Gordonia didemni (DSM 46679, CBMAI 1069, B204)

Name: Gordonia didemni (DSM 46679, CBMAI 1069, B204)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131076

Type strain

Strain Designation B204

Culture col. no. DSM 46679 CBMAI 1069 B204

NCBI tax ID(s) 1934933

Special Collections DSMZ Wink compendium

History <- F. Fantinatti-Garboggini, CPQBA,Brazil; B204 <- C. B. Afonso de Menezes

Links

Gordonia didemni B204 is a bacterium that was isolated from marine ascidium Didemnum sp..

16S sequence Bacteria

Name and taxonomic classification

SI-ID 399536

DSM 46679

@ref 20215

Last LPSN update 2026-02-09 11:31:23

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Gordoniaceae

Genus Gordonia

Species Gordonia didemni

Full scientific name Gordonia didemni de Menezes et al. 2016

Morphology

Colony morphology

@ref	Colony color	Medium used
69463	Beige red (3012)	ISP 3
69463	Beige red (3012)	ISP 4
69463	Pastel yellow (1034)	ISP 2
69463	Pastel yellow (1034)	ISP 6
69463	Salmon orange (2012)	ISP 7
69463	Salmon pink (3022)	ISP 5
69463	Salmon pink (3022)	suter without tyrosine
69463	Signal orange (2010)	suter with tyrosine

Multicellular morphology

@ref	Complex name	Medium name
69463	Aerial mycelium	ISP 2
69463	Aerial mycelium	ISP 3
69463	Aerial mycelium	ISP 4
69463	Aerial mycelium	ISP 5
69463	Aerial mycelium	ISP 6
69463	Aerial mycelium	ISP 7
69463	Aerial mycelium	suter with tyrosine
69463	Aerial mycelium	suter without tyrosine

Pigmentation

@ref	Production	Name
69463		melanin pigment
69463		soluble pigment

Multimedia

@ref:	22368
multimedia content:	DSM_46679.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_46679.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22368	GPHF-MEDIUM (DSMZ Medium 553)		Medium recipe at MediaDive	Name: GPHF-MEDIUM (DSMZ Medium 553) Composition: Agar 20.0 g/l Glucose 10.0 g/l Beef extract 5.0 g/l Yeast extract 5.0 g/l Casein peptone 5.0 g/l CaCl2 x 2 H2O 0.74 g/l Distilled water
22368	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

Culture temp

@ref	Growth	Type	Temperature (°C)
22368	positive	growth	28

Physiology and metabolism

Halophily

@ref	Salt	Growth	Tested relation	Concentration
69463	NaCl	positive	growth	0-5 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
69463	22599 ChEBI	arabinose	-	growth
69463	62968 ChEBI	cellulose	-	growth
68379	17634 ChEBI	D-glucose	-	fermentation	from API Coryne
68379	16899 ChEBI	D-mannitol	-	fermentation	from API Coryne
68379	16988 ChEBI	D-ribose	-	fermentation	from API Coryne
68379	65327 ChEBI	D-xylose	-	fermentation	from API Coryne
68379	4853 ChEBI	esculin	-	hydrolysis	from API Coryne
69463	28757 ChEBI	fructose	+	growth
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
69463	17234 ChEBI	glucose	+	growth
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
69463	17268 ChEBI	inositol	-	growth
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
69463	37684 ChEBI	mannose	+	growth
68379	17632 ChEBI	nitrate	+	reduction	from API Coryne
69463	16634 ChEBI	raffinose	-	growth
69463	26546 ChEBI	rhamnose	+	growth
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
69463	17992 ChEBI	sucrose	+	growth
68379	16199 ChEBI	urea	-	hydrolysis	from API Coryne
69463	18222 ChEBI	xylose	-	growth

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
68379	alkaline phosphatase	-	3.1.3.1	from API Coryne
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
68379	alpha-glucosidase	+	3.2.1.20	from API Coryne
68382	alpha-mannosidase	-	3.2.1.24	from API zym
68382	beta-galactosidase	-	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68382	beta-glucosidase	+	3.2.1.21	from API zym
68379	beta-glucosidase	-	3.2.1.21	from API Coryne
68382	beta-glucuronidase	-	3.2.1.31	from API zym
68379	beta-glucuronidase	-	3.2.1.31	from API Coryne
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	-		from API Coryne
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
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68382	trypsin	-	3.4.21.4	from API zym
68379	urease	-	3.5.1.5	from API Coryne

API coryne

@ref	Reduction of nitrateNIT	PYZ	PYRA	PAL	beta GUR	beta GAL	alpha GLU	beta NAG	ESC	URE	GEL	Control fermentationControl	GLU	RIB	XYL	MAN	MAL	LAC	SAC	GLYG	CAT
69463	+	-	-	-	-	-	+	-	-	-	-	not determinedn.d.	-	-	-	-	-	-	-	-	not determinedn.d.

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
69463	not determinedn.d.	+	+/-	+	-	+	+/-	+/-	-	-	+	+/-	-	-	-	+	+	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Marine
#Host	#Invertebrates (Other)	#Tunicata

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
22368	marine ascidium Didemnum sp.	Didemnum	Sao Paulo, Sao Sebastiao	Brazil	BRA	Middle and South America

Taxonmaps

69479

Global distribution of 16S sequence JN615417 (>99% sequence identity) for Gordonia from Microbeatlas

Aquatic Samples	234
Soil Samples	171
Animal Samples	526
Plant Samples	48
Total Samples	979

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
22368	1	Risk group (German classification)

Sequence information

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
22368	Gordonia didemni strain B204 16S ribosomal RNA gene, partial sequence	JN615417	1386		1934933

GC content

@ref	GC-content (mol%)	Method
22368	70.5	fluorimetric

Genome-based predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Gordonia didemni sp. nov. an actinomycete isolated from the marine ascidium Didemnum sp.	de Menezes CB, Afonso RS, de Souza WR, Parma M, de Melo IS, Zucchi TD, Fantinatti-Garboggini F	Antonie Van Leeuwenhoek	10.1007/s10482-015-0632-y	2015

References

#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 )
#22368	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 46679
#68379	Automatically annotated from API Coryne .
#68382	Automatically annotated from API zym .
#69463	Wink, J.: Compendium of Actinobacteria. HZI-Helmholtz-Centre for Infection Research, Braunschweig .
#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 .
#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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Gordonia didemni (DSM 46679, CBMAI 1069, B204)

Name and taxonomic classification

Morphology

Colony morphology

Multicellular morphology

Pigmentation

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Halophily

Metabolite utilization

Enzymes

API coryne

API zym

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

16S sequences

GC content

Genome-based predictions

Literature

Literature

References

BacDive

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