Dermacoccus nishinomiyaensis (DSM 20448, ATCC 29093, CCM 2140)

Name: Dermacoccus nishinomiyaensis (DSM 20448, ATCC 29093, CCM 2140)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 3922

Type strain

Strain Designation 59, 8094

Culture col. no. DSM 20448 ATCC 29093 CCM 2140 CCUG 33028 59 14 more

NCBI tax ID(s) 1274

Special Collections DSMZ CCUG JCM CIP Wink compendium

History <- K.H. Schleifer <- CCM <- OUT 8094 <- M. Oda, 59 CCM 2140 <-- OUT 8094 <-- M. Oda 59. CIP <- 1981, CCM <- Osaka University, Japan: strain 8094 <- M. Oda: strain 59

Links

Dermacoccus nishinomiyaensis 59 is a facultative anaerobe, Gram-positive, coccus-shaped bacterium that was isolated from water.

Gram-positive coccus-shaped facultative anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 9313

LMG 14222,ATCC 29093,CCM 2140,IAM 13592,IFO 15356,NCFB 2358,NCTC 11039,CCUG 33028,NCDO 2358,NCIMB 702358,VKM B-1818,CECT 544,IMET 11365,JCM 11613,NBRC 15356,VKM Ac-2160,DSM 20448,CIP 81.71

@ref 20215

Last LPSN update 2026-02-09 11:18:36

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micrococcales

Family Dermacoccaceae

Genus Dermacoccus

Species Dermacoccus nishinomiyaensis

Full scientific name Dermacoccus nishinomiyaensis (Oda 1935) Stackebrandt et al. 1995

Synonyms (1)

Micrococcus nishinomiyaensis

BacDive ID	Other strains from **Dermacoccus nishinomiyaensis** (10)	Type strain
103245	D. nishinomiyaensis STI09589(IMET), IMET 09688, INA 4035
136592	D. nishinomiyaensis CIP 82.60, CCM 2669, RM 3
147191	D. nishinomiyaensis CCUG 33029, CCM 2673
153991	D. nishinomiyaensis CCUG 51868
157779	D. nishinomiyaensis C3a-C1, DSM 105516
157780	D. nishinomiyaensis C3b-C3, DSM 105517
157781	D. nishinomiyaensis C3b-C12, DSM 105518
157782	D. nishinomiyaensis C3b-C13, DSM 105519
157783	D. nishinomiyaensis K25-1, DSM 109490
159005	D. nishinomiyaensis Fh040319_C13, DSM 109537

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
121306	positive	coccus-shaped
125438			90.5
125438	positive		94.675
125439	positive		99.7

Colony morphology

@ref	Colony color	Incubation period	Medium used
18747	Chrome yellow	10-14 days	5006
18747	Chrome yellow	10-14 days	5425
18747	Chrome yellow	10-14 days	5428
18747	Chrome yellow	10-14 days	ISP 2
18747	Chrome yellow	10-14 days	ISP 6

Multicellular morphology

@ref	Forms multicellular complex	Medium name
18747		ISP 2
18747		5006
18747		5425
18747		5428
18747		ISP 6

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
8820	CORYNEBACTERIUM AGAR (DSMZ Medium 53)	Medium recipe at MediaDive	Name: CORYNEBACTERIUM AGAR (DSMZ Medium 53) Composition: Agar 15.0 g/l Casein peptone 10.0 g/l NaCl 5.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Distilled water
18747	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
18747	5006		Medium: 5006 Name: Composition (g/l) Sucrose 3,0 Dextrin 15,0 Meat extract 1,0 Yeast extract 2,0 Tryptone soy broth (Oxoid) 5,0 NaCl 0,5 K2HPO4 0,5 MgSO4 x 7 H2O 0,5 FeSO4 x 7 H2O 0,01 Agar 20,0 Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7,3 Usage: Maintenance Organisms: All Actinomycetes
18747	5425		Name: Brain Heart Infusion (BHI) Agar; 5425 Composition: Calf brain infusion 200.0 g/l Beef heart infusion 250.0 g/l Casein (meat) peptone 10.0 g/l Glucose 2.0 g/l NaCl 5.0 g/l Na2HPO4 2.5 g/l Agar 15.0 g/l Preparation: Sterilisation: 20 minutes at 121°C pH before sterilisation: 7.4 Usage: Maintenance and revitalization Organisms: Dermatophilus congolensis, Nocardia brasieliensis, N. asteroides, Rhodococcus equi, R. fascians, R. rhodochrous, Streptomyces thermoviol aceus subsp. apingens, Coryneform species
18747	5428
18747	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
38082	MEDIUM 3 - Columbia agar		Columbia agar (39.000 g);distilled water (1000.000 ml)
121306	CIP Medium 72	Medium recipe at CIP
121306	CIP Medium 3	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
8820	positive	growth	30
18747	positive	optimum	28
38082	positive	growth	30
67770	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
121306	facultative anaerobe
125439	obligate aerobe	97.7

Murein

@ref	Murein short key	Type
8820	A11.39	A4alpha L-Lys-L-Ser₂-D-Glu

Observation

67770

Observationquinones: MK-8(H₂)

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
68368	29016 ChEBI	arginine	+	hydrolysis	from API 20E
68368	16947 ChEBI	citrate	+	assimilation	from API 20E
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
68379	5291 ChEBI	gelatin	-	hydrolysis	from API Coryne
68368	5291 ChEBI	gelatin	-	hydrolysis	from API 20E
68379	28087 ChEBI	glycogen	-	fermentation	from API Coryne
68379	17716 ChEBI	lactose	-	fermentation	from API Coryne
68368	25094 ChEBI	lysine	+	degradation	from API 20E
68379	17306 ChEBI	maltose	-	fermentation	from API Coryne
68379	17632 ChEBI	nitrate	-	reduction	from API Coryne
121306	17632 ChEBI	nitrate	-	reduction
121306	16301 ChEBI	nitrite	-	reduction
68368	18257 ChEBI	ornithine	-	degradation	from API 20E
68379	17992 ChEBI	sucrose	-	fermentation	from API Coryne
68368	27897 ChEBI	tryptophan	-	energy source	from API 20E
68379	16199 ChEBI	urea	+	hydrolysis	from API Coryne
68368	16199 ChEBI	urea	+	hydrolysis	from API 20E

Metabolite production

@ref	Chebi-ID	Metabolite
68368	15688 ChEBI	acetoin	from API 20E
68368	16136 ChEBI	hydrogen sulfide	from API 20E
121306	35581 ChEBI	indole
68368	35581 ChEBI	indole	from API 20E

Metabolite tests

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

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	+	3.1.3.2	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
68368	arginine dihydrolase	+	3.5.3.6	from API 20E
68382	beta-galactosidase	-	3.2.1.23	from API zym
68379	beta-galactosidase	-	3.2.1.23	from API Coryne
68368	beta-galactosidase	+	3.2.1.23	from API 20E
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
121306	catalase	+	1.11.1.6
68382	esterase lipase (C 8)	+		from API zym
68379	gelatinase	-		from API Coryne
68368	gelatinase	-		from API 20E
68382	leucine arylamidase	+	3.4.11.1	from API zym
68382	lipase (C 14)	-		from API zym
68368	lysine decarboxylase	+	4.1.1.18	from API 20E
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68379	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API Coryne
68382	naphthol-AS-BI-phosphohydrolase	-		from API zym
68368	ornithine decarboxylase	-	4.1.1.17	from API 20E
121306	oxidase	+
68379	pyrazinamidase	-	3.5.1.B15	from API Coryne
68379	pyrrolidonyl arylamidase	-	3.4.19.3	from API Coryne
68368	tryptophan deaminase	-	4.1.99.1	from API 20E
121306	urease	-	3.5.1.5
68379	urease	+	3.5.1.5	from API Coryne
68368	urease	+	3.5.1.5	from API 20E

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	biotin biosynthesis	100	4 of 4
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	ppGpp biosynthesis	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	acetate fermentation	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	adipate degradation	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	taurine degradation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	butanoate fermentation	100	4 of 4
66794	phenylalanine metabolism	92.31	12 of 13
66794	threonine metabolism	90	9 of 10
66794	starch degradation	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	serine metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	photosynthesis	85.71	12 of 14
66794	glutamate and glutamine metabolism	85.71	24 of 28
66794	proline metabolism	81.82	9 of 11
66794	pentose phosphate pathway	81.82	9 of 11
66794	peptidoglycan biosynthesis	80	12 of 15
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	phenylacetate degradation (aerobic)	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	vitamin B12 metabolism	79.41	27 of 34
66794	citric acid cycle	78.57	11 of 14
66794	heme metabolism	78.57	11 of 14
66794	chorismate metabolism	77.78	7 of 9
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	vitamin B1 metabolism	76.92	10 of 13
66794	leucine metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	alanine metabolism	75.86	22 of 29
66794	ketogluconate metabolism	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	C4 and CAM-carbon fixation	75	6 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	sulfopterin metabolism	75	3 of 4
66794	gluconeogenesis	75	6 of 8
66794	pyrimidine metabolism	73.33	33 of 45
66794	histidine metabolism	72.41	21 of 29
66794	propanol degradation	71.43	5 of 7
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	glycolysis	70.59	12 of 17
66794	propionate fermentation	70	7 of 10
66794	cyanate degradation	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	IAA biosynthesis	66.67	2 of 3
66794	flavin biosynthesis	66.67	10 of 15
66794	octane oxidation	66.67	2 of 3
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	enterobactin biosynthesis	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	acetoin degradation	66.67	2 of 3
66794	molybdenum cofactor biosynthesis	66.67	6 of 9
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	methionine metabolism	65.38	17 of 26
66794	oxidative phosphorylation	64.84	59 of 91
66794	metabolism of disaccharids	63.64	7 of 11
66794	degradation of sugar alcohols	62.5	10 of 16
66794	arginine metabolism	62.5	15 of 24
66794	urea cycle	61.54	8 of 13
66794	lipid metabolism	61.29	19 of 31
66794	NAD metabolism	61.11	11 of 18
66794	cysteine metabolism	61.11	11 of 18
66794	non-pathway related	60.53	23 of 38
66794	Entner Doudoroff pathway	60	6 of 10
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	gallate degradation	60	3 of 5
66794	tryptophan metabolism	57.89	22 of 38
66794	reductive acetyl coenzyme A pathway	57.14	4 of 7
66794	ubiquinone biosynthesis	57.14	4 of 7
66794	d-mannose degradation	55.56	5 of 9
66794	lysine metabolism	54.76	23 of 42
66794	isoprenoid biosynthesis	53.85	14 of 26
66794	ethanol fermentation	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	pantothenate biosynthesis	50	3 of 6
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	glutathione metabolism	50	7 of 14
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	phenylmercury acetate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	glycolate and glyoxylate degradation	50	3 of 6
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	sulfate reduction	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	d-xylose degradation	45.45	5 of 11
66794	nitrate assimilation	44.44	4 of 9
66794	lipid A biosynthesis	44.44	4 of 9
66794	tetrahydrofolate metabolism	42.86	6 of 14
66794	tyrosine metabolism	42.86	6 of 14
66794	carotenoid biosynthesis	40.91	9 of 22
66794	ascorbate metabolism	40.91	9 of 22
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	glycine metabolism	40	4 of 10
66794	arachidonate biosynthesis	40	2 of 5
66794	lipoate biosynthesis	40	2 of 5
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	degradation of pentoses	35.71	10 of 28
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	degradation of hexoses	33.33	6 of 18
66794	sphingosine metabolism	33.33	2 of 6
66794	4-hydroxymandelate degradation	33.33	3 of 9
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	phenol degradation	30	6 of 20
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	3-phenylpropionate degradation	26.67	4 of 15
66794	catecholamine biosynthesis	25	1 of 4
66794	lactate fermentation	25	1 of 4
66794	carnitine metabolism	25	2 of 8
66794	toluene degradation	25	1 of 4
66794	allantoin degradation	22.22	2 of 9
66794	polyamine pathway	21.74	5 of 23

Fatty acid profile

Metadata FA analysis

@ref

51331

Fatty acid	Percentage	ECL
C17:1 ω8c	22.2	16.792
C17:0 iso	16.4	16.629
C16:0 10-methyl	15	16.433
C16:1 ω7c	13.6	15.819
C15:0 ISO	10.6	14.621
C16:0 iso	9.3	15.626
C18:1 ω9c	5.9	17.769
C17:0 anteiso	4	16.722
C17:0 10-methyl	3	17.41

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
18747	+	+	+	-	+	-	+	-	-	-	-	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 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
18747	-	-	-	-	-	-	+	-	-	+	-	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
18747	not determinedn.d.	-	-	+	-	+	-	-	-	-	+	-	-	-	-	+	-	-	-	-
121306	-	+	+	+	-	+	+	+	+	-	+	-	-	-	-	+	-	-	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2
#Environmental	#Aquatic

Isolation

@ref	Sample type	Country	Country ISO 3 Code	Continent
8820	water
67770	Water ("miyamizu")	Japan	JPN	Asia
121306	Environment, Water

Taxonmaps

69479

Global distribution of 16S sequence X87757 (>99% sequence identity) for Dermacoccus from Microbeatlas

Aquatic Samples	2728
Soil Samples	2219
Animal Samples	18144
Plant Samples	1181
Total Samples	24272

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
18747	1	Risk group (German classification) According to TRBA 466
8820	1	Risk group (German classification) According to TRBA 466
121306	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	ASM1676683v1 assembly for Dermacoccus nishinomiyaensis FDAARGOS_1119	chromosome	GCA_016766835	1274.37	8074332445	1274	87.4
67770	50279_C01 assembly for Dermacoccus nishinomiyaensis NCTC11039	contig	GCA_900447535	1274.14	2832479645	1274	78.93

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
8820	M.nishinomyaensis 16S rRNA gene	X87757	1464	1274
124043	Dermacoccus nishinomiyaensis strain CCM 2140 16S ribosomal RNA gene, partial sequence.	MT757993	1346	1274
124043	Dermacoccus nishinomiyaensis strain CCM 2140 16S ribosomal RNA gene, partial sequence.	MT760052	1346	1274

GC content

@ref	GC-content (mol%)	Method
8820	67.8
67770	67.8	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Dermacoccus nishinomiyaensis NCTC11039
NCBI: GCA_900447535

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.70	no
125439	gram_stain	BacteriaNetⓘ	positive	99.70	no
125439	motility	BacteriaNetⓘ	no	83.00	no
125439	spore_formation	BacteriaNetⓘ	no	68.40	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Dermacoccus nishinomiyaensis strain FDAARGOS_1119 strain Not applicable
PATRIC: 1274.37

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	94.68	no
125438	anaerobic	anaerobicⓘ	no	95.90	yes
125438	spore-forming	spore-formingⓘ	no	74.95	no
125438	aerobic	aerobicⓘ	yes	74.39	yes
125438	thermophilic	thermophileⓘ	no	95.58	yes
125438	flagellated	motile2+ⓘ	no	90.50	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	The ant Lasius niger is a new source of bacterial enzymes with biotechnological potential for bleaching dye.	Diez-Mendez A, Garcia-Fraile P, Solano F, Rivas R.	Sci Rep	10.1038/s41598-019-51669-w	2019
	Millennial-scale depth-resolved ancient microbial diversity and pathogenic potential in Styx Glacier, Antarctica.	Kim M, Lee H, Lee S, Han Y, Kim OS.	Environ Res	10.1016/j.envres.2025.122421	2025
Phylogeny	Isolation, Identification, and Characterization of Novel Environmental Bacteria with Polyurethane-Degrading Activity.	Munoz-Marti M, Banon VN, Garcia-Poyo MC, Forte CC, Garrido J, Orts JM, Huguet A, Garcia-Hernandez J, Castillo MA.	Biology (Basel)	10.3390/biology14091307	2025
	Dermacoccus nishinomiyaensis brain abscesses as the first manifestation of chronic granulomatous disease.	Triguy J, Tolin AL, Pena S, Ballester C, Gallardo A, Aguilar Fixman MJ.	Arch Argent Pediatr	10.5546/aap.2022-02804.eng	2023
	The Use of Amplified ATP Bioluminescence for Rapid Sterility Testing of Drug Product Formulations.	Guest M, Pickard B, Smith B, Drinkwater S.	PDA J Pharm Sci Technol	10.5731/pdajpst.2022.012762	2023
	Microbiological Quality and Safety of Fresh Pork Meat with Special Reference to Methicillin-Resistant S. aureus and Other Staphylococci.	Martinez-Laorden A, Arraiz-Fernandez C, Ibanez-Torija G, Gonzalez-Fandos E.	Vet Sci	10.3390/vetsci12060568	2025
	Bacterial quality of urinary tract in patients with alkaptonuria.	Al-Tarawneh A, Al-Limoun M, Khlaifat AM, Tarawneh I, Mwafi N, Khleifat K, Alqaraleh M, Mizher H.	Am J Med Sci	10.1016/j.amjms.2022.12.028	2023
	Diversity of Culture Microorganisms from Portuguese Sweet Cherries.	Goncalves AC, Falcao A, Alves G, Silva LR, Flores-Felix JD.	Life (Basel)	10.3390/life13122323	2023
Genetics	From Soil to Surface: Exploring the Impact of Green Infrastructure on Microbial Communities in the Built Environment.	Mcgonigal M, Ito K.	J Genomics	10.7150/jgen.106245	2025
	Combating Fuel Biocontamination: Tailored Antimicrobial Peptides and an Innovative Delivery Strategy.	Das S, Pal U, Saha-Dasgupta T, Leong S.	ACS Appl Bio Mater	10.1021/acsabm.5c00474	2025
	Diabetes-related lower limb wounds: Antibiotic susceptibility pattern and biofilm formation.	Orfali R, Ghaffar S, AlAjlan L, Perveen S, Al-Turki E, Ameen F.	Saudi Pharm J	10.1016/j.jsps.2024.102069	2024
	Draft Genome Sequence of Dermacoccus nishinomiyaensis TSA37, Isolated from Wood Ash.	Williams AN, MacLea KS.	Microbiol Resour Announc	10.1128/mra.01370-19	2019
	Microbiological Survey of 47 Permanent Makeup Inks Available in the United States.	Yoon S, Kondakala S, Nho SW, Moon MS, Huang MCJ, Periz G, Kweon O, Kim S.	Microorganisms	10.3390/microorganisms10040820	2022
Genetics	Pangenomic and biochemical analyses of Helcococcus ovis reveal widespread tetracycline resistance and a novel bacterial species, Helcococcus bovis.	Cunha F, Zhai Y, Casaro S, Jones KL, Hernandez M, Bisinotto RS, Kariyawasam S, Brown MB, Phillips A, Jeong KC, Galvao KN.	Front Microbiol	10.3389/fmicb.2024.1456569	2024
Genetics	The Description and Analysis of the Complete Genome of Dermacoccus barathri FBCC-B549 Strain	Kim Y, Kim H, Kim J, Han J, Chung E, Nam S, Shin M, Kwak W.	Microorganisms		2024
	Assessment of microbial contamination in laser materials processing laboratories used for prototyping of biomedical devices.	Somorin YM, O'Connor GM.	Access Microbiol	10.1099/acmi.0.000494.v3	2023
Enzymology	Successful treatment of peritoneal dialysis-related peritonitis caused by Dermacoccus nishinomiyaensis.	Tanaka A, Watanabe Y, Ito C, Murata M, Shinjo H, Otsuka Y, Takeda A.	CEN Case Rep	10.1007/s13730-019-00388-2	2019
	Draft Genome Sequences of Dermacoccus nishinomiyaensis Strains UCD-KPL2534 and UCD-KPL2528 Isolated from an Indoor Track Facility.	Klein BA, Lemon KP, Gajare P, Jospin G, Eisen JA, Coil DA.	Genome Announc	10.1128/genomea.01652-16	2017
	Extended Reality Head-Mounted Displays Are Likely to Pose a Significant Risk in Medical Settings While Current Classification Remains as Non-Critical.	Goldsworthy A, Olsen M, Koh A, Demaneuf T, Singh G, Almheiri R, Chapman B, Almazrouei S, Ghemrawi R, Senok A, McKirdy S, Alghafri R, Tajouri L.	Microorganisms	10.3390/microorganisms12040815	2024
	Characterization of cerebrospinal fluid (CSF) microbiota at the time of initial surgical intervention for children with hydrocephalus.	Pandey S, Whitlock KB, Test MR, Hodor P, Pope CE, Limbrick DD, McDonald PJ, Hauptman JS, Hoffman LR, Simon TD, Cerebrospinal FLuId MicroBiota in Shunts (CLIMB) Study Group.	PLoS One	10.1371/journal.pone.0280682	2023
Genetics	Exploring strain diversity of dominant human skin bacterial species using single-cell genome sequencing.	Ide K, Saeki T, Arikawa K, Yoda T, Endoh T, Matsuhashi A, Takeyama H, Hosokawa M.	Front Microbiol	10.3389/fmicb.2022.955404	2022
	Great Tit (Parus major) Uropygial Gland Microbiomes and Their Potential Defensive Roles.	Bodawatta KH, Schierbech SK, Petersen NR, Sam K, Bos N, Jonsson KA, Poulsen M.	Front Microbiol	10.3389/fmicb.2020.01735	2020
Genetics	Comparative evaluation of specimen type and processing conditions for studying oyster microbiomes.	Almuhaideb E, Hasan NA, Grim C, Rashed SM, Parveen S.	Front Microbiol	10.3389/fmicb.2024.1504487	2024
Phylogeny	Culturomics to Investigate the Endometrial Microbiome: Proof-of-Concept.	Vanstokstraeten R, Mackens S, Callewaert E, Blotwijk S, Emmerechts K, Crombe F, Soetens O, Wybo I, Vandoorslaer K, Mostert L, De Geyter D, Muyldermans A, Blockeel C, Pierard D, Demuyser T.	Int J Mol Sci	10.3390/ijms232012212	2022
	Endophytic Diversity in Vitis vinifera with Different Vineyard Managements and Vitis sylvestris Populations from Northern Italy: A Comparative Study of Culture-Dependent and Amplicon Sequencing Methods.	Pizzi S, Conti A, Di Canito A, Casagrande Pierantoni D, Foschino R, Setati ME, Vigentini I.	Biology (Basel)	10.3390/biology14030293	2025
	The abundance of the potential pathogen Staphylococcus hominis in the air microbiome in a dental clinic and its susceptibility to far-UVC light.	Aquino de Muro M, Shuryak I, Uhlemann AC, Tillman A, Seeram D, Zakaria J, Welch D, Erde SM, Brenner DJ.	Microbiologyopen	10.1002/mbo3.1348	2023
	A multicentre evaluation and expert recommendations of use of the newly developed BioFire Joint Infection polymerase chain reaction panel.	Saeed K, Ahmad-Saeed N, Annett R, Barlow G, Barrett L, Boyd SE, Boran N, Davies P, Hughes H, Jones G, Leach L, Lynch M, Nayar D, Maloney RJ, Marsh M, Milburn O, Mitchell S, Moffat L, Moore LSP, Murphy ME, O'Shea SA, O'Sullivan F, Peach T, Petridou C, Reidy N, Selvaratnam M, Talbot B, Taylor V, Wearmouth D, Aldridge C.	Eur J Clin Microbiol Infect Dis	10.1007/s10096-022-04538-w	2023
	Multidrug-Resistant Bacteria Associated with Cell Phones of Healthcare Professionals in Selected Hospitals in Saudi Arabia.	Banawas S, Abdel-Hadi A, Alaidarous M, Alshehri B, Bin Dukhyil AA, Alsaweed M, Aboamer M.	Can J Infect Dis Med Microbiol	10.1155/2018/6598918	2018
	Prevalence and antibiotic susceptibility of Uropathogens from cases of urinary tract infections (UTI) in Shashemene referral hospital, Ethiopia.	Seifu WD, Gebissa AD.	BMC Infect Dis	10.1186/s12879-017-2911-x	2018
	Toys in the Playrooms of Children's Hospitals: A Potential Source of Nosocomial Bacterial Infections?	Aleksejeva V, Dovbenko A, Kroica J, Skadins I.	Children (Basel)	10.3390/children8100914	2021
	Impact of low-level laser therapy on the dynamics of pressure ulcer-induced changes considering an infectious agent and cathelicidin LL-37 concentration: a preliminary study.	Brauncajs M, Ksiaszczyk K, Lewandowska-Polak A, Gorzela K, Grzegorczyk J.	Postepy Dermatol Alergol	10.5114/ada.2018.77609	2018
Metabolism	Response of Rhodococcus cerastii IEGM 1278 to toxic effects of ibuprofen.	Ivshina IB, Tyumina EA, Bazhutin GA, Vikhareva EV.	PLoS One	10.1371/journal.pone.0260032	2021
	Exposure to cuticular bacteria can alter host behavior in a funnel-weaving spider.	Parks OB, Kothamasu KS, Ziemba MJ, Benner M, Cristinziano M, Kantz S, Leger D, Li J, Patel D, Rabuse W, Sutton S, Wilson A, Baireddy P, Kamat AA, Callas MJ, Borges MJ, Scalia MN, Klenk E, Scherer G, Martinez MM, Grubb SR, Kaufmann N, Pruitt JN, Keiser CN.	Curr Zool	10.1093/cz/zox064	2018
	Bacterial contamination in physical therapy departments in the State of Kuwait.	Aljadi SH, Al-Shemmari M, Al-Ramzi J, Al-Abdullatif S, Hajeyah Z, Jamal L, Al-Bahar S.	J Phys Ther Sci	10.1589/jpts.29.1014	2017
	Aerobic and Anaerobic Bacteriology of Hidradenitis Suppurativa: A Study of 22 Cases.	Katoulis AC, Koumaki D, Liakou AI, Vrioni G, Koumaki V, Kontogiorgi D, Tzima K, Tsakris A, Rigopoulos D.	Skin Appendage Disord	10.1159/000381959	2015
	Whole Genome Sequencing of First Janibacter indicus Isolate in China Revealed Three Unique Genomic Islands Compared with Saprophytic Strains.	Zhang M, Wang Z, Liang Z, Hu N.	Infect Drug Resist	10.2147/idr.s341591	2021
Genetics	Characterization of the public transit air microbiome and resistome reveals geographical specificity.	Leung MHY, Tong X, Boifot KO, Bezdan D, Butler DJ, Danko DC, Gohli J, Green DC, Hernandez MT, Kelly FJ, Levy S, Mason-Buck G, Nieto-Caballero M, Syndercombe-Court D, Udekwu K, Young BG, Mason CE, Dybwad M, Lee PKH.	Microbiome	10.1186/s40168-021-01044-7	2021
	Multidrug-Resistant Coagulase-Negative Staphylococci Isolated from Bloodstream in the uMgungundlovu District of KwaZulu-Natal Province in South Africa: Emerging Pathogens.	Asante J, Hetsa BA, Amoako DG, Abia ALK, Bester LA, Essack SY.	Antibiotics (Basel)	10.3390/antibiotics10020198	2021
Phylogeny	Urinary Microbiome of Reproductive-Age Asymptomatic European Women.	Ugarcina Perovic S, Ksiezarek M, Rocha J, Cappelli EA, Sousa M, Ribeiro TG, Grosso F, Peixe L.	Microbiol Spectr	10.1128/spectrum.01308-22	2022
Enzymology	Technological and Safety Characterization of Kocuria rhizophila Isolates From Traditional Ethnic Dry-Cured Ham of Nuodeng, Southwest China.	Shi Q, Wang X, Ju Z, Liu B, Lei C, Wang H, Li H.	Front Microbiol	10.3389/fmicb.2021.761019	2021
	Microbiological Analysis of Surgeons' Hands in a Public Hospital in São Luis, Maranhão State, Brazil: A Cross-Sectional Study.	Serra Neto A, Marques SG, Bomfim MRQ, Monteiro SG, de Souza RC, Nunes RA.	Microorganisms	10.3390/microorganisms11081895	2023
	Sweat and Sebum Preferences of the Human Skin Microbiota.	Swaney MH, Nelsen A, Sandstrom S, Kalan LR.	Microbiol Spectr	10.1128/spectrum.04180-22	2023
	The upper respiratory tract microbiota of healthy adults is affected by Streptococcus pneumoniae carriage, smoking habits, and contact with children.	Paulo AC, Lanca J, Almeida ST, Hilty M, Sa-Leao R.	Microbiome	10.1186/s40168-023-01640-9	2023
	Effective Microorganisms (EM) Improve Internal Organ Morphology, Intestinal Morphometry and Serum Biochemical Activity in Japanese Quails under Clostridium perfringens Challenge.	Michalska K, Gesek M, Sokol R, Murawska D, Mikiewicz M, Chlodowska A.	Molecules	10.3390/molecules26092786	2021
Pathogenicity	Behavioral responses of Rhodnius prolixus to volatile organic compounds released in vitro by bacteria isolated from human facial skin.	Tabares M, Ortiz M, Gonzalez M, Carazzone C, Vives Florez MJ, Molina J.	PLoS Negl Trop Dis	10.1371/journal.pntd.0006423	2018
	Isolation of Bacterial and Fungal Microbiota Associated with Hermetia illucens Larvae Reveals Novel Insights into Entomopathogenicity.	Kluber P, Muller S, Schmidt J, Zorn H, Ruhl M.	Microorganisms	10.3390/microorganisms10020319	2022
	Impact of growth media and pressure on the diversity and antimicrobial activity of isolates from two species of hexactinellid sponge.	Koch MJ, Hesketh-Best PJ, Smerdon G, Warburton PJ, Howell K, Upton M.	Microbiology (Reading)	10.1099/mic.0.001123	2021
Metabolism	Kytococcus sedentarius (formerly Micrococcus sedentarius) and Dermacoccus nishinomiyaensis (formerly Micrococcus nishinomiyaensis) produce monensins, typical Streptomyces cinnamonensis metabolites.	Pospisil S, Benada O, Kofronova O, Petricek M, Janda L, Havlicek V.	Can J Microbiol	10.1139/cjm-44-10-1007	1998
Enzymology	Pneumonia and bacteremia due to Kytococcus schroeteri.	Blennow O, Westling K, Froding I, Ozenci V.	J Clin Microbiol	10.1128/jcm.01245-11	2012
	Excess mortality attributable to antimicrobial-resistant bacterial bloodstream infection at a tertiary-care hospital in Indonesia.	Tauran PM, Djaharuddin I, Bahrun U, Nurulita A, Katu S, Muchtar F, Pelupessy NM, Hamers RL, Day NPJ, Arif M, Limmathurotsakul D.	PLOS Glob Public Health	10.1371/journal.pgph.0000830	2022
	Characterization of Micrococcaceae isolated from dry fermented sausage	Papamanoli E, Kotzekidou P, Tzanetakis N, Litopoulou-Tzanetaki E.	Food Microbiol	10.1006/fmic.2002.0503	2002
	Evaluation of aerial microbial pollutants in Al-Haram Al-Nabawi during pilgrimage of 2013.	Alananbeh KM, Boquellah N, Kaff NA, Ahmadi MA.	Saudi J Biol Sci	10.1016/j.sjbs.2015.08.003	2017
Genetics	Characterization of Bacterial Community Dynamics of the Human Mouth Throughout Decomposition via Metagenomic, Metatranscriptomic, and Culturing Techniques.	Ashe EC, Comeau AM, Zejdlik K, O'Connell SP.	Front Microbiol	10.3389/fmicb.2021.689493	2021
	Degradable Poly(3-hydroxybutyrate)-The Basis of Slow-Release Fungicide Formulations for Suppressing Potato Pathogens.	Volova TG, Kiselev EG, Baranovskiy SV, Zhila NO, Prudnikova SV, Shishatskaya EI, Kuzmin AP, Nemtsev IV, Vasiliev AD, Thomas S.	Polymers (Basel)	10.3390/polym14173669	2022
Phylogeny	Kocuria rhizophila adds to the emerging spectrum of micrococcal species involved in human infections.	Becker K, Rutsch F, Uekotter A, Kipp F, Konig J, Marquardt T, Peters G, von Eiff C.	J Clin Microbiol	10.1128/jcm.00823-08	2008
	Bioactivities and Extract Dereplication of Actinomycetales Isolated From Marine Sponges.	Santos JD, Vitorino I, De la Cruz M, Diaz C, Cautain B, Annang F, Perez-Moreno G, Gonzalez Martinez I, Tormo JR, Martin JM, Urbatzka R, Vicente FM, Lage OM.	Front Microbiol	10.3389/fmicb.2019.00727	2019
Metabolism	Metabolism of azo dyes by human skin microbiota.	Stingley RL, Zou W, Heinze TM, Chen H, Cerniglia CE.	J Med Microbiol	10.1099/jmm.0.012617-0	2010
Phylogeny	Taxonomic dissection of the genus Micrococcus: Kocuria gen. nov., Nesterenkonia gen. nov., Kytococcus gen. nov., Dermacoccus gen. nov., and Micrococcus Cohn 1872 gen. emend.	Stackebrandt E, Koch C, Gvozdiak O, Schumann P.	Int J Syst Bacteriol	10.1099/00207713-45-4-682	1995
	Effects of in situ Remediation With Nanoscale Zero Valence Iron on the Physicochemical Conditions and Bacterial Communities of Groundwater Contaminated With Arsenic.	Castano A, Prosenkov A, Baragano D, Otaegui N, Sastre H, Rodriguez-Valdes E, Gallego JLR, Pelaez AI.	Front Microbiol	10.3389/fmicb.2021.643589	2021
Pathogenicity	Evaluation of a microarray-based assay for rapid identification of Gram-positive organisms and resistance markers in positive blood cultures.	Samuel LP, Tibbetts RJ, Agotesku A, Fey M, Hensley R, Meier FA.	J Clin Microbiol	10.1128/jcm.02982-12	2013
Genetics	Comparative genomics of Bacteria commonly identified in the built environment.	Merino N, Zhang S, Tomita M, Suzuki H.	BMC Genomics	10.1186/s12864-018-5389-z	2019
Enzymology	Evolutionary Relationships Between Low Potential Ferredoxin and Flavodoxin Electron Carriers.	Campbell IJ, Bennett GN, Silberg JJ.	Front Energy Res	10.3389/fenrg.2019.00079	2019
Metabolism	Reciprocal immune benefit based on complementary production of antibiotics by the leech Hirudo verbana and its gut symbiont Aeromonas veronii.	Tasiemski A, Massol F, Cuvillier-Hot V, Boidin-Wichlacz C, Roger E, Rodet F, Fournier I, Thomas F, Salzet M.	Sci Rep	10.1038/srep17498	2015
Phylogeny	Temporal variability of the bioaerosol background at a subway station: concentration level, size distribution, and diversity of airborne bacteria.	Dybwad M, Skogan G, Blatny JM.	Appl Environ Microbiol	10.1128/aem.02849-13	2014
Phylogeny	Calidifontibacter indicus gen. nov., sp. nov., a member of the family Dermacoccaceae isolated from a hot spring, and emended description of the family Dermacoccaceae.	Ruckmani A, Kaur I, Schumann P, Klenk HP, Mayilraj S.	Int J Syst Evol Microbiol	10.1099/ijs.0.025593-0	2011
Phylogeny	Dermacoccus barathri sp. nov. and Dermacoccus profundi sp. nov., novel actinomycetes isolated from deep-sea mud of the Mariana Trench.	Pathom-Aree W, Nogi Y, Ward AC, Horikoshi K, Bull AT, Goodfellow M.	Int J Syst Evol Microbiol	10.1099/ijs.0.64250-0	2006
Phylogeny	Dermacoccus abyssi sp. nov., a piezotolerant actinomycete isolated from the Mariana Trench.	Pathom-Aree W, Nogi Y, Sutcliffe IC, Ward AC, Horikoshi K, Bull AT, Goodfellow M	Int J Syst Evol Microbiol	10.1099/ijs.0.64133-0	2006

References

#8820	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 20448
#18747	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 )
#38082	; Curators of the CIP;
#51331	Culture Collection University of Gothenburg (CCUG) ; Curators of the CCUG; CCUG 33028
#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 .
#68379	Automatically annotated from API Coryne .
#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 .
#121306	Collection of Institut Pasteur ; Curators of the CIP; CIP 81.71
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Dermacoccus nishinomiyaensis (DSM 20448, ATCC 29093, CCM 2140)

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Morphology

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Genome browser: GCA_016766835

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