Strain identifier
BacDive ID: 132321
Type strain: 
Species: Noviherbaspirillum sp.
Strain Designation: Root189
Strain history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root189 <- Y. Bai
NCBI tax ID(s): 1926288 (species)
version 9.1 (current version)
General
@ref: 24110
BacDive-ID: 132321
DSM-Number: 102481
keywords: genome sequence, Bacteria, Gram-negative
description: Noviherbaspirillum sp. Root189 is a Gram-negative bacterium that was isolated from roots of Arabidopsis thaliana ecotype Shakdara .
NCBI tax id
- NCBI tax id: 1926288
- Matching level: species
strain history
- @ref: 24110
- history: <- P. Schulze-Lefert, Max Planck Institute for Plant Breeding Research, Cologne, Germany; Root189 <- Y. Bai
doi: 10.13145/bacdive132321.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Oxalobacteraceae
- genus: Noviherbaspirillum
- species: Noviherbaspirillum sp.
- full scientific name: Noviherbaspirillum Lin et al. 2013
@ref: 24110
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Oxalobacteraceae
genus: Noviherbaspirillum
species: Noviherbaspirillum sp.
full scientific name: Noviherbaspirillum sp.
strain designation: Root189
type strain: no
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 98
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 24110 | TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) | yes | https://mediadive.dsmz.de/medium/545 | Name: TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545) Composition: Casein peptone 17.0 g/l NaCl 5.0 g/l Soy peptone 3.0 g/l D(+)-Glucose 2.5 g/l K2HPO4 2.5 g/l Distilled water |
| 24110 | 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 |
culture temp
- @ref: 24110
- growth: positive
- type: growth
- temperature: 28
Isolation, sampling and environmental information
isolation
- @ref: 24110
- sample type: roots of Arabidopsis thaliana ecotype Shakdara (Sha)
- 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 |
|---|---|---|
| #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 | Noviherbaspirillum sp. Root189 | GCA_001428545 | scaffold | ncbi | 1736487 |
| 66792 | Noviherbaspirillum sp. Root189 | 1736487.6 | wgs | patric | 1736487 |
| 66792 | Noviherbaspirillum sp. Root189 | 2643221603 | draft | img | 1736487 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 96.365 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 89.327 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 85.173 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 99.435 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 82.121 | no |
External links
@ref: 24110
culture collection no.: DSM 102481
straininfo link
- @ref: 90668
- straininfo: 405629
literature
- topic: Pathogenicity
- Pubmed-ID: 35897057
- title: Supercarriers of antibiotic resistome in a world's large river.
- authors: Wang J, Pan R, Dong P, Liu S, Chen Q, Borthwick AGL, Sun L, Xu N, Ni J
- journal: Microbiome
- DOI: 10.1186/s40168-022-01294-z
- year: 2022
- mesh: Anti-Bacterial Agents/pharmacology, Bacteria/genetics, Genes, Bacterial/genetics, Humans, *Microbiota, Plankton, *Rivers/microbiology, Water
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 | |
| 24110 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102481 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102481) | |
| 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 | |
| 90668 | 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-ID405629.1 |