Strain identifier
BacDive ID: 156534
Type strain: 
Species: Achromobacter anxifer
Strain Designation: Vandamme R-47433, LiPuma AU11412
Strain history: CIP <- 2014, LMG <- 2012, P. Vandamme, Gent Univ., Gent, Belgium: strain Vandamme R-47433 <- 2006, J. Lipuma, Michigan Univ., Michigan, USA strain: LiPuma AU11412
NCBI tax ID(s): 1287737 (species)
version 9.3 (current version)
General
@ref: 62848
BacDive-ID: 156534
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Achromobacter anxifer Vandamme R-47433 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from human sputum, CF patient.
NCBI tax id
- NCBI tax id: 1287737
- Matching level: species
strain history
- @ref: 116418
- history: CIP <- 2014, LMG <- 2012, P. Vandamme, Gent Univ., Gent, Belgium: strain Vandamme R-47433 <- 2006, J. Lipuma, Michigan Univ., Michigan, USA strain: LiPuma AU11412
doi: 10.13145/bacdive156534.20250331.9.3
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 anxifer
- full scientific name: Achromobacter anxifer Vandamme et al. 2014
@ref: 62848
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Alcaligenaceae
genus: Achromobacter
species: Achromobacter anxifer
strain designation: Vandamme R-47433, LiPuma AU11412
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | cell shape | motility |
|---|---|---|---|---|
| 125439 | negative | 99.1 | ||
| 125438 | negative | 97.597 | ||
| 116418 | negative | rod-shaped | yes |
colony morphology
- @ref: 62848
- incubation period: 1 day
Culture and growth conditions
culture medium
- @ref: 116418
- name: CIP Medium 72
- growth: yes
- link: https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72
culture temp
- @ref: 62848
- growth: positive
- type: growth
- temperature: 37
Physiology and metabolism
oxygen tolerance
| @ref | oxygen tolerance | confidence |
|---|---|---|
| 62848 | aerobe | |
| 125438 | aerobe | 91.124 |
| 125439 | obligate aerobe | 97.5 |
spore formation
- @ref: 125439
- spore formation: no
- confidence: 98.8
Isolation, sampling and environmental information
isolation
| @ref | sample type | country | origin.country | continent | isolation date |
|---|---|---|---|---|---|
| 62848 | human sputum, CF patient | USA | USA | North America | |
| 116418 | Human, Sputum | United States of America | USA | North America | 2006-01-02 |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Human | |
| #Host Body Product | #Fluids | #Sputum |
| #Infection | #Disease | #Cystic fibrosis |
| #Infection | #Patient |
Safety information
risk assessment
- @ref: 116418
- biosafety level: 1
- biosafety level comment: Risk group (French classification)
Sequence information
16S sequences
- @ref: 124043
- description: Achromobacter anxifer partial 16S rRNA gene, type strain LMG 26857T
- accession: HF586508
- length: 1483
- database: nuccore
- NCBI tax ID: 1287737
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Achromobacter anxifer LMG 26857 | GCA_903652925 | contig | ncbi | 1287737 |
| 66792 | Achromobacter anxifer strain LMG 26857 | 1287737.4 | wgs | patric | 1287737 |
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.597 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 97.983 | yes |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 89.36 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 91.124 | yes |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 99.986 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 86.41 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 98.8 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 85.9 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.1 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | obligate aerobe | 97.5 |
External links
@ref: 62848
culture collection no.: CCUG 62444, LMG 26857, CIP 110712
straininfo link
- @ref: 109755
- straininfo: 376313
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 23891345 | Classification of Achromobacter genogroups 2, 5, 7 and 14 as Achromobacter insuavis sp. nov., Achromobacter aegrifaciens sp. nov., Achromobacter anxifer sp. nov. and Achromobacter dolens sp. nov., respectively. | Vandamme P, Moore ER, Cnockaert M, Peeters C, Svensson-Stadler L, Houf K, Spilker T, LiPuma JJ | Syst Appl Microbiol | 10.1016/j.syapm.2013.06.005 | 2013 | Achromobacter/chemistry/*classification/genetics/physiology, Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, Fatty Acids/analysis, Genotype, Molecular Sequence Data, Multilocus Sequence Typing, Phylogeny | Genetics |
| Phylogeny | 33033853 | Achromobacter aestuarii sp. nov., Isolated from an Estuary. | Kim SC, Chung SO, Lee HJ | Curr Microbiol | 10.1007/s00284-020-02231-9 | 2020 | *Achromobacter, Bacterial Typing Techniques, DNA, Bacterial/genetics, *Estuaries, Fatty Acids/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA | Transcriptome |
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 | |
| 62848 | Curators of the CCUG | https://www.ccug.se/strain?id=62444 | Culture Collection University of Gothenburg (CCUG) (CCUG 62444) | |
| 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 | |
| 109755 | 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-ID376313.1 | |
| 116418 | Curators of the CIP | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110712 | Collection of Institut Pasteur (CIP 110712) | |
| 124043 | Isabel Schober, Julia Koblitz | Data extracted from sequence databases, automatically matched based on designation and taxonomy | ||
| 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 |