Name: Nocardioides ganghwensis JC2055
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11115

Type strain:

Species: Nocardioides ganghwensis

Strain Designation: JC2055

Culture col. no.: DSM 16411, IMSNU 14028, JCM 12124, KCTC 9920, CGMCC 4.6875, CIP 108507, IAM 15306

Strain history: CIP <- 2004, JCM <- 2003, J. Chun: strain JC2055

NCBI tax ID(s): 252230 (species)

SI-ID 132793

JCM 12124, KCTC 9920, DSM 16411, CIP 108507, IAM 15306

Section

Nocardioides ganghwensis JC2055 is an aerobe, mesophilic, Gram-positive bacterium that was isolated from sediment sample of the getbol of Ganghwa island.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Propionibacteriales*
	Family	*Nocardioidaceae*
	Genus	*Nocardioides*
	Species	**Nocardioides ganghwensis**
	Full Scientific Name (LPSN)	Nocardioides ganghwensis Yi and Chun 2004

Information on morphological and physiological properties Morphology

[Ref.: #30185]	Gram stain	positive
[Ref.: #67771]	Gram stain	positive
[Ref.: #119529]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30185]	Cell length	2.7 µm

[Ref.: #30185]	Cell width	0.45 µm

[Ref.: #30185]	Cell shape	rod-shaped
[Ref.: #119529]	Cell shape	rod-shaped

[Ref.: #30185]	Motility	no
[Ref.: #119529]	Motility	no
[Ref.: #69480]	Motility	no Confidence in %95.279

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6437]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #6437]

Culture medium growth

[Ref.: #6437]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6437]

Culture medium composition

expand / minimize

[Ref.: #34960]

Culture medium

Marine agar (MA)

[Ref.: #34960]

Culture medium growth

[Ref.: #34960]

Culture medium composition

expand / minimize

[Ref.: #119529]

Culture medium

CIP Medium 13

[Ref.: #119529]

Culture medium growth

[Ref.: #119529]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #6437]		growth	28 °C
[Ref.: #18611]		optimum	28 °C
[Ref.: #30185]		growth	30 °C
[Ref.: #30185]		optimum	10-40 °C
[Ref.: #34960]		growth	30 °C
[Ref.: #67770]		growth	28 °C
[Ref.: #67771]		growth	30 °C
[Ref.: #119529]		growth	10-41 °C
[Ref.: #119529]	no	growth	45 °C

[Ref.: #6437]	Temperature range	mesophilic
[Ref.: #18611]	Temperature range	mesophilic
[Ref.: #30185]	Temperature range	mesophilic
[Ref.: #34960]	Temperature range	mesophilic
[Ref.: #67770]	Temperature range	mesophilic
[Ref.: #67771]	Temperature range	mesophilic
[Ref.: #119529]	Temperature range	thermophilic

	pH	Kind of pH		pH
[Ref.: #30185]			optimum	7
[Ref.: #30185]			growth	6.0-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #30185]	Oxygen tolerance	aerobe
[Ref.: #67771]	Oxygen tolerance	aerobe
[Ref.: #119529]	Oxygen tolerance	obligate aerobe

[Ref.: #30185]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %98.804

	Salt	Tested relation		Salt conc.
[Ref.: #18611]	NaCl		maximum	10	%
[Ref.: #30185]	NaCl		growth	0.0-8.0	%
[Ref.: #30185]	NaCl		optimum	0.5	%
[Ref.: #119529]	NaCl	no	growth	0	%
[Ref.: #119529]	NaCl	no	growth	2	%
[Ref.: #119529]	NaCl	no	growth	4	%
[Ref.: #119529]	NaCl	no	growth	6	%
[Ref.: #119529]	NaCl	no	growth	8	%
[Ref.: #119529]	NaCl	no	growth	10	%

[Ref.: #67770]	Observation	quinones: MK-8(H₄)
[Ref.: #67771]	Observation	quinones: MK-8(H4)

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #18611]	arabinose ChEBI	+
[Ref.: #30185]	cellobiose ChEBI	+	carbon source
[Ref.: #18611]	cellulose ChEBI	+
[Ref.: #30185]	citrate ChEBI	+	carbon source
[Ref.: #119529]	citrate ChEBI	-	carbon source
[Ref.: #30185]	esculin ChEBI	+	hydrolysis
[Ref.: #119529]	esculin ChEBI	-	hydrolysis
[Ref.: #68379]	esculin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #18611]	fructose ChEBI	+
[Ref.: #30185]	fructose ChEBI	+	carbon source
[Ref.: #30185]	galactose ChEBI	+	carbon source
[Ref.: #68379]	gelatin ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #18611]	glucose ChEBI	+
[Ref.: #30185]	glucose ChEBI	+	carbon source
[Ref.: #30185]	glycerol ChEBI	+	carbon source
[Ref.: #119529]	hippurate ChEBI	+	hydrolysis
[Ref.: #30185]	lactose ChEBI	+	carbon source
[Ref.: #18611]	mannitol ChEBI	+/-
[Ref.: #30185]	mannitol ChEBI	+	carbon source
[Ref.: #30185]	mannose ChEBI	+	carbon source
[Ref.: #18611]	myo-inositol ChEBI	-
[Ref.: #30185]	nitrate ChEBI	+	reduction
[Ref.: #119529]	nitrate ChEBI	+	reduction
[Ref.: #119529]	nitrite ChEBI	-	reduction
[Ref.: #18611]	raffinose ChEBI	+
[Ref.: #30185]	raffinose ChEBI	+	carbon source
[Ref.: #18611]	rhamnose ChEBI	-
[Ref.: #30185]	salicin ChEBI	+	carbon source
[Ref.: #18611]	sucrose ChEBI	+
[Ref.: #68379]	sucrose ChEBI	+	fermentation	* from API Coryne
[Ref.: #30185]	tween 80 ChEBI	+	carbon source
[Ref.: #68379]	urea ChEBI	+	hydrolysis	* from API Coryne
[Ref.: #18611]	xylose ChEBI	-
[Ref.: #30185]	xylose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #119529]		indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #119529]		acetoin ChEBI	-
[Ref.: #119529]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #30185]	acid phosphatase	+	3.1.3.2
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #119529]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #30185]	alkaline phosphatase	+	3.1.3.1
[Ref.: #68379]	alkaline phosphatase	+	3.1.3.1	* from API Coryne, API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #30185]	alpha-galactosidase	+	3.2.1.22
[Ref.: #68382]	alpha-galactosidase	+	3.2.1.22	* from API zym
[Ref.: #68379]	alpha-glucosidase	+	3.2.1.20	* from API Coryne, API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #119529]	amylase	+
[Ref.: #119529]	beta-galactosidase	-	3.2.1.23
[Ref.: #68379]	beta-galactosidase	+	3.2.1.23	* from API Coryne, API zym
[Ref.: #68379]	beta-glucosidase	+	3.2.1.21	* from API Coryne, API zym
[Ref.: #68379]	beta-glucuronidase	-	3.2.1.31	* from API Coryne
[Ref.: #119529]	caseinase	+	3.4.21.50
[Ref.: #30185]	catalase	+	1.11.1.6
[Ref.: #119529]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	+	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	+		* from API zym
[Ref.: #119529]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #30185]	gelatinase	+
[Ref.: #119529]	gelatinase	+
[Ref.: #68379]	gelatinase	+		* from API Coryne
[Ref.: #119529]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #119529]	lipase	-
[Ref.: #119529]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68379]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API Coryne, API zym
[Ref.: #119529]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #119529]	oxidase	-
[Ref.: #119529]	phenylalanine ammonia-lyase	+	4.3.1.24
[Ref.: #119529]	protease	+
[Ref.: #68379]	pyrazinamidase	-	3.5.1.B15	* from API Coryne
[Ref.: #68379]	pyrrolidonyl arylamidase	-	3.4.19.3	* from API Coryne
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #119529]	tryptophan deaminase	-
[Ref.: #119529]	tween esterase	+
[Ref.: #119529]	urease	-	3.5.1.5
[Ref.: #68379]	urease	+	3.5.1.5	* from API Coryne
[Ref.: #68382]	valine arylamidase	+		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® Biotype100:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	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
[Ref.: #119529]	2779	not determinedn.d.	+	+	+	+	-	-	+	+	+	+	+	+	+	+	+	+	-	-	+	-	+	+	+	-	-	+	-	-	-	-	-	+	-	+	-	+	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	-	+	+	-	-	-	-	-	-	-	-	-	-	-	+	-	-	+	-	-	-	-	-	-	-	-	-	-	-	-	+	-	-	-	-	-	-	+	-	-	+

API® Coryne:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Reduction of nitrateNIT	PyrazinamidasePYZ	Pyrrolidonyl arylamidasePYRA	Alkaline phosphatasePAL	beta-Glucuronidasebeta GUR	beta-Galactosidasebeta GAL	alpha-Glucosidasealpha GLU	N-Acetyl-beta-Glucosidasebeta NAG	Esculin hydrolysis/beta-GlucosidaseESC	Urease/urea hydrolysisURE	Gelatinase/gelatin hydrolysisGEL	Control fermentationControl	Fermentation of D-glucoseGLU	Fermentation of D-riboseRIB	Fermentation of D-xyloseXYL	Fermentation of D-mannitolMAN	Fermentation of maltoseMAL	Fermentation of lactoseLAC	Fermentation of sucroseSAC	Fermentation of glycogenGLYG	CatalaseCAT
[Ref.: #18611]	164	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:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #18611]	250	not determinedn.d.	+	+	+	+	+	+	+	-	+	+	+	+	+	+	+	+	-	-	-
[Ref.: #119529]	11239	-	+	+	+	-	+	+	+	-	-	+	-	+	+	-	+	+	-	-	-

	Pathway	Enzyme coverage	Annotated reactions
	Pathway annotation	Computationally determined by
[Ref.: #66794]	phenylacetate degradation (aerobic)	100	5 of 5
[Ref.: #66794]	palmitate biosynthesis	100	22 of 22
[Ref.: #66794]	phenylmercury acetate degradation	100	2 of 2
[Ref.: #66794]	UDP-GlcNAc biosynthesis	100	3 of 3
[Ref.: #66794]	starch degradation	100	10 of 10
[Ref.: #66794]	formaldehyde oxidation	100	3 of 3
[Ref.: #66794]	CDP-diacylglycerol biosynthesis	100	2 of 2
[Ref.: #66794]	denitrification	100	2 of 2
[Ref.: #66794]	teichoic acid biosynthesis	100	1 of 1
[Ref.: #66794]	coenzyme A metabolism	100	4 of 4
[Ref.: #66794]	octane oxidation	100	3 of 3
[Ref.: #66794]	glycogen metabolism	100	5 of 5
[Ref.: #66794]	suberin monomers biosynthesis	100	2 of 2
[Ref.: #66794]	ceramide biosynthesis	100	1 of 1
[Ref.: #66794]	Entner Doudoroff pathway	100	10 of 10
[Ref.: #66794]	methylglyoxal degradation	100	5 of 5
[Ref.: #66794]	folate polyglutamylation	100	1 of 1
[Ref.: #66794]	anapleurotic synthesis of oxalacetate	100	1 of 1
[Ref.: #66794]	cis-vaccenate biosynthesis	100	2 of 2
[Ref.: #66794]	adipate degradation	100	2 of 2
[Ref.: #66794]	ppGpp biosynthesis	100	4 of 4
[Ref.: #66794]	aerobactin biosynthesis	100	1 of 1
[Ref.: #66794]	heme metabolism	92.86	13 of 14
[Ref.: #66794]	urea cycle	92.31	12 of 13
[Ref.: #66794]	phenylalanine metabolism	92.31	12 of 13
[Ref.: #66794]	chorismate metabolism	88.89	8 of 9
[Ref.: #66794]	molybdenum cofactor biosynthesis	88.89	8 of 9
[Ref.: #66794]	allantoin degradation	88.89	8 of 9
[Ref.: #66794]	serine metabolism	88.89	8 of 9
[Ref.: #66794]	CO2 fixation in Crenarchaeota	88.89	8 of 9
[Ref.: #66794]	aspartate and asparagine metabolism	88.89	8 of 9
[Ref.: #66794]	valine metabolism	88.89	8 of 9
[Ref.: #66794]	vitamin B12 metabolism	88.24	30 of 34
[Ref.: #66794]	isoleucine metabolism	87.5	7 of 8
[Ref.: #66794]	reductive acetyl coenzyme A pathway	85.71	6 of 7
[Ref.: #66794]	glutathione metabolism	85.71	12 of 14
[Ref.: #66794]	leucine metabolism	84.62	11 of 13
[Ref.: #66794]	pyrimidine metabolism	82.22	37 of 45
[Ref.: #66794]	glutamate and glutamine metabolism	82.14	23 of 28
[Ref.: #66794]	purine metabolism	80.85	76 of 94
[Ref.: #66794]	glycine betaine biosynthesis	80	4 of 5
[Ref.: #66794]	peptidoglycan biosynthesis	80	12 of 15
[Ref.: #66794]	threonine metabolism	80	8 of 10
[Ref.: #66794]	ethylmalonyl-CoA pathway	80	4 of 5
[Ref.: #66794]	factor 420 biosynthesis	80	4 of 5
[Ref.: #66794]	propionate fermentation	80	8 of 10
[Ref.: #66794]	flavin biosynthesis	80	12 of 15
[Ref.: #66794]	alanine metabolism	79.31	23 of 29
[Ref.: #66794]	photosynthesis	78.57	11 of 14
[Ref.: #66794]	glycolysis	76.47	13 of 17
[Ref.: #66794]	glycogen biosynthesis	75	3 of 4
[Ref.: #66794]	gluconeogenesis	75	6 of 8
[Ref.: #66794]	sulfopterin metabolism	75	3 of 4
[Ref.: #66794]	acetate fermentation	75	3 of 4
[Ref.: #66794]	ketogluconate metabolism	75	6 of 8
[Ref.: #66794]	C4 and CAM-carbon fixation	75	6 of 8
[Ref.: #66794]	metabolism of disaccharids	72.73	8 of 11
[Ref.: #66794]	pentose phosphate pathway	72.73	8 of 11
[Ref.: #66794]	NAD metabolism	72.22	13 of 18
[Ref.: #66794]	citric acid cycle	71.43	10 of 14
[Ref.: #66794]	tyrosine metabolism	71.43	10 of 14
[Ref.: #66794]	propanol degradation	71.43	5 of 7
[Ref.: #66794]	non-pathway related	71.05	27 of 38
[Ref.: #66794]	tryptophan metabolism	71.05	27 of 38
[Ref.: #66794]	vitamin B1 metabolism	69.23	9 of 13
[Ref.: #66794]	histidine metabolism	68.97	20 of 29
[Ref.: #66794]	degradation of sugar alcohols	68.75	11 of 16
[Ref.: #66794]	lipid metabolism	67.74	21 of 31
[Ref.: #66794]	oxidative phosphorylation	67.03	61 of 91
[Ref.: #66794]	glycolate and glyoxylate degradation	66.67	4 of 6
[Ref.: #66794]	cyanate degradation	66.67	2 of 3
[Ref.: #66794]	acetyl CoA biosynthesis	66.67	2 of 3
[Ref.: #66794]	arginine metabolism	66.67	16 of 24
[Ref.: #66794]	d-mannose degradation	66.67	6 of 9
[Ref.: #66794]	acetoin degradation	66.67	2 of 3
[Ref.: #66794]	L-lactaldehyde degradation	66.67	2 of 3
[Ref.: #66794]	lysine metabolism	64.29	27 of 42
[Ref.: #66794]	tetrahydrofolate metabolism	64.29	9 of 14
[Ref.: #66794]	proline metabolism	63.64	7 of 11
[Ref.: #66794]	d-xylose degradation	63.64	7 of 11
[Ref.: #66794]	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
[Ref.: #66794]	dTDPLrhamnose biosynthesis	62.5	5 of 8
[Ref.: #66794]	methionine metabolism	61.54	16 of 26
[Ref.: #66794]	cysteine metabolism	61.11	11 of 18
[Ref.: #66794]	degradation of pentoses	60.71	17 of 28
[Ref.: #66794]	3-chlorocatechol degradation	60	3 of 5
[Ref.: #66794]	lipoate biosynthesis	60	3 of 5
[Ref.: #66794]	vitamin K metabolism	60	3 of 5
[Ref.: #66794]	ubiquinone biosynthesis	57.14	4 of 7
[Ref.: #66794]	polyamine pathway	56.52	13 of 23
[Ref.: #66794]	cholesterol biosynthesis	54.55	6 of 11
[Ref.: #66794]	carnitine metabolism	50	4 of 8
[Ref.: #66794]	phenol degradation	50	10 of 20
[Ref.: #66794]	aminopropanol phosphate biosynthesis	50	1 of 2
[Ref.: #66794]	isoprenoid biosynthesis	50	13 of 26
[Ref.: #66794]	4-hydroxyphenylacetate degradation	50	5 of 10
[Ref.: #66794]	glycine metabolism	50	5 of 10
[Ref.: #66794]	kanosamine biosynthesis II	50	1 of 2
[Ref.: #66794]	mannosylglycerate biosynthesis	50	1 of 2
[Ref.: #66794]	ethanol fermentation	50	1 of 2
[Ref.: #66794]	pantothenate biosynthesis	50	3 of 6
[Ref.: #66794]	androgen and estrogen metabolism	50	8 of 16
[Ref.: #66794]	CMP-KDO biosynthesis	50	2 of 4
[Ref.: #66794]	cyclohexanol degradation	50	2 of 4
[Ref.: #66794]	butanoate fermentation	50	2 of 4
[Ref.: #66794]	bile acid biosynthesis, neutral pathway	47.06	8 of 17
[Ref.: #66794]	sulfate reduction	46.15	6 of 13
[Ref.: #66794]	carotenoid biosynthesis	45.45	10 of 22
[Ref.: #66794]	vitamin B6 metabolism	45.45	5 of 11
[Ref.: #66794]	lipid A biosynthesis	44.44	4 of 9
[Ref.: #66794]	nitrate assimilation	44.44	4 of 9
[Ref.: #66794]	benzoyl-CoA degradation	42.86	3 of 7
[Ref.: #66794]	cardiolipin biosynthesis	42.86	3 of 7
[Ref.: #66794]	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
[Ref.: #66794]	ascorbate metabolism	40.91	9 of 22
[Ref.: #66794]	coenzyme M biosynthesis	40	4 of 10
[Ref.: #66794]	D-cycloserine biosynthesis	40	2 of 5
[Ref.: #66794]	arachidonate biosynthesis	40	2 of 5
[Ref.: #66794]	metabolism of amino sugars and derivatives	40	2 of 5
[Ref.: #66794]	cellulose degradation	40	2 of 5
[Ref.: #66794]	myo-inositol biosynthesis	40	4 of 10
[Ref.: #66794]	arachidonic acid metabolism	38.89	7 of 18
[Ref.: #66794]	phosphatidylethanolamine bioynthesis	38.46	5 of 13
[Ref.: #66794]	chlorophyll metabolism	33.33	6 of 18
[Ref.: #66794]	selenocysteine biosynthesis	33.33	2 of 6
[Ref.: #66794]	4-hydroxymandelate degradation	33.33	3 of 9
[Ref.: #66794]	methane metabolism	33.33	1 of 3
[Ref.: #66794]	enterobactin biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of hexoses	33.33	6 of 18
[Ref.: #66794]	sulfoquinovose degradation	33.33	1 of 3
[Ref.: #66794]	IAA biosynthesis	33.33	1 of 3
[Ref.: #66794]	sphingosine metabolism	33.33	2 of 6
[Ref.: #66794]	3-phenylpropionate degradation	33.33	5 of 15
[Ref.: #66794]	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
[Ref.: #66794]	degradation of sugar acids	32	8 of 25
[Ref.: #66794]	aclacinomycin biosynthesis	28.57	2 of 7
[Ref.: #66794]	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
[Ref.: #66794]	catecholamine biosynthesis	25	1 of 4
[Ref.: #66794]	vitamin E metabolism	25	1 of 4
[Ref.: #66794]	lactate fermentation	25	1 of 4
[Ref.: #66794]	methanogenesis from CO2	25	3 of 12
[Ref.: #66794]	alginate biosynthesis	25	1 of 4
[Ref.: #66794]	biotin biosynthesis	25	1 of 4
[Ref.: #66794]	toluene degradation	25	1 of 4
[Ref.: #66794]	phenylpropanoid biosynthesis	23.08	3 of 13
		Only first 10 entries are displayed. Click here to see all.

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #6437]	Sample type/isolated from	sediment sample of the getbol of Ganghwa island
[Ref.: #6437]	Geographic location (country and/or sea, region)	Ganghwa island
[Ref.: #6437]	Country	Republic of Korea
[Ref.: #6437]	Country ISO 3 Code	KOR
[Ref.: #6437]	Continent	Asia

[Ref.: #67770]	Sample type/isolated from	Tidal flat sediment
[Ref.: #67770]	Geographic location (country and/or sea, region)	Ganghwa Island
[Ref.: #67770]	Country	Republic of Korea
[Ref.: #67770]	Country ISO 3 Code	KOR
[Ref.: #67770]	Continent	Asia

[Ref.: #67771]	Sample type/isolated from	Tidal flat sediment
[Ref.: #67771]	Geographic location (country and/or sea, region)	Ganghwa Island
[Ref.: #67771]	Country	Republic of Korea
[Ref.: #67771]	Country ISO 3 Code	KOR
[Ref.: #67771]	Continent	Asia

[Ref.: #119529]	Sample type/isolated from	Environment, Tidal flat sediment
[Ref.: #119529]	Geographic location (country and/or sea, region)	Ganghwa island
[Ref.: #119529]	Country	Republic of Korea
[Ref.: #119529]	Country ISO 3 Code	KOR
[Ref.: #119529]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Sediment
#Environmental	#Terrestrial	#Tidal flat

What are isolation sources categories?

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #18611]	Biosafety level	1	Hazard group
[Ref.: #6437]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #119529]	Biosafety level	1	Risk group (French classification)

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #6437]	Nocardioides ganghwensis strain JC2055 16S ribosomal RNA gene, partial sequence	AY423718	1438	ENA	252230 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Nocardioides ganghwensis CGMCC 4.6875	GCA_004137235	contig	GenBank	252230 tax ID
[Ref.: #66792]	Nocardioides ganghwensis strain CGMCC 4.6875	252230.3	wgs	PATRIC	252230 tax ID	*
[Ref.: #66792]	Nocardioides ganghwensis CGMCC 4.6875	2867498717	draft	JGI IMG/M	252230 tax ID	*

[Ref.: #6437]	GC-content	72 mol%
[Ref.: #67770]	GC-content	72 mol%	high performance liquid chromatography (HPLC)
[Ref.: #67771]	GC-content	72.0 mol%	high performance liquid chromatography (HPLC)

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Nocardioides ganghwensis strain CGMCC 4.6875 PATRIC: 252230.3
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Nocardioides ganghwensis strain CGMCC 4.6875 PATRIC: 252230.3
[Ref.: #69480]	motile	no	96.152	yes
[Ref.: #69480]	gram-positive	yes	91.922	yes
[Ref.: #69480]	anaerobic	no	98.738	yes
[Ref.: #69480]	aerobic	yes	94.098	yes
[Ref.: #69480]	halophile	no	91.775	yes
[Ref.: #69480]	spore-forming	no	84.019	yes
[Ref.: #69480]	glucose-util	yes	89.121	no
[Ref.: #69480]	flagellated	no	97.916	yes
[Ref.: #69480]	thermophile	no	98.349	yes
[Ref.: #69480]	glucose-ferment	no	88.073	no

Availability in culture collections External links

[Ref.: #6437]

Culture collection no.

DSM 16411, IMSNU 14028, JCM 12124, KCTC 9920, CGMCC 4.6875, CIP 108507, IAM 15306

[Ref.: #80364]

SI-ID 132793

Literature:

Only first 10 entries are displayed. Click here to see all.

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nocardioides baculatus sp. nov., a novel actinomycete isolated from the rhizosphere of Tagetes patula.	Chhetri G, Kim I, Kang M, Kim J, So Y, Seo T	Int J Syst Evol Microbiol	10.1099/ijsem.0.005012	2021	*
Phylogeny	Nocardioides zhouii sp. nov., isolated from the Hailuogou Glacier in China.	Zhang GQ, Liu Q, Liu HC, Zhou YG, Xin YH	Int J Syst Evol Microbiol	10.1099/ijsem.0.003471	2019	*
Phylogeny	Nocardioides cavernae sp. nov., an actinobacterium isolated from a karst cave.	Han MX, Fang BZ, Tian Y, Zhang WQ, Jiao JY, Liu L, Zhang ZT, Xiao M, Wei DQ, Li WJ	Int J Syst Evol Microbiol	10.1099/ijsem.0.001676	2017	*
Phylogeny	Nocardioides flavus sp. nov., isolated from marine sediment.	Wang S, Zhou Y, Zhang G	Int J Syst Evol Microbiol	10.1099/ijsem.0.001507	2016	*
Phylogeny	Nocardioides glacieisoli sp. nov., isolated from a glacier.	Liu Q, Liu HC, Zhang JL, Zhou YG, Xin YH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000658	2015	*
Phylogeny	Nocardioides hwasunensis sp. nov.	Lee SD, Lee DW, Kim JS	Int J Syst Evol Microbiol	10.1099/ijs.0.65015-0	2008	*
Phylogeny	Nocardioides furvisabuli sp. nov., isolated from black sand.	Lee SD	Int J Syst Evol Microbiol	10.1099/ijs.0.64444-0	2007	*
Phylogeny	Nocardioides oleivorans sp. nov., a novel crude-oil-degrading bacterium.	Schippers A, Schumann P, Sproer C	Int J Syst Evol Microbiol	10.1099/ijs.0.63500-0	2005	*
Phylogeny	Nocardioides ganghwensis sp. nov., isolated from tidal flat sediment.	Yi H, Chun J	Int J Syst Evol Microbiol	10.1099/ijs.0.03040-0	2004	*

References

#6437

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16411

#18611

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 )

#30185

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 #26533 (see below)

#34960 ; 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) .

#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;
#67771 Korean Collection for Type Cultures (KCTC) ; Curators of the KCTC;

#68379

Automatically annotated from API Coryne .

#68382

Automatically annotated from API zym .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#80364

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID132793.1 )

#119529 Collection of Institut Pasteur ; Curators of the CIP; CIP 108507

#26533

IJSEM 1295 2004 ( DOI 10.1099/ijs.0.03040-0 , PubMed 15280305 )

* These data were automatically processed and therefore are not curated

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Nocardioides ganghwensis strain CGMCC 4.6875

Nocardioides ganghwensis strain CGMCC 4.6875

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