Strain identifier
BacDive ID: 160325
Type strain: 
Species: Acerihabitans arboris
Strain Designation: SAP-6
Strain history: <- S. D. Lee, Jeju National Univ., Rep. of Korea; SAP-6
NCBI tax ID(s): 2691583 (species)
version 9.3 (current version)
General
@ref: 67228
BacDive-ID: 160325
DSM-Number: 104038
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Acerihabitans arboris SAP-6 is a mesophilic, Gram-negative bacterium that was isolated from Sap of plant.
NCBI tax id
- NCBI tax id: 2691583
- Matching level: species
strain history
- @ref: 67228
- history: <- S. D. Lee, Jeju National Univ., Rep. of Korea; SAP-6
doi: 10.13145/bacdive160325.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Pectobacteriaceae
- genus: Acerihabitans
- species: Acerihabitans arboris
- full scientific name: Acerihabitans arboris Lee et al. 2021
@ref: 67228
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacterales
family: Pectobacteriaceae
genus: Acerihabitans
species: Acerihabitans arboris
full scientific name: Acerihabitans arboris Lee et al. 2021
strain designation: SAP-6
type strain: yes
Morphology
cell morphology
| @ref | gram stain | confidence |
|---|---|---|
| 125439 | negative | 98.7 |
| 125438 | negative | 98.75 |
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 67228 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1; with strain-specific modifications) Composition: Soil extract 500.0 g/l NaCl 50.0 g/l Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
| 67228 | TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) | yes | https://mediadive.dsmz.de/medium/535 | Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water |
culture temp
- @ref: 67228
- growth: positive
- type: growth
- temperature: 28
Physiology and metabolism
spore formation
- @ref: 125439
- spore formation: no
- confidence: 96.6
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 25115 | malate | + | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | - | assimilation |
| 68369 | 24265 | gluconate | + | assimilation |
| 68369 | 17306 | maltose | - | assimilation |
| 68369 | 59640 | N-acetylglucosamine | + | assimilation |
| 68369 | 16899 | D-mannitol | + | assimilation |
| 68369 | 16024 | D-mannose | + | assimilation |
| 68369 | 30849 | L-arabinose | + | assimilation |
| 68369 | 17634 | D-glucose | + | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 4853 | esculin | + | hydrolysis |
| 68369 | 16199 | urea | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | + | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | + | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 68369 | cytochrome oxidase | - | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | beta-glucosidase | + | 3.2.1.21 |
| 68369 | urease | - | 3.5.1.5 |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC | OX |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 67228 | + | - | + | - | - | + | - | + | + | + | + | + | + | - | + | - | - | + | + | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 67228
- sample type: Sap of plant
- geographic location: Jeju
- country: Republic of Korea
- origin.country: KOR
- continent: Asia
Sequence information
16S sequences
- @ref: 67228
- description: Acerihabitans arboris strain SAP-6 16S ribosomal RNA gene, partial sequence
- accession: MN737198
- length: 1467
- database: nuccore
- NCBI tax ID: 2691583
Genome sequences
- @ref: 66792
- description: Acerihabitans arboris SAP-6
- accession: GCA_010131535
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 2691583
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | no | 98.75 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 94.555 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 62.788 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 84.149 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 99.5 | yes |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | yes | 73.31 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | no | 96.6 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 63.7 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | negative | 98.7 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | aerobe | 59.5 |
External links
@ref: 67228
culture collection no.: DSM 104038, KCTC 52622
straininfo link
- @ref: 112580
- straininfo: 398374
literature
- topic: Phylogeny
- Pubmed-ID: 33528350
- title: Acerihabitans arboris gen. nov., sp. nov., a new member of the family Pectobacteriaceae isolated from sap drawn from Acer pictum.
- authors: Lee SD, Kim IS, Choe H, Kim JS
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.004674
- year: 2021
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 67228 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-104038 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 104038) | |
| 68369 | Automatically annotated from API 20NE | |||
| 112580 | 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-ID398374.1 | |
| 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 |