Williamsia deligens (DSM 44902, CCUG 50873, CIP 109147)

Name: Williamsia deligens (DSM 44902, CCUG 50873, CIP 109147)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17375

Type strain

Culture col. no. DSM 44902 CCUG 50873 CIP 109147 IMMIB RIV-956 IFM 10667 1 more

NCBI tax ID(s) 321325

Special Collections DSMZ CCUG JCM CIP Wink compendium Literature strains

History <- A. F. Yassin, IMMIB IFM 10667 <-- DSM 44902 <-- A. F. Yassin IMMIB RIV-956. CIP <- 2006, DSMZ <- A. F. Yassin

Links

Williamsia deligens DSM 44902 is an aerobe, spore-forming, mesophilic prokaryote that was isolated from human blood.

spore-forming Gram-positive ovoid-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 215519

DSM 44902,CCUG 50873,JCM 13662,CIP 109147

@ref 20215

Last LPSN update 2026-02-09 11:22:12

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Gordoniaceae

Genus Williamsia

Species Williamsia deligens

Full scientific name Williamsia deligens Yassin and Hupfer 2006

BacDive ID	Other strains from **Williamsia deligens** (1)	Type strain
17376	W. deligens DSM 44903, CCUG 50874, IMMIB RIV-956Fl

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
31587	positive	ovoid-shaped
125439	positive		94.6
118887	positive	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
20139	Pure orange (2004)	10-14 days	ISP 2
20139	Pure orange (2004)	10-14 days	ISP 3
20139		10-14 days	ISP 4
20139		10-14 days	ISP 5
20139		10-14 days	ISP 6
20139		10-14 days	ISP 7
118887

Multicellular morphology

@ref	Forms multicellular complex	Medium name
20139		ISP 2
20139		ISP 3
20139		ISP 4
20139		ISP 5
20139		ISP 6
20139		ISP 7

Pigmentation

31587

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12186	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)	Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water
12186	BHI MEDIUM (DSMZ Medium 215)	Medium recipe at MediaDive	Name: BHI MEDIUM (DSMZ Medium 215) Composition: Brain heart infusion 37.0 g/l Distilled water
20139	ISP 2		Name: ISP 2 / Yeast Malt Agar (5265); 5265 Composition Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.0 Usage: Maintenance and Taxonomy Organisms: All Actinomycetes
20139	ISP 3		Name: ISP 3; 5315 Composition Dog oat flakes 20.0 g/l Trace element solution (5314) 2.5 ml/l Agar 18.0 g/l Preparation: Oat flakes are cooked for 20 minutes, trace element solution and agar are added (in the case of non rolled oat flakes the suspension has to bee filtrated). Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.8 Usage: Maintenance and taxonomy (e.g. SEM As liquid medium for metabolite production) Organisms: All Actinomycetes Trace element solution 5314 Name: Trace element solution 5314; 5314 Composition CaCl2 x H2O 3.0 g/l Fe-III-citrate 1.0 g/l MnSO4 0.2 g/l ZnCl2 0.1 g/l CuSO4 x 5 H2O 0.025 g/l Sodium tetra borate 0.2 g/l CoCl2 x 6 H2O 0.004 g/l Sodium molybdate 0.01 g/l Preparation: Use double destillated water. Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Trace element solution for different media Organisms:
20139	ISP 4		Name: ISP 4; DSM 547 Solution I: Difco soluble starch, 10.0 g. Make a paste of the starch with a small amount of cold distilled water and bring to a volume of 500 ml. Solution II: CaCO3 2.0 g K2HPO4 (anhydrous) 1.0 g MgSO4 x 7 H2O 1.0 g NaCl 1.0 g (NH4)2SO4 2.0 g Distilled water 500.0 ml Trace salt solution (see below) 1.0 ml The pH should be between 7.0 and 7.4. Do not adjust if it is within this range. Mix solutions I and II together. Add 20.0 g agar. Liquify agar by steaming at 100°C for 10 to 20 min. Trace element solution: FeSO4 x 7 H2O 0.1 g MnCl2 x 4 H2O 0.1 g ZnSO4 x 7 H2O 0.1 g Distilled water 100.0 ml
20139	ISP 5		Name: ISP 5 (5323) Composition L-Asparagine 1.0 g/l Glycerol 10.0 g/l K2HPO4 1.0 g/l Salt solution (see preparation) 1.0 ml/l Agar 20.0 g/l Preparation: Salt solution 1.0 g FeSO4 x 7 H2O 1.0 g MnCl2 x 4 H2O 1.0 g ZNSO4 x 7 H2O in 100 ml water Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.2 Usage: Maintenance and taxonomy Organisms: All Actinomycetes
20139	ISP 6		Name: ISP 6 (5318) Composition Peptone 15.0 g/l Proteose peptose 5.0 g/l Ferric ammonium citrate 0.5 g/l Sodium glycerophosphate 1.0 g/l Sodium thiosulfate 0.08 g/l Yeast extract 1.0 g/l Agar 15.0 g/l Sterilisation: 20 minutes at 121°C pH before sterilisation: Usage: Production of melanoid pigments Organisms: All Actinomycetes
20139	ISP 7		Name: ISP 7 (5322) Composition Glycerol 15.0 g/l L-Tyrosine 0.5 g/l L-Asparagine 1.0 g/l K2HPO4 0.5 g/l NaCl 0.5 g/l FeSO4 x 7 H2O 0.01 g/l Trace element solution 5343 1.0 ml/l Agar 20.0 Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.3 Usage: Production of melanoid pigments Organisms: All Actinomycetes
33278	MEDIUM 72- for trypto casein soja agar		Distilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
118887	CIP Medium 72	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
12186	positive	growth	28	mesophilic
20139	positive	optimum	28	mesophilic
31587	positive	growth	22-37
31587	positive	optimum	22-37
33278	positive	growth	30	mesophilic
67770	positive	growth	28	mesophilic

Culture pH

@ref	Ability	Type	PH
31587	positive	optimum	7
31587	positive	growth	7

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31587	aerobe
118887	obligate aerobe
125439	obligate aerobe	97.8

Spore formation

31587

Spore formationyes

Observation

@ref	Observation
31587	aggregates in chains
67770	quinones: MK-9(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31587	30089 ChEBI	acetate	+	carbon source
20139	22599 ChEBI	arabinose	-
20139	62968 ChEBI	cellulose	-
31587	16947 ChEBI	citrate	+	carbon source
20139	28757 ChEBI	fructose	+
20139	17234 ChEBI	glucose	+
31587	17234 ChEBI	glucose	+	carbon source
31587	17306 ChEBI	maltose	+	carbon source
20139	29864 ChEBI	mannitol	+
31587	29864 ChEBI	mannitol	+	carbon source
20139	17268 ChEBI	myo-inositol	-
118887	17632 ChEBI	nitrate	-	reduction
118887	16301 ChEBI	nitrite	-	reduction
20139	16634 ChEBI	raffinose	-
20139	26546 ChEBI	rhamnose	-
31587	30911 ChEBI	sorbitol	+	carbon source
20139	17992 ChEBI	sucrose	+
31587	17992 ChEBI	sucrose	+	carbon source
31587	27082 ChEBI	trehalose	+	carbon source
20139	18222 ChEBI	xylose	-
31587	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
118887	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
118887	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
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
118887	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
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
118887	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
118887	ornithine decarboxylase	-	4.1.1.17
118887	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
31587	urease	+	3.5.1.5
118887	urease	+	3.5.1.5

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
20139	not determinedn.d.	+	+	+	+	+	+	-	-	-	+	+	-	-	-	+	+	-	-	-
118887	-	+	+	+	+	+	-	-	-	-	+	+	-	-	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Human	-
#Host Body Product	#Fluids	#Blood

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent	Isolation date
12186	human blood	Germany	DEU	Europe
67770	Human blood
118887	Human, Blood	Germany	DEU	Europe	1995

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
12186	yes, in single cases	1	Risk group (German classification) According to TRBA 466
20139		2
118887		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
124043	ASM4267690v1 assembly for Williamsia deligens CCUG 50873	contig	GCA_042676905			321325	75.43
66792	ASM2417176v1 assembly for Williamsia deligens DSM 44902	scaffold	GCA_024171765	321325.3	2596583530	321325	73.83
124043	ASM3952931v1 assembly for Williamsia deligens JCM 13662	scaffold	GCA_039529315			321325	59.64

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
12186	Williamsia deligens partial 16S rRNA gene, type strain IMMIB RIV-956T	AJ920290	1479		321325

GC content

@ref	GC-content (mol%)	Method
67770	70.2	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Williamsia deligens DSM 44902
NCBI: GCA_024171765

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	73.90	no
125439	motility	BacteriaNetⓘ	no	59.10	no
125439	gram_stain	BacteriaNetⓘ	positive	94.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.80	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Williamsia spongiae sp. nov., an actinomycete isolated from the marine sponge Amphimedon viridis.	Afonso de Menezes CB, Afonso RS, Souza WR, Parma M, Melo IS, Zucchi TD, Fantinatti-Garboggini F	Int J Syst Evol Microbiol	10.1099/ijsem.0.001796	2017
Phylogeny	Williamsia phyllosphaerae sp. nov., isolated from the surface of Trifolium repens leaves.	Kampfer P, Wellner S, Lohse K, Lodders N, Martin K	Int J Syst Evol Microbiol	10.1099/ijs.0.029322-0	2010
Phylogeny	Williamsia deligens sp. nov., isolated from human blood.	Yassin AF, Hupfer H	Int J Syst Evol Microbiol	10.1099/ijs.0.63856-0	2006

References

#12186	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44902
#20139	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 )
#27876	IJSEM 193 2006 ( DOI 10.1099/ijs.0.63856-0 , PubMed 16403886 )
#31587	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 #27876
#33278	; 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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68382	Automatically annotated from API zym .
#118887	Collection of Institut Pasteur ; Curators of the CIP; CIP 109147
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Williamsia deligens (DSM 44902, CCUG 50873, CIP 109147)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular 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

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_042676905

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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