Lysobacter sp. (DSM 102437, Root559)

Name: Lysobacter sp. (DSM 102437, Root559)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131746

Type strain

Strain Designation Root559

Culture col. no. DSM 102437 Root559

NCBI tax ID(s) 72226

Special Collections DSMZ Arabidopsis

History DSMZ <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root559 <- Y. Bai

Links

Root559 is a bacterium that was isolated from roots of Arabidopsis thaliana ecotype Columbia-0 .

genome sequence Bacteria

Name and taxonomic classification

SI-ID 398456

DSM 102437

@ref 20215

Last LPSN update 2026-05-29 08:37:41

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Lysobacterales

Family Lysobacteraceae

Genus Lysobacter

Full scientific name Lysobacter Christensen and Cook 1978 (Approved Lists 1980)

Synonyms (9)

Aerolutibacter
Solilutibacter
Novilysobacter
Pseudoluteimonas
Agrilutibacter
Montanilutibacter
Noviluteimonas
Cognatilysobacter
Marilutibacter

Morphology

Cell morphology

@ref	Gram stain	Confidence
125438	negative	97.5

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23542	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)
23542	positive	growth	28

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	99.571

Spore formation

@ref	Spore formation	Confidence
125438		92.978
125439		96.442

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
23542	roots of Arabidopsis thaliana ecotype Columbia-0 (Col-0)	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	Root559 assembly for Lysobacter sp. Root559	scaffold	GCA_001427065	1736559.3	2643221559	1736559	64.94

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Root559 assembly for Lysobacter sp. Root559
BV-BRC: 1736559.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	99.57	no
125439	gram_stain	BacteriaNetⓘ	negative	85.54	no
125439	motility	BacteriaNetⓘ	yes	67.23	no
125439	spore_formation	BacteriaNetⓘ	no	96.44	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Lysobacter sp. Root559 Root559
NCBI: GCA_001427065.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	97.50	no
125438	anaerobic	anaerobicⓘ	no	96.39	no
125438	aerobic	aerobicⓘ	yes	84.31	no
125438	spore-forming	spore-formingⓘ	no	92.98	no
125438	thermophilic	thermophileⓘ	no	96.84	yes
125438	flagellated	motile2+ⓘ	no	61.74	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 )
#23542	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102437
#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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