Strain identifier
BacDive ID: 10500
Type strain: 
Species: Andreprevotia lacus
Strain Designation: GFC-1
Strain history: <- LMG <- W.-M. Chen, Natl. Kaohsiung Marine Univ. Taiwan; GFC-1
NCBI tax ID(s): 1121001 (strain), 1121000 (species)
version 8.1 (current version)
General
@ref: 16703
BacDive-ID: 10500
DSM-Number: 23236
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped
description: Andreprevotia lacus GFC-1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from fish-culture pond.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1121000 | species |
| 1121001 | strain |
strain history
- @ref: 16703
- history: <- LMG <- W.-M. Chen, Natl. Kaohsiung Marine Univ. Taiwan; GFC-1
doi: 10.13145/bacdive10500.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Neisseriales
- family: Chromobacteriaceae
- genus: Andreprevotia
- species: Andreprevotia lacus
- full scientific name: Andreprevotia lacus Sheu et al. 2009
@ref: 16703
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Neisseriales
family: Chromobacteriaceae
genus: Andreprevotia
species: Andreprevotia lacus
full scientific name: Andreprevotia lacus Sheu et al. 2009
strain designation: GFC-1
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 29238 | negative | 1.5 µm | 0.5 µm | rod-shaped | yes | |
| 69480 | yes | 92.843 | ||||
| 69480 | negative | 99.986 |
Culture and growth conditions
culture medium
- @ref: 16703
- 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 |
|---|---|---|---|---|
| 16703 | positive | growth | 28 | mesophilic |
| 29238 | positive | growth | 15-37 | |
| 29238 | positive | optimum | 30 | mesophilic |
culture pH
| @ref | ability | type | pH | PH range |
|---|---|---|---|---|
| 29238 | positive | growth | 7.0-9.0 | alkaliphile |
| 29238 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 29238
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 29238 | no | |
| 69481 | no | 100 |
| 69480 | no | 99.955 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 29238 | NaCl | positive | growth | 0-1 % |
| 29238 | NaCl | positive | optimum | 0.5 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29238 | 17128 | adipate | + | carbon source |
| 29238 | 22599 | arabinose | + | carbon source |
| 29238 | 16947 | citrate | + | carbon source |
| 29238 | 17234 | glucose | + | carbon source |
| 29238 | 25115 | malate | + | carbon source |
| 29238 | 17306 | maltose | + | carbon source |
| 29238 | 37684 | mannose | + | carbon source |
| 29238 | 17632 | nitrate | + | reduction |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 29238 | acid phosphatase | + | 3.1.3.2 |
| 29238 | alkaline phosphatase | + | 3.1.3.1 |
| 29238 | catalase | + | 1.11.1.6 |
| 29238 | cytochrome oxidase | + | 1.9.3.1 |
| 29238 | urease | + | 3.5.1.5 |
Isolation, sampling and environmental information
isolation
- @ref: 16703
- sample type: fish-culture pond
- geographic location: Taoyuan County
- country: Taiwan
- origin.country: TWN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Aquaculture |
| #Environmental | #Aquatic | #Pond (small) |
| #Host | #Fishes |
taxonmaps
- @ref: 69479
- File name: preview.99_5357.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_168;96_2598;97_3181;98_3995;99_5357&stattab=map
- Last taxonomy: Andreprevotia lacus subclade
- 16S sequence: EU287926
- Sequence Identity:
- Total samples: 1779
- soil counts: 668
- aquatic counts: 386
- animal counts: 623
- plant counts: 102
Safety information
risk assessment
- @ref: 16703
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 16703
- description: Neisseriaceae bacterium GFC-1 16S ribosomal RNA gene, partial sequence
- accession: EU287926
- length: 1398
- database: ena
- NCBI tax ID: 1121000
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Andreprevotia lacus DSM 23236 | GCA_900176275 | scaffold | ncbi | 1121001 |
| 66792 | Andreprevotia lacus DSM 23236 strain DSM 23236 | 1121001.3 | wgs | patric | 1121001 |
| 66792 | Andreprevotia lacus DSM 23236 | 2568526002 | draft | img | 1121001 |
GC content
| @ref | GC-content |
|---|---|
| 16703 | 63.0 |
| 29238 | 63 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 90.718 | yes |
| flagellated | yes | 83.585 | no |
| gram-positive | no | 98.091 | yes |
| anaerobic | no | 98.951 | yes |
| aerobic | yes | 85.564 | yes |
| halophile | no | 96.391 | yes |
| spore-forming | no | 92.555 | yes |
| thermophile | no | 99.5 | yes |
| glucose-util | yes | 89.612 | yes |
| glucose-ferment | no | 82.236 | no |
External links
@ref: 16703
culture collection no.: DSM 23236, BCRC 17832, LMG 24502
straininfo link
- @ref: 79777
- straininfo: 339715
literature
- topic: Phylogeny
- Pubmed-ID: 19622669
- title: Andreprevotia lacus sp. nov., isolated from a fish-culture pond.
- authors: Sheu SY, Chiu TF, Chou JH, Sheu DS, Arun AB, Young CC, Chen CA, Wang JT, Chen WM
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.009233-0
- year: 2009
- mesh: Animals, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/chemistry/metabolism, Fishes, Fresh Water/*microbiology, Molecular Sequence Data, Neisseriaceae/*classification/genetics/*isolation & purification/metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed | journal |
|---|---|---|---|---|---|---|---|
| 16703 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 23236) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-23236 | ||||
| 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 | ||||
| 29238 | 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 | 25658 | 28776041 | ||
| 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 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | ||
| 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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | ||||
| 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 | ||||
| 79777 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID339715.1 | StrainInfo: A central database for resolving microbial strain identifiers |