Anne Kupczok
Assistant professor
Contact: anne . kupczok @ wur . nl
I am an assistant professor in the Bioinformatics group at Wageningen University since August 2020. I am a bioinformatician by training with a particular interest how microbes and viruses evolve and how the interaction with eukaryotic hosts impact their evolution.
In my research, I infer the diversity within microbial populations from genomes and metagenomes, where I focus on the interaction between organisms, such as phages and bacteria, and the consequences of this interaction on genome evolution. I am interested in understanding how different evolutionary processes (mutation, recombination, and horizontal gene transfer) contribute to viral and microbial evolution.
Complete list of publications in pubmed.
Profile on Google Scholar.
Profile on ORCID.
Bluesky: @annecmg@bsky.social
PhD students
Joliese Teunissen
co-supervision with Stefan Geisen, Nematology group WUR
Deciphering the role of the soil microbiome in intercropping
Profile at WUR
Dimitris Karapliafis
Evolution of plant viruses in wild plants (in collaboration with Mark Zwart)
Profile at WUR
Laura Patiño Medina
co-supervision with Astrid Bryon, Laboratory of Virology WUR
Microbiome-virome interactions in whiteflies
Thomas de Bruijn
co-supervision with Hilje Doekes, Laboratory of Genetics WUR
Modeling diversity in bacteriophages
Thijmen van der Loop
co-supervision with René Dirks, Daniel Probst, and Dick de Ridder
Function prediction in bacteria
Master students
Jingming Wang
co-supervision with Jun Liu, CAAS
Auxiliary metabolic genes in phages from lifestock microbiomes
Ludovica Piccioli
Genome assembly of RNA viruses
Baukje Osinga
co-supervision with Marnix Medema
Detection of biosynthetic gene clusters involved in phage defense
Bachelor students
Former Members
PhD student 2024-2026
Msc student 2025-2026
Msc student 2025-2026
Msc student 2025
Phd student 2021-2025
Bsc thesis student 2025
Msc thesis student 2024-2025
Msc thesis student 2023-2024
Msc thesis student 2023-2024
Msc thesis student 2023
Msc thesis student and research assistant 2022-2023
Msc thesis student 2023
Msc thesis student 2022-2023
Msc thesis student 2022-2023
Msc thesis student 2022-2023
Msc thesis student 2022-2023
Associated postdoc 2021-2022
Now at Hellenic Pasteur Institute
Amanda van de Ligt
Msc thesis student 2021-2022
Jan Baijens
Research assistant 2021-2022
Msc thesis student 2021-2022
Msc thesis student 2021
Msc thesis student 2021