Rhizobium sp. (DSM 102516, Root1203)

Name: Rhizobium sp. (DSM 102516, Root1203)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 132790

Type strain

Strain Designation Root1203

Culture col. no. DSM 102516 Root1203

NCBI tax ID(s) 391

Special Collections DSMZ Arabidopsis

History DSMZ <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root1203 <- Y. Bai

Links

Root1203 is a bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .

genome sequence Bacteria

Name and taxonomic classification

SI-ID 399447

DSM 102516

@ref 20215

Last LPSN update 2026-05-29 08:37:56

Domain Bacteria

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Rhizobiaceae

Genus Rhizobium

Full scientific name Rhizobium Frank 1889 (Approved Lists 1980)

Synonyms (8)

Velazquezella
Arminella
Martinezella
Limnomicrobium
Phytoamicus
"Metarhizobium"
Paenirhizobium
Peteryoungia

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	96.337
125438	negative	97.833

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
24579	RHIZOBIUM MEDIUM (DSMZ Medium 98)		Medium recipe at MediaDive	Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
24579	positive	growth	30

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.174

Spore formation

@ref	Spore formation	Confidence
125439		99.185

Isolation, sampling and environmental information

Isolation source categories

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

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
24579	roots of Arabidopsis thaliana ecotype Shakdara (Sha)	Arabidopsis thaliana	Cologne (50.958N 6.856E)	Germany	DEU	Europe	50.958	6.856 50.958/6.856

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Root1203 assembly for Rhizobium sp. Root1203	scaffold	GCA_001424945	1736427.3	2643221634	1736427	64.64

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Root1203 assembly for Rhizobium sp. Root1203
BV-BRC: 1736427.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.17	no
125439	gram_stain	BacteriaNetⓘ	negative	96.34	no
125439	motility	BacteriaNetⓘ	yes	49.02	no
125439	spore_formation	BacteriaNetⓘ	no	99.19	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Rhizobium sp. Root1203 Root1203
NCBI: GCA_001424945.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.83	no
125438	anaerobic	anaerobicⓘ	no	96.69	no
125438	aerobic	aerobicⓘ	yes	83.89	no
125438	spore-forming	spore-formingⓘ	no	89.29	no
125438	thermophilic	thermophileⓘ	no	99.25	yes
125438	flagellated	motile2+ⓘ	yes	75.54	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 )
#24579	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102516
#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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