Strain identifier
BacDive ID: 132954
Type strain: 
Species: Corticibacter populi
Strain Designation: 17B10-2-12
Strain history: <- KCTC <- C.-g. Piao, Research Institute of Forest Ecology, Environment and Protection, Chinese Academy of Science, Beijing, PR China
NCBI tax ID(s): 1550736 (species)
version 8.1 (current version)
General
@ref: 24742
BacDive-ID: 132954
DSM-Number: 105136
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, Gram-negative
description: Corticibacter populi 17B10-2-12 is a mesophilic, Gram-negative bacterium that was isolated from bark of Populus euramericana.
NCBI tax id
- NCBI tax id: 1550736
- Matching level: species
strain history
- @ref: 24742
- history: <- KCTC <- C.-g. Piao, Research Institute of Forest Ecology, Environment and Protection, Chinese Academy of Science, Beijing, PR China
doi: 10.13145/bacdive132954.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Betaproteobacteria
- order: Burkholderiales
- family: Comamonadaceae
- genus: Corticibacter
- species: Corticibacter populi
- full scientific name: Corticibacter populi Fang et al. 2015
@ref: 24742
domain: Bacteria
phylum: Proteobacteria
class: Betaproteobacteria
order: Burkholderiales
family: Comamonadaceae
genus: Corticibacter
species: Corticibacter populi
full scientific name: Corticibacter populi Fang et al. 2015
strain designation: 17B10-2-12
type strain: yes
Morphology
cell morphology
- @ref: 69480
- gram stain: negative
- confidence: 99.992
multimedia
- @ref: 24742
- multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_105136.jpg
- intellectual property rights: © Leibniz-Institut DSMZ
Culture and growth conditions
culture medium
- @ref: 24742
- name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
- growth: yes
- link: https://mediadive.dsmz.de/medium/535
- composition: 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: 24742
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.991 |
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 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 24742 | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | + |
Isolation, sampling and environmental information
isolation
- @ref: 24742
- sample type: bark of Populus euramericana
- host species: Populus x euramericana
- geographic location: Heze City
- country: China
- origin.country: CHN
- continent: Asia
- latitude: 34.7833
- longitude: 115.5
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Tree |
| #Host Body-Site | #Plant | #Bark |
taxonmaps
- @ref: 69479
- File name: preview.99_34488.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_1450;97_20359;98_25465;99_34488&stattab=map
- Last taxonomy: Corticibacter populi subclade
- 16S sequence: KM409450
- Sequence Identity:
- Total samples: 162
- soil counts: 5
- aquatic counts: 18
- animal counts: 136
- plant counts: 3
Safety information
risk assessment
- @ref: 24742
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 24742
- description: Corticibacter populi strain 17B10-2-12 16S ribosomal RNA gene, partial sequence
- accession: KM409450
- length: 1418
- database: ena
- NCBI tax ID: 1550736
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Corticibacter populi DSM 105136 | GCA_003703815 | contig | ncbi | 1550736 |
| 66792 | Corticibacter populi DSM 105136 | GCA_004217315 | scaffold | ncbi | 1550736 |
| 66792 | Corticibacter populi strain DSM 105136 | 1550736.3 | wgs | patric | 1550736 |
| 66792 | Corticibacter populi strain DSM 105136 | 1550736.4 | wgs | patric | 1550736 |
| 66792 | Corticibacter populi DSM 105136 | 2806310403 | draft | img | 1550736 |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | no | 82.333 | no |
| gram-positive | no | 96.883 | no |
| anaerobic | no | 98.704 | no |
| aerobic | yes | 93.396 | no |
| halophile | no | 89.603 | no |
| spore-forming | no | 94.985 | no |
| glucose-util | no | 77.786 | no |
| thermophile | no | 99.556 | yes |
| motile | no | 77.951 | no |
| glucose-ferment | no | 87.428 | no |
External links
@ref: 24742
culture collection no.: DSM 105136, CFCC 12099, KCTC 42091
straininfo link
- @ref: 91231
- straininfo: 405046
literature
- topic: Phylogeny
- Pubmed-ID: 26296923
- title: Corticibacter populi gen. nov., sp. nov., a new member of the family Comamonadaceae, from the bark of Populus euramericana.
- authors: Fang W, Li Y, Xue H, Tian G, Wang L, Guo MW, Piao CG
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.000418
- year: 2015
- mesh: Bacterial Typing Techniques, Base Composition, China, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Fatty Acids/chemistry, Molecular Sequence Data, Phospholipids/chemistry, *Phylogeny, Plant Bark/*microbiology, Populus/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Ubiquinone/chemistry
- topic2: Enzymology
Reference
| @id | authors | title | doi/url | catalogue | journal | pubmed |
|---|---|---|---|---|---|---|
| 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 | |||
| 24742 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-105136 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 105136) | |||
| 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 | |||
| 66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
| 68369 | Automatically annotated from API 20NE | |||||
| 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/ | |||
| 69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
| 69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
| 91231 | 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-ID405046.1 |