Anne Kupczok

Assistant professor
Contact: anne . kupczok @ wur . nl

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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

Jun Liu

co-supervision with Jing He, Energy Microbiology Center of the Chinese Academy of Agricultural Sciences

Synthetic microbial communities for mitigating ammonia and greenhouse gases generated by fecal microbiota

Profile at WUR

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

Chen Chen

Deep learning approaches for evolutionary origins of species-specific prokaryotic genes (in collaboration with Dick de Ridder

Master students

Felipe Perez Martinez

Metatranscriptomics of orphan genes in the human gut

Inge van Vugt

co-supervision with Astrid Bryon

Metatranscriptomics analysis of insects to explore interactions between viruses and bacteria

Former Members

Laurens Klinkien

Msc thesis student 2023

Devin van Valkengoed

Msc thesis student and research assistant 2022-2023

Gian Passania

Msc thesis student 2023

Joran Schoorlemmer

Msc thesis student 2022-2023

Elma van Wieren

Msc thesis student 2022-2023

Jori de Leuw

Msc thesis student 2022-2023

Nikolai Matviiets

Msc thesis student 2022-2023

Nikolaos Vakirlis

Associated postdoc 2021-2022

Now at BSRC Alexander Fleming

Amanda van de Ligt

Msc thesis student 2021-2022

Jan Baijens

Research assistant 2021-2022

Matthijs Kon

Msc thesis student 2021-2022

Matthijs Pon

Msc thesis student 2021

Claudia de Buck

Msc thesis student 2021