Strain identifier
BacDive ID: 131277
Type strain: 
Species: Sphingobium xanthum
Strain Designation: NL9
Strain history: <- LMG <- K. N. Jochimsen, Department of Plant Pathology, University of Florida; NL9
NCBI tax ID(s): 1387165 (species)
version 8.1 (current version)
General
@ref: 22504
BacDive-ID: 131277
DSM-Number: 100901
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, plant pathogen
description: Sphingobium xanthum NL9 is a mesophilic plant pathogen that was isolated from soil.
NCBI tax id
- NCBI tax id: 1387165
- Matching level: species
strain history
- @ref: 22504
- history: <- LMG <- K. N. Jochimsen, Department of Plant Pathology, University of Florida; NL9
doi: 10.13145/bacdive131277.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Sphingomonadaceae
- genus: Sphingobium
- species: Sphingobium xanthum
- full scientific name: Sphingobium xanthum Francis et al. 2014
@ref: 22504
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Pseudomonadales
family: Sphingomonadaceae
genus: Sphingobium
species: Sphingobium xanthum
full scientific name: Sphingobium xanthum Francis et al. 2014
strain designation: NL9
type strain: yes
Culture and growth conditions
culture medium
- @ref: 22504
- 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: 22504
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Isolation, sampling and environmental information
isolation
- @ref: 22504
- sample type: soil
- geographic location: Maasland
- country: Netherlands
- origin.country: NLD
- continent: Europe
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Safety information
risk assessment
- @ref: 22504
- pathogenicity plant: yes
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 22504
- description: Sphingobium xanthum strain NL9 16S ribosomal RNA gene, partial sequence
- accession: KF437579
- length: 1453
- database: ena
- NCBI tax ID: 1387165
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphingobium xanthum NL9 | GCA_019737615 | contig | ncbi | 1387165 |
| 66792 | Sphingobium xanthum DSM 100901 | 2828427071 | draft | img | 1387165 |
External links
@ref: 22504
culture collection no.: DSM 100901, ATCC 51296, LMG 12560
straininfo link
- @ref: 89721
- straininfo: 7191
literature
- topic: Phylogeny
- Pubmed-ID: 24436067
- title: Reclassification of rhizosphere bacteria including strains causing corky root of lettuce and proposal of Rhizorhapis suberifaciens gen. nov., comb. nov., Sphingobium mellinum sp. nov., Sphingobium xanthum sp. nov. and Rhizorhabdus argentea gen. nov., sp. nov.
- authors: Francis IM, Jochimsen KN, De Vos P, van Bruggen AHC
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.058909-0
- year: 2014
- mesh: Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Lettuce/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, Plant Diseases/*microbiology, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, Sphingomonadaceae/*classification/genetics/isolation & purification
- topic2: Genetics
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 | |
| 22504 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100901 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100901) | |
| 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 | |
| 89721 | 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-ID7191.1 |