Micromonospora echinospora subsp. echinospora (DSM 1040, NRRL 5467, JI-20)

Name: Micromonospora echinospora subsp. echinospora (DSM 1040, NRRL 5467, JI-20)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 7969

Type strain

Strain Designation JI-20

Culture col. no. DSM 1040 NRRL 5467 JI-20

NCBI tax ID(s) 1877

Special Collections DSMZ

History <- NRRL <- Schering-Plough Corp., JI-20 (Micromonospora purpurea)

Links

Micromonospora echinospora subsp. echinospora JI-20 is a bacterium of the family Micromonosporaceae.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 47302

DSM 1040,NRRL 5467

@ref 20215

Last LPSN update 2026-02-09 11:19:36

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Micromonosporales

Family Micromonosporaceae

Genus Micromonospora

Species Micromonospora echinospora subsp. echinospora

Full scientific name Micromonospora echinospora subsp. echinospora Luedemann and Brodsky 1964 (Approved Lists 1980)

BacDive ID	Other strains from **Micromonospora echinospora subsp. echinospora** (4)	Type strain
7972	M. echinospora subsp. echinospora DSM 43816, ATCC 15837, CBS 619.66, IFO 12574, ... (type strain)
7968	M. echinospora subsp. echinospora G-418, DSM 1039, ATCC 27932, DSM 43822, NRRL ...
7970	M. echinospora subsp. echinospora Schering Corp., DSM 43036, ATCC 15835, CBS ...
7971	M. echinospora subsp. echinospora M 4051, DSM 43141, ATCC 15836, CBS 618.66, ...

Morphology

Cell morphology

@ref	Gram stain	Confidence	Motility
125439	positive	99.9
125439		91.9

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
482	MICROMONOSPORA MEGALOMICEA MEDIUM (DSMZ Medium 127)		Medium recipe at MediaDive	Name: MICROMONOSPORA MEGALOMICEA MEDIUM (DSMZ Medium 127) Composition: Starch 20.0 g/l Agar 15.0 g/l Glucose 10.0 g/l Casitone 5.0 g/l Yeast extract 5.0 g/l CaCO3 1.0 g/l Distilled water

Culture temp

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

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	91.843
125439	obligate aerobe	99

Spore formation

@ref	Spore formation	Confidence
125438		92.421
125439		91

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	ppGpp biosynthesis	100	4 of 4
66794	ethanol fermentation	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	cardiolipin biosynthesis	100	7 of 7
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	pentose phosphate pathway	100	11 of 11
66794	aminopropanol phosphate biosynthesis	100	2 of 2
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	octane oxidation	100	3 of 3
66794	aspartate and asparagine metabolism	100	9 of 9
66794	starch degradation	100	10 of 10
66794	biotin biosynthesis	100	4 of 4
66794	methylglyoxal degradation	100	5 of 5
66794	valine metabolism	100	9 of 9
66794	palmitate biosynthesis	100	22 of 22
66794	acetate fermentation	100	4 of 4
66794	enterobactin biosynthesis	100	3 of 3
66794	adipate degradation	100	2 of 2
66794	glycolate and glyoxylate degradation	100	6 of 6
66794	ceramide biosynthesis	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	suberin monomers biosynthesis	100	2 of 2
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	aerobactin biosynthesis	100	1 of 1
66794	formaldehyde oxidation	100	3 of 3
66794	glycine betaine biosynthesis	100	5 of 5
66794	folate polyglutamylation	100	1 of 1
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	ribulose monophosphate pathway	100	2 of 2
66794	cellulose degradation	100	5 of 5
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	phenylalanine metabolism	92.31	12 of 13
66794	leucine metabolism	92.31	12 of 13
66794	Entner Doudoroff pathway	90	9 of 10
66794	serine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	ketogluconate metabolism	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	87.5	7 of 8
66794	flavin biosynthesis	86.67	13 of 15
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	citric acid cycle	85.71	12 of 14
66794	glutathione metabolism	85.71	12 of 14
66794	photosynthesis	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	phenol degradation	85	17 of 20
66794	urea cycle	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	selenocysteine biosynthesis	83.33	5 of 6
66794	tryptophan metabolism	81.58	31 of 38
66794	purine metabolism	80.85	76 of 94
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	vitamin K metabolism	80	4 of 5
66794	factor 420 biosynthesis	80	4 of 5
66794	3-chlorocatechol degradation	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	alanine metabolism	79.31	23 of 29
66794	arginine metabolism	79.17	19 of 24
66794	heme metabolism	78.57	11 of 14
66794	CO2 fixation in Crenarchaeota	77.78	7 of 9
66794	allantoin degradation	77.78	7 of 9
66794	methionine metabolism	76.92	20 of 26
66794	glycolysis	76.47	13 of 17
66794	vitamin B12 metabolism	76.47	26 of 34
66794	degradation of sugar acids	76	19 of 25
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	cyclohexanol degradation	75	3 of 4
66794	glutamate and glutamine metabolism	75	21 of 28
66794	glycogen biosynthesis	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	non-pathway related	73.68	28 of 38
66794	proline metabolism	72.73	8 of 11
66794	propanol degradation	71.43	5 of 7
66794	myo-inositol biosynthesis	70	7 of 10
66794	vitamin B1 metabolism	69.23	9 of 13
66794	isoprenoid biosynthesis	69.23	18 of 26
66794	lysine metabolism	69.05	29 of 42
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	carotenoid biosynthesis	68.18	15 of 22
66794	oxidative phosphorylation	68.13	62 of 91
66794	degradation of hexoses	66.67	12 of 18
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	degradation of aromatic, nitrogen containing compounds	66.67	8 of 12
66794	cyanate degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	tyrosine metabolism	64.29	9 of 14
66794	degradation of pentoses	64.29	18 of 28
66794	metabolism of disaccharids	63.64	7 of 11
66794	d-xylose degradation	63.64	7 of 11
66794	dTDPLrhamnose biosynthesis	62.5	5 of 8
66794	cysteine metabolism	61.11	11 of 18
66794	glycogen metabolism	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	lipoate biosynthesis	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	aclacinomycin biosynthesis	57.14	4 of 7
66794	nitrate assimilation	55.56	5 of 9
66794	4-hydroxymandelate degradation	55.56	5 of 9
66794	glycine metabolism	50	5 of 10
66794	toluene degradation	50	2 of 4
66794	butanoate fermentation	50	2 of 4
66794	vitamin E metabolism	50	2 of 4
66794	quinate degradation	50	1 of 2
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	phenylmercury acetate degradation	50	1 of 2
66794	catecholamine biosynthesis	50	2 of 4
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	CMP-KDO biosynthesis	50	2 of 4
66794	coenzyme M biosynthesis	50	5 of 10
66794	bile acid biosynthesis, neutral pathway	47.06	8 of 17
66794	sulfate reduction	46.15	6 of 13
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	vitamin B6 metabolism	45.45	5 of 11
66794	lipid A biosynthesis	44.44	4 of 9
66794	arachidonic acid metabolism	44.44	8 of 18
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	D-cycloserine biosynthesis	40	2 of 5
66794	elloramycin biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	phenylpropanoid biosynthesis	38.46	5 of 13
66794	carnitine metabolism	37.5	3 of 8
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	ascorbate metabolism	36.36	8 of 22
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sulfoquinovose degradation	33.33	1 of 3
66794	pantothenate biosynthesis	33.33	2 of 6
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	polyamine pathway	30.43	7 of 23
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	alginate biosynthesis	25	1 of 4
66794	diterpene phytoalexins precursors biosynthesis	25	4 of 16
66794	daunorubicin biosynthesis	22.22	2 of 9

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
482	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	NCBI tax ID	Score	IMG accession
66792	Micromonospora echinospora DSM 1040	complete			1877	98.59	2585427557
66792	ASM782947v1 assembly for Micromonospora echinospora	contig	GCA_007829475	1877.9	1877	0.02

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Micromonospora echinospora strain DSM 1040
PATRIC: 1877.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	91.00	no
125439	motility	BacteriaNetⓘ	no	91.90	no
125439	gram_stain	BacteriaNetⓘ	positive	99.90	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.00	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Micromonospora echinospora strain DSM 1040
PATRIC: 1877.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.87	no
125438	anaerobic	anaerobicⓘ	no	95.86	no
125438	spore-forming	spore-formingⓘ	yes	92.42	no
125438	aerobic	aerobicⓘ	yes	91.84	no
125438	thermophilic	thermophileⓘ	no	91.98	yes
125438	flagellated	motile2+ⓘ	no	89.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
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
Metabolism	Biosynthetic pathway leading to gentamicin C2b.	Lee BK, Nagabhushan TL, Condon RG, Shimonaski G, Kalyanpur MG, Patel M, Waitz JA	Antimicrob Agents Chemother	10.1128/AAC.16.5.589	1979

References

#482	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 1040
#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 )
#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 )
#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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Micromonospora echinospora subsp. echinospora (DSM 1040, NRRL 5467, JI-20)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Pathway annotation

Isolation, sampling and environmental information

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_007829475

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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