Strain identifier
BacDive ID: 163331
Type strain: 
Species: Acetobacter papayae
Strain history: NRIC 0655 <-- P. Lisdiyanti 1-25.
NCBI tax ID(s): 1234671 (strain), 1076592 (species)
version 9.3 (current version)
General
@ref: 67770
BacDive-ID: 163331
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acetobacter papayae JCM 25143 is a mesophilic, Gram-negative bacterium that was isolated from Papaya in Okinawa,.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 1234671 | strain |
| 1076592 | species |
strain history
- @ref: 67770
- history: NRIC 0655 <-- P. Lisdiyanti 1-25.
doi: 10.13145/bacdive163331.20250331.9.3
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 papayae
- full scientific name: Acetobacter papayae Iino et al. 2013
@ref: 67770
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhodospirillales
family: Acetobacteraceae
genus: Acetobacter
species: Acetobacter papayae
full scientific name: Acetobacter papayae Iino et al. 2013
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence | motility |
|---|---|---|---|
| 125438 | negative | 95.833 | |
| 125439 | 93.6 | yes | |
| 125439 | negative | 99.7 |
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 | 93.361 |
| 125439 | no | 99.2 |
observation
- @ref: 67770
- observation: quinones: Q-9
Isolation, sampling and environmental information
isolation
- @ref: 67770
- sample type: Papaya (fruit) (Carica papaya) in Okinawa,(2004)
- host species: Carica papaya
- sampling date: 2004
- country: Japan
- origin.country: JPN
- continent: Asia
taxonmaps
- @ref: 69479
- File name: preview.99_5459.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_29;96_152;97_3243;98_4077;99_5459&stattab=map
- Last taxonomy: Acetobacter
- 16S sequence: AB665066
- Sequence Identity:
- Total samples: 2285
- soil counts: 222
- aquatic counts: 569
- animal counts: 1231
- plant counts: 263
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 67770 | Acetobacter papayae gene for 16S rRNA, partial sequence | AB665066 | 1406 | nuccore | 1234671 |
| 124043 | Acetobacter papayae DNA, 16S-23S ribosomal RNA intergenic spacer, partial sequence, strain: JCM 25143. | AB936620 | 635 | nuccore | 1234671 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Acetobacter papayae JCM 25143 | 1234671.3 | wgs | patric | 1234671 |
| 66792 | Acetobacter papayae JCM 25143 | 2582581005 | draft | img | 1234671 |
| 67770 | Acetobacter papayae JCM 25143 | GCA_000613285 | contig | ncbi | 1234671 |
GC content
- @ref: 67770
- GC-content: 60.5
- 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 | 89.4 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 99.7 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 93.6 | |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 99.2 | |
| 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 | 86.928 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 93.361 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | yes | 71.458 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 96.799 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 66.747 | no |
External links
@ref: 67770
culture collection no.: JCM 25143, KACC 19722, LMG 26456, NBRC 111466, NRIC 0655
straininfo link
- @ref: 114029
- straininfo: 377516
literature
- topic: Phylogeny
- Pubmed-ID: 34662265
- title: Acetobacter garciniae sp. nov., an acetic acid bacterium isolated from fermented mangosteen peel in Thailand.
- authors: Yukphan P, Charoenyingcharoen P, Kingcha Y, Likhitrattanapisal S, Muangham S, Tanasupawat S, Yamada Y
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.005052
- year: 2021
- mesh: 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
- topic2: Transcriptome
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/ |
| 114029 | 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-ID377516.1 |
| 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 |