NGS food screening for (allergenic) species identification using  selective nanopore sequencing

Internship

NGS food screening for (allergenic) species identification using selective nanopore sequencing

In this project we aim to develop selective nanopore sequencing protocols for the fast authentication of allergenic plant and animal species in complex food samples. The use of this innovative technology will make it possible to screen food products more quickly and more efficiently for a multitude of DNA-based markers, including markers that are characteristic for the quality and safety of food products.

The protocols and bioinformatics tools developed in this project will be assessed for their potential to enable multi-ingredient food analyses in the field.

Aim of project one

Project 1 is suitable for an enthusiastic (BSc/MSc) student with relevant experience in molecular biology for a time period of 6 – 9 months. This project aims to develop innovative CRISPR-Cas9-targeted fragmentation and (real-time) selective sequencing protocols. The method’s sensitivity, specificity, and repeatability will be assessed, and the results will be compared to those from immunoassays (for allergenic species identification).

Aim of project two

Project 2 is suitable for a motivated (BSc/MSc) bioinformatics student for a time period of 4 – 9 months. The project aims to develop a data analysis workflow on the WUR High Performance Computing Cluster (HPC) that is able to generate clear and concise output from the NGS data.

More information

Both students will interact and collaborate with a research team at BaseClear (Leiden).

Please contact Martijn Staats for more information.