Strain identifier
BacDive ID: 131953
Type strain: 
Species: Sphingomonas sp.
Strain Designation: Leaf20
Strain history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf20 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann
NCBI tax ID(s): 28214 (species)
version 8.1 (current version)
General
@ref: 23745
BacDive-ID: 131953
DSM-Number: 102736
keywords: genome sequence, Bacteria, mesophilic
description: Sphingomonas sp. Leaf20 is a mesophilic bacterium that was isolated from leaf of wild-type Arabidopsis thaliana.
NCBI tax id
- NCBI tax id: 28214
- Matching level: species
strain history
- @ref: 23745
- history: <- J. A. Vorholt, Institute of Microbiology, ETH Zurich, Switzerland; Leaf20 <- D. B. Müller, E. Potthoff and M. Remus-Emsermann
doi: 10.13145/bacdive131953.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Sphingomonadaceae
- genus: Sphingomonas
- species: Sphingomonas sp.
- full scientific name: Sphingomonas Yabuuchi et al. 1990
@ref: 23745
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Pseudomonadales
family: Sphingomonadaceae
genus: Sphingomonas
species: Sphingomonas sp.
full scientific name: Sphingomonas sp.
strain designation: Leaf20
type strain: no
Culture and growth conditions
culture medium
- @ref: 23745
- name: R2A MEDIUM (DSMZ Medium 830)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830
- composition: Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
- @ref: 23745
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 23745
- sample type: leaf of wild-type Arabidopsis thaliana
- host species: Arabidopsis thaliana
- geographic location: Brugg (47.4816806N 8.217547222E)
- country: Switzerland
- origin.country: CHE
- continent: Europe
- latitude: 47.4817
- longitude: 8.2176
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Leaf (Phyllosphere) |
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphingomonas sp. Leaf20 | GCA_001421535 | contig | ncbi | 1735685 |
| 66792 | Sphingomonas sp. Leaf20 | 1735685.3 | wgs | patric | 1735685 |
| 66792 | Sphingomonas sp. Leaf20 | 2643221751 | draft | img | 1735685 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 75.444 | no |
| gram-positive | no | 96.74 | no |
| anaerobic | no | 99.021 | no |
| aerobic | yes | 95.397 | no |
| halophile | no | 90.358 | no |
| spore-forming | no | 94.516 | no |
| thermophile | no | 99.098 | yes |
| glucose-util | yes | 88.266 | no |
| flagellated | no | 91.215 | no |
| glucose-ferment | no | 89.912 | no |
External links
@ref: 23745
culture collection no.: DSM 102736
straininfo link
- @ref: 90340
- straininfo: 396964
literature
- topic: Genetics
- Pubmed-ID: 35839908
- title: Metagenomic insight into the microbial degradation of organic compounds in fermented plant leaves.
- authors: Tao J, Chen Q, Chen S, Lu P, Chen Y, Jin J, Li J, Xu Y, He W, Long T, Deng X, Yin H, Li Z, Fan J, Cao P
- journal: Environ Res
- DOI: 10.1016/j.envres.2022.113902
- year: 2022
- mesh: Cellulose, Lignin, *Metagenome, *Metagenomics, Microbial Consortia, Plant Leaves
- topic2: Metabolism
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 | |
| 23745 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-102736 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 102736) | |
| 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 | |
| 90340 | 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-ID396964.1 |