Micromonospora nigra (DSM 43818, ATCC 33088, NRRL 3097)

Cell morphology

Multimedia

• @ref:	11291
  multimedia content:	DSM_43818.jpg
  multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_43818.jpg
  caption:	Medium 554 28°C
  intellectual property rights:	© Leibniz-Institut DSMZ
  manual_annotation:	1

Culture medium

@ref	Name	Growth	Medium link	Composition
11291	N-Z-AMINE-MEDIUM (DSMZ Medium 554)		Medium recipe at MediaDive	Name: N-Z-AMINE-MEDIUM (DSMZ Medium 554) Composition: Starch 20.0 g/l Agar 20.0 g/l Glucose 10.0 g/l N-Z amine 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water
11291	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)		Medium recipe at MediaDive	Name: GYM STREPTOMYCES MEDIUM (DSMZ Medium 65) Composition: Agar 18.0 g/l Malt extract 10.0 g/l Yeast extract 4.0 g/l Glucose 4.0 g/l CaCO3 2.0 g/l Distilled water

Culture temp

Oxygen tolerance

Compound production

Observation

Metabolite production

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions	external links
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cardiolipin biosynthesis	100	7 of 7
66794	CMP-KDO biosynthesis	100	4 of 4
66794	threonine metabolism	100	10 of 10
66794	ethanol fermentation	100	2 of 2
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	ribulose monophosphate pathway	100	2 of 2
66794	methylglyoxal degradation	100	5 of 5
66794	acetate fermentation	100	4 of 4
66794	starch degradation	100	10 of 10
66794	biotin biosynthesis	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	aerobactin biosynthesis	100	1 of 1
66794	taurine degradation	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	glycine betaine biosynthesis	100	5 of 5
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	pentose phosphate pathway	100	11 of 11
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	adipate degradation	100	2 of 2
66794	cellulose degradation	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	flavin biosynthesis	93.33	14 of 15
66794	tetrahydrofolate metabolism	92.86	13 of 14
66794	phenylalanine metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	serine metabolism	88.89	8 of 9
66794	valine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	dTDPLrhamnose biosynthesis	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	tryptophan metabolism	86.84	33 of 38
66794	peptidoglycan biosynthesis	86.67	13 of 15
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	glutathione metabolism	85.71	12 of 14
66794	heme metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	NAD metabolism	83.33	15 of 18
66794	vitamin B12 metabolism	82.35	28 of 34
66794	glycolysis	82.35	14 of 17
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	Entner Doudoroff pathway	80	8 of 10
66794	glutamate and glutamine metabolism	78.57	22 of 28
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	urea cycle	76.92	10 of 13
66794	methionine metabolism	76.92	20 of 26
66794	alanine metabolism	75.86	22 of 29
66794	butanoate fermentation	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	lipid metabolism	74.19	23 of 31
66794	carotenoid biosynthesis	72.73	16 of 22
66794	proline metabolism	72.73	8 of 11
66794	oxidative phosphorylation	71.43	65 of 91
66794	tyrosine metabolism	71.43	10 of 14
66794	myo-inositol biosynthesis	70	7 of 10
66794	vitamin B1 metabolism	69.23	9 of 13
66794	histidine metabolism	68.97	20 of 29
66794	pyrimidine metabolism	68.89	31 of 45
66794	degradation of sugar alcohols	68.75	11 of 16
66794	non-pathway related	68.42	26 of 38
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	enterobactin biosynthesis	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	octane oxidation	66.67	2 of 3
66794	arginine metabolism	66.67	16 of 24
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	degradation of pentoses	64.29	18 of 28
66794	citric acid cycle	64.29	9 of 14
66794	degradation of sugar acids	64	16 of 25
66794	d-xylose degradation	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	ketogluconate metabolism	62.5	5 of 8
66794	arachidonate biosynthesis	60	3 of 5
66794	metabolism of amino sugars and derivatives	60	3 of 5
66794	phenol degradation	60	12 of 20
66794	lipoate biosynthesis	60	3 of 5
66794	aclacinomycin biosynthesis	57.14	4 of 7
66794	androgen and estrogen metabolism	56.25	9 of 16
66794	4-hydroxymandelate degradation	55.56	5 of 9
66794	nitrate assimilation	55.56	5 of 9
66794	daunorubicin biosynthesis	55.56	5 of 9
66794	degradation of hexoses	55.56	10 of 18
66794	cysteine metabolism	55.56	10 of 18
66794	vitamin B6 metabolism	54.55	6 of 11
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	kanosamine biosynthesis II	50	1 of 2
66794	pantothenate biosynthesis	50	3 of 6
66794	coenzyme M biosynthesis	50	5 of 10
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	lactate fermentation	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	vitamin E metabolism	50	2 of 4
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	cyclohexanol degradation	50	2 of 4
66794	toluene degradation	50	2 of 4
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	phenylpropanoid biosynthesis	46.15	6 of 13
66794	sulfate reduction	46.15	6 of 13
66794	lipid A biosynthesis	44.44	4 of 9
66794	propanol degradation	42.86	3 of 7
66794	degradation of aromatic, nitrogen containing compounds	41.67	5 of 12
66794	gallate degradation	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	chlorophyll metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	polyamine pathway	30.43	7 of 23
66794	mevalonate metabolism	28.57	2 of 7
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	arachidonic acid metabolism	27.78	5 of 18
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	cholesterol biosynthesis	27.27	3 of 11
66794	ascorbate metabolism	27.27	6 of 22
66794	catecholamine biosynthesis	25	1 of 4
66794	ginsenoside metabolism	25	4 of 16
66794	allantoin degradation	22.22	2 of 9

Isolation source categories

Isolation

Risk assessment

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
67770	IMG-taxon 2619619644 annotated assembly for Micromonospora nigra DSM 43818	contig	GCA_900091585	145857.5	2619619644	145857	72.55

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
11291	M.halophytica 16S rRNA gene (isolate DSM 43818)	X92609	1468		1874

GC content

Predictions

Literature

Topic	Title	Authors	Journal	DOI	Year
	Extending the Salinilactone Family.	Schlawis C, Harig T, Ehlers S, Guillen-Matus DG, Creamer KE, Jensen PR, Schulz S.	Chembiochem	10.1002/cbic.201900764	2020
	Recent Antimicrobial Responses of Halophilic Microbes in Clinical Pathogens.	Santhaseelan H, Dinakaran VT, Dahms HU, Ahamed JM, Murugaiah SG, Krishnan M, Hwang JS, Rathinam AJ.	Microorganisms	10.3390/microorganisms10020417	2022
	Halophiles and Their Biomolecules: Recent Advances and Future Applications in Biomedicine.	Corral P, Amoozegar MA, Ventosa A.	Mar Drugs	10.3390/md18010033	2019
Metabolism	Isolation and characterization of novel marine-derived actinomycete taxa rich in bioactive metabolites.	Magarvey NA, Keller JM, Bernan V, Dworkin M, Sherman DH.	Appl Environ Microbiol	10.1128/aem.70.12.7520-7529.2004	2004
Genetics	Karakum desert: a unique source of cultivable novel and rare actinomycetes with a remarkable biosynthetic potential.	Saygin H, Sahin N, Goodfellow M.	World J Microbiol Biotechnol	10.1007/s11274-025-04399-3	2025
	Composition and biodiversity of soil and root-associated microbiome in Vitis vinifera cultivar Lambrusco distinguish the microbial terroir of the Lambrusco DOC protected designation of origin area on a local scale.	Nanetti E, Palladino G, Scicchitano D, Trapella G, Cinti N, Fabbrini M, Cozzi A, Accetta G, Tassini C, Iannaccone L, Candela M, Rampelli S.	Front Microbiol	10.3389/fmicb.2023.1108036	2023
Phylogeny	Intrageneric relationships among Micromonospora species deduced from gyrB-based phylogeny and DNA relatedness.	Kasai H, Tamura T, Harayama S.	Int J Syst Evol Microbiol	10.1099/00207713-50-1-127	2000
	A new rapid method of glycolate test by diethyl ether extraction, which is applicable to a small amount of bacterial cells of less than one milligram.	Uchida K, Kudo T, Suzuki KI, Nakase T.	J Gen Appl Microbiol	10.2323/jgam.45.49	1999
Phylogeny	Genome-based classification of micromonosporae with a focus on their biotechnological and ecological potential.	Carro L, Nouioui I, Sangal V, Meier-Kolthoff JP, Trujillo ME, Montero-Calasanz MDC, Sahin N, Smith DL, Kim KE, Peluso P, Deshpande S, Woyke T, Shapiro N, Kyrpides NC, Klenk HP, Goker M, Goodfellow M.	Sci Rep	10.1038/s41598-017-17392-0	2018
Phylogeny	Micromonospora deserti sp. nov., isolated from the Karakum Desert.	Saygin H, Ay H, Guven K, Cetin D, Sahin N	Int J Syst Evol Microbiol	10.1099/ijsem.0.003752	2020
Phylogeny	Micromonospora caldifontis sp. nov., isolated from hot spring soil.	Thawai C, Tanasupawat S, Kudo T	Int J Syst Evol Microbiol	10.1099/ijsem.0.003321	2019
Phylogeny	Micromonospora spongicola sp. nov., an actinomycete isolated from a marine sponge in the Gulf of Thailand.	Supong K, Suriyachadkun C, Pittayakhajonwut P, Suwanborirux K, Thawai C	J Antibiot (Tokyo)	10.1038/ja.2013.35	2013
Phylogeny	Micromonospora equina sp. nov., isolated from soil from a racecourse.	Everest GJ, Meyers PR	Int J Syst Evol Microbiol	10.1099/ijs.0.042929-0	2012
Phylogeny	Micromonospora eburnea sp. nov., isolated from a Thai peat swamp forest.	Thawai C, Tanasupawat S, Itoh T, Suwanborirux K, Suzuki KI, Kudo T	Int J Syst Evol Microbiol	10.1099/ijs.0.63217-0	2005