Strain identifier
BacDive ID: 130678
Type strain: 
Species: Sphingomonas aerophila
Strain Designation: 5413J-26
Strain history: <- S.-W. Kwon, KACC <- S.-J. Kim, Agricultural Microbiology Division, National Academy of Agricultural Science, Rural Development Administration, Suwon
NCBI tax ID(s): 1344948 (species)
version 8.1 (current version)
General
@ref: 21789
BacDive-ID: 130678
DSM-Number: 100044
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Sphingomonas aerophila 5413J-26 is a mesophilic, Gram-negative bacterium that was isolated from air.
NCBI tax id
- NCBI tax id: 1344948
- Matching level: species
strain history
- @ref: 21789
- history: <- S.-W. Kwon, KACC <- S.-J. Kim, Agricultural Microbiology Division, National Academy of Agricultural Science, Rural Development Administration, Suwon
doi: 10.13145/bacdive130678.20230509.8.1
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 aerophila
- full scientific name: Sphingomonas aerophila Kim et al. 2014
@ref: 21789
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Pseudomonadales
family: Sphingomonadaceae
genus: Sphingomonas
species: Sphingomonas aerophila
full scientific name: Sphingomonas aerophila Kim et al. 2014
strain designation: 5413J-26
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.984
Culture and growth conditions
culture medium
- @ref: 21789
- 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: 21789
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 99.988
Isolation, sampling and environmental information
isolation
- @ref: 21789
- sample type: air
- geographic location: Jeju Island
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
isolation source categories
- Cat1: #Environmental
- Cat2: #Air
taxonmaps
- @ref: 69479
- File name: preview.99_128141.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_8913;97_10718;98_85876;99_128141&stattab=map
- Last taxonomy: Sphingomonas aerophila subclade
- 16S sequence: KC735148
- Sequence Identity:
- Total samples: 825
- soil counts: 255
- aquatic counts: 67
- animal counts: 478
- plant counts: 25
Safety information
risk assessment
- @ref: 21789
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21789
- description: Sphingomonas aerophila strain 5413J-26 16S ribosomal RNA gene, partial sequence
- accession: KC735148
- length: 1428
- database: ena
- NCBI tax ID: 1344948
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Sphingomonas aerophila DSM 100044 | GCA_014199305 | contig | ncbi | 1344948 |
| 66792 | Sphingomonas aerophila strain DSM 100044 | 1344948.3 | wgs | patric | 1344948 |
| 66792 | Sphingomonas aerophila DSM 100044 | 2828409586 | draft | img | 1344948 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | yes | 53 | no |
| motile | yes | 62.767 | no |
| gram-positive | no | 97.305 | no |
| anaerobic | no | 99.422 | no |
| halophile | no | 95.56 | no |
| spore-forming | no | 93.848 | no |
| thermophile | no | 97.509 | yes |
| glucose-util | yes | 90.489 | no |
| aerobic | yes | 93.857 | no |
| flagellated | no | 91.209 | no |
| glucose-ferment | no | 89.107 | no |
External links
@ref: 21789
culture collection no.: DSM 100044, KACC 16533, NBRC 108942
straininfo link
- @ref: 89185
- straininfo: 402864
literature
- topic: Phylogeny
- Pubmed-ID: 24425812
- title: Sphingomonas aerophila sp. nov. and Sphingomonas naasensis sp. nov., isolated from air and soil, respectively.
- authors: Kim SJ, Moon JY, Lim JM, Ahn JH, Weon HY, Ahn TY, Kwon SW
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.055269-0
- year: 2013
- mesh: *Air Microbiology, Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/chemistry, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/chemistry
- 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 | |
| 21789 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-100044 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 100044) | |
| 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/ | |
| 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 | |
| 89185 | 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-ID402864.1 |