Strain identifier
BacDive ID: 18
Type strain:
Species: Acetobacter indonesiensis
Strain Designation: 5H-1
Strain history: NRIC 0313 <-- P. Lisdiyanti 5H-1.
NCBI tax ID(s): 1307908 (strain), 104101 (species)
General
@ref: 5998
BacDive-ID: 18
DSM-Number: 15552
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acetobacter indonesiensis 5H-1 is a mesophilic, Gram-negative bacterium that was isolated from rotten zirzak .
NCBI tax id
NCBI tax id | Matching level |
---|---|
1307908 | strain |
104101 | species |
strain history
@ref | history |
---|---|
5998 | <- IFO |
67770 | NRIC 0313 <-- P. Lisdiyanti 5H-1. |
doi: 10.13145/bacdive18.20230509.8.1
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 indonesiensis
- full scientific name: Acetobacter indonesiensis Lisdiyanti et al. 2001
@ref: 5998
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acetobacter
species: Acetobacter indonesiensis
full scientific name: Acetobacter indonesiensis Lisdiyanti et al. 2001
strain designation: 5H-1
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.995
Culture and growth conditions
culture medium
- @ref: 5998
- name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989)
- growth: yes
- link: https://mediadive.dsmz.de/medium/989
- composition: Name: ACETIC ACID BACTERIUM MEDIUM (DSMZ Medium 989) Composition: Agar 15.0 g/l Glucose 5.0 g/l Yeast extract 5.0 g/l Bacto peptone 5.0 g/l MgSO4 x 7 H2O 1.0 g/l Distilled water
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
5998 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
observation
- @ref: 67770
- observation: quinones: Q-9
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | geographic location |
---|---|---|---|---|---|
5998 | rotten zirzak (fruit) | Indonesia | IDN | Asia | |
67770 | Zirzak | Indonesia | IDN | Asia | Yogyakarta |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host | #Plants | #Decomposing plant |
#Host Body-Site | #Plant | #Fruit (Seed) |
taxonmaps
- @ref: 69479
- File name: preview.99_3671.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_827;98_961;99_3671&stattab=map
- Last taxonomy: Acetobacter
- 16S sequence: AB681067
- Sequence Identity:
- Total samples: 233
- soil counts: 39
- aquatic counts: 55
- animal counts: 77
- plant counts: 62
Safety information
risk assessment
- @ref: 5998
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Acetobacter indonesiensis gene for 16S rRNA, partial sequence, strain: NBRC 16471 | AB681067 | 1415 | ena | 104101 |
5998 | Acetobacter indonesiensis gene for 16S rRNA, partial sequence, strain: NRIC 0313 | AB032356 | 1454 | ena | 104101 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Acetobacter indonesiensis 5H-1 | 1231340.3 | wgs | patric | 1307908 |
66792 | Acetobacter indonesiensis strain NBRC 16471 | 104101.10 | wgs | patric | 104101 |
66792 | Acetobacter indonesiensis 5H-1 | 2899141447 | draft | img | 104101 |
67770 | Acetobacter indonesiensis 5H-1 | GCA_000963945 | scaffold | ncbi | 104101 |
67770 | Acetobacter indonesiensis NBRC 16471 | GCA_007991075 | contig | ncbi | 104101 |
GC content
- @ref: 67770
- GC-content: 53.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 63.366 | no |
gram-positive | no | 95.773 | no |
anaerobic | no | 99.177 | no |
aerobic | yes | 91.656 | no |
halophile | no | 92.229 | no |
spore-forming | no | 95.336 | no |
thermophile | no | 98.697 | yes |
glucose-util | yes | 80.485 | no |
flagellated | no | 95.751 | no |
glucose-ferment | no | 90.067 | no |
External links
@ref: 5998
culture collection no.: DSM 15552, IFO 16471, JCM 10948, NBRC 16471, NRIC 0313, BCRC 17167, LMG 19824
straininfo link
- @ref: 69702
- straininfo: 14619
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
5998 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15552) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15552 | |||
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 | |||
69702 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14619.1 | StrainInfo: A central database for resolving microbial strain identifiers |