Strain identifier
BacDive ID: 2935
Type strain: 
Species: Comamonas granuli
Strain Designation: Ko03
Strain history: <- ST Lee, KAIST
NCBI tax ID(s): 1223521 (strain), 290309 (species)
version 8.1 (current version)
General
@ref: 7544
BacDive-ID: 2935
DSM-Number: 18411
keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative
description: Comamonas granuli Ko03 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from granular sludge in industrial wastewater treatment plant.
NCBI tax id
| NCBI tax id | Matching level |
|---|---|
| 290309 | species |
| 1223521 | strain |
strain history
| @ref | history |
|---|---|
| 7544 | <- S.-T. Lee, KAIST, Republic of Korea <- W.-T. Im, KAIST |
| 67771 | <- ST Lee, KAIST |
doi: 10.13145/bacdive2935.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Comamonas
- species: Comamonas granuli
- full scientific name: Comamonas granuli Kim et al. 2011
@ref: 7544
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Comamonas
species: Comamonas granuli
full scientific name: Comamonas granuli Kim et al. 2011
strain designation: Ko03
type strain: yes
Morphology
cell morphology
| @ref | gram stain | motility | confidence |
|---|---|---|---|
| 67771 | negative | ||
| 69480 | yes | 94.418 | |
| 69480 | negative | 100 |
Culture and growth conditions
culture medium
- @ref: 7544
- name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c)
- growth: yes
- link: https://mediadive.dsmz.de/medium/830c
- composition: Name: REACTIVATION WITH LIQUID MEDIUM 830 (DSMZ Medium 830c) Composition: Agar 15.0 g/l Yeast extract 0.5 g/l Proteose peptone 0.5 g/l Casamino acids 0.5 g/l Glucose 0.5 g/l Starch 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 7544 | positive | growth | 28 | mesophilic |
| 67771 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 67771
- oxygen tolerance: aerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 100 |
observation
- @ref: 67771
- observation: quinones: Q-8
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 7544 | granular sludge in industrial wastewater treatment plant | Kongju | Republic of Korea | KOR | Asia |
| 67771 | From granule sludge | Republic of Korea | KOR | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Waste | #Industrial wastewater |
| #Engineered | #Waste | #Activated sludge |
| #Engineered | #Waste | #Water treatment plant |
taxonmaps
- @ref: 69479
- File name: preview.99_4997.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_2446;97_2981;98_3735;99_4997&stattab=map
- Last taxonomy: Comamonas granuli subclade
- 16S sequence: AB681516
- Sequence Identity:
- Total samples: 5260
- soil counts: 627
- aquatic counts: 3461
- animal counts: 861
- plant counts: 311
Safety information
risk assessment
- @ref: 7544
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20218 | Comamonas granuli gene for 16S rRNA, partial sequence, strain: NBRC 101663 | AB681516 | 1454 | ena | 1223521 |
| 7544 | Comamonas granuli gene for 16S rRNA, partial sequence, strain: Ko03 | AB187586 | 1443 | ena | 1223521 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Comamonas granuli NBRC 101663 | GCA_000739995 | contig | ncbi | 1223521 |
| 66792 | Comamonas granuli NBRC 101663 | 1223521.5 | wgs | patric | 1223521 |
| 66792 | Comamonas granuli NBRC 101663 | 2600255078 | draft | img | 1223521 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 7544 | 68.4 | high performance liquid chromatography (HPLC) |
| 67771 | 68.4 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 91.422 | no |
| gram-positive | no | 99.033 | yes |
| anaerobic | no | 94.818 | yes |
| aerobic | yes | 81.12 | yes |
| halophile | no | 95.076 | no |
| spore-forming | no | 93.767 | no |
| thermophile | no | 84.689 | no |
| glucose-util | no | 76.25 | no |
| flagellated | yes | 84.745 | no |
| glucose-ferment | no | 89.781 | no |
External links
@ref: 7544
culture collection no.: DSM 18411, KCTC 12199, NBRC 101663
straininfo link
- @ref: 72457
- straininfo: 138341
literature
- topic: Phylogeny
- Pubmed-ID: 18758728
- title: Comamonas granuli sp. nov., isolated from granules used in a wastewater treatment plant.
- authors: Kim KH, Ten LN, Liu QM, Im WT, Lee ST
- journal: J Microbiol
- DOI: 10.1007/s12275-008-0019-0
- year: 2008
- mesh: Base Composition, Bioreactors/microbiology, Comamonas/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, *Industrial Waste, Phylogeny, RNA, Ribosomal, 16S/genetics, Sewage/*microbiology
- topic2: Metabolism
Reference
| @id | authors | catalogue | doi/url | title | journal | pubmed |
|---|---|---|---|---|---|---|
| 7544 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 18411) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-18411 | |||
| 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) | |||
| 67771 | Curators of the KCTC | https://kctc.kribb.re.kr/En/Kctc | ||||
| 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 | |||
| 72457 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID138341.1 | StrainInfo: A central database for resolving microbial strain identifiers |