Micromonospora coxensis (DSM 45161, JCM 13248, MTCC 8093)

Name: Micromonospora coxensis (DSM 45161, JCM 13248, MTCC 8093)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 8007

Type strain

Strain Designation 2-30-b(28)

Culture col. no. DSM 45161 JCM 13248 MTCC 8093 NBRC 106574 2-30-b(28) 1 more

NCBI tax ID(s) 356852

Special Collections DSMZ JCM

History <- JCM/RIKEN <- I. Ara; 2-30-b(28) I. Ara 2-30-b(28).

Links

Micromonospora coxensis 2-30-b is a bacterium that was isolated from sandy soil at a forest-side waterfall.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 309468

DSM 45161,MTCC 8093,JCM 13248

@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 coxensis

Full scientific name Micromonospora coxensis Ara and Kudo 2007

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		92
125439		99.7	positive

Multimedia

@ref:	15463
multimedia content:	DSM_45161.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45161.jpg
caption:	Medium 987 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
15463	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
15463	BENNETT'S AGAR (DSMZ Medium 548)		Medium recipe at MediaDive	Name: BENNETT'S AGAR (DSMZ Medium 548) Composition: Agar 15.0 g/l Glucose 10.0 g/l N-Z amine 2.0 g/l Yeast extract 1.0 g/l Beef extract 1.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
15463	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.5

Spore formation

@ref	Spore formation	Confidence
125438		91.732

Observation

67770

Observationquinones: MK-10(H₆), MK-10(H₈)

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	methylglyoxal degradation	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	biotin biosynthesis	100	4 of 4
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	cardiolipin biosynthesis	100	7 of 7
66794	CMP-KDO biosynthesis	100	4 of 4
66794	adipate degradation	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	ethanol fermentation	100	2 of 2
66794	octane oxidation	100	3 of 3
66794	phenylmercury acetate degradation	100	2 of 2
66794	acetate fermentation	100	4 of 4
66794	palmitate biosynthesis	100	22 of 22
66794	ppGpp biosynthesis	100	4 of 4
66794	starch degradation	100	10 of 10
66794	1,4-dihydroxy-6-naphthoate biosynthesis	100	6 of 6
66794	formaldehyde oxidation	100	3 of 3
66794	denitrification	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	sulfopterin metabolism	100	4 of 4
66794	coenzyme A metabolism	100	4 of 4
66794	suberin monomers biosynthesis	100	2 of 2
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	cellulose degradation	100	5 of 5
66794	ribulose monophosphate pathway	100	2 of 2
66794	leucine metabolism	92.31	12 of 13
66794	phenylalanine metabolism	92.31	12 of 13
66794	Entner Doudoroff pathway	90	9 of 10
66794	valine metabolism	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	isoleucine metabolism	87.5	7 of 8
66794	gluconeogenesis	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	flavin biosynthesis	86.67	13 of 15
66794	glutathione metabolism	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	photosynthesis	85.71	12 of 14
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	heme metabolism	85.71	12 of 14
66794	NAD metabolism	83.33	15 of 18
66794	selenocysteine biosynthesis	83.33	5 of 6
66794	vitamin B12 metabolism	82.35	28 of 34
66794	glycolysis	82.35	14 of 17
66794	glutamate and glutamine metabolism	82.14	23 of 28
66794	factor 420 biosynthesis	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	degradation of sugar acids	80	20 of 25
66794	glycogen metabolism	80	4 of 5
66794	metabolism of amino sugars and derivatives	80	4 of 5
66794	propionate fermentation	80	8 of 10
66794	tetrahydrofolate metabolism	78.57	11 of 14
66794	d-mannose degradation	77.78	7 of 9
66794	serine metabolism	77.78	7 of 9
66794	urea cycle	76.92	10 of 13
66794	vitamin B1 metabolism	76.92	10 of 13
66794	purine metabolism	76.6	72 of 94
66794	histidine metabolism	75.86	22 of 29
66794	alanine metabolism	75.86	22 of 29
66794	arginine metabolism	75	18 of 24
66794	glycogen biosynthesis	75	3 of 4
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	75	6 of 8
66794	dTDPLrhamnose biosynthesis	75	6 of 8
66794	butanoate fermentation	75	3 of 4
66794	cyclohexanol degradation	75	3 of 4
66794	lipid metabolism	74.19	23 of 31
66794	non-pathway related	73.68	28 of 38
66794	methionine metabolism	73.08	19 of 26
66794	proline metabolism	72.73	8 of 11
66794	carotenoid biosynthesis	72.73	16 of 22
66794	aclacinomycin biosynthesis	71.43	5 of 7
66794	tyrosine metabolism	71.43	10 of 14
66794	citric acid cycle	71.43	10 of 14
66794	myo-inositol biosynthesis	70	7 of 10
66794	pyrimidine metabolism	68.89	31 of 45
66794	oxidative phosphorylation	68.13	62 of 91
66794	enterobactin biosynthesis	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	lysine metabolism	66.67	28 of 42
66794	sulfoquinovose degradation	66.67	2 of 3
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	isoprenoid biosynthesis	65.38	17 of 26
66794	phenol degradation	65	13 of 20
66794	degradation of pentoses	64.29	18 of 28
66794	d-xylose degradation	63.64	7 of 11
66794	metabolism of disaccharids	63.64	7 of 11
66794	androgen and estrogen metabolism	62.5	10 of 16
66794	ketogluconate metabolism	62.5	5 of 8
66794	degradation of sugar alcohols	62.5	10 of 16
66794	phosphatidylethanolamine bioynthesis	61.54	8 of 13
66794	cysteine metabolism	61.11	11 of 18
66794	lipoate biosynthesis	60	3 of 5
66794	arachidonate biosynthesis	60	3 of 5
66794	3-phenylpropionate degradation	60	9 of 15
66794	nitrate assimilation	55.56	5 of 9
66794	4-hydroxymandelate degradation	55.56	5 of 9
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	4-hydroxyphenylacetate degradation	50	5 of 10
66794	kanosamine biosynthesis II	50	1 of 2
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	glycine metabolism	50	5 of 10
66794	pantothenate biosynthesis	50	3 of 6
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	quinate degradation	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
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	arachidonic acid metabolism	44.44	8 of 18
66794	degradation of hexoses	44.44	8 of 18
66794	lipid A biosynthesis	44.44	4 of 9
66794	benzoyl-CoA degradation	42.86	3 of 7
66794	propanol degradation	42.86	3 of 7
66794	3-chlorocatechol degradation	40	2 of 5
66794	gallate degradation	40	2 of 5
66794	vitamin K metabolism	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	chlorophyll metabolism	38.89	7 of 18
66794	carnitine metabolism	37.5	3 of 8
66794	dolichyl-diphosphooligosaccharide biosynthesis	36.36	4 of 11
66794	cholesterol biosynthesis	36.36	4 of 11
66794	polyamine pathway	34.78	8 of 23
66794	IAA biosynthesis	33.33	1 of 3
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	methane metabolism	33.33	1 of 3
66794	ascorbate metabolism	31.82	7 of 22
66794	vitamin E metabolism	25	1 of 4
66794	toluene degradation	25	1 of 4
66794	alginate biosynthesis	25	1 of 4
66794	catecholamine biosynthesis	25	1 of 4
66794	methanogenesis from CO2	25	3 of 12
66794	allantoin degradation	22.22	2 of 9

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	-
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Sandy
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
15463	sandy soil at a forest-side waterfall	Chokoria	Bangladesh	BGD	Asia
67770	Sandy soil near a waterfall	Chokoria	Bangladesh	BGD	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
15463	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2623620609 annotated assembly for Micromonospora coxensis DSM 45161	chromosome	GCA_900090295	356852.4	2623620609	356852	87.22

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
15463	Micromonospora coxensis gene for 16S rRNA, partial sequence	AB241455	1511		356852

GC content

@ref	GC-content (mol%)	Method
15463	73
67770	73	high performance liquid chromatography (HPLC)
67770	73.58	genome sequence analysis

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Micromonospora coxensis DSM 45161
IMG: 2623620609

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	70.40	no
125439	motility	BacteriaNetⓘ	no	81.30	no
125439	gram_stain	BacteriaNetⓘ	positive	99.70	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Micromonospora coxensis strain DSM 45161
PATRIC: 356852.4

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	89.18	no
125438	anaerobic	anaerobicⓘ	no	95.60	no
125438	spore-forming	spore-formingⓘ	yes	91.73	no
125438	aerobic	aerobicⓘ	yes	85.96	no
125438	thermophilic	thermophileⓘ	no	95.48	yes
125438	flagellated	motile2+ⓘ	no	92.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Unveiling the bioactive potential of Actinomycetota from the Tagus River estuary.	Dos Santos JDN, Pinto E, Martin J, Vicente F, Reyes F, Lage OM.	Int Microbiol	10.1007/s10123-024-00483-0	2024
Genetics	Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies.	Sevim V, Lee J, Egan R, Clum A, Hundley H, Lee J, Everroad RC, Detweiler AM, Bebout BM, Pett-Ridge J, Goker M, Murray AE, Lindemann SR, Klenk HP, O'Malley R, Zane M, Cheng JF, Copeland A, Daum C, Singer E, Woyke T.	Sci Data	10.1038/s41597-019-0287-z	2019
Enzymology	Diacidene, a polyene dicarboxylic acid from a Micromonospora isolate from the German Wadden Sea.	Ohlendorf B, Schulz D, Beese P, Erhard A, Schmaljohann R, Imhoff JF	Z Naturforsch C J Biosci	10.1515/znc-2012-9-1001	2012
Genetics	Description of two novel Micromonospora species: Micromonospora psammae sp. nov. from desert soil and Micromonospora lacuserhaii sp. nov. from lake sediment.	Deng Y, Li CJ, Chen HH, Yu LY, Cai M, Zhang YQ.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006922	2025
Phylogeny	Micromonospora phytophila sp. nov. and Micromonospora luteiviridis sp. nov., isolated as natural inhabitants of plant nodules.	Carro L, Veyisoglu A, Riesco R, Sproer C, Klenk HP, Sahin N, Trujillo ME	Int J Syst Evol Microbiol	10.1099/ijsem.0.002490	2017
Phylogeny	Micromonospora sediminis sp. nov., isolated from mangrove sediment.	Phongsopitanun W, Kudo T, Ohkuma M, Pittayakhajonwut P, Suwanborirux K, Tanasupawat S	Int J Syst Evol Microbiol	10.1099/ijsem.0.001175	2016
Phylogeny	Micromonospora nickelidurans sp. nov., isolated from soil from a nickel-mining site.	Lin YB, Fan MC, Guo YQ, Di XH, Dong DH, Zhang X, Wei GH	Int J Syst Evol Microbiol	10.1099/ijsem.0.000623	2015
Phylogeny	Two new species of the genus Micromonospora: Micromonospora palomenae sp. nov. and Micromonospora harpali sp. nov. isolated from the insects.	Fang B, Liu C, Guan X, Song J, Zhao J, Liu H, Li C, Ning W, Wang X, Xiang W	Antonie Van Leeuwenhoek	10.1007/s10482-015-0472-9	2015
Phylogeny	Micromonospora schwarzwaldensis sp. nov., a producer of telomycin, isolated from soil.	Gurovic MSV, Muller S, Domin N, Seccareccia I, Nietzsche S, Martin K, Nett M	Int J Syst Evol Microbiol	10.1099/ijs.0.051623-0	2013
Phylogeny	Micromonospora maritima sp. nov., isolated from mangrove soil.	Songsumanus A, Tanasupawat S, Igarashi Y, Kudo T	Int J Syst Evol Microbiol	10.1099/ijs.0.039180-0	2012
Phylogeny	Micromonospora humi sp. nov., isolated from peat swamp forest soil.	Songsumanus A, Tanasupawat S, Thawai C, Suwanborirux K, Kudo T	Int J Syst Evol Microbiol	10.1099/ijs.0.024281-0	2010
Phylogeny	Micromonospora marina sp. nov., isolated from sea sand.	Tanasupawat S, Jongrungruangchok S, Kudo T	Int J Syst Evol Microbiol	10.1099/ijs.0.014068-0	2009
Phylogeny	Two new species of the genus Micromonospora: Micromonospora chokoriensis sp. nov. and Micromonospora coxensis sp. nov., isolated from sandy soil.	Ara I, Kudo T	J Gen Appl Microbiol	10.2323/jgam.53.29	2007

References

#15463	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45161
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 coxensis (DSM 45161, JCM 13248, MTCC 8093)

Name and taxonomic classification

Morphology

Cell morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900090295

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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