Chryseobacterium molle (DSM 18016, CCUG 52547, DW3)

Name: Chryseobacterium molle (DSM 18016, CCUG 52547, DW3)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5699

Type strain

Strain Designation DW3

Culture col. no. DSM 18016 CCUG 52547 DW3 CIP 110177

NCBI tax ID(s) 216903

Special Collections DSMZ CCUG Literature strains CIP

History <- A. Lipski, School of Biology/Chemistry, Univ. Osnabrück, Germany; DW3 <- D. Wolking CIP <- 2010, DSMZ <- A. Lipski, Osnabrück Univ., Osnabrück, Germany: strain DW3

Links

Chryseobacterium molle DW3 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from biofilm of a beer-bottling plant.

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

Name and taxonomic classification

SI-ID 323956

CCUG 52547,DSM 18016,LMG 25630,CIP 110177

@ref 20215

Last LPSN update 2026-02-09 11:19:01

Domain Bacteria

Phylum Bacteroidota

Class Flavobacteriia

Order Flavobacteriales

Family Weeksellaceae

Genus Chryseobacterium

Species Chryseobacterium molle

Full scientific name Chryseobacterium molle Herzog et al. 2008

Synonyms (1)

Epilithonimonas mollis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Confidence
32348	negative	1.3 µm	0.9 µm	rod-shaped
121004	negative			rod-shaped
125438	negative				97
125439	negative				99.9

Pigmentation

32348

Productionno

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
7335	TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)	Medium recipe at MediaDive	Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water
34714	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
121004	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7335	positive	growth	28	mesophilic
32348	positive	growth	25-37	mesophilic
34714	positive	growth	30	mesophilic
59590	positive	growth	30	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
32348	aerobe
59590	aerobe
121004	facultative anaerobe
125439	obligate aerobe	98.3

Spore formation

@ref	Spore formation	Confidence
32348
125438		94.788
125439		98

Halophily

@ref	Salt	Growth	Tested relation	Concentration
32348	NaCl	positive	growth	<2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
32348	22599 ChEBI	arabinose	+	carbon source
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68371	17108 ChEBI	D-arabinose	-	builds acid from	from API 50CH acid
68371	18333 ChEBI	D-arabitol	-	builds acid from	from API 50CH acid
68371	28847 ChEBI	D-fucose	-	builds acid from	from API 50CH acid
68371	12936 ChEBI	D-galactose	-	builds acid from	from API 50CH acid
68371	62318 ChEBI	D-lyxose	-	builds acid from	from API 50CH acid
68371	16899 ChEBI	D-mannitol	-	builds acid from	from API 50CH acid
68371	16988 ChEBI	D-ribose	-	builds acid from	from API 50CH acid
68371	17924 ChEBI	D-sorbitol	-	builds acid from	from API 50CH acid
68371	16443 ChEBI	D-tagatose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
32348	4853 ChEBI	esculin	+	hydrolysis
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
32348	17234 ChEBI	glucose	+	carbon source
68371	17754 ChEBI	glycerol	-	builds acid from	from API 50CH acid
68371	15443 ChEBI	inulin	-	builds acid from	from API 50CH acid
68371	30849 ChEBI	L-arabinose	-	builds acid from	from API 50CH acid
68371	18403 ChEBI	L-arabitol	-	builds acid from	from API 50CH acid
68371	18287 ChEBI	L-fucose	-	builds acid from	from API 50CH acid
68371	62345 ChEBI	L-rhamnose	-	builds acid from	from API 50CH acid
68371	17266 ChEBI	L-sorbose	-	builds acid from	from API 50CH acid
68371	65328 ChEBI	L-xylose	-	builds acid from	from API 50CH acid
68371	17716 ChEBI	lactose	-	builds acid from	from API 50CH acid
32348	25115 ChEBI	malate	+	carbon source
32348	17306 ChEBI	maltose	+	carbon source
32348	37684 ChEBI	mannose	+	carbon source
68371	6731 ChEBI	melezitose	-	builds acid from	from API 50CH acid
68371	28053 ChEBI	melibiose	-	builds acid from	from API 50CH acid
68371	320061 ChEBI	methyl alpha-D-glucopyranoside	-	builds acid from	from API 50CH acid
68371	43943 ChEBI	methyl alpha-D-mannoside	-	builds acid from	from API 50CH acid
68371	74863 ChEBI	methyl beta-D-xylopyranoside	-	builds acid from	from API 50CH acid
68371	17268 ChEBI	myo-inositol	-	builds acid from	from API 50CH acid
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
121004	17632 ChEBI	nitrate	-	reduction
121004	16301 ChEBI	nitrite	+	reduction
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	17814 ChEBI	salicin	-	builds acid from	from API 50CH acid
68371	17992 ChEBI	sucrose	-	builds acid from	from API 50CH acid
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid

Metabolite production

@ref	Chebi-ID	Metabolite	Production
32348	35581 ChEBI	indole
121004	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Indole test
32348	35581 ChEBI	indole	+

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
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
32348	catalase	+	1.11.1.6
121004	catalase	+	1.11.1.6
68382	cystine arylamidase	+	3.4.11.3	from API zym
32348	cytochrome oxidase	+	1.9.3.1
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
32348	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
121004	oxidase	+
68382	trypsin	+	3.4.21.4	from API zym
121004	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
121004	-	+	+	+	+	+	+	+	+	+	+	+	-	-	-	+	+	-	-	-

API 50CHac

@ref	ControlQ	GLY	ERY	DARA	LARA	RIB	DXYL	LXYL	ADO	MDX	GAL	GLU	FRU	MNE	SBE	RHA	DUL	INO	MAN	SOR	MDM	MDG	NAG	AMY	ARB	ESC	SAL	CEL	MAL	LAC	MEL	SAC	TRE	INU	MLZ	RAF	AMD	GLYG	XLT	GEN	TUR	LYX	TAG	DFUC	LFUC	DARL	LARL	GNT	2KG	5KG
121004	not determinedn.d.	-	-	-	-	-	+/-	-	-	-	-	+/-	+/-	+/-	-	-	-	-	-	-	-	-	-	+/-	-	+/-	-	+/-	+/-	-	-	-	-	-	-	-	+/-	+/-	-	+/-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	#Plant (Factory)
#Environmental	#Biofilm	-

Isolation

@ref	Sample type	Sampling date	Country	Country ISO 3 Code	Continent
7335	biofilm of a beer-bottling plant		Germany	DEU	Europe
59590	Steel surface of a beer bottling plant	2002-08-01	Germany	DEU	Europe
121004	Biofilm of a beer-bottling plant		Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ534853 (>99% sequence identity) for Chryseobacterium molle from Microbeatlas

Aquatic Samples	164
Soil Samples	26
Animal Samples	254
Plant Samples	36
Total Samples	480

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7335	1	Risk group (German classification) According to TRBA 466
121004	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 2698536696 annotated assembly for Epilithonimonas mollis DSM 18016	contig	GCA_900142325	216903.4	2698536696	216903	76.69

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
7335	Chryseobacterium molle partial 16S rRNA gene, type strain DW3T	AJ534853	1421		216903

GC content

32348

GC-content (mol%)39.2

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Epilithonimonas mollis DSM 18016
NCBI: GCA_900142325

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.00	no
125439	motility	BacteriaNetⓘ	no	82.10	no
125439	gram_stain	BacteriaNetⓘ	negative	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.30	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Chryseobacterium molle strain DSM 18016
PATRIC: 216903.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.00	yes
125438	anaerobic	anaerobicⓘ	no	98.32	yes
125438	spore-forming	spore-formingⓘ	no	94.79	yes
125438	aerobic	aerobicⓘ	yes	78.49	no
125438	thermophilic	thermophileⓘ	no	97.50	yes
125438	flagellated	motile2+ⓘ	no	88.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft genome and description of Chryseobacterium manosquense strain Marseille-Q2069^T sp. nov., a new bacterium isolated from human healthy skin.	Boxberger M, Ben Khedher M, Magnien S, Cassir N, La Scola B.	New Microbes New Infect	10.1016/j.nmni.2020.100805	2020
Phylogeny	Chryseobacterium ureilyticum sp. nov., Chryseobacterium gambrini sp. nov., Chryseobacterium pallidum sp. nov. and Chryseobacterium molle sp. nov., isolated from beer-bottling plants.	Herzog P, Winkler I, Wolking D, Kampfer P, Lipski A	Int J Syst Evol Microbiol	10.1099/ijs.0.65362-0	2008

References

#7335	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 18016
#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 )
#28579	IJSEM 26 2008 ( DOI 10.1099/ijs.0.65362-0 , PubMed 18175677 )
#32348	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 #28579
#34714	; Curators of the CIP;
#59590	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 52547
#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) .
#68371	Automatically annotated from API 50CH acid .
#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 .
#121004	Collection of Institut Pasteur ; Curators of the CIP; CIP 110177
#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 molle (DSM 18016, CCUG 52547, DW3)

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

API 50CHac

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900142325

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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