Amycolatopsis umgeniensis (DSM 45272, JCM 31205, NRRL B-24724)

Name: Amycolatopsis umgeniensis (DSM 45272, JCM 31205, NRRL B-24724)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 23215

Type strain

Strain Designation UM16

Culture col. no. DSM 45272 JCM 31205 NRRL B-24724 UM16

NCBI tax ID(s) 336628

Special Collections DSMZ JCM

History DSMZ <- P. R. Meyers, Univ. of Cape Town; UM16 JCM <-- DSM 45272 <-- P. R. Meyers; Univ. of Cape Town; UM16.

Links

Amycolatopsis umgeniensis UM16 is a bacterium that was isolated from soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 406514

JCM 31205,DSM 45272

@ref 20215

Last LPSN update 2026-05-29 08:30:24

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Pseudonocardiales

Family Pseudonocardiaceae

Genus Amycolatopsis

Species Amycolatopsis umgeniensis

Full scientific name Amycolatopsis umgeniensis Everest et al. 2013

Morphology

Multimedia

@ref:	19273
multimedia content:	DSM_45272.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_45272.jpg
caption:	Medium 65 28°C
intellectual property rights:	© Leibniz-Institut DSMZ
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
19273	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

@ref	Growth	Type	Temperature (°C)
19273	positive	growth	28
67770	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	90.237
125439	obligate aerobe	98.318

Observation

67770

Observationquinones: MK-9(H₄)

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
19273	soil	KwaZulu Natal province, banks of Umgeni River (29° 28' 23'' S, 30° 28' 6'' E)	South Africa	ZAF	Africa	-29.4731	30.4683 -29.4731/30.4683
67770	Soil from the banks of the Umgeni River	KwaZulu Natal Province	South Africa	ZAF	Africa

Taxonmaps

69479

Global distribution of 16S sequence DQ110876 (>99% sequence identity) for Amycolatopsis from Microbeatlas

Aquatic Samples	3
Soil Samples	92
Animal Samples	11
Plant Samples	0
Total Samples	106

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
19273	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	ASM1420515v1 assembly for Amycolatopsis umgeniensis DSM 45272	contig	GCA_014205155	336628.3	2870829307	336628	75.67
124043	ASM4267656v1 assembly for Amycolatopsis umgeniensis JCM 31205	scaffold	GCA_042676565			336628	62.06

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
19273	Amycolatopsis umgeniensis strain UM16 16S ribosomal RNA gene, partial sequence	DQ110876	1446		336628

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1420515v1 assembly for Amycolatopsis umgeniensis DSM 45272
BV-BRC: 336628.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.32	no
125439	gram_stain	BacteriaNetⓘ	positive	79.08	no
125439	spore_formation	BacteriaNetⓘ	no	65.54	no
125439	motility	BacteriaNetⓘ	no	79.86	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Amycolatopsis umgeniensis strain DSM 45272
PATRIC: 336628.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	87.04	no
125438	anaerobic	anaerobicⓘ	no	96.88	no
125438	spore-forming	spore-formingⓘ	yes	81.51	no
125438	aerobic	aerobicⓘ	yes	90.24	no
125438	thermophilic	thermophileⓘ	no	97.09	yes
125438	flagellated	motile2+ⓘ	no	89.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Amycolatopsis umgeniensis sp. nov., isolated from soil from the banks of the Umgeni River in South Africa.	Everest GJ, le Roes-Hill M, Omorogie C, Cheung SK, Cook AE, Goodwin CM, Meyers PR	Antonie Van Leeuwenhoek	10.1007/s10482-012-9851-7	2012

References

#19273	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 45272
#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) .
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#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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Amycolatopsis umgeniensis (DSM 45272, JCM 31205, NRRL B-24724)

Name and taxonomic classification

Morphology

Multimedia

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_014205155

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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