Strain identifier
BacDive ID: 11876
Type strain: 
Species: Phyllobacterium trifolii
Strain Designation: PETP02
Strain history: <- E. Velázquez <- F. Fernández-Santos; PETP02 {1988}
NCBI tax ID(s): 300193 (species)
version 8.1 (current version)
General
@ref: 6893
BacDive-ID: 11876
DSM-Number: 17315
keywords: genome sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Phyllobacterium trifolii PETP02 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from nodules from Trifolium pratense.
NCBI tax id
- NCBI tax id: 300193
- Matching level: species
strain history
- @ref: 6893
- history: <- E. Velázquez <- F. Fernández-Santos; PETP02 {1988}
doi: 10.13145/bacdive11876.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Phyllobacteriaceae
- genus: Phyllobacterium
- species: Phyllobacterium trifolii
- full scientific name: Phyllobacterium trifolii Valverde et al. 2005
@ref: 6893
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Phyllobacteriaceae
genus: Phyllobacterium
species: Phyllobacterium trifolii
full scientific name: Phyllobacterium trifolii Valverde et al. 2005
strain designation: PETP02
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.989
Culture and growth conditions
culture medium
- @ref: 6893
- name: YMA-MEDIUM (DSMZ Medium 1031)
- growth: yes
- link: https://mediadive.dsmz.de/medium/1031
- composition: Name: YMA-MEDIUM (DSMZ Medium 1031) Composition: Agar 20.0 g/l Mannitol 10.0 g/l Yeast extract 0.3 g/l MgSO4 0.2 g/l K2HPO4 0.2 g/l NaCl 0.05 g/l Distilled water
culture temp
- @ref: 6893
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
oxygen tolerance
- @ref: 6893
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.99 |
Isolation, sampling and environmental information
isolation
- @ref: 6893
- sample type: nodules from Trifolium pratense
- host species: Trifolium pratense
- geographic location: Salamanca
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
| #Host Body-Site | #Plant | #Root nodule |
Safety information
risk assessment
- @ref: 6893
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Phyllobacterium trifolii CECT 7015 | GCA_014192095 | scaffold | ncbi | 300193 |
| 66792 | Phyllobacterium trifolii strain CECT 7015 | 300193.4 | wgs | patric | 300193 |
| 66792 | Phyllobacterium trifolii CECT 7015 | 2824382165 | draft | img | 300193 |
GC content
- @ref: 6893
- GC-content: 56.4
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 84.458 | no |
| gram-positive | no | 97.667 | no |
| anaerobic | no | 99.15 | yes |
| aerobic | yes | 94.685 | no |
| halophile | no | 89.59 | no |
| spore-forming | no | 95.78 | no |
| glucose-util | yes | 87.555 | no |
| thermophile | no | 98.97 | no |
| motile | yes | 81.315 | no |
| glucose-ferment | no | 88.343 | no |
External links
@ref: 6893
culture collection no.: DSM 17315, CECT 7015, LMG 22712
straininfo link
- @ref: 81093
- straininfo: 134817
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 16166699 | Phyllobacterium trifolii sp. nov., nodulating Trifolium and Lupinus in Spanish soils. | Valverde A, Velazquez E, Fernandez-Santos F, Vizcaino N, Rivas R, Mateos PF, Martinez-Molina E, Igual JM, Willems A | Int J Syst Evol Microbiol | 10.1099/ijs.0.63551-0 | 2005 | Alphaproteobacteria/*classification/genetics/physiology, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fatty Acids/analysis, Genes, rRNA, Lupinus/*microbiology, Molecular Sequence Data, *Nitrogen Fixation, Nucleic Acid Hybridization, Phenotype, Plant Roots/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spain, Species Specificity, Trifolium/*microbiology | Genetics |
| Phylogeny | 24271211 | Phyllobacterium loti sp. nov. isolated from nodules of Lotus corniculatus. | Sanchez M, Ramirez-Bahena MH, Peix A, Lorite MJ, Sanjuan J, Velazquez E, Monza J | Int J Syst Evol Microbiol | 10.1099/ijs.0.052993-0 | 2013 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Lotus/*microbiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phyllobacteriaceae/*classification/genetics/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Root Nodules, Plant/*microbiology, Sequence Analysis, DNA, Uruguay | Genetics |
| 25917130 | The O-specific polysaccharides from Phyllobacterium trifolii PETP02(T) LPS contain 3-C-methyl-D-rhamnose. | Zamlynska K, Komaniecka I, Turska-Szewczuk A, Pac M, Choma A | Carbohydr Res | 10.1016/j.carres.2015.02.013 | 2015 | Lipopolysaccharides/*chemistry, Magnetic Resonance Spectroscopy, O Antigens/chemistry, Phyllobacteriaceae/*chemistry, Rhamnose/*chemistry | ||
| Phylogeny | 28409238 | Studies on lipid A isolated from Phyllobacterium trifolii PETP02(T) lipopolysaccharide. | Zamlynska K, Komaniecka I, Zebracki K, Mazur A, Sroka-Bartnicka A, Choma A | Antonie Van Leeuwenhoek | 10.1007/s10482-017-0872-0 | 2017 | Fatty Acids/analysis, Glucosamine/analogs & derivatives/chemistry, Hexuronic Acids/chemistry, Lipid A/biosynthesis/*chemistry/isolation & purification, Lipopolysaccharides/*chemistry/isolation & purification, Magnetic Resonance Spectroscopy, Mesorhizobium/chemistry/genetics, Metabolic Networks and Pathways/genetics, Phyllobacteriaceae/*chemistry/genetics, Sequence Homology, Amino Acid, Spectrometry, Mass, Matrix-Assisted Laser Desorption-Ionization | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title |
|---|---|---|---|---|
| 6893 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17315) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-17315 | |
| 20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |
| 66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |
| 81093 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID134817.1 | StrainInfo: A central database for resolving microbial strain identifiers |