Microbial Transmission

The “One Health” idea emphasizes the close relationship between human health and well-being and the health of other ecosystem elements such as soil, plants, and animals.

We are gradually discovering the important role of microbial communities in maintaining our health, as well as the health of ecosystems. Numerous studies now show that microbial communities linked to plants, animals, and people serve as an "eco-holobiont", influencing the fitness and performance of practically all living organisms on Earth. Moreover, microbial communities made up of various organisms are related to one another and create a loop.

In our lab, we apply big data recycling to zoom in on the drivers of microbiome composition. By applying meta’omics and statistical approaches, we study how pathogens can be transmitted between different environments. Moreover, given that the associations between the microbiome and health extend beyond pathogens alone, we are also working on identifying general principles of microbial colonization for the rational editing of imbalanced microbial communities.


Mohammadhassan Mirhakkak Esfahani
Yueqiong (Bernard) Ni
Tongta Sae-Ong
Sascha Schäuble


Loos D*, Pereira da Costa Filho A*, Dutilh B E, Barber AE#, Panagiotou G# (2024) A global survey of host, aquatic, and soil microbiomes reveals shared abundance and genomic features between bacterial and fungal generalists. Cell Rep 43(4), 114046.
McIlroy SE#, Guibert I, Archana A, Chung WYH, Duffy JE, Gotama R, Hui J, Knowlton N, Leray M, Meyer C, Panagiotou G, Paulay G, Russell B, Thompson PD, Baker DM # (2024) Life goes on: Spatial heterogeneity promotes biodiversity in an urbanized coastal marine ecosystem. Glob Chang Biol 30(4), e17248.
Yuu EY, Bührer C, Eckmanns T, Fulde M, Herz M, Kurzai O, Lindstedt C, Panagiotou G, Piro VC, Radonic A, Renard BY, Reuss A, Leal Siliceo S, Thielemann N, Thürmer A, van Vorst K, Wieler LH, Haller S# (2024) The gut microbiome, resistome, and mycobiome in preterm newborn infants and mouse pups: lack of lasting effects by antimicrobial therapy or probiotic prophylaxis. Gut Pathogens 16(1), 27.
Brandt P*, Mirhakkak MH*, Wagner L, Driesch D, Möslinger A, Fänder P, Schäuble S, Panagiotou G, Vylkova S# (2023) High-throughput profiling of Candida auris isolates reveals clade-specific metabolic differences. Microbiol Spectr 11(3), e0049823.
Barber AE, Riedel J, Sae-Ong T, Kang K, Brabetz W, Panagiotou G, Deising HB, Kurzai O (2020) Effects of agricultural fungicide use on Aspergillus fumigatus abundance, antifungal susceptibility, and population structure. mBio 11(6), e02213-20.
Blango MG, Pschibul A, Rivieccio F, Krüger T, Rafiq M, Jia L, Zheng T, Goldmann M, Voltersen V, Li J, Panagiotou G, Kniemeyer O, Brakhage AA (2020) Dynamic surface proteomes of allergenic fungal conidia. J Proteome Res 19(5), 2092-2104.
Chen J*, McIlroy SE, Archana A, Baker DM, Panagiotou G** (2019) A pollution gradient contributes to the taxonomic, functional, and resistome diversity of microbial communities in marine sediments. Microbiome 7(1), 104.
Li J, Rettedal EA, van der Helm E, Ellabaan M, Panagiotou G**, Sommer MOA**(corresponding authors**) (2019) Antibiotic treatment drives the diversification of the human gut resistome. Genom Proteom Bioinf 17(1), 39-51.
Kang K, Ni Y, Li J, Imamovic L, Sarkar C, Kobler MD, Heshiki Y, Zheng T, Kumari S, Wong JCY, Archna A, Wong CWM, Dingle C, Denizen S, Baker DM, Sommer MOA, Webster CJ, Panagiotou G** (2018) The environmental exposures and inner- and intercity traffic flows of the metro system may contribute to the human skin microbiome and resistome. Cell Reports 24(5), 1190-1202.
Lau SKP, Teng JLL, Chiu TH, Chan E, Tsang AKL, Panagiotou G, Zhai SL, Woo PCY (2018) Differential microbial communities of omnivorous and herbivorous cattle in Southern China. Comput Struct Biotechnol J 16, 54-60.