Strain identifier
BacDive ID: 23
Type strain: 
Species: Acetobacter fabarum
Strain Designation: 985, R-36330
Strain history: <- L. De Vuyst, Vrije Univ. Brussels, Belgium; 985 <- N. Camu
NCBI tax ID(s): 1307906 (strain), 483199 (species)
version 8.1 (current version)
General
@ref: 8200
BacDive-ID: 23
DSM-Number: 19596
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative, motile, rod-shaped, colony-forming
description: Acetobacter fabarum 985 is a mesophilic, Gram-negative, motile bacterium that forms circular colonies and was isolated from cocoa bean heap fermentation.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 483199 | species |
| 1307906 | strain |
strain history
- @ref: 8200
- history: <- L. De Vuyst, Vrije Univ. Brussels, Belgium; 985 <- N. Camu
doi: 10.13145/bacdive23.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Rhodospirillales
- family: Acetobacteraceae
- genus: Acetobacter
- species: Acetobacter fabarum
- full scientific name: Acetobacter fabarum Cleenwerck et al. 2008
@ref: 8200
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acetobacter
species: Acetobacter fabarum
full scientific name: Acetobacter fabarum Cleenwerck et al. 2008
strain designation: 985, R-36330
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 23238 | negative | 1.2-3.0 µm | 0.8 µm | rod-shaped | yes | |
| 69480 | negative | 99.978 |
colony morphology
- @ref: 23238
- colony size: 0.8 mm
- colony color: beige
- colony shape: circular
- incubation period: 3 days
- medium used: Z1 agar
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 8200 | MANNITOL-YEAST EXTRACT-PEPTONE (DSMZ Medium 1087) | yes | https://mediadive.dsmz.de/medium/1087 | Name: MANNITOL-YEAST EXTRACT-PEPTONE (MYP) (DSMZ Medium 1087) Composition: D-Mannitol 25.0 g/l Agar 15.0 g/l Yeast extract 5.0 g/l Peptone 3.0 g/l Distilled water |
| 23238 | Z1 agar | yes | 2 % yeast extract, 2 % calcium lactate, 1.5 % agar; w/v |
culture temp
- @ref: 8200
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.961 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 23238 | 17306 | maltose | - | growth |
| 23238 | 65327 | D-xylose | + | growth |
| 23238 | 17790 | methanol | + | growth |
| 23238 | 16236 | ethanol | + | oxidation |
metabolite production
| @ref | Chebi-ID | metabolite | production |
|---|---|---|---|
| 23238 | 17426 | 5-dehydro-D-gluconate | no |
| 23238 | 16808 | 2-dehydro-D-gluconate | no |
| 23238 | 18391 | D-gluconate | yes |
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 23238 | catalase | + | 1.11.1.6 |
| 23238 | cytochrome oxidase | - | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
- @ref: 8200
- sample type: cocoa bean heap fermentation
- country: Ghana
- origin.country: GHA
- continent: Africa
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | |
| #Host Body-Site | #Plant | #Fruit (Seed) |
taxonmaps
- @ref: 69479
- File name: preview.99_1246.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_163;98_985;99_1246&stattab=map
- Last taxonomy: Acetobacter
- 16S sequence: AM905849
- Sequence Identity:
- Total samples: 3246
- soil counts: 352
- aquatic counts: 428
- animal counts: 2157
- plant counts: 309
Safety information
risk assessment
- @ref: 8200
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Acetobacter fabarum gene for 16S ribosomal RNA, partial sequence, strain: LMG 24244 | AB665084 | 1412 | ena | 483199 |
| 8200 | Acetobacter fabarum partial 16S rRNA gene, type strain R-36330T | AM905849 | 1442 | ena | 483199 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetobacter fabarum LMG 24244 | GCA_011516925 | contig | ncbi | 483199 |
| 66792 | Acetobacter fabarum strain LMG 24244 | 483199.11 | wgs | patric | 483199 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 8200 | 57.6 | high performance liquid chromatography (HPLC) |
| 23238 | 57.60 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 97.714 | yes |
| anaerobic | no | 98.066 | no |
| halophile | no | 92.813 | no |
| spore-forming | no | 95.421 | no |
| glucose-util | yes | 78.748 | no |
| aerobic | yes | 90.992 | no |
| thermophile | no | 97.473 | no |
| motile | yes | 71.774 | no |
| flagellated | no | 85.425 | no |
| glucose-ferment | no | 91.438 | no |
External links
@ref: 8200
culture collection no.: DSM 19596, LMG 24244
straininfo link
- @ref: 69707
- straininfo: 309084
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 18768626 | Acetobacter fabarum sp. nov., an acetic acid bacterium from a Ghanaian cocoa bean heap fermentation. | Cleenwerck I, Gonzalez A, Camu N, Engelbeen K, De Vos P, De Vuyst L | Int J Syst Evol Microbiol | 10.1099/ijs.0.65778-0 | 2008 | Acetic Acid/*metabolism, Acetobacter/*classification/genetics/*isolation & purification, Bacterial Typing Techniques, Base Composition, Cacao/*microbiology, Cluster Analysis, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Food Microbiology, Genes, rRNA, Ghana, Glucose/metabolism, Maltose/metabolism, Methanol/metabolism, Molecular Sequence Data, Nucleic Acid Hybridization, Peptones/metabolism, Phylogeny, Polymerase Chain Reaction/methods, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sugar Acids/metabolism, Xylose/metabolism | Metabolism |
| Metabolism | 24413595 | Oxidation of metabolites highlights the microbial interactions and role of Acetobacter pasteurianus during cocoa bean fermentation. | Moens F, Lefeber T, De Vuyst L | Appl Environ Microbiol | 10.1128/AEM.03344-13 | 2014 | Acetobacter/growth & development/metabolism/*physiology, Cacao/*metabolism, Coculture Techniques, Culture Media/chemistry, Ethanol/metabolism, Fermentation, *Food Microbiology, Lactic Acid/metabolism, Lactobacillus fermentum/growth & development/metabolism, Mannitol/metabolism, *Microbial Interactions, Oxidation-Reduction, Saccharomyces cerevisiae/growth & development/metabolism | Biotechnology |
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 8200 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19596) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19596 | |||
| 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 | |
| 23238 | Ilse Cleenwerck, Ángel Gonzalez, Nicholas Camu, Katrien Engelbeen, Paul De Vos, Luc De Vuyst | 10.1099/ijs.0.65778-0 | Acetobacter fabarum sp. nov., an acetic acid bacterium from a Ghanaian cocoa bean heap fermentation | IJSEM 58: 2180-2185 2008 | 18768626 | |
| 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) | |||
| 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 | |||
| 69707 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID309084.1 | StrainInfo: A central database for resolving microbial strain identifiers |