Cite this strain

Actinomadura rayongensis (DSM 102126, JCM 19830, PCU 332)

Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132197

Type strain

Strain Designation RY35-68

Culture col. no. DSM 102126 JCM 19830 PCU 332 TISTR 2211 RY35-68

NCBI tax ID(s) 1429076

Special Collections DSMZ JCM

Links

Name and taxonomic classification

Actinomadura rayongensis RY35-68 is a mesophilic bacterium that was isolated from Peat swamp forest soil.

mesophilic genome sequence 16S sequence Bacteria

SI-ID 406651

DSM 102126

Last LPSN update 2024-12-09 10:49:08

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Streptosporangiales

Family Thermomonosporaceae

Genus Actinomadura

Species Actinomadura rayongensis

Full scientific name Actinomadura rayongensis Phongsopitanun et al. 2015

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	99.8
125439		90

Multimedia

@ref:	23986
manual_annotation:	1
multimedia content:	DSM_102126.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_102126.jpg
caption:	Medium 553 28°C
intellectual property rights:	© Leibniz-Institut DSMZ

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23986	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
23986	GPHF-MEDIUM (DSMZ Medium 553)		Medium recipe provided by DSMZ

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
23986	positive	growth	28	mesophilic
67770	positive	growth	28	mesophilic

Physiology and metabolism

Observation

67770

Observationquinones: MK-9(H₆), MK-9(H₈), MK-9(H₄)

Spore formation

@ref	Spore formation	Confidence
125439		94.7

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	97.8

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Forest
#Environmental	#Terrestrial	#Soil
#Environmental	#Terrestrial	#Wetland (Swamp)
#Condition	#Acidic	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
23986	Peat swamp forest soil	Rayong Province	Thailand	THA	Asia
67770	Peat swamp forest soil	Rayong Province	Thailand	THA	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB889544 (>99% sequence identity) for Actinomadura rayongensis from Microbeatlas

Aquatic Samples	15
Soil Samples	317
Animal Samples	38
Plant Samples	42
Total Samples	412

Safety information

Risk assessment

@ref	Biosafety level	Biosafety level comment
23986	1	Risk group (German classification)

Sequence information

GC content

@ref	GC-content (mol%)	Method
23986	73.7	high performance liquid chromatography (HPLC)

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
23986	Actinomadura rayongensis gene for 16S ribosomal RNA, partial sequence	AB889544	1418		1429076

Genome sequences

@ref	Description	Accession	Assembly level	Database	NCBI tax ID
66792	Actinomadura rayongensis DSM 102126	GCA_009831215	scaffold		1429076
66792	Actinomadura rayongensis strain DSM 102126	1429076.3	wgs	PATRIC	1429076

Genome-based predictions

Predictions

Predictions from Diaspora project based on:
Actinomadura rayongensis DSM 102126
NCBI: GCA_009831215

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	yes	94.70	no
125439	motility	BacteriaNetⓘ	no	90.00	no
125439	gram_stain	BacteriaNetⓘ	positive	99.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	97.80	no

Predictions from Diaspora project based on:
Actinomadura rayongensis DSM 102126
NCBI: GCA_009831215.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	87.17	no
125438	anaerobic	anaerobicⓘ	no	97.09	no
125438	aerobic	aerobicⓘ	yes	87.24	no
125438	spore-forming	spore-formingⓘ	yes	88.11	no
125438	thermophilic	thermophileⓘ	no	96.00	no
125438	flagellated	motile2+ⓘ	no	86.00	no

External links

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Actinomadura rubteroloni sp. nov. and Actinomadura macrotermitis sp. nov., isolated from the gut of the fungus growing-termite Macrotermes natalensis.	Benndorf R, Martin K, Kufner M, de Beer ZW, Vollmers J, Kaster AK, Beemelmanns C	Int J Syst Evol Microbiol	10.1099/ijsem.0.004403	2020
Phylogeny	Actinomadura rayongensis sp. nov., isolated from peat swamp forest soil.	Phongsopitanun W, Tanasupawat S, Suwanborirux K, Ohkuma M, Kudo T	Int J Syst Evol Microbiol	10.1099/ijs.0.000033	2014

Straininfo Link

@ref	Straininfo	Culture collections
90551	406651	DSM 102126

Culture collection no.

Culture collection no.
DSM 102126
JCM 19830
PCU 332
TISTR 2211
RY35-68

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 )
#23986	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102126
#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 .
#90551	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-ID406651.1 )
#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 .

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