Dr. Fabian Ruperti

Dr. Fabian Ruperti

(he/him)

Postdoctoral Researcher - Molecular Evolutionary Biology/Biochemistry

University of Queensland, Brisbane, Australia

Professional Summary

I am a molecular biologist/biochemist and postdoctoral researcher at the University of Queensland, Brisbane, Australia. My research lies at the intersection of functional proteomics and evolutionary biology, with a particular focus on how proteins and their post-translational modifications have evolved to shape key animal traits. Using mass spectrometry as my main analytical tool, I study early-branching animals such as sponges, ctenophores, and cnidarians to uncover the post-translational innovations underlying the emergence of multicellularity, the nervous and immune systems, and symbiotic interactions.

Please reach out for potential collaborations, peer-review requests or just interest in evolution and proteins!

Education

PhD Evolutionary Molecular Biology

European Molecular Biology Laboratory

M.Sc. Biochemistry

University of Regensburg

B.Sc. Biochemistry

University of Regensburg

Interests

Protein Evolution Post-translational Modifications (Functional) Proteomics Animal Evolution
Selected Projects

Here is a selection of projects that I am currently working on.

GlySelf - The sweet origin of the animal "self" featured image

GlySelf - The sweet origin of the animal "self"

All animals must distinguish between their own cells, those of others, and the countless microbes that surround them. This ability to tell “self” from “non-self” is fundamental to …

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DOLITTLE - The evolution and role of protein N-linked glycosylation in the animal tree featured image

DOLITTLE - The evolution and role of protein N-linked glycosylation in the animal tree

N-linked glycosylation is a complex post-translational modification in which (oligo)saccharides are covalently attached to extracellular and membrane-bound proteins. As such, …

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Recent News

Updates on conferences, talks, publications, field trips, and fun stuff.

Structural homologs DO NOT EXIST (you just mean something different) featured image

Structural homologs DO NOT EXIST (you just mean something different)

This marks the end of my 2026 beginning-of-the-year conference marathon. This time, I talked about ‘old’ work that was published during my PhD together with Nikolaos Papadopoulos, …

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Talk at the 2026 Lorne Proteomics Symposium featured image

Talk at the 2026 Lorne Proteomics Symposium

Finally - my first Lorne Proteomics Conference! I have heard rumors, even back in Germany, about the meeting, the place Lorne with its beautiful beach, and the conference party. …

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Talk at the 2026 Queensland Mass Spectrometry Symposium featured image

Talk at the 2026 Queensland Mass Spectrometry Symposium

What a lovely bunch of people! My first impression of the Queensland Mass Spectrometry crowd. In two packed days, everyone in Queensland (and more) who is connected by one shared …

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Talk at the 2025 West Pacific Marine Biology Network Conference featured image

Talk at the 2025 West Pacific Marine Biology Network Conference

I was lucky to have another conference right at my doorstep! The West Pacific Marine Biology Network had its 3rd meeting at the University of Queensland in Brisbane. Indigenous …

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Heron Island Sampling Oct/Nov 2025 featured image

Heron Island Sampling Oct/Nov 2025

My first time sampling at Heron Island reef was a blast. Heron Island is a coral cay (a small, sandy island on top of a coral reef) in the southern Great Barrier Reef. The …

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Featured Publications

Experience

  1. Postdoctoral Researcher

    University of Queensland, Brisbane, Australia
    Evolution and diversity of protein N-glycosylation in the tree of life. Supervised by Prof. Dr. Bernard Degnan, Prof. Dr. Sandie Degnan and Prof. Dr. Benjamin Schulz.
  2. Postdoctoral Researcher

    European Molecular Biology Laboratory, Heidelberg, Germany
    Evolution and diversity of protein N-glycosylation in the tree of life. Supervised by Dr. Mikhail Savitski and Prof. Dr. Detlev Arendt.
  3. Senior Associate

    F.Hoffmann-La Roche AG, Penzberg, Germany
    Development of antibody affinity columns and 2D-HPLC methods.
  4. Visting Scientist

    University of Colorado, Boulder, USA
    Development of a novel next-generation HP virus vaccine application method. Supervised by Prof. T. W. Randolph, Ph.D. and Prof. R. Garcea, M.D.

Education

  1. PhD Evolutionary Molecular Biology

    European Molecular Biology Laboratory
    The evolution of cellular functional modules and the origin of coordinated behavior in Metazoa. Supervised by Prof. Dr. Detlev Arendt.
  2. M.Sc. Biochemistry

    University of Regensburg
    Characterization and comparison of homologous enzymes of serine and histidine biosynthesis. Supervised by Prof. Dr. Reinhard Sterner.
  3. B.Sc. Biochemistry

    University of Regensburg
Fellowships and Awards
EMBO Postdoctoral Fellowship
European Molecular Biology Organization (EMBO) ∙ December 2024
Protein glycosylation and the origin of the animal “self”
HFSP Long-term Postdoctoral Fellowship
Human Frontier Science Program ∙ March 2025
The dynamic regulation of coral-dinoflagellate symbiosis by protein glycosylation
Planetary Biology Seed Project Grant
EMBL Planetary Biology Transversal Theme ∙ February 2024
DOLITTLE - Diversity of protein N-glycosylation in the tree of life
Marie Skłodowska-Curie Action Predoctoral Fellowship
ERC - Horizon 2020 framework of the European Commission - ITN IGNITE ∙ March 2019
Elucidating the mechanics of nervous reactions in nerveless sponges
Recent Publications
(2024). Proteomic analysis of the sponge Aggregation Factor implicates an ancient toolkit for allorecognition and adhesion in animals. Proc. Natl. Acad. Sci. U.S.A. 121 (52) e2409125121.
(2024). Molecular profiling of sponge deflation reveals an ancient relaxant-inflammatory response. Current Biology, Volume 34, Issue 2, 361 - 375.e9.
(2023). Cross-phyla protein annotation by structural prediction and alignment. Genome Biol 24, 113 (2023).
(2023). CD3 target affinity chromatography mass spectrometry as a new tool for function--structure characterization of T-Cell engaging bispecific antibody proteoforms and product-related variants. Anal. Chem. 2023, 95, 4, 2260–2268.
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(2021). Profiling cellular diversity in sponges informs animal cell type and nervous system evolution. Science374,717-723(2021).