Pseudomonas sp. (DSM 102506, Root68)

Name: Pseudomonas sp. (DSM 102506, Root68)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131900

Type strain

Strain Designation Root68

Culture col. no. DSM 102506 Root68

NCBI tax ID(s) 306

Special Collections DSMZ Arabidopsis

Links

Root68 is a mesophilic prokaryote that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .

mesophilic genome sequence

Name and taxonomic classification

SI-ID 402170

DSM 102506

@ref 20215

Last LPSN update 2025-12-16 10:01:22

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Pseudomonadales

Family Pseudomonadaceae

Genus Pseudomonas

Full scientific name Pseudomonas Migula 1894 (Approved Lists 1980)

Synonyms (9)

Chryseomonas
Metapseudomonas
Zestomonas
"Caenipseudomonas"
Phytopseudomonas
Ectopseudomonas
Aquipseudomonas
Geopseudomonas
Flavimonas

Morphology

Cell morphology

@ref	Motility	Confidence	Gram stain
125438		95.02
125438		98.5	negative

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23692	NUTRIENT AGAR (DSMZ Medium 1)		Medium recipe at MediaDive	Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
23692	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	94.189

Spore formation

@ref	Spore formation	Confidence
125439		98

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
23692	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	Root68 assembly for Pseudomonas sp. Root68	scaffold	GCA_001427765	1736585.3	2643221589	1736585	71.48

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas sp. Root68
NCBI: GCA_001427765

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	98.00	no
125439	motility	BacteriaNetⓘ	yes	73.40	no
125439	gram_stain	BacteriaNetⓘ	negative	85.80	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	88.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas sp. Root68 Root68
NCBI: GCA_001427765.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.50	no
125438	anaerobic	anaerobicⓘ	no	98.38	no
125438	aerobic	aerobicⓘ	yes	94.19	no
125438	spore-forming	spore-formingⓘ	no	85.17	no
125438	thermophilic	thermophileⓘ	no	99.00	no
125438	flagellated	motile2+ⓘ	yes	95.02	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 )
#23692	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102506
#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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