Strain identifier
BacDive ID: 139835
Type strain: 
Species: Acidovorax carolinensis
Strain Designation: NA3
Strain history: <- D. Singleton, Univ. North Carolina at Chapel Hill, USA; NA3
NCBI tax ID(s): 553814 (species)
version 9.1 (current version)
General
@ref: 42443
BacDive-ID: 139835
DSM-Number: 105008
keywords: genome sequence, 16S sequence, Bacteria, Gram-negative
description: Acidovorax carolinensis NA3 is a Gram-negative bacterium that was isolated from contaminated soil.
NCBI tax id
- NCBI tax id: 553814
- Matching level: species
strain history
- @ref: 42443
- history: <- D. Singleton, Univ. North Carolina at Chapel Hill, USA; NA3
doi: 10.13145/bacdive139835.20240916.9.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Acidovorax
- species: Acidovorax carolinensis
- full scientific name: Acidovorax carolinensis Singleton et al. 2020
@ref: 42443
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Acidovorax
species: Acidovorax carolinensis
full scientific name: Acidovorax carolinensis Singleton et al. 2020
strain designation: NA3
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 42443 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | 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 |
| 42443 | R2A MEDIUM (DSMZ Medium 830) | yes | https://mediadive.dsmz.de/medium/830 | 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: 42443
- growth: positive
- type: growth
- temperature: 30
Isolation, sampling and environmental information
isolation
- @ref: 42443
- sample type: contaminated soil
- geographic location: North Carolina, Chapel Hill, Charlotte
- country: USA
- origin.country: USA
- continent: North America
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Contamination | |
| #Environmental | #Terrestrial | #Soil |
taxonmaps
- @ref: 69479
- File name: preview.99_4932.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_644;99_4932&stattab=map
- Last taxonomy: Acidovorax
- 16S sequence: EU910093
- Sequence Identity:
- Total samples: 39
- soil counts: 3
- aquatic counts: 28
- animal counts: 4
- plant counts: 4
Sequence information
16S sequences
- @ref: 42443
- description: Acidovorax sp. NA3 16S ribosomal RNA gene, partial sequence
- accession: EU910093
- length: 1497
- database: nuccore
- NCBI tax ID: 553814
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acidovorax carolinensis NA3 | GCA_002157145 | complete | ncbi | 553814 |
| 66792 | Acidovorax carolinensis NA3 | 2808606526 | complete | img | 553814 |
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 99 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.46 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 84.703 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 87.138 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 95.897 | yes |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 78.162 | no |
External links
@ref: 42443
culture collection no.: DSM 105008
straininfo link
- @ref: 96276
- straininfo: 404151
literature
- topic: Phylogeny
- Pubmed-ID: 29937052
- title: Polyphasic characterization of four soil-derived phenanthrene-degrading Acidovorax strains and proposal of Acidovorax carolinensis sp. nov.
- authors: Singleton DR, Lee J, Dickey AN, Stroud A, Scholl EH, Wright FA, Aitken MD
- journal: Syst Appl Microbiol
- DOI: 10.1016/j.syapm.2018.06.001
- year: 2018
- mesh: Biodegradation, Environmental, Comamonadaceae/chemistry/*classification/genetics/*physiology, DNA, Bacterial, Genes, Bacterial, Genome, Bacterial/genetics, Metabolic Networks and Pathways/genetics, North Carolina, Phenanthrenes/*metabolism, *Phylogeny, RNA, Ribosomal, 16S, Sequence Analysis, DNA, *Soil Microbiology, Soil Pollutants/metabolism
- 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 | |
| 42443 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105008 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105008) | |
| 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 | |
| 96276 | 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-ID404151.1 |