Strain identifier
BacDive ID: 54
Type strain: 
Species: Gluconobacter sp.
Strain history: IAM 1820 <-- T. Asai G-10 ("Gluconobacter melanogenus") <-- IFO 3292 <-- K. Kondo 24.
NCBI tax ID(s): 1876758 (species)
version 8.1 (current version)
General
@ref: 1400
BacDive-ID: 54
DSM-Number: 3504
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Gluconobacter sp. DSM 3504 is a mesophilic, motile bacterium of the family Acetobacteraceae.
NCBI tax id
- NCBI tax id: 1876758
- Matching level: species
strain history
| @ref | history |
|---|---|
| 1400 | <- ATCC (Gluconobacter oxydans) <- Takeda Chem. Ind., Ltd |
| 67770 | IAM 1820 <-- T. Asai G-10 ("Gluconobacter melanogenus") <-- IFO 3292 <-- K. Kondo 24. |
doi: 10.13145/bacdive54.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Gluconobacter
- species: Gluconobacter sp.
- full scientific name: Gluconobacter Asai 1935 (Approved Lists 1980)
@ref: 1400
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Gluconobacter
species: Gluconobacter sp.
full scientific name: Gluconobacter sp.
type strain: no
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 95.849 | |
| 69480 | 99.998 | negative |
Culture and growth conditions
culture medium
- @ref: 1400
- name: YPM MEDIUM (DSMZ Medium 360)
- growth: yes
- link: https://mediadive.dsmz.de/medium/360
- composition: Name: YPM MEDIUM (DSMZ Medium 360) Composition: Mannitol 25.0 g/l Agar 12.0 g/l Yeast extract 5.0 g/l Peptone 3.0 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 1400 | positive | growth | 26 | mesophilic |
| 67770 | positive | growth | 25 | mesophilic |
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.996 |
compound production
- @ref: 1400
- compound: 2 keto-L-gulonic acid
Isolation, sampling and environmental information
taxonmaps
- @ref: 69479
- File name: preview.99_530.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_336;97_374;98_430;99_530&stattab=map
- Last taxonomy: Gluconobacter
- 16S sequence: AB178422
- Sequence Identity:
- Total samples: 4981
- soil counts: 721
- aquatic counts: 546
- animal counts: 2856
- plant counts: 858
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Gluconobacter oxydans DNA, 16S-23S rRNA internal transcribed spacer, strain:NBRC 3292 | AB163858 | 688 | ena | 442 |
| 20218 | Gluconobacter oxydans gene for 16S rRNA, partial sequence, strain:NBRC 3292 | AB178422 | 1409 | ena | 442 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Gluconobacter oxydans DSM 3504 | GCA_000583855 | complete | ncbi | 1288313 |
| 66792 | Gluconobacter oxydans DSM 3504 | 1288313.3 | complete | patric | 1288313 |
| 66792 | Gluconobacter oxydans DSM 3504 | 1288313.4 | plasmid | patric | 1288313 |
| 66792 | Gluconobacter oxydans DSM 3504 | 2556793022 | complete | img | 1288313 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 69.672 | no |
| flagellated | no | 81.986 | no |
| gram-positive | no | 96.312 | no |
| anaerobic | no | 99.02 | no |
| halophile | no | 84.584 | no |
| spore-forming | no | 96.243 | no |
| glucose-util | yes | 89.571 | no |
| aerobic | yes | 78.85 | no |
| thermophile | no | 96.418 | no |
| glucose-ferment | no | 86.404 | no |
External links
@ref: 1400
culture collection no.: DSM 3504, ATCC 15163, IFO 3292, NBRC 3292, JCM 20281, IAM 1820, LMG 1384
straininfo link
- @ref: 69739
- straininfo: 14281
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 1400 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 3504) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-3504 | |||
| 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) | |||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
| 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 | |||
| 69739 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14281.1 | StrainInfo: A central database for resolving microbial strain identifiers |