Gordonia hirsuta (CCUG 38498, DSM 44140, CIP 105097)

Name: Gordonia hirsuta (CCUG 38498, DSM 44140, CIP 105097)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 10580

Type strain

Strain Designation K 718a

Culture col. no. CCUG 38498 DSM 44140 CIP 105097 JCM 10105 K 718a 6 more

NCBI tax ID(s) 1121927 53427

Special Collections DSMZ CCUG JCM KCTC CIP Wink compendium

History <- S. Klatte, K 718a DSM 44140 <-- S. Klatte K718a. CIP <- 1997, DSMZ <- S. Klatte: strain K 718a

Links

Gordonia hirsuta K 718a is an aerobe, mesophilic, Gram-positive prokaryote that was isolated from biofilter of an animal rendering plant.

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

Name and taxonomic classification

SI-ID 45417

ATCC 700255,DSM 44140,CCUG 38498,CIP 105097,JCM 10105,IFO 16056,KCTC 9816,NBRC 16056,CECT 7018

@ref 20215

Last LPSN update 2026-02-09 11:20:17

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Gordoniaceae

Genus Gordonia

Species Gordonia hirsuta

Full scientific name Gordonia hirsuta corrig. Klatte et al. 1996

Synonyms (1)

Gordona hirsuta

BacDive ID	Other strains from **Gordonia hirsuta** (1)	Type strain
104718	G. hirsuta ST033345(HKI),

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
119912	positive	rod-shaped
125438			95
125438	positive		90.44
125439	positive		97

Colony morphology

@ref	Incubation period	Medium used
20004	10-14 days	ISP 2
20004	10-14 days	ISP 3
20004	10-14 days	ISP 4
20004	10-14 days	ISP 5
20004	10-14 days	ISP 6
20004	10-14 days	ISP 7
119912

Multicellular morphology

@ref	Forms multicellular complex	Medium name
20004		ISP 2
20004		ISP 3
20004		ISP 4
20004		ISP 5
20004		ISP 6
20004		ISP 7

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
11518	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
20004	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
20004	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:
20004	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
20004	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
20004	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
20004	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
41474	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
119912	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
11518	positive	growth	28	mesophilic
41474	positive	growth	30	mesophilic
54293	positive	growth	30-37	mesophilic
67770	positive	growth	28	mesophilic
119912	positive	growth	25-37	mesophilic
119912	negative	growth	10
119912	negative	growth	41
119912	negative	growth	45

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
54293	aerobe
119912	obligate aerobe
125439	obligate aerobe	97.9

Halophily

@ref	Salt	Growth	Tested relation	Concentration
20004	NaCl	positive	maximum	5 %
119912	NaCl	positive	growth	0-4 %
119912	NaCl		growth	6 %
119912	NaCl		growth	8 %
119912	NaCl		growth	10 %

Observation

67770

Observationquinones: MK-9(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68371	27613 ChEBI	amygdalin	-	builds acid from	from API 50CH acid
20004	22599 ChEBI	arabinose	+
68371	18305 ChEBI	arbutin	-	builds acid from	from API 50CH acid
68368	29016 ChEBI	arginine	-	hydrolysis	from API 20E
68371	17057 ChEBI	cellobiose	-	builds acid from	from API 50CH acid
20004	62968 ChEBI	cellulose	+
119912	16947 ChEBI	citrate	-	carbon source
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
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	65327 ChEBI	D-xylose	-	builds acid from	from API 50CH acid
68371	17113 ChEBI	erythritol	-	builds acid from	from API 50CH acid
119912	4853 ChEBI	esculin	-	hydrolysis
68371	4853 ChEBI	esculin	-	builds acid from	from API 50CH acid
20004	28757 ChEBI	fructose	+
68371	16813 ChEBI	galactitol	-	builds acid from	from API 50CH acid
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68371	28066 ChEBI	gentiobiose	-	builds acid from	from API 50CH acid
68371	24265 ChEBI	gluconate	-	builds acid from	from API 50CH acid
20004	17234 ChEBI	glucose	+
119912	606565 ChEBI	hippurate	-	hydrolysis
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
68368	25094 ChEBI	lysine	-	degradation	from API 20E
68371	17306 ChEBI	maltose	-	builds acid from	from API 50CH acid
20004	29864 ChEBI	mannitol	+
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
20004	17268 ChEBI	myo-inositol	+
68371	59640 ChEBI	N-acetylglucosamine	-	builds acid from	from API 50CH acid
119912	17632 ChEBI	nitrate	+	reduction
119912	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68371		Potassium 2-ketogluconate	-	builds acid from	from API 50CH acid
68371		Potassium 5-ketogluconate	-	builds acid from	from API 50CH acid
20004	16634 ChEBI	raffinose	+
68371	16634 ChEBI	raffinose	-	builds acid from	from API 50CH acid
20004	26546 ChEBI	rhamnose	+
68371	15963 ChEBI	ribitol	-	builds acid from	from API 50CH acid
68371	28017 ChEBI	starch	-	builds acid from	from API 50CH acid
20004	17992 ChEBI	sucrose	+
68371	27082 ChEBI	trehalose	-	builds acid from	from API 50CH acid
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68371	32528 ChEBI	turanose	-	builds acid from	from API 50CH acid
68368	16199 ChEBI	urea	-	hydrolysis	from API 20E
68371	17151 ChEBI	xylitol	-	builds acid from	from API 50CH acid
20004	18222 ChEBI	xylose	+

Antibiotic resistance

@ref	Metabolite	Is sensitive	Is resistant
119912	0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
119912	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test	Indole test
119912	15688 ChEBI	acetoin	-
68368	15688 ChEBI	acetoin	+			from API 20E
119912	17234 ChEBI	glucose		-
68368	35581 ChEBI	indole			-	from API 20E

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	from API zym
119912	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
119912	amylase	-
68368	arginine dihydrolase	-	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
119912	beta-galactosidase	+	3.2.1.23
68368	beta-galactosidase	-	3.2.1.23	from API 20E
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
119912	caseinase	-	3.4.21.50
119912	catalase	+	1.11.1.6
68382	cystine arylamidase	+	3.4.11.3	from API zym
119912	DNase	-
68382	esterase lipase (C 8)	+		from API zym
119912	gamma-glutamyltransferase	+	2.3.2.2
119912	gelatinase	-
68368	gelatinase	-		from API 20E
119912	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
119912	lipase	-
119912	lysine decarboxylase	-	4.1.1.18
68368	lysine decarboxylase	-	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
119912	ornithine decarboxylase	-	4.1.1.17
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
119912	oxidase	-
119912	phenylalanine ammonia-lyase	-	4.3.1.24
119912	protease	-
68382	trypsin	-	3.4.21.4	from API zym
119912	tryptophan deaminase	-
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
119912	tween esterase	+
119912	urease	-	3.5.1.5
68368	urease	-	3.5.1.5	from API 20E

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	formaldehyde oxidation	100	3 of 3
66794	denitrification	100	2 of 2
66794	enterobactin biosynthesis	100	3 of 3
66794	coenzyme A metabolism	100	4 of 4
66794	vitamin K metabolism	100	5 of 5
66794	butanoate fermentation	100	4 of 4
66794	octane oxidation	100	3 of 3
66794	L-lactaldehyde degradation	100	3 of 3
66794	threonine metabolism	100	10 of 10
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	adipate degradation	100	2 of 2
66794	biotin biosynthesis	100	4 of 4
66794	cardiolipin biosynthesis	100	7 of 7
66794	ethylmalonyl-CoA pathway	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	ceramide biosynthesis	100	1 of 1
66794	methylglyoxal degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	ppGpp biosynthesis	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	valine metabolism	100	9 of 9
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	propionate fermentation	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	flavin biosynthesis	86.67	13 of 15
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	heme metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	photosynthesis	85.71	12 of 14
66794	phenylalanine metabolism	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	pentose phosphate pathway	81.82	9 of 11
66794	myo-inositol biosynthesis	80	8 of 10
66794	factor 420 biosynthesis	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	citric acid cycle	78.57	11 of 14
66794	molybdenum cofactor biosynthesis	77.78	7 of 9
66794	alanine metabolism	75.86	22 of 29
66794	purine metabolism	75.53	71 of 94
66794	sulfopterin metabolism	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	gluconeogenesis	75	6 of 8
66794	isoleucine metabolism	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	propanol degradation	71.43	5 of 7
66794	tetrahydrofolate metabolism	71.43	10 of 14
66794	pyrimidine metabolism	71.11	32 of 45
66794	glycolysis	70.59	12 of 17
66794	starch degradation	70	7 of 10
66794	4-hydroxyphenylacetate degradation	70	7 of 10
66794	leucine metabolism	69.23	9 of 13
66794	vitamin B1 metabolism	69.23	9 of 13
66794	urea cycle	69.23	9 of 13
66794	isoprenoid biosynthesis	69.23	18 of 26
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	lipid metabolism	64.52	20 of 31
66794	oxidative phosphorylation	63.74	58 of 91
66794	metabolism of disaccharids	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	methionine metabolism	61.54	16 of 26
66794	arachidonate biosynthesis	60	3 of 5
66794	glycogen metabolism	60	3 of 5
66794	Entner Doudoroff pathway	60	6 of 10
66794	gallate degradation	60	3 of 5
66794	phenol degradation	60	12 of 20
66794	arginine metabolism	58.33	14 of 24
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	degradation of sugar alcohols	56.25	9 of 16
66794	d-mannose degradation	55.56	5 of 9
66794	cysteine metabolism	55.56	10 of 18
66794	histidine metabolism	55.17	16 of 29
66794	non-pathway related	52.63	20 of 38
66794	toluene degradation	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	tyrosine metabolism	50	7 of 14
66794	sphingosine metabolism	50	3 of 6
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	ketogluconate metabolism	50	4 of 8
66794	ethanol fermentation	50	1 of 2
66794	glutathione metabolism	50	7 of 14
66794	phenylmercury acetate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	lysine metabolism	47.62	20 of 42
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	sulfate reduction	46.15	6 of 13
66794	proline metabolism	45.45	5 of 11
66794	vitamin B6 metabolism	45.45	5 of 11
66794	carotenoid biosynthesis	45.45	10 of 22
66794	4-hydroxymandelate degradation	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	lipoate biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	coenzyme M biosynthesis	40	4 of 10
66794	glycine metabolism	40	4 of 10
66794	3-phenylpropionate degradation	40	6 of 15
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	cholesterol biosynthesis	36.36	4 of 11
66794	ascorbate metabolism	36.36	8 of 22
66794	nitrate assimilation	33.33	3 of 9
66794	IAA biosynthesis	33.33	1 of 3
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	methane metabolism	33.33	1 of 3
66794	cyanate degradation	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	arachidonic acid metabolism	27.78	5 of 18
66794	degradation of hexoses	27.78	5 of 18
66794	d-xylose degradation	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	CMP-KDO biosynthesis	25	1 of 4
66794	degradation of pentoses	25	7 of 28
66794	lactate fermentation	25	1 of 4
66794	carnitine metabolism	25	2 of 8

API 20E

@ref	ONPG	ADH (Arg)	LDC (Lys)	ODC	CIT	H2S productionH2S	URE	TDA (Trp)	IND	Acetoin production (Voges Proskauer test)VP	GEL	GLU	MAN	INO	Sor	RHA	SAC	MEL	AMY	ARA	OX	Nitrite productionNO2	Reduction to N2N2	MotilityMOB	Growth on MacConkey mediumMAC	OF-O	OF-F
20004	-	-	-	-	+	-	-	-	-	+	-	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	not determinedn.d.	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
20004	not determinedn.d.	+	-	+	-	+	+	+	-	-	+	+	-	-	-	+	-	-	-	-
119912	-	+	+	+	+	+	-	+	-	-	+	+	-	-	-	+	-	-	-	-

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
119912	not determinedn.d.	+/-	-	-	-	-	-	-	-	-	-	+/-	+/-	+/-	-	-	-	+/-	-	-	-	-	-	-	-	-	+/-	-	-	+/-	-	+/-	-	-	-	-	-	+/-	-	-	-	-	-	-	-	-	-	-	-	-

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
119912	not determinedn.d.	-	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Bioremediation	#Biofilter
#Engineered	#Industrial	#Plant (Factory)

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Isolation date
11518	biofilter of an animal rendering plant	Lower saxony	Germany	DEU	Europe
54293	Biofilter of an animal rendering plant
67770	Wet-ground filter material (fiber bark compost) from a large scale biofilter
119912	Biofilter of an animal rendering plant		Germany	DEU	Europe	1989

Taxonmaps

69479

Global distribution of 16S sequence X93485 (>99% sequence identity) for Gordonia hirsuta subclade from Microbeatlas

Aquatic Samples	649
Soil Samples	81
Animal Samples	269
Plant Samples	7
Total Samples	1006

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
11518	1	Risk group (German classification) According to TRBA 466
20004	1	German classification According to TRBA 466
119912	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
67770	ASM42068v1 assembly for Gordonia hirsuta DSM 44140 = NBRC 16056	contig	GCA_000420685		2526164525	1121927	64.28
67770	ASM33301v1 assembly for Gordonia hirsuta DSM 44140 = NBRC 16056	contig	GCA_000333015	1121927.3	2563367079	1121927	62.66

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
20218	G.hirsuta 16S rRNA gene	X93485	1461		1121927

GC content

@ref	GC-content (mol%)	Method
11518	69	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Gordonia hirsuta DSM 44140 = NBRC 16056
NCBI: GCA_000420685

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	61.70	no
125439	motility	BacteriaNetⓘ	no	79.00	no
125439	gram_stain	BacteriaNetⓘ	positive	97.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Gordonia hirsuta DSM 44140 = NBRC 16056
PATRIC: 1121927.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	90.44	no
125438	anaerobic	anaerobicⓘ	no	98.09	yes
125438	spore-forming	spore-formingⓘ	no	63.32	no
125438	aerobic	aerobicⓘ	yes	84.54	no
125438	thermophilic	thermophileⓘ	no	96.49	yes
125438	flagellated	motile2+ⓘ	no	95.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	A plug-and-play system for polycyclic tetramate macrolactam production and functionalization.	Glockle A, Schuler S, Einsiedler M, Gulder TAM.	Microb Cell Fact	10.1186/s12934-024-02630-8	2025
	Stereospecific control of microbial growth by a combinatoric suite of chiral siderophores.	Stow PR, Forsch KO, Thomsen E, Naka H, Haygood MG, Barbeau KA, Butler A.	Proc Natl Acad Sci U S A	10.1073/pnas.2423730122	2025
Genetics	Computational host range prediction-The good, the bad, and the ugly.	Howell AA, Versoza CJ, Pfeifer SP.	Virus Evol	10.1093/ve/vead083	2024
Enzymology	Aerobic H₂ production related to formate metabolism in white-rot fungi.	Mori T, Takahashi S, Soga A, Arimoto M, Kishikawa R, Yama Y, Dohra H, Kawagishi H, Hirai H.	Front Fungal Biol	10.3389/ffunb.2023.1201889	2023
Phylogeny	Gordonia nitida Yoon et al. 2000 is a later synonym of Gordonia alkanivorans Kummer et al. 1999.	Arenskotter M, Linos A, Schumann P, Kroppenstedt RM, Steinbuchel A.	Int J Syst Evol Microbiol	10.1099/ijs.0.63400-0	2005
Enzymology	Gordonia araii infection associated with an orthopedic device and review of the literature on medical device-associated Gordonia infections.	Jannat-Khah DP, Halsey ES, Lasker BA, Steigerwalt AG, Hinrikson HP, Brown JM.	J Clin Microbiol	10.1128/jcm.01504-08	2009
	Genomic Insights into the Distribution and Phylogeny of Glycopeptide Resistance Determinants within the Actinobacteria Phylum.	Andreo-Vidal A, Binda E, Fedorenko V, Marinelli F, Yushchuk O.	Antibiotics (Basel)	10.3390/antibiotics10121533	2021
Metabolism	Estrogen Degraders and Estrogen Degradation Pathway Identified in an Activated Sludge.	Chen YL, Fu HY, Lee TH, Shih CJ, Huang L, Wang YS, Ismail W, Chiang YR.	Appl Environ Microbiol	10.1128/aem.00001-18	2018
Metabolism	Ralstonia solanacearum iron scavenging by the siderophore staphyloferrin B is controlled by PhcA, the global virulence regulator.	Bhatt G, Denny TP.	J Bacteriol	10.1128/jb.186.23.7896-7904.2004	2004
Enzymology	Quantitative use of fluorescent in situ hybridization to examine relationships between mycolic acid-containing actinomycetes and foaming in activated sludge plants.	Davenport RJ, Curtis TP, Goodfellow M, Stainsby FM, Bingley M.	Appl Environ Microbiol	10.1128/aem.66.3.1158-1166.2000	2000
Enzymology	Evaluation of methods for the extraction of DNA from drinking water distribution system biofilms.	Hwang C, Ling F, Andersen GL, LeChevallier MW, Liu WT.	Microbes Environ	10.1264/jsme2.me11132	2012
Phylogeny	Gordonia oryzae sp. nov., isolated from rice plant stems (Oryza sativa L.).	Muangham S, Lipun K, Thamchaipenet A, Matsumoto A, Duangmal K.	Int J Syst Evol Microbiol	10.1099/ijsem.0.003368	2019
Phylogeny	Gordonia phthalatica sp. nov., a di-n-butyl phthalate-degrading bacterium isolated from activated sludge.	Jin D, Kong X, Jia M, Yu X, Wang X, Zhuang X, Deng Y, Bai Z.	Int J Syst Evol Microbiol	10.1099/ijsem.0.002430	2017
Enzymology	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	2016
Phylogeny	Gordonia iterans sp. nov., isolated from a patient with pneumonia.	Kang YQ, Ming H, Gonoi T, Chen Y, Cao Y, Wang YY, Cheng J, Koga T, Mikami Y, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.063438-0	2014
Phylogeny	Gordonia alkaliphila sp. nov., an actinomycete isolated from tidal flat sediment.	Cha JH, Cha CJ	Int J Syst Evol Microbiol	10.1099/ijs.0.039289-0	2012
Phylogeny	Gordonia phosphorivorans sp. nov., isolated from a wastewater bioreactor with phosphorus removal.	Kampfer P, Martin K, Dott W	Int J Syst Evol Microbiol	10.1099/ijs.0.037093-0	2012
Phylogeny	Gordonia caeni sp. nov., isolated from sludge of a sewage disposal plant.	Srinivasan S, Park G, Yang H, Hwang S, Bae Y, Jung YA, Kim MK, Lee M	Int J Syst Evol Microbiol	10.1099/ijs.0.029736-0	2012

References

#11518	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 44140
#20004	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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#41474	; Curators of the CIP;
#54293	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 38498
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#68368	Automatically annotated from API 20E .
#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 .
#119912	Collection of Institut Pasteur ; Curators of the CIP; CIP 105097
#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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Gordonia hirsuta (CCUG 38498, DSM 44140, CIP 105097)

Name and taxonomic classification

Morphology

Cell morphology

Colony morphology

Multicellular morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Halophily

Observation

Metabolite utilization

Antibiotic resistance

Metabolite production

Metabolite tests

Enzymes

Pathway annotation

API 20E

API zym

API 50CHac

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000420685

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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