Cite this strain

Nocardioides sp. (JCM 16518)

Name: Nocardioides sp. (JCM 16518)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161801

Type strain

Culture col. no. JCM 16518

NCBI tax ID(s) 652434

Special Collections JCM

History K. Satsuma DN36.

Links

JCM 16518 is a bacterium that was isolated from Paddy field soil.

genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 131633

JCM 16518

@ref 20215

Last LPSN update 2026-02-09 11:39:15

Domain Bacteria

Phylum Actinomycetota

Class Actinomycetes

Order Propionibacteriales

Family Nocardioidaceae

Genus Nocardioides

Full scientific name Nocardioides Prauser 1976 (Approved Lists 1980)

Synonyms (2)

Pimelobacter
Marmoricola

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		94
125439		99.6	positive

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
67770	positive	growth	25

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	98.1

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Paddy field soil	Tsukubamirai, 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
67770	ASM131270v1 assembly for Nocardioides sp. DN36 JCM 16518	contig	GCA_001312705	652434.3	2681813018	652434

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Nocardioides sp. DN36 gene for 16S rRNA, partial sequence	AB508351	1454		652434

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardioides sp. DN36 JCM 16518
NCBI: GCA_001312705

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	67.60	no
125439	motility	BacteriaNetⓘ	no	79.50	no
125439	gram_stain	BacteriaNetⓘ	positive	99.60	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	98.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides sp. DN36 strain JCM 16518
PATRIC: 652434.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	80.47	no
125438	anaerobic	anaerobicⓘ	no	91.54	no
125438	spore-forming	spore-formingⓘ	no	74.21	no
125438	aerobic	aerobicⓘ	yes	78.28	no
125438	thermophilic	thermophileⓘ	no	93.69	yes
125438	flagellated	motile2+ⓘ	no	94.00	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 )
#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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