Michael T. Monaghan
Müggelseedamm 301, 12587 Berlin / Königin-Luise-Str. 2-4 Gartenhaus, 14195 Berlin
Profile
freshwater molecular ecology/evolution, metabarcoding, pop-gen, phylogenetics, phylogenomics (microbes, plankton, insects, fish)
Professorship
at Freie Universität Berlin, Faculty of Biology, Chemistry, Pharmacy, Institute of Biology
2025- Head of Department of Evolutionary and Integrative Ecology, IGB
2018- Professor of Biology, Freie Universität Berlin
2016 Visiting Professor, Duke-NUS Medical School, Singapore
2015- Guest Professor, Ehime University, Matsuyama
2008- Senior Scientist / Research Group Leader (Molecular Ecology and Genomics) IGB
2003-2008 Imperial College and Natural History Museum, London
2002 Dr. sc. nat. ETH Zürich
1998-2002 Swiss Federal Institute of Aquatic Science and Technology (Eawag)
1998 M.S. Idaho State University
1995 B.S. The Ohio State University
Recent Publications
Beng et al. (2025)
Long-term changes to plankton communities in artificially heated lakes
Limnology and Oceanography 10.1002/lno.70192
Rajarajan et al. (2025)
Warming increases richness and shapes assemblages of eukaryotic parasitic plankton
Environmental Microbiome 20:76
Velthuis et al. (2025)
Light-driven changes in macrophyte tissue quality affect the composition of associated microbial communities
Microbial Ecology 88:52
Shumilova et al. (2025)
Environmental effects of the Kakhovka Dam destruction by warfare in Ukraine
Science 387:1181-1186
Buchner et al. (2025)
Upscaling biodiversity monitoring: Metabarcoding estimates 31,846 insect species from Malaise traps across Germany
Molecular Ecology Resources 25:14023
Warter, MM, D Tetzlaff, C Soulsby, T Goldhammer, D Gebler, K Vierikko, MT Monaghan (2025)
Understanding ecohydrology and biodiversity in aquatic nature-based solutions in urban streams and ponds through an integrative multi-tracer approach
Hydrology and Earth System Sciences 29:2707–2725
Manthey et al. (2024)
Rapid growth and the evolution of complete metamorphosis in insects
Proceedings of the National Academy of Sciences 121:2402980121
Kuhl et al. (2024)
The haplotype-resolved Prymnesium parvum (type B) microalga genome reveals the genetic basis of its fish-killing toxins
Current Biology 34:3698-3706.e4
Galeone et al. (2024)
Evolutionary Insights from association rule mining of co-occurring mutations in influenza hemagglutinin and neuraminidase
Viruses 16:1515
Weber et al. (2024)
Urban pavements as a novel habitat for wild bees and other ground-nesting insects
Urban Ecology 27:2453–2467
Köhler et al. (2024)
Unpredicted ecosystem response to compound human impacts in a European river
Scientific Reports 14:16445
Thomé et al. (2024)
Phylogenomics including new sequence data of phytoplankton-infecting chytrids reveals multiple independent lifestyle transitions across the phylum
Molecular Phylogenetics and Evolution 197:108103
Warter et al. (2024)
Environmental DNA, hydrochemistry and stable water isotopes as integrative tracers of urban ecohydrology
Water Research 250:121065
Thomé et al. (2023)
Single-cell genomics reveals new Rozellid lineages and supports their sister relationship to Microsporidia.
Biology Letters 19:20230398
Theissinger et al. (2023)
How genomics can help biodiversity conservation.
Trends in Genetics 39:545-559
Strassert & Monaghan (2022)
Phylogenomic insights into the early diversification of fungi.
Current Biology 32:3628-3635.e3.
Premke et al. (2022)
Large-scale sampling of the freshwater microbiome suggests pollution-driven ecosystem changes.
Environmental Pollution 308:119627.
Maasri et al. (2022)
A global agenda for advancing freshwater biodiversity research.
Ecology Letters 25:255-263.
Formenti et al. (2022)
The era of reference genomes in conservation genomics.
Trends in Ecology and Evolution 37:197-202.
Heeger et al. (2021)
Evidence for lignocellulose-decomposing enzymes in the genome and transcriptome of the aquatic hyphomycete Clavariopsis aquatica.
Journal of Fungi 7:854.
Beng et al. (2021)
Temporal dynamics of freshwater planktonic parasites inferred using a DNA metabarcoding time-series.
Parasitology 148:1602-1611.
Rodriguez-Ezpeleta et al. (2021)
Trade-offs between reducing complex terminology and producing accurate interpretations from environmental DNA.
Molecular Ecology 30:4601-4605.
van Rees et al. (2021)
Safeguarding freshwater life beyond 2020: recommendations for the new Global Biodiversity Framework from the European experience.
Conservation Letters 14:e12771
Jähnig et al. (2021)
Revisiting global trends in freshwater insect biodiversity.
WIREs Water 8:e1506.
Teaching
Freie Universität Berlin
Institute of Biology (Faculty of Biology, Chemistry, Pharmacy)
- 23202 Data Science in Biology (ABV)
- 23306 Experimental and Theoretical Evolutionary Ecology
- 23308 Biotic Interactions in a Changing World
- Project (10 LP)
- Research Project (15 LP)
- Bachelor's thesis
- Master's Project / Thesis
Institute of Computer Science (Faculty of Mathematics and Computer Science)
- 23779 Biodiversity and Evolution
- 23780 Environmental Genomics
- 23781 Evolutionary Bioinformatics and NGS Applications (Seminar)
- Research Internship (10 LP)
- Master's Project / Thesis
IGB
- Introduction to R / RStudio
- Reviewing Scientific Papers
- Preparing an Academic Job Application