Williamsia serinedens (DSM 45037, CCUG 53151, CIP 109522)

Name: Williamsia serinedens (DSM 45037, CCUG 53151, CIP 109522)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 17378

Type strain

Culture col. no. DSM 45037 CCUG 53151 CIP 109522 IMMIB SR-4 IFM 10863 1 more

NCBI tax ID(s) 391736

Special Collections DSMZ CCUG JCM CIP Wink compendium Literature strains

History <- A. F. Yassin; IMMIB SR-4 <- A. B. Arun IFM 10863 <-- DSM 45037 <-- A. F. Yassin IMMIB SR-4 <-- A. B. Arun. CIP <- 2007, CCUG <- 2006, A. F. Yassin, Bonn Univ., Bonn, Germany: strain IMMIB SR-4

Links

Williamsia serinedens DSM 45037 is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from soil sample from oil contaminated site.

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

Name and taxonomic classification

SI-ID 297359

CCUG 53151,DSM 45037,CIP 109522,JCM 14883

@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 serinedens

Full scientific name Williamsia serinedens Yassin et al. 2007

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Motility
31942	positive	rod-shaped
122569	positive	rod-shaped

Colony morphology

@ref	Colony color	Incubation period	Medium used
20158	Red orange (2001)	10-14 days	ISP 2
20158	Red orange (2001)	10-14 days	ISP 3
20158	Red orange (2001)	10-14 days	ISP 4
20158	Red orange (2001)	10-14 days	ISP 5
20158	Red orange (2001)	10-14 days	ISP 6
20158	Red orange (2001)	10-14 days	ISP 7
59811		2 days

Multicellular morphology

@ref	Forms multicellular complex	Medium name
20158		ISP 2
20158		ISP 3
20158		ISP 4
20158		ISP 5
20158		ISP 6
20158		ISP 7

Pigmentation

31942

Productionyes

Multimedia

@ref:	12264
multimedia content:	DSM_45037.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45037.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
12264	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water
12264	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
20158	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
20158	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:
20158	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
20158	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
20158	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
20158	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
40068	MEDIUM 29- Brain heart agar		Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122569	CIP Medium 29	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
12264	positive	growth	28	mesophilic
31942	positive	growth	22-30
31942	positive	optimum	26	mesophilic
40068	positive	growth	37	mesophilic
59811	positive	growth	22-42
67770	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
31942	aerobe
59811	aerobe
122569	obligate aerobe
125439	obligate aerobe	97.9

Spore formation

@ref	Spore formation	Confidence
125439		94.1

Observation

67770

Observationquinones: MK-8(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31942	62064 ChEBI	2,3-butanediol	+	carbon source
31942	30089 ChEBI	acetate	+	carbon source
31942	16449 ChEBI	alanine	+	carbon source
31942	22599 ChEBI	arabinose	+	carbon source
31942	16947 ChEBI	citrate	+	carbon source
31942	28260 ChEBI	galactose	+	carbon source
31942	17234 ChEBI	glucose	+	carbon source
31942	24996 ChEBI	lactate	+	carbon source
31942	17306 ChEBI	maltose	+	carbon source
31942	29864 ChEBI	mannitol	+	carbon source
122569	17632 ChEBI	nitrate	-	reduction
122569	16301 ChEBI	nitrite	-	reduction
31942	15963 ChEBI	ribitol	+	carbon source
31942	17822 ChEBI	serine	+	carbon source
31942	30911 ChEBI	sorbitol	+	carbon source
31942	17992 ChEBI	sucrose	+	carbon source
31942	27082 ChEBI	trehalose	+	carbon source
31942	18222 ChEBI	xylose	+	carbon source

Metabolite production

@ref	Chebi-ID	Metabolite	Production
122569	35581 ChEBI	indole

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	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-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
122569	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
31942	gelatinase	+
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	+		from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
122569	oxidase	-
68382	trypsin	-	3.4.21.4	from API zym
31942	urease	+	3.5.1.5
122569	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
20158	not determinedn.d.	+	+	+	+	+	-	-	-	-	+	+	-	-	-	+	+	-	-	-
122569	-	-	+	+	+	+	-	-	-	-	+	+	-	-	-	-	+	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Contamination	#Oil (Fuel)
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Sampling date	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
12264	soil sample from oil contaminated site		Chyai County	Taiwan, Province of China	TWN	Asia
59811	Soil,oil contaminated site	2005	Chyai County	Taiwan, Province of China	TWN	Asia
67770	Soil from an oil-contaminated site		Chyai County	Taiwan, Province of China	TWN	Asia
122569	Environment, Soil, oil contaminated site		Chyai county	Taiwan, Province of China	TWN	Asia	2005

Interaction and safety

Risk assessment

@ref	Pathogenicity human	Biosafety level	Biosafety level comment
12264	yes, in single cases	1	Risk group (German classification) According to TRBA 466
20158		1
122569		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	ASM3953016v1 assembly for Williamsia serinedens JCM 14883	contig	GCA_039530165			391736	74.09
124043	ASM4267668v1 assembly for Williamsia serinedens CCUG 53151	scaffold	GCA_042676685			391736	72.47
66792	ASM2417172v1 assembly for Williamsia serinedens DSM 45037	scaffold	GCA_024171725	391736.3	2596583524	391736	69.08

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
31942	Williamsia serinedens partial 16S rRNA gene, type strain IMMIB SR-4T	AM283464	1479		391736
124043	Williamsia serinedens strain DSM 45037(T) 16S ribosomal RNA gene, partial sequence.	MN686679	515		391736

GC content

@ref	GC-content (mol%)	Method
67770	70.4	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Williamsia serinedens DSM 45037
NCBI: GCA_024171725

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	94.10	no
125439	motility	BacteriaNetⓘ	yes	55.00	no
125439	gram_stain	BacteriaNetⓘ	positive	82.10	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.90	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Williamsia aurantiacus sp. nov. a novel actinobacterium producer of antimicrobial compounds isolated from the marine sponge.	de Menezes CBA, Afonso RS, de Souza WR, Parma MM, de Melo IS, Fugita FLS, Moraes LAB, Zucchi TD, Fantinatti-Garboggini F	Arch Microbiol	10.1007/s00203-019-01633-z	2019
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 serinedens sp. nov., isolated from an oil-contaminated soil.	Yassin AF, Young CC, Lai WA, Hupfer H, Arun AB, Shen FT, Rekha PD, Ho MJ	Int J Syst Evol Microbiol	10.1099/ijs.0.64691-0	2007

References

#12264	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45037
#20158	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 )
#28198	IJSEM 558 2007 ( DOI 10.1099/ijs.0.64691-0 , PubMed 17329784 )
#31942	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 #28198
#40068	; Curators of the CIP;
#59811	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 53151
#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 .
#122569	Collection of Institut Pasteur ; Curators of the CIP; CIP 109522
#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 )

Rate our new design

Content

About us

Williamsia serinedens (DSM 45037, CCUG 53151, CIP 109522)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

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_039530165

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media