Archive BacDiveID:10.13145/bacdive8007.20230509.8.1

Strain identifier

BacDive ID: 8007

Type strain:

Species: Micromonospora coxensis

Strain Designation: 2-30-b(28)

Strain history: I. Ara 2-30-b(28).

NCBI tax ID(s): 356852 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.

General

@ref: 15463

BacDive-ID: 8007

DSM-Number: 45161

keywords: genome sequence, 16S sequence, Bacteria, mesophilic

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

NCBI tax id

NCBI tax id: 356852
Matching level: species

strain history

@ref	history
15463	<- JCM/RIKEN <- I. Ara; 2-30-b(28)
67770	I. Ara 2-30-b(28).

doi: 10.13145/bacdive8007.20230509.8.1

Name and taxonomic classification

LPSN

@ref: 20215
description: domain/bacteria
keyword: phylum/actinomycetota
domain: Bacteria
phylum: Actinomycetota
class: Actinomycetes
order: Micromonosporales
family: Micromonosporaceae
genus: Micromonospora
species: Micromonospora coxensis
full scientific name: Micromonospora coxensis Ara and Kudo 2007

@ref: 15463

domain: Bacteria

phylum: Actinobacteria

class: Actinobacteria

order: Actinomycetales

family: Micromonosporaceae

genus: Micromonospora

species: Micromonospora coxensis

full scientific name: Micromonospora coxensis Ara and Kudo 2007

strain designation: 2-30-b(28)

type strain: yes

Morphology

multimedia

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

Culture and growth conditions

culture medium

@ref	name	growth	link	composition
15463	GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)	yes	https://mediadive.dsmz.de/medium/65	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)	yes	https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium548.pdf

culture temp

@ref	growth	type	temperature	range
15463	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

observation

@ref: 67770
observation: quinones: MK-10(H₆), MK-10(H₈)

Isolation, sampling and environmental information

isolation

@ref	sample type	geographic location	country	origin.country	continent
15463	sandy soil at a forest-side waterfall	Chokoria	Bangladesh	BGD	Asia
67770	Sandy soil near a waterfall	Chokoria	Bangladesh	BGD	Asia

isolation source categories

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

Safety information

risk assessment

@ref: 15463
biosafety level: 1
biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@ref: 15463
description: Micromonospora coxensis gene for 16S rRNA, partial sequence
accession: AB241455
length: 1511
database: ena
NCBI tax ID: 356852

Genome sequences

@ref	description	accession	assembly level	database	NCBI tax ID
66792	Micromonospora coxensis DSM 45161	GCA_900090295	chromosome	ncbi	356852
66792	Micromonospora coxensis strain DSM 45161	356852.4	complete	patric	356852
66792	Micromonospora coxensis DSM 45161	2623620609	draft	img	356852

GC content

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

Genome-based predictions

predictions

trait	prediction	confidence	training_data
gram-positive	yes	89.579	no
anaerobic	no	99.024	no
halophile	no	92.904	no
spore-forming	yes	95.028	no
glucose-util	yes	86.458	no
motile	no	94.166	no
flagellated	no	97.766	no
thermophile	no	97.471	yes
aerobic	yes	94.308	no
glucose-ferment	no	91.856	no

External links

@ref: 15463

culture collection no.: DSM 45161, JCM 13248, MTCC 8093, NBRC 106574, NRRL B-24768

straininfo link

@ref: 77437
straininfo: 309468

literature

topic	Pubmed-ID	title	authors	journal	DOI	year	mesh	topic2
Phylogeny	17429159	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	Micromonospora/classification/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology	Transcriptome
Phylogeny	19656925	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	DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Geologic Sediments/microbiology, Micromonospora/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Thailand	Metabolism
Phylogeny	20562246	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	DNA, Bacterial/genetics, Micromonospora/classification/genetics/isolation & purification, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Thailand, Trees/microbiology	Genetics
Phylogeny	22523171	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	Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Micromonospora/classification/genetics/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Thailand, Vitamin K 2/analysis	Genetics
Enzymology	23198401	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	Dicarboxylic Acids/isolation & purification, Magnetic Resonance Spectroscopy, Mass Spectrometry, Micromonospora/chemistry/isolation & purification, Microscopy, Electron, Scanning, Spectrophotometry, Ultraviolet	Phylogeny
Phylogeny	23667141	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	DNA, Bacterial/genetics, Diaminopimelic Acid/analysis, Fatty Acids/analysis, Germany, Micromonospora/classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptides/metabolism, Peptidoglycan/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Vitamin K 2/analysis	Genetics
Phylogeny	25957972	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	Animals, Bacterial Typing Techniques, China, Cluster Analysis, DNA Gyrase/genetics, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Insecta/microbiology, Micromonospora/classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA	Genetics
Phylogeny	26395026	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	Bacterial Typing Techniques, Base Composition, Cell Wall/chemistry, China, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Micromonospora/classification/genetics/isolation & purification, Mining, Molecular Sequence Data, Nickel, Nucleic Acid Hybridization, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Vitamin K 2/chemistry	Genetics
Phylogeny	27220280	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	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Diaminopimelic Acid/chemistry, Fatty Acids/chemistry, Geologic Sediments/microbiology, Micromonospora/classification/genetics/isolation & purification, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand, Vitamin K 2/chemistry, Wetlands	Transcriptome
Phylogeny	29148367	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	Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Micromonospora/classification/genetics/isolation & purification, Peas/microbiology, Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/microbiology, Sequence Analysis, DNA, Spain	Transcriptome

Reference

@id	authors	catalogue	doi/url	title	journal	pubmed
15463	Curators of the DSMZ	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 45161)	https://www.dsmz.de/collection/catalogue/details/culture/DSM-45161
20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.		10.1099/ijsem.0.004332	List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann		https://diaspora-project.de/progress.html#genomes	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		10.1093/nar/gkaa1025	BRENDA, the ELIXIR core data resource in 2021: new developments and updates	Nucleic Acids Res. 49: D498-D508 2020	33211880
67770	Curators of the JCM		https://jcm.brc.riken.jp/en/
77437	Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.		10.60712/SI-ID309468.1	StrainInfo: A central database for resolving microbial strain identifiers