Strain identifier
BacDive ID: 131248
Type strain: 
Species: Aminobacter sp.
Strain Designation: Root100
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root100 <- Y. Bai
NCBI tax ID(s): 2735891 (species)
version 8.1 (current version)
General
@ref: 22476
BacDive-ID: 131248
DSM-Number: 101952
keywords: genome sequence, Bacteria, mesophilic, Gram-negative
description: Aminobacter sp. Root100 is a mesophilic, Gram-negative bacterium that was isolated from root of Arabidopsis thaliana genotype Sha grown in green house.
NCBI tax id
- NCBI tax id: 2735891
- Matching level: species
strain history
- @ref: 22476
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root100 <- Y. Bai
doi: 10.13145/bacdive131248.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Phyllobacteriaceae
- genus: Aminobacter
- species: Aminobacter sp.
- full scientific name: Aminobacter Urakami et al. 1992
synonyms
@ref synonym 20215 Chelatobacter 20215 Carbophilus
@ref: 22476
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Phyllobacteriaceae
genus: Aminobacter
species: Aminobacter sp.
full scientific name: Aminobacter sp.
strain designation: Root100
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.994
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 22476 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | 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) | yes | https://mediadive.dsmz.de/medium/1 | 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: 22476
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.997 |
Isolation, sampling and environmental information
isolation
- @ref: 22476
- sample type: root of Arabidopsis thaliana genotype Sha grown in green house
- host species: Arabidopsis thaliana
- geographic location: Cologne (50.958N 6.856E)
- country: Germany
- origin.country: DEU
- continent: Europe
- latitude: 50.958
- longitude: 6.856
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Agriculture | #Greenhouse |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root (Rhizome) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Aminobacter sp. DSM 101952 Root100 | GCA_001424795 | scaffold | ncbi | 2735891 |
| 66792 | Aminobacter sp. DSM 101952 | 2735891.3 | wgs | patric | 2735891 |
| 66792 | Aminobacter sp. Root100 | 1736420.5 | wgs | patric | 2735891 |
| 66792 | Aminobacter sp. Root100 | 2643221623 | draft | img | 1736420 |
| 66792 | Aminobacter sp. DSM 101952 | 2861299436 | draft | img | 2735891 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 76.101 | no |
| gram-positive | no | 98.299 | no |
| anaerobic | no | 97.982 | no |
| aerobic | yes | 90.809 | no |
| halophile | no | 91.005 | no |
| spore-forming | no | 96.269 | no |
| thermophile | no | 98.78 | yes |
| glucose-util | yes | 91.589 | no |
| motile | yes | 82.606 | no |
| glucose-ferment | no | 89.949 | no |
External links
@ref: 22476
culture collection no.: DSM 101952
straininfo link
- @ref: 89693
- straininfo: 397458
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | 10.1099/ijsem.0.004332 | |
| 22476 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-101952 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (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) | https://diaspora-project.de/progress.html#genomes | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |
| 89693 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | StrainInfo: A central database for resolving microbial strain identifiers | 10.60712/SI-ID397458.1 |