Strain identifier
BacDive ID: 158177
Type strain: 
Species: Catenisphaera adipataccumulans
Strain Designation: GK12
Strain history: <- Taiki Katayama, Manabu Kanno, Natl. Inst. Advanced Industrial Sci. and Technol., Tsukuba, Japan; GK12
NCBI tax ID(s): 700500 (species)
version 9.3 (current version)
General
@ref: 64770
BacDive-ID: 158177
DSM-Number: 25799
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Catenisphaera adipataccumulans GK12 is a mesophilic bacterium that was isolated from anaerobic methanogenic digester fed with food waste.
NCBI tax id
- NCBI tax id: 700500
- Matching level: species
strain history
- @ref: 64770
- history: <- Taiki Katayama, Manabu Kanno, Natl. Inst. Advanced Industrial Sci. and Technol., Tsukuba, Japan; GK12
doi: 10.13145/bacdive158177.20250331.9.3
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Erysipelotrichia
- order: Erysipelotrichales
- family: Erysipelotrichaceae
- genus: Catenisphaera
- species: Catenisphaera adipataccumulans
- full scientific name: Catenisphaera adipataccumulans Kanno et al. 2015
@ref: 64770
domain: Bacteria
phylum: Firmicutes
class: Erysipelotrichia
order: Erysipelotrichales
family: Erysipelotrichaceae
genus: Catenisphaera
species: Catenisphaera adipataccumulans
full scientific name: Catenisphaera adipataccumulans Kanno et al. 2015
strain designation: GK12
type strain: yes
Morphology
cell morphology
- @ref: 125438
- motility: no
- confidence: 92.667
Culture and growth conditions
culture medium
- @ref: 64770
- name: PYG MEDIUM (MODIFIED) (DSMZ Medium 104)
- growth: yes
- link: https://mediadive.dsmz.de/medium/104
- composition: Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water
culture temp
- @ref: 64770
- growth: positive
- type: growth
- temperature: 37
Isolation, sampling and environmental information
isolation
- @ref: 64770
- sample type: anaerobic methanogenic digester fed with food waste
- geographic location: Hokkaido Prefecture, Hukagawa
- country: Japan
- origin.country: JPN
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Domestic waste |
| #Engineered | #Waste | #Sewage sludge |
Safety information
risk assessment
- @ref: 64770
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 64770
- description: Catenisphaera adipataccumulans gene for 16S rRNA, partial sequence
- accession: AB537978
- length: 1419
- database: nuccore
- NCBI tax ID: 700500
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Catenisphaera adipataccumulans DSM 25799 | GCA_014202755 | scaffold | ncbi | 700500 |
| 66792 | Catenisphaera adipataccumulans strain DSM 25799 | 700500.3 | wgs | patric | 700500 |
| 66792 | Catenisphaera adipataccumulans DSM 25799 | 2861598655 | draft | img | 700500 |
GC content
- @ref: 64770
- GC-content: 47.7
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
| @ref | model | trait | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 125438 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 86.331 | no |
| 125438 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | yes | 79.69 | no |
| 125438 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 95.393 | no |
| 125438 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 77.366 | no |
| 125438 | thermophile | thermophilic | Ability to grow at temperatures above or equal to 45°C | no | 91.611 | no |
| 125438 | motile2+ | flagellated | Ability to perform flagellated movement | no | 92.667 | no |
| 125439 | BacteriaNet | spore_formation | Ability to form endo- or exospores | yes | 64.3 | |
| 125439 | BacteriaNet | motility | Ability to perform movement | yes | 66.9 | |
| 125439 | BacteriaNet | gram_stain | Reaction to gram-staining | variable | 84.1 | |
| 125439 | BacteriaNet | oxygen_tolerance | Oxygenic conditions needed for growth | microaerophile | 88.9 |
External links
@ref: 64770
culture collection no.: DSM 25799, NBRC 108915
straininfo link
- @ref: 111008
- straininfo: 398012
literature
- topic: Phylogeny
- Pubmed-ID: 25481294
- title: Catenisphaera adipataccumulans gen. nov., sp. nov., a member of the family Erysipelotrichaceae isolated from an anaerobic digester.
- authors: Kanno M, Katayama T, Morita N, Tamaki H, Hanada S, Kamagata Y
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijs.0.000021
- year: 2014
- mesh: Bacteria, Anaerobic/*classification/genetics/isolation & purification, Bacterial Typing Techniques, Base Composition, Bioreactors/microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Gram-Positive Rods/*classification/genetics/isolation & purification, Japan, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Enzymology
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 | |
| 64770 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25799 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25799) | |
| 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 | |
| 111008 | 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-ID398012.1 | |
| 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 |