Nocardioides sp. (DSM 102667, Leaf307)

Name: Nocardioides sp. (DSM 102667, Leaf307)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131842

Type strain

Strain Designation Leaf307

Culture col. no. DSM 102667 Leaf307

NCBI tax ID(s) 35761

Special Collections DSMZ Arabidopsis

History <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf307 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann

Links

Leaf307 is a bacterium that was isolated from leaf of Arabidopsis thaliana, wild-type genotype.

genome sequence Bacteria

Name and taxonomic classification

SI-ID 397022

DSM 102667

@ref 20215

Last LPSN update 2026-02-09 11:31:34

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

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23635	R2A MEDIUM (DSMZ Medium 830)		Medium recipe at MediaDive	Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
23635	positive	growth	28

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		96.2

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Plants	#Herbaceous plants (Grass,Crops)
#Host Body-Site	#Plant	#Leaf (Phyllosphere)

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
23635	leaf of Arabidopsis thaliana, wild-type genotype	Arabidopsis thaliana	Brugg (47.4816806N 8.217547222E)	Switzerland	CHE	Europe	47.4817	8.2176 47.4817/8.2176

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Leaf307 assembly for Nocardioides sp. Leaf307	scaffold	GCA_001423135	1736331.3	2643221890	1736331	77.99

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Nocardioides sp. Leaf307
NCBI: GCA_001423135

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.20	no
125439	motility	BacteriaNetⓘ	yes	74.20	no
125439	gram_stain	BacteriaNetⓘ	negative	82.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	61.70	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Nocardioides sp. Leaf307 Leaf307
NCBI: GCA_001423135.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	88.44	no
125438	anaerobic	anaerobicⓘ	no	97.39	no
125438	aerobic	aerobicⓘ	yes	89.63	no
125438	spore-forming	spore-formingⓘ	yes	53.84	no
125438	thermophilic	thermophileⓘ	no	95.49	yes
125438	flagellated	motile2+ⓘ	no	62.47	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 )
#23635	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102667
#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) .
#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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