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I am a trained molecular biologist turned to data analyst.

Since 2023 I am a PostDoc in the newly established Groussin Poyet Lab - Host microbiome systems in health & disease @ IKMB, Kiel, the founders of the Global Microbiome Conservancy.

I finished my PhD in the lab of Andre Franke at the Institue of Clinical Molecular Biology (IKMB) in 2020 and stayed as PostDoc until end of 2022, with a brief 6-months guest stay at the lab of Jeroen Raes @ VIB / KU Leuven.

In addition, I am a guest scientist at the Insitute for Medical Microbiology and Hospital Epidemiology in the group of Marius Vital @ Hannover Medical School.

Reasearch Interest

I am a PI in the third phase of the DFG-funded Collaborative Research Centre 1182 - Origin and Function of Metagenomes.

My projects focus on the factors that shape the human intestinal microbiota, i.e. chronic disease, genetics, evolution and environmental factors. To achieve this, I am analyzing data generated by 16S rRNA gene amplicon sequencing and shotgun metagenomics, using existing methods and my own tools and pipelines.

I have given courses and workshops on different aspects of microbiome analysis 1, 2, 3.

Selected Publications

  • Functional host-specific adaptation of the intestinal microbiome in hominids - Rühlemann et al., Nature Communications (2023). Full Text

  • Host genetic factors related to innate immunity, environmental sensing and cellular functions are associated with human skin microbiota - Moitinho-Silva, ..., Rühlemann, Nature Communications (2022). Full Text (Senior Author)

  • MAGScoT: a fast, lightweight and accurate bin-refinement tool - Rühlemann et al., Bioinformatics (2022). Full Text

  • Genome-wide association study in 8,956 German individuals identifies influence of ABO histo-blood groups on gut microbiome - Rühlemann et al., Nature Genetics (2021). Full Text

  • Primate phageomes are structured by superhost phylogeny and environment - Gogarten, Rühlemann et al., PNAS (2021). Full Text

  • Genomewide association study of severe Covid-19 with respiratory failure - The Severe Covid-19 GWAS Group, New England Journal of Medicine (2020). Full Text (Contributor to the Severe Covid-19 GWAS Group)

  • Consistent Alterations in Faecal Microbiomes of Patients With Primary Sclerosing Cholangitis Independent of Associated Colitis - Rühlemann et al., AP&T (2019). Full Text

  • Gut mycobiome of primary sclerosing cholangitis patients is characterised by an increase of Trichocladium griseum and Candida species - Rühlemann et al., Gut (2019). Full Text

  • Comparative analysis of amplicon and metagenomic sequencing methods reveals key features in the evolution of animal metaorganisms - Rausch*, Rühlemann * et al., Microbiome (2019). Open Access

  • Obese Individuals with and without Type 2 Diabetes Show Different Gut Microbial Functional Capacity and Composition - Thingholm, Rühlemann et al., Cell Host & Microbe (2019). Full Text

For a full and up-to-date list of publications go to PubMed, Google Scholar

Grants, Awards, Invitations

Collaborations