Aminobacter sp. (DSM 101952, Root100)

Name: Aminobacter sp. (DSM 101952, Root100)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 131248

Type strain

Strain Designation Root100

Culture col. no. DSM 101952 Root100

NCBI tax ID(s) 2735891

Special Collections DSMZ Arabidopsis

Links

Root100 is a mesophilic prokaryote that was isolated from root of Arabidopsis thaliana genotype Sha grown in green house.

mesophilic genome sequence

Name and taxonomic classification

SI-ID 397458

DSM 101952

@ref 20215

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

Domain Pseudomonadati

Phylum Pseudomonadota

Class Alphaproteobacteria

Order Hyphomicrobiales

Family Phyllobacteriaceae

Genus Aminobacter

Full scientific name Aminobacter Urakami et al. 1992

Synonyms (2)

Chelatobacter
Carbophilus

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	negative	99
125438	negative	98.833

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
22476	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
22476	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
22476	positive	growth	28	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate aerobe	95.6

Spore formation

@ref	Spore formation	Confidence
125439		99.1

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Agriculture	#Greenhouse
#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
22476	root of Arabidopsis thaliana genotype Sha grown in green house	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	Aminobacter sp. DSM 101952	complete			2861299436	2735891	92.01
66792	Aminobacter sp. DSM 101952	contig		2735891.3		2735891	72.8
66792	Root100 assembly for Aminobacter sp. DSM 101952 Root100	scaffold	GCA_001424795	1736420.5	2643221623	2735891	71.52

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Aminobacter sp. DSM 101952 Root100
NCBI: GCA_001424795

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.10	no
125439	motility	BacteriaNetⓘ	yes	74.80	no
125439	gram_stain	BacteriaNetⓘ	negative	99.00	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate aerobe	95.60	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Aminobacter sp. DSM 101952 Root100
NCBI: GCA_001424795.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.83	no
125438	anaerobic	anaerobicⓘ	no	94.11	no
125438	aerobic	aerobicⓘ	yes	84.63	no
125438	spore-forming	spore-formingⓘ	no	85.55	no
125438	thermophilic	thermophileⓘ	no	99.00	yes
125438	flagellated	motile2+ⓘ	yes	60.23	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 )
#22476	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 101952
#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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