Strain identifier
BacDive ID: 17461
Type strain:
Species: Frateuria terrea
Strain Designation: VA24
Strain history: <- NBRC <- CGMCC <- J.-Y. Zhang, Chinese Academy of Sciences
NCBI tax ID(s): 529704 (species)
General
@ref: 18250
BacDive-ID: 17461
DSM-Number: 26515
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Frateuria terrea VA24 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from forest soil.
NCBI tax id
- NCBI tax id: 529704
- Matching level: species
strain history
- @ref: 18250
- history: <- NBRC <- CGMCC <- J.-Y. Zhang, Chinese Academy of Sciences
doi: 10.13145/bacdive17461.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Lysobacterales
- family: Rhodanobacteraceae
- genus: Frateuria
- species: Frateuria terrea
- full scientific name: Frateuria terrea Zhang et al. 2011
@ref: 18250
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Xanthomonadales
family: Rhodanobacteraceae
genus: Frateuria
species: Frateuria terrea
full scientific name: Frateuria terrea Zhang et al. 2011
strain designation: VA24
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
29809 | negative | 3 µm | 0.4 µm | rod-shaped | yes | |
69480 | yes | 95.263 | ||||
69480 | negative | 99.995 |
colony morphology
- @ref: 18250
- incubation period: 3-7 days
pigmentation
- @ref: 29809
- production: yes
Culture and growth conditions
culture medium
- @ref: 18250
- name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 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 | growth | type | temperature | range |
---|---|---|---|---|
18250 | positive | growth | 28 | mesophilic |
29809 | positive | growth | 19-36 | |
29809 | positive | optimum | 33 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
29809 | positive | growth | 05-09 | alkaliphile |
29809 | positive | optimum | 7.25 |
Physiology and metabolism
oxygen tolerance
- @ref: 29809
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
29809 | no | |
69481 | no | 100 |
69480 | no | 99.96 |
halophily
- @ref: 29809
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: <1 %
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
29809 | 22599 | arabinose | + | carbon source |
29809 | 33984 | fucose | + | carbon source |
29809 | 28260 | galactose | + | carbon source |
29809 | 24265 | gluconate | + | carbon source |
29809 | 17234 | glucose | + | carbon source |
29809 | 17306 | maltose | + | carbon source |
29809 | 37684 | mannose | + | carbon source |
29809 | 506227 | N-acetylglucosamine | + | carbon source |
29809 | 27082 | trehalose | + | carbon source |
29809 | 4853 | esculin | + | hydrolysis |
enzymes
@ref | value | activity | ec |
---|---|---|---|
29809 | acid phosphatase | + | 3.1.3.2 |
29809 | alkaline phosphatase | + | 3.1.3.1 |
29809 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 18250
- sample type: forest soil
- geographic location: Changbai Mountains, Heilongjiang province
- country: China
- origin.country: CHN
- continent: Asia
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Terrestrial | #Forest |
#Environmental | #Terrestrial | #Soil |
Safety information
risk assessment
- @ref: 18250
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Frateuria terrea gene for 16S rRNA, partial sequence, strain: NBRC 104236 | AB682159 | 1464 | ena | 529704 |
18250 | Frateuria terrea strain VA24 16S ribosomal RNA gene, partial sequence | EU682683 | 1531 | ena | 529704 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Frateuria terrea DSM 26515 | GCA_900109025 | scaffold | ncbi | 529704 |
66792 | Frateuria terrea CGMCC 1.7053 | GCA_900115705 | scaffold | ncbi | 529704 |
66792 | Frateuria terrea strain CGMCC 1.7053 | 529704.3 | wgs | patric | 529704 |
66792 | Frateuria terrea strain DSM 26515 | 529704.4 | wgs | patric | 529704 |
66792 | Frateuria terrea DSM 26515 | 2617270826 | draft | img | 529704 |
66792 | Frateuria terrea CGMCC 1.7053 | 2597490373 | draft | img | 529704 |
GC content
- @ref: 18250
- GC-content: 67.4
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
glucose-ferment | no | 88.576 | no |
motile | yes | 80.386 | no |
flagellated | no | 87.701 | no |
gram-positive | no | 98.051 | yes |
anaerobic | no | 98.152 | yes |
aerobic | yes | 83.074 | yes |
halophile | no | 94.282 | yes |
spore-forming | no | 95.471 | yes |
thermophile | no | 98.213 | yes |
glucose-util | yes | 87.287 | yes |
External links
@ref: 18250
culture collection no.: DSM 26515, CGMCC 1.7053, NBRC 104236
straininfo link
- @ref: 86457
- straininfo: 402626
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20348318 | Frateuria terrea sp. nov., isolated from forest soil, and emended description of the genus Frateuria. | Zhang JY, Liu XY, Liu SJ | Int J Syst Evol Microbiol | 10.1099/ijs.0.021618-0 | 2010 | Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/analysis, Flagella/microbiology, Genotype, Molecular Sequence Data, Phenotype, Phosphatidylethanolamines/analysis, *Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Trees/*microbiology, Xanthomonadaceae/*classification/genetics/isolation & purification | Genetics |
Phylogeny | 34919040 | Frateuria flava sp. nov., isolated from soil. | Akter S, Lee SY, Huq MA | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005171 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gammaproteobacteria/*classification/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed | ID_cross_reference |
---|---|---|---|---|---|---|---|
18250 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26515) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-26515 | ||||
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 | ||||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | ||
29809 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 28776041 | 26186 | ||
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) | ||||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | ||
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 | ||||
86457 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID402626.1 | StrainInfo: A central database for resolving microbial strain identifiers |