourt F, Doumeche B, Chapulliot D, Vallon L, Nazaret S, Fraissinet-Tachet L.	Microorganisms	10.3390/microorganisms11081887	2023
Phylogeny	Chryseobacterium hispalense sp. nov., a plant-growth-promoting bacterium isolated from a rainwater pond in an olive plant nursery, and emended descriptions of Chryseobacterium defluvii, Chryseobacterium indologenes, Chryseobacterium wanjuense and Chryseobacterium gregarium.	Montero-Calasanz MDC, Goker M, Rohde M, Sproer C, Schumann P, Busse HJ, Schmid M, Tindall BJ, Klenk HP, Camacho M.	Int J Syst Evol Microbiol	10.1099/ijs.0.052456-0	2013
Phylogeny	Chryseobacterium zeae sp. nov., Chryseobacterium arachidis sp. nov., and Chryseobacterium geocarposphaerae sp. nov. isolated from the rhizosphere environment.	Kampfer P, McInroy JA, Glaeser SP.	Antonie Van Leeuwenhoek	10.1007/s10482-013-0101-4	2014
Phylogeny	Chryseobacterium taiwanense sp. nov., isolated from soil in Taiwan.	Tai CJ, Kuo HP, Lee FL, Chen HK, Yokota A, Lo CC.	Int J Syst Evol Microbiol	10.1099/ijs.0.64294-0	2006
Phylogeny	Chryseobacterium wanjuense sp. nov., isolated from greenhouse soil in Korea.	Weon HY, Kim BY, Yoo SH, Kwon SW, Cho YH, Go SJ, Stackebrandt E.	Int J Syst Evol Microbiol	10.1099/ijs.0.64179-0	2006
Phylogeny	Chryseobacterium formosense sp. nov., isolated from the rhizosphere of Lactuca sativa L. (garden lettuce).	Young CC, Kampfer P, Shen FT, Lai WA, Arun AB.	Int J Syst Evol Microbiol	10.1099/ijs.0.63331-0	2005
Phylogeny	Chryseobacterium daecheongense sp. nov., isolated from freshwater lake sediment.	Kim KK, Bae HS, Schumann P, Lee ST	Int J Syst Evol Microbiol	10.1099/ijs.0.02931-0	2005
Phylogeny	Chryseobacterium defluvii sp. nov., isolated from wastewater.	Kampfer P, Dreyer U, Neef A, Dott W, Busse HJ	Int J Syst Evol Microbiol	10.1099/ijs.0.02073-0	2003

References

#5257	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 14219
#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 )
#40560	; Curators of the CIP;
#57814	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 47675
#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 .
#118866	Collection of Institut Pasteur ; Curators of the CIP; CIP 107207
#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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Chryseobacterium defluvii (DSM 14219, CIP 107207, CCUG 47675)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_003634775

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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