Name: Amycolatopsis roodepoortensis M29
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 130586

Type strain:

Species: Amycolatopsis roodepoortensis

Strain Designation: M29

Culture col. no.: DSM 46661, NRRL B-24959

Strain history: <- P. Meyers,Univ. of Cape Town,South Africa; M29 <- M. Le Roes-Hill

NCBI tax ID(s): 700274 (species)

SI-ID 398132

DSM 46661

Section

Amycolatopsis roodepoortensis M29 is a spore-forming, mesophilic, Gram-positive bacterium that produces antibiotic compounds and was isolated from soil from a suburban garden.

antibiotic compound production
Gram-positive
spore-forming
mesophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Actinomycetota*
	Class	*Actinomycetes*
	Order	*Pseudonocardiales*
	Family	*Pseudonocardiaceae*
	Genus	*Amycolatopsis*
	Species	**Amycolatopsis roodepoortensis**
	Full Scientific Name (LPSN)	Amycolatopsis roodepoortensis Everest et al. 2015

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	positive Confidence in %100

Multimedia content

[Ref.: #21472]

Caption:

Medium 65 28°C

[Ref.: #21472]

Intellectual property rights:

Information on culture and growth conditions Culture and growth conditions

[Ref.: #21472]

Culture medium

GYM STREPTOMYCES MEDIUM (DSMZ Medium 65)

[Ref.: #21472]

Culture medium growth

[Ref.: #21472]

Culture medium link

Medium recipe at MediaDive

[Ref.: #21472]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #21472]			growth	28 °C

[Ref.: #21472]

Temperature range

mesophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

yes Confidence in %100

[Ref.: #21472]

Name of produced compound

antibiotics

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #21472]	Sample type/isolated from	soil from a suburban garden
[Ref.: #21472]	Geographic location (country and/or sea, region)	Gauteng Province, Roodepoort
[Ref.: #21472]	Country	South Africa
[Ref.: #21472]	Country ISO 3 Code	ZAF
[Ref.: #21472]	Continent	Africa
* marker position based on {}

Isolation sources categories

#Engineered	#Agriculture	#Garden
#Environmental	#Terrestrial	#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF771262 (>99% sequence identity) for Amycolatopsis from Microbeatlas

Aquatic Samples	30
Soil Samples	689
Animal Samples	79
Plant Samples	635
Total Samples	1433

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #21472]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #21472]	Amycolatopsis roodepoortensis strain M29 16S ribosomal RNA gene, partial sequence	KF771262	1411	ENA	700274 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Amycolatopsis roodepoortensis DSM 46661	GCA_014873915	contig	GenBank	700274 tax ID	*
[Ref.: #66792]	Amycolatopsis roodepoortensis strain DSM 46661	700274.3	wgs	PATRIC	700274 tax ID	*
[Ref.: #66792]	Amycolatopsis roodepoortensis DSM 46661	2873459399	draft	JGI IMG/M	700274 tax ID	*

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Amycolatopsis roodepoortensis strain DSM 46661 PATRIC: 700274.3
[Ref.: #69481]	spore-forming	yes	82	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Amycolatopsis roodepoortensis strain DSM 46661 PATRIC: 700274.3
[Ref.: #69480]	gram-positive	yes	84.431	no
[Ref.: #69480]	anaerobic	no	99.277	no
[Ref.: #69480]	halophile	no	89.201	no
[Ref.: #69480]	spore-forming	yes	92.314	no
[Ref.: #69480]	glucose-util	yes	89.991	no
[Ref.: #69480]	flagellated	no	96.847	no
[Ref.: #69480]	thermophile	no	98.937	yes
[Ref.: #69480]	aerobic	yes	94.49	no
[Ref.: #69480]	glucose-ferment	no	93.907	no
[Ref.: #69480]	motile	no	92.623	no

Availability in culture collections External links

[Ref.: #21472]

Culture collection no.

DSM 46661, NRRL B-24959

[Ref.: #89101]

SI-ID 398132

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis roodepoortensis sp. nov. and Amycolatopsis speibonae sp. nov.: antibiotic-producing actinobacteria isolated from South African soils.	Everest GJ, le Roes-Hill M, Rohland J, Enslin S, Meyers PR	J Antibiot (Tokyo)	10.1038/ja.2014.79	2014	*

References

#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 )

#21472

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 46661

#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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#89101

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID398132.1 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Amycolatopsis roodepoortensis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Amycolatopsis roodepoortensis strain DSM 46661

Amycolatopsis roodepoortensis strain DSM 46661

Change proposal

Change proposal