Tue Kjærgaard Nielsen

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About me:

I am a molecular microbiologist with a special interest in 3rd generation sequencing (Nanopore) and bioinformatics. I apply these methods to study how mobile genetic elements (MGEs) affect microbial evolution. This includes important traits such as resistance to antibiotics, degradation of xenobiotics, and virulence traits. I enjoy devising new ways of utilizing state-of-the-art technologies and methods.

Current research topics:

• Improving the accuracy of antibiotic resistance prediction by analyzing the genetic context of antibiotic resistance genes.
• Investigating how non-resistance genes become resistance determinants by interactions with MGEs.
• Detecting and analyzing exotic DNA modifications of bacteriophages using Nanopore sequencing.
• Virulence traits of plant pathogens associated with MGEs.
• Detection and quantification of the activity of MGEs in single bacterial genomes using new lab and bioinformatics techniques.

Teaching and supervision:

Lecturer and co-organizer on MSc course "Applied Microbiology" LBIK10180U

Lecturer on courses "Synthetic Biology" LBIK10207U and "Microbiology" NPLB14012U

Organizer and teacher on courses on DNA/RNA extraction, sequencing, qPCR, and bioinformatics at Zealand Academy of Technologies and Business.

Supervisor of MSc, BSc, and project students.

Previous organizer and main teacher on PhD courses in microbial bioinformatics. 

Key words:

bioinformatics, antibiotic resistance genes, mobile genetic elements, 3rd generation sequencing, Nanopore, Illumina, bacteriophages, plasmids, xenobiotics, antibiotics.

 

If you are interested in working with me on your BSc or MSc thesis project or wish to collaborate on future projects please feel free to contact me at tkn@plen.ku.dk.