Strain identifier
BacDive ID: 163333
Type strain: 
Species: Acetobacter okinawensis
Strain history: NRIC 0658 <-- P. Lisdiyanti 1-35.
NCBI tax ID(s): 1236501 (strain), 1076594 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 163333
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acetobacter okinawensis JCM 25146 is a mesophilic, Gram-negative bacterium that was isolated from Sugarcane in Okinawa,.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1236501 | strain |
| 1076594 | species |
strain history
- @ref: 67770
- history: NRIC 0658 <-- P. Lisdiyanti 1-35.
doi: 10.13145/bacdive163333.20250331.9.3
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 okinawensis
- full scientific name: Acetobacter okinawensis Iino et al. 2013
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodospirillales
family: Acetobacteraceae
genus: Acetobacter
species: Acetobacter okinawensis
full scientific name: Acetobacter okinawensis Iino et al. 2013
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125438 | negative | 95.833 |
| 125439 | negative | 98 |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 30
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 125438 | no | 92.922 |
| 125439 | no | 97.3 |
observation
- @ref: 67770
- observation: quinones: Q-9
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Sugarcane (stem) (Saccharum offcinarum) in Okinawa,(2004)
- host species: Saccharum offcinarum
- sampling date: 2004
- country: Japan
- origin.country: JPN
- continent: Asia
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: AB665068
- Sequence Identity:
- Total samples: 3246
- soil counts: 352
- aquatic counts: 428
- animal counts: 2157
- plant counts: 309
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 67770 | Acetobacter okinawensis gene for 16S rRNA, partial sequence | AB665068 | 1412 | nuccore | 1236501 |
| 124043 | Acetobacter okinawensis DNA, 16S-23S ribosomal RNA intergenic spacer, partial sequence, strain: JCM 25146. | AB936619 | 619 | nuccore | 1236501 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetobacter okinawensis JCM 25146 | 1236501.3 | wgs | patric | 1236501 |
| 66792 | Acetobacter okinawensis JCM 25146 | 2579778976 | draft | img | 1236501 |
| 67770 | Acetobacter okinawensis JCM 25146 | GCA_000613865 | contig | ncbi | 1236501 |
GC content
- @ref: 67770
- GC-content: 59.2
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 67.5 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 98 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 79.6 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 97.3 | |
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 95.833 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 89.823 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 92.922 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 76.401 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.262 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 64.022 | no |
External links
@ref: 67770
culture collection no.: JCM 25146, KACC 19723, LMG 26457, NBRC 111467, NRIC 0658
straininfo link
- @ref: 114030
- straininfo: 377579
Reference
| @id | authors | title | doi/url |
|---|---|---|---|
| 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 |
| 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/ | |
| 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ |
| 114030 | 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-ID377579.1 |
| 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 |