Strain identifier
BacDive ID: 24560
Type strain: 
Species: Sphingomonas melonis
Strain Designation: Fr1
Strain history: <- A. Francez-Charlot, ETH, Zürich, Switzerland; FR1 <- C. Knief
NCBI tax ID(s): 152682 (species)
version 8.1 (current version)
General
@ref: 20817
BacDive-ID: 24560
DSM-Number: 24958
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Sphingomonas melonis Fr1 is a mesophilic plant pathogen that was isolated from Arabidopsis thaliana fruit.
NCBI tax id
- NCBI tax id: 152682
- Matching level: species
strain history
- @ref: 20817
- history: <- A. Francez-Charlot, ETH, Zürich, Switzerland; FR1 <- C. Knief
doi: 10.13145/bacdive24560.20230509.8.1
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 melonis
- full scientific name: Sphingomonas melonis Buonaurio et al. 2002
@ref: 20817
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Pseudomonadales
family: Sphingomonadaceae
genus: Sphingomonas
species: Sphingomonas melonis
full scientific name: Sphingomonas melonis Buonaurio et al. 2002
strain designation: Fr1
type strain: no
Culture and growth conditions
culture medium
- @ref: 20817
- name: NUTRIENT AGAR (DSMZ Medium 1)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1
- composition: 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: 20817
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 20817
- sample type: Arabidopsis thaliana fruit
- host species: Arabidopsis thaliana
- geographic location: Madrid
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Fruit (Seed) |
taxonmaps
- @ref: 69479
- File name: preview.99_548.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_348;97_388;98_445;99_548&stattab=map
- Last taxonomy: Sphingomonas
- 16S sequence: FR696367
- Sequence Identity:
- Total samples: 2932
- soil counts: 447
- aquatic counts: 1091
- animal counts: 1087
- plant counts: 307
Safety information
risk assessment
- @ref: 20817
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 20817
- description: Sphingomonas sp. Fr1 partial 16S rRNA gene, strain Fr1
- accession: FR696367
- length: 1401
- database: ena
- NCBI tax ID: 907061
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphingomonas melonis FR1 | 1090317.4 | wgs | patric | 1090317 |
| 66792 | Sphingomonas melonis FR1 | 2517093015 | draft | img | 1090317 |
| 66792 | Sphingomonas melonis FR1 | GCA_000419565 | contig | ncbi | 1090317 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| motile | yes | 73.18 | no |
| flagellated | no | 90.332 | no |
| gram-positive | no | 97.079 | no |
| anaerobic | no | 99.174 | no |
| aerobic | yes | 95.37 | no |
| halophile | no | 95.11 | no |
| spore-forming | no | 95.796 | no |
| glucose-util | yes | 91.869 | no |
| thermophile | no | 99.076 | no |
| glucose-ferment | no | 91.127 | no |
External links
@ref: 20817
culture collection no.: DSM 24958
straininfo link
- @ref: 88414
- straininfo: 403417
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 | |
| 20817 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-24958 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 24958) | |
| 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 | |
| 69479 | João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |
| 88414 | 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-ID403417.1 |