Strain identifier
BacDive ID: 12717
Type strain:
Species: Azomonas agilis
Strain history: <- ATCC <- N.R. Smith <- D. Burk <- H.W. Reuszer <- A.J. Kluyver (Azotobacter agilis)
NCBI tax ID(s): 1121031 (strain), 116849 (species)
General
@ref: 163
BacDive-ID: 12717
DSM-Number: 375
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Azomonas agilis DSM 375 is a mesophilic, motile bacterium of the family Pseudomonadaceae.
NCBI tax id
NCBI tax id | Matching level |
---|---|
116849 | species |
1121031 | strain |
strain history
- @ref: 163
- history: <- ATCC <- N.R. Smith <- D. Burk <- H.W. Reuszer <- A.J. Kluyver (Azotobacter agilis)
doi: 10.13145/bacdive12717.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Pseudomonadales
- family: Pseudomonadaceae
- genus: Azomonas
- species: Azomonas agilis
- full scientific name: Azomonas agilis (Beijerinck 1901) Winogradsky 1938 (Approved Lists 1980)
synonyms
- @ref: 20215
- synonym: Azotobacter agilis
@ref: 163
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Pseudomonadales
family: Pseudomonadaceae
genus: Azomonas
species: Azomonas agilis
full scientific name: Azomonas agilis (Beijerinck 1901) Winogradsky 1938
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | yes | 98.03 | |
69480 | 99.998 | negative |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
163 | DIAZOTROPHIC MEDIUM (RBA) (DSMZ Medium 441) | yes | https://mediadive.dsmz.de/medium/441 | Name: DIAZOTROPHIC MEDIUM (RBA) (DSMZ Medium 441) Composition: Agar 14.881 g/l DL-Malate 1.98413 g/l D-Glucose 1.98413 g/l D-Mannitol 1.98413 g/l Na-pyruvate 0.992063 g/l Disodium succinate 0.992063 g/l K2HPO4 0.892857 g/l KH2PO4 0.0992065 g/l NaCl 0.0992065 g/l CaCl2 x 2 H2O 0.0992065 g/l MgSO4 x 7 H2O 0.0992065 g/l Yeast extract 0.0496032 g/l FeSO4 x 7 H2O 0.00992065 g/l MnSO4 x H2O 0.00496032 g/l NaVO3 x H2O 0.00496032 g/l Nicotinic acid 0.00248016 g/l Pyridoxine hydrochloride 0.00248016 g/l Calcium pantothenate 0.00248016 g/l Thiamine-HCl x 2 H2O 0.00248016 g/l H3BO3 0.000892857 g/l CoCl2 x 6 H2O 0.000595238 g/l Riboflavin 0.000496032 g/l ZnSO4 x 7 H2O 0.000297619 g/l MnCl2 x 4 H2O 8.92857e-05 g/l Na2MoO4 x 2 H2O 8.92857e-05 g/l NiCl2 x 6 H2O 5.95238e-05 g/l Vitamin B12 4.96032e-05 g/l CuCl2 x 2 H2O 2.97619e-05 g/l Folic acid 9.92063e-06 g/l Biotin 4.96032e-06 g/l Distilled water |
163 | AZOTOBACTER MEDIUM (DSMZ Medium 3) | yes | https://mediadive.dsmz.de/medium/3 | Name: AZOTOBACTER MEDIUM (DSMZ Medium 3) Composition: Agar 15.0 g/l CaCO3 5.0 g/l Glucose 5.0 g/l Mannitol 5.0 g/l K2HPO4 0.9 g/l KH2PO4 0.1 g/l MgSO4 x 7 H2O 0.1 g/l CaCl2 x 2 H2O 0.1 g/l FeSO4 x 7 H2O 0.01 g/l Na2MoO4 x 2 H2O 0.005 g/l Distilled water |
culture temp
- @ref: 163
- growth: positive
- type: growth
- temperature: 26
- range: mesophilic
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.983 |
compound production
@ref | compound |
---|---|
163 | fluorescent pigment |
163 | polyhydroxyalkanoic acids |
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_115427.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_23;96_18646;97_58772;98_78038;99_115427&stattab=map
- Last taxonomy: Azomonas agilis subclade
- 16S sequence: AB681882
- Sequence Identity:
- Total samples: 32
- soil counts: 6
- aquatic counts: 13
- animal counts: 9
- plant counts: 4
Safety information
risk assessment
- @ref: 163
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Azomonas agilis gene for 16S rRNA, partial sequence, strain: NBRC 102607 | AB681882 | 1462 | ena | 116849 |
20218 | Azomonas agilis gene for 16S rRNA, partial sequence | AB175652 | 1451 | ena | 116849 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Azomonas agilis DSM 375 | GCA_007830255 | scaffold | ncbi | 116849 |
66792 | Azomonas agilis strain DSM 375 | 116849.3 | wgs | patric | 116849 |
66792 | Azomonas agilis DSM 375 | 2596583523 | draft | img | 116849 |
GC content
- @ref: 163
- GC-content: 51.9
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | yes | 86.383 | no |
flagellated | yes | 67.803 | no |
gram-positive | no | 98.958 | no |
anaerobic | no | 91.102 | no |
aerobic | yes | 64.746 | no |
halophile | no | 93.649 | no |
spore-forming | no | 94.595 | no |
thermophile | no | 97.778 | no |
glucose-util | no | 56.033 | no |
glucose-ferment | no | 90.774 | no |
External links
@ref: 163
culture collection no.: DSM 375, ATCC 7494, CCUG 53669, LMG 3842, IAM 15039, LMG 14901, LMG 8754, NCIMB 12097
straininfo link
- @ref: 81926
- straininfo: 1012
literature
- topic: Enzymology
- Pubmed-ID: 1987127
- title: Detection of alternative nitrogenases in aerobic gram-negative nitrogen-fixing bacteria.
- authors: Fallik E, Chan YK, Robson RL
- journal: J Bacteriol
- DOI: 10.1128/jb.173.1.365-371.1991
- year: 1991
- mesh: Azotobacter/enzymology/genetics, DNA Probes, DNA, Bacterial/genetics/isolation & purification, Escherichia coli/genetics, *Genes, Bacterial, Gram-Negative Aerobic Bacteria/enzymology/*genetics, *Nitrogen Fixation, Nitrogenase/*genetics, Nucleic Acid Hybridization, Pseudomonas/enzymology/genetics, Rhizobium/enzymology/genetics, Species Specificity
- topic2: Phylogeny
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
163 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 375) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-375 | |||
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 | |
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 | |
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 | |||
81926 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID1012.1 | StrainInfo: A central database for resolving microbial strain identifiers |