Director of the Research Unit for Comparative Microbiome Analysis
Prof. Dr. Rer. Nat. Habil. Michael Schloter
"Human and environmental health are inseparably linked, as recognized by the concept of Planetary Health. Climate change and biodiversity loss alter ecosystems, facilitating the spread of invasive species and new pathogen vectors, promoting antimicrobial resistance, and reducing exposure to beneficial environmental microbes. These changes can disrupt the human microbiome and increase the risk of infectious and chronic diseases, highlighting the need for environmental protection and preventive action."
Academic Pathway
Michael Schloter is a microbiologist by heart. During his diploma and PhD studies at LMU Munich and the University of Bayreuth, he became fascinated by the extraordinary diversity of microorganisms and their remarkable capacity to adapt to environments once considered hostile to life.
After completing his PhD, he joined research groups in Brazil and the United States, where he identified microorganisms that support plant growth under abiotic and biotic stress and developed strategies to implement such microbiota in agricultural systems as bioinoculants. This work sparked his long-standing interest in harnessing the functional potential of microbiomes to support the health and resilience of eukaryotic hosts.
In 2001 he joined GSF – National Research Center for Environment and Health (now Helmholtz Munich), where he became a group leader in soil microbial ecology and further advanced concepts for using microbiomes to promote sustainable agriculture. After completing his habilitation in 2007, he became Honorary-Professor of Microbiology at the Technical University of Munich in 2010. In 2011 he was appointed Director of the Research Unit for Comparative Microbiome Analysis at Helmholtz Munich, where he expanded his research to multiple host–microbe systems with a particular focus on the human microbiome and its relevance for human health.
Michael Schloter is a principal investigator in the German Center for Lung Research (DZL) and the Center for Food and Nutrition (ZIEL) at the Technical University of Munich (TUM) Munich. His research focuses on how environmental changes, biodiversity loss, and altered microbial exposures affect host-associated microbiomes and contribute to disease risks.
He has received numerous honours and was listed among the world’s top 1% most cited scientists from 2019 to 2024. In 2021 he was elected member of the Bavarian Academy of Sciences and Humanities. Since 2023 he holds the Chair for Environmental Microbiology at TUM. In 2025 he was appointed as member of the DFG Senate Commission on Biodiversity.
His vision is to develop strategies that harness the functional potential of microbiomes to improve human health and reduce the burden of environmentally linked diseases such as allergies and infections. To achieve this, he actively contributes to national and international initiatives advancing microbiome research and standardization, including the German One Health Platform.
Work and Expertise
Professional Background
Full Professor for Environmental Microbiology at Technical University of Munich
Principle investigator of the German Center for Lung Diseases (DZL)
Director of the Research Unit for Comparative Microbiome Analysis
Honorary Professor for Microbiology at Technical University of Munich
Honors and Awards
Media coverage
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Transcript: Biodiversity Matters is a powerful documentary that explores the critical importance of biodiversity and its impact on our planet’s ecosystems.
Biodiversity Matters is a powerful documentary that explores the critical importance of biodiversity and its impact on our planet’s ecosystems. Through stunning visuals and expert interviews, the film delves into the challenges we face in preserving the natural world. It highlights the urgent need for action to protect the diverse species that sustain life on Earth. As part of the Biodiversity Matters project (GEBIKI is the research project name), the film serves as a call to awareness and change, emphasizing that every living organism plays a vital role in maintaining ecological balance.
Publications
Siani, R. ; Gutjahr, C. ; Schloter, M.
Adaptation to a host-associated lifestyle is associated with convergent loss of flagella-related genes in Pseudomonadota.Geydirici, I. ; Martínez-Cuesta, R. ; Bibinger, S. ; Espíndola-Hernández, P. ; Gschwendtner, S. ; Rodríguez-Berbel, N. ; Schulz, S. ; Schloter, M.
Digging deeper into soil metagenomics: Opportunities and limitations for studying the genomic potential of soil bacteria and archaea.Andrade Linares, D.R. ; Schloter, M. ; Schulz, S.
Correction to “Plant–Soil Relationships Diminish UnderMajor Versus Moderate Climate Change in SubalpineGrasslands”.Gschwendtner, S. ; Kovacevic, D. ; Gaede, K.I. ; Herzmann, C. ; Overmann, J. ; Schloter, M. ; Krauss-Etschmann, S.
Longitudinal dynamics and site-specific recovery of the human respiratory microbiome following smoking cessation.Streb, L.-M. ; Kligman, M. ; Geist, J. ; Pereira de Souza, G.F. ; Rath, S. ; Walch, S. ; Schloter, M.
Corrigendum to "You shall not pass! (unless you're stress resistant): Selection-driven restructuring and transient invasion in freshwater mussel microbiomes under antimicrobial exposure" [Environ. Int. 208 (2026) 110138].Faggionato, D. ; Muñoz-García, M. ; Kostić, T. ; Ferrari, M.L. ; Vonaesch, P. ; Poyet, M. ; Dutrieux, C. ; Ryan, M.J. ; Djeddour, D. ; Stumptner, C. ; Varese, G.C. ; Zuzuarregui, A. ; Groussin, M. ; Schloter, M. ; Finn, R.D. ; Haas, A. ; Probert, I. ; Verkley, G. ; Overmann, J. ; Scholz, A.H.
Policy in practice: How to “do” the Nagoya Protocol: Common misconceptions, challenges and best practices for access and benefit-sharing compliance.Streb, L.-M. ; Kligman, M. ; Geist, J. ; Pereira de Souza, G.F. ; Rath, S. ; Walch, S. ; Schloter, M.
You shall not pass! (unless you're stress resistant): Selection-driven restructuring and transient invasion in freshwater mussel microbiomes under antimicrobial exposure.Espíndola-Hernández, P. ; Banerjee, S. ; Abdulmalik, A.O. ; Andrade Linares, D.R. ; Baldi, G. ; Berg, G. ; Brearley, F.Q. ; Flocco, C.G. ; Galgani, L. ; Gegeckienė, L. ; Gschwendtner, S. ; Hensen, T. ; Kostić, T. ; Ledesma-Amaro, R. ; Maier, L. ; Marciniak, A. ; Ohan, J. ; Overmann, J. ; Rito, T. ; Ryan, M.J. ; Schulz, S. ; Vieira, S. ; Schloter, M.
A trait-based framework to identify microbial keystone taxa for microbiome engineering.Han, J. ; Gasché, R. ; Wolf, B. ; Schweizer, S.A. ; García-Franco, N. ; Wiesmeier, M. ; Kiese, R. ; Ostler, U. ; Andrade Linares, D.R. ; Schloter, M. ; Schlingmann, M. ; Rennenberg, H. ; Dannenmann, M.
Increasing grassland productivity and reducing environmental N losses – Multiple benefits of advanced cattle slurry separation.Faggionato, D. ; Muñoz-García, M. ; Kostić, T. ; Ferrari, M.L. ; Vonaesch, P. ; Poyet, M. ; Dutrieux, C. ; Ryan, M.J. ; Djeddour, D. ; Stumptner, C. ; Varese, G.C. ; Zuzuarregui, A. ; Groussin, M. ; Schloter, M. ; Finn, R.D. ; Haas, A. ; Probert, I. ; Verkley, G. ; Overmann, J. ; Scholz, A.H.
Policy Briefing: From access to use - Untangling the international legal frameworks that govern microbial resources.