The list of international projects SAS
Institute of Molecular Biology
BEekeeping products valorization and biomonitoring for the SAFEty of BEEs and HONEY (BeSafeBeeHoney)
BEekeeping products valorization and biomonitoring for the SAFEty of BEEs and HONEY
European Network for Skin Engineering and Modeling
European Network for Skin Engineering and Modeling
Use of honeybees, honey and other apiary products for biomonitoring of low-level radioactive phosphogypsum stacks
Použitie včiel, medu a ostatných včelích produktov na biomonitorovanie nízko rádioaktívneho fosfosadrovcového odpadu
High-throughput sequencing of ready-to-eat (RTE) leafy vegetables microbiome: optimisation of long reads protocols and computational processes
Vysokovýkonné sekvenovanie mikrobiómu listovej zeleniny pripravenej priamo na konzumáciu: optimalizácia protokolov dlhého čítania a bioinformatických výpočtových procesov
| Duration: |
1.1.2023 - 31.12.2024 |
| Program: |
Mobility |
| Project leader: |
Mgr. Puškárová Andrea PhD. |
| Annotation: | The main objective of the proposed collaborative research is the application and evaluation of long reads DNA sequencing strategies based on the Oxford Nanopore Technologies to the field of ready-to-eat vegetables microbiology and safety. The small sequencing device produced by ONT and called MinION is a portable and affordable high-throughput sequencing platform that will be used with two contrasting molecular strategies for the evaluation of the microbiome that is hosted on leafy vegetables destined to the bagged salads market. More specifically, the aim is therefore to use a low-cost and rapidly applicable molecular diagnostic strategy to analyse the microbial load of bagged salads, in order to develop a highly informative and sensitive control strategy that allows the presence of pathogenic microorganisms to be detected, even in minute concentrations. In order to do this, it is necessary to proceed through the creation of model communities that allow for an effective comparison of the sensitivity of the tested protocols, their repeatability and
applicability to detect certain species of interest.
Two diverse strategies, exploiting the long DNA reads processing of MinION, will be optimized and tested on real samples of bagged salads. Specific protocols oriented to long-amplicons sequencing and shotgun metagenomics will be used with bacterial and fungal mock communities in order to assess the reliability of these two approaches. The most robust and reliable MinION-based microbiome
analytical strategy will be further applied to detect the overall microbiota and also the presence of pathogenic species. The optimized methodology, including the bioinformatics pipelines, will be applied to real samples of ready-to-eat vegetables. |
The total number of projects: 4
