Pseudomonas sp. (DSM 102502, Root329)

Name: Pseudomonas sp. (DSM 102502, Root329)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131896

Type strain

Strain Designation Root329

Culture col. no. DSM 102502 Root329

NCBI tax ID(s) 306

Special Collections DSMZ Arabidopsis

History <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root329 <- Y. Bai

Links

Root329 is a mesophilic prokaryote that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .

mesophilic genome sequence

Name and taxonomic classification

SI-ID 398610

DSM 102502

@ref 20215

Last LPSN update 2026-02-09 11:31:35

Domain Bacteria

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	Gram stain	Confidence
125439	negative	90.2
125438		92.855
125438	negative	98

Multimedia

@ref:	23688
multimedia content:	DSM_102502.jpg
multimedia.multimedia content:	https://www.dsmz.de/microorganisms/photos/DSM_102502.jpg
caption:	cells of DSM 102502 on medium 535 at 28 °C
intellectual property rights:	Leibniz-Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH
manual_annotation:	1

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
23688	TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)		Medium recipe at MediaDive	Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
23688	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125438	aerobe	94.472
125439	obligate aerobe	96.5

Spore formation

@ref	Spore formation	Confidence
125439		96.4

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
23688	roots of Arabidopsis thaliana ecotype Shakdara (Sha)	Arabidopsis thaliana	Potsdam, Golm district (52.416N 12.968E)	Germany	DEU	Europe	52.4159	12.968 52.4159/12.968

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Root329 assembly for Pseudomonas sp. Root329	scaffold	GCA_001424925	1736515.3	2643221633	1736515	68.38

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Pseudomonas sp. Root329
NCBI: GCA_001424925

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	96.40	no
125439	motility	BacteriaNetⓘ	yes	72.10	no
125439	gram_stain	BacteriaNetⓘ	negative	90.20	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	96.50	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Pseudomonas sp. Root329 Root329
NCBI: GCA_001424925.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.00	no
125438	anaerobic	anaerobicⓘ	no	98.77	no
125438	aerobic	aerobicⓘ	yes	94.47	no
125438	spore-forming	spore-formingⓘ	no	82.28	no
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	yes	92.86	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 )
#23688	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 102502
#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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