Strain identifier
BacDive ID: 141589
Type strain: 
Species: Achromobacter denitrificans
Strain history: IAM 12556 (Achromobacter denitrificans) <-- NCIB 9387 (Alcaligenes faecalis) <-- T. Beppu AIC-1.
NCBI tax ID(s): 32002 (species)
version 9.3 (current version)
General
@ref: 44647
BacDive-ID: 141589
keywords: genome sequence, Bacteria, mesophilic, Gram-negative
description: Achromobacter denitrificans CCUG 3353 is a mesophilic, Gram-negative bacterium that was isolated from Soil or water using Ls-alloisocitrate.
NCBI tax id
- NCBI tax id: 32002
- Matching level: species
strain history
- @ref: 67770
- history: IAM 12556 (Achromobacter denitrificans) <-- NCIB 9387 (Alcaligenes faecalis) <-- T. Beppu AIC-1.
doi: 10.13145/bacdive141589.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Alcaligenaceae
- genus: Achromobacter
- species: Achromobacter denitrificans
- full scientific name: Achromobacter denitrificans (Rüger and Tan 1983 ex Leifson and Hugh 1954) Coenye et al. 2003
synonyms
@ref synonym 20215 Alcaligenes denitrificans 20215 Achromobacter xylosoxidans subsp. denitrificans 20215 Alcaligenes xylosoxidans subsp. denitrificans
@ref: 44647
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Alcaligenaceae
genus: Achromobacter
species: Achromobacter denitrificans
type strain: no
Morphology
cell morphology
- @ref: 125438
- gram stain: negative
- confidence: 97.828
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Isolation, sampling and environmental information
isolation
| @ref | sample type |
|---|---|
| 44647 | Soil or water using Ls-alloisocitrate |
| 67770 | Soil or water using allo-isocitrate as sole carbon source |
isolation source categories
- Cat1: #Environmental
- Cat2: #Terrestrial
- Cat3: #Soil
Sequence information
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Achromobacter deleyi strain LMG 3412 | 1353891.8 | wgs | patric | 1353891 |
| 67770 | Achromobacter deleyi LMG 3412 | GCA_902860095 | contig | ncbi | 1353891 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.828 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 98.193 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 88.858 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 88.829 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 98.961 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 83.865 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 87.5 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 51.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | positive | 71.4 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 87.9 |
External links
@ref: 44647
culture collection no.: CCUG 3353, IAM 12556, JCM 20635, LMG 3412, NCIMB 9387
straininfo link
- @ref: 97231
- straininfo: 818
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 | |
| 44647 | Curators of the CCUG | https://www.ccug.se/strain?id=3353 | Culture Collection University of Gothenburg (CCUG) (CCUG 3353) | |
| 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 | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 97231 | 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-ID818.1 | |
| 125438 | Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann | Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets | 10.1101/2024.08.12.607695 | |
| 125439 | Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy | deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 | https://github.com/GenomeNet/deepG |