Cite this strain

Rhodococcus sp. (JCM 9793)

Name: Rhodococcus sp. (JCM 9793)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 166064

Type strain

Culture col. no. JCM 9793

NCBI tax ID(s) 1298612

Special Collections JCM

History T. Kudo K39.

Links

JCM 9793 is a mesophilic prokaryote that was isolated from Soil from the Lake Kasumigaura,by enrichment with biphenyl as the sole source of carbon and energy.

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 131526

JCM 9793

@ref 20215

Last LPSN update 2025-12-16 10:09:49

Domain Bacillati

Phylum Actinomycetota

Class Actinomycetes

Order Mycobacteriales

Family Nocardiaceae

Genus Rhodococcus

Full scientific name Rhodococcus Zopf 1891 (Approved Lists 1980)

Synonyms (4)

"Prescottia"
"Prescottella"
Prescottella
Rhodococcoides

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		95.1
125439		96	positive

Culture and growth conditions

Culture temp

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

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	90.643
125439	obligate aerobe	98.8

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Soil from the Lake Kasumigaura,by enrichment with biphenyl as the sole source of carbon and energy	Ibaraki Pref.	Japan	JPN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID
66792	ASM131266v1 assembly for Rhodococcus sp. JCM 9793	contig	GCA_001312665	1298612.3	2681813038	1298612

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Rhodococcus rhodochrous DNA for 16S rRNA, partial sequence	D87091	890		1829

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Rhodococcus sp. JCM 9793
NCBI: GCA_001312665

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	65.70	no
125439	motility	BacteriaNetⓘ	no	82.60	no
125439	gram_stain	BacteriaNetⓘ	positive	96.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhodococcus sp. JCM 9793
PATRIC: 1298612.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	86.91	no
125438	anaerobic	anaerobicⓘ	no	99.19	no
125438	spore-forming	spore-formingⓘ	no	55.53	no
125438	aerobic	aerobicⓘ	yes	90.64	no
125438	thermophilic	thermophileⓘ	no	98.50	yes
125438	flagellated	motile2+ⓘ	no	95.10	no

Literature

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 )
#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;
#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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