Strain identifier
BacDive ID: 17
Type strain:
Species: Acetobacter tropicalis
Strain history: NRIC 0312 <-- P. Lisdiyanti Ni-6b.
NCBI tax ID(s): 1307920 (strain), 104102 (species)
General
@ref: 5997
BacDive-ID: 17
DSM-Number: 15551
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acetobacter tropicalis DSM 15551 is a mesophilic, Gram-negative bacterium that was isolated from coconut juice, Cioccos nucifera.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1307920 | strain |
104102 | species |
strain history
@ref | history |
---|---|
5997 | <- IFO |
67770 | NRIC 0312 <-- P. Lisdiyanti Ni-6b. |
doi: 10.13145/bacdive17.20241212.9.2
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 tropicalis
- full scientific name: Acetobacter tropicalis Lisdiyanti et al. 2001
@ref: 5997
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Acetobacteraceae
genus: Acetobacter
species: Acetobacter tropicalis
full scientific name: Acetobacter tropicalis Lisdiyanti et al. 2001
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 97.333
Culture and growth conditions
culture medium
- @ref: 5997
- 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 |
---|---|---|---|
5997 | positive | growth | 30 |
67770 | positive | growth | 30 |
Physiology and metabolism
spore formation
- @ref: 69480
- spore formation: no
- confidence: 91.71
observation
- @ref: 67770
- observation: quinones: Q-9
Isolation, sampling and environmental information
isolation
@ref | sample type | host species | country | origin.country | continent | geographic location |
---|---|---|---|---|---|---|
5997 | coconut juice, Cioccos nucifera | Cioccos nucifera | Indonesia | IDN | Asia | |
67770 | Coconut juice | Indonesia | IDN | Asia | Yogyakarta |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Host Body-Site | #Plant | #Fruit (Seed) |
#Host Body Product | #Plant | #Juice (natural) |
taxonmaps
- @ref: 69479
- File name: preview.99_3086.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_827;98_961;99_3086&stattab=map
- Last taxonomy: Acetobacter tropicalis
- 16S sequence: AB032355
- Sequence Identity:
- Total samples: 421
- soil counts: 101
- aquatic counts: 25
- animal counts: 218
- plant counts: 77
Safety information
risk assessment
- @ref: 5997
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Acetobacter tropicalis gene for 16S rRNA, partial sequence, strain: NBRC 16470 | AB681066 | 1417 | nuccore | 104102 |
20218 | Acetobacter tropicalis gene for 16S rRNA, partial sequence, strain: NRIC 0312, isolate: No.3 | AB032354 | 1451 | nuccore | 104102 |
5997 | Acetobacter tropicalis gene for 16S rRNA, partial sequence, strain: NRIC 0312, isolate: No.39 | AB032355 | 1443 | nuccore | 104102 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Acetobacter tropicalis NBRC 16470 | GCA_007989245 | contig | ncbi | 104102 |
66792 | Acetobacter tropicalis LMG 19825 | GCA_001580915 | contig | ncbi | 104102 |
66792 | Acetobacter tropicalis strain LMG 19825 | 104102.11 | wgs | patric | 104102 |
66792 | Acetobacter tropicalis strain NBRC 16470 | 104102.29 | wgs | patric | 104102 |
66792 | Acetobacter tropicalis strain NBRC 16470 | 104102.10 | wgs | patric | 104102 |
66792 | Acetobacter tropicalis NBRC 16470 | 2667527850 | draft | img | 104102 |
66792 | Acetobacter tropicalis LMG 19825 | 2724679595 | draft | img | 104102 |
67770 | Acetobacter tropicalis NBRC 16470 | GCA_000787635 | scaffold | ncbi | 104102 |
GC content
- @ref: 67770
- GC-content: 55.9
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
@ref | trait | model | description | prediction | confidence | training_data |
---|---|---|---|---|---|---|
69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 97.333 | no |
69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 89.57 | no |
69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 91.71 | no |
69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 85.617 | no |
69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 97.451 | yes |
69480 | flagellated | motile2+ | Ability to perform flagellated movement | no | 55.68 | no |
External links
@ref: 5997
culture collection no.: DSM 15551, IFO 16470, NBRC 16470, NRIC 0312, JCM 10947, BCRC 17166, LMG 19825
straininfo link
- @ref: 69701
- straininfo: 14620
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Metabolism | 18853153 | Biotransformation of glycerol to D-glyceric acid by Acetobacter tropicalis. | Habe H, Fukuoka T, Kitamoto D, Sakaki K | Appl Microbiol Biotechnol | 10.1007/s00253-008-1737-2 | 2008 | Acetobacter/*metabolism, Biotransformation, Chromatography, High Pressure Liquid, Culture Media/chemistry, Gluconacetobacter/metabolism, Glyceric Acids/*metabolism, Glycerol/*metabolism, Stereoisomerism, Time Factors | Cultivation |
Metabolism | 19837846 | Microbial production of glyceric acid, an organic acid that can be mass produced from glycerol. | Habe H, Shimada Y, Yakushi T, Hattori H, Ano Y, Fukuoka T, Kitamoto D, Itagaki M, Watanabe K, Yanagishita H, Matsushita K, Sakaki K | Appl Environ Microbiol | 10.1128/AEM.01535-09 | 2009 | Acetobacter/genetics/metabolism, Alcohol Dehydrogenase/genetics/metabolism, Dihydroxyacetone/metabolism, Gluconacetobacter/genetics/metabolism, Gluconobacter/enzymology/genetics/*metabolism, Glyceric Acids/chemistry/*metabolism, Glycerol/*metabolism, Industrial Microbiology/*methods | Biotechnology |
Enzymology | 21852749 | Membrane-bound alcohol dehydrogenase is essential for glyceric acid production in Acetobacter tropicalis. | Habe H, Sato S, Fukuoka T, Kitamoto D, Yakushi T, Matsushita K, Sakaki K | J Oleo Sci | 10.5650/jos.60.489 | 2011 | Acetobacter/*enzymology/metabolism, Alcohol Dehydrogenase/genetics/isolation & purification/*metabolism, Amino Acid Sequence, Cell Membrane/*enzymology/metabolism, DNA, Bacterial/genetics/metabolism, Gene Expression Profiling, Glyceric Acids/*metabolism, Molecular Sequence Data, Polymerase Chain Reaction, Sequence Homology, Amino Acid | Metabolism |
Genetics | 25523780 | Draft Genome Sequence of Acetobacter tropicalis Type Strain NBRC16470, a Producer of Optically Pure d-Glyceric Acid. | Koike H, Sato S, Morita T, Fukuoka T, Habe H | Genome Announc | 10.1128/genomeA.01329-14 | 2014 | ||
Enzymology | 34453563 | Heterologous expression of membrane-bound alcohol dehydrogenase-encoding genes for glyceric acid production using Gluconobacter sp. CHM43 and its derivatives. | Habe H, Sato Y, Tani H, Matsutani M, Tanioka K, Theeragool G, Matsushita K, Yakushi T | Appl Microbiol Biotechnol | 10.1007/s00253-021-11535-0 | 2021 | Acetobacter, Alcohol Dehydrogenase, *Gluconobacter/genetics, Glyceric Acids | Biotechnology |
Phylogeny | 34662265 | Acetobacter garciniae sp. nov., an acetic acid bacterium isolated from fermented mangosteen peel in Thailand. | Yukphan P, Charoenyingcharoen P, Kingcha Y, Likhitrattanapisal S, Muangham S, Tanasupawat S, Yamada Y | Int J Syst Evol Microbiol | 10.1099/ijsem.0.005052 | 2021 | Acetic Acid, *Acetobacter/classification/isolation & purification, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermented Foods/*microbiology, Fruit/microbiology, *Garcinia mangostana/microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Thailand | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
5997 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15551) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15551 | |||
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) | |||
69701 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14620.1 | StrainInfo: A central database for resolving microbial strain identifiers |