The first systematic proteomic mapping of VZV-host interactions

Varicella-zoster virus (VZV), the cause of chickenpox and shingles, is also linked to neurological complications — but how it disrupts human cells at the molecular level has remained unclear. In our latest study published in Nature Microbiology, we systematically mapped how 64 VZV proteins interact with the cellular machinery and induce host protein abundance changes, and thus, individually participate to the proteomic perturbations observed in infected cells. The dataset reveals 900 interactors and thousands of VZV-induced host protein abundance regulations (https://varizonet.innatelab.org). This experimental design allowed comprehensive data integration to spotlighted key molecular strategies mediated by viral proteins. For example, we found a mechanism for the ORF61-mediated IFI16 degradation via the recruitment of host E3 ligase co-factors. Loss-of-function screen of identified host proteins discovered dependency and restriction factors which can be targeted to control VZV infection. Finally, integrating this proteomic VZV–host interface to patient genetic data identified the protein nephrocystin 4 as an important restriction factor, which allowed us to characterise how its variant S862N can participate to increased VZV brain infections.

This work offers a comprehensive herpesvirus–host interface resource, which aids our understanding of the molecular features of disease and data-driven identification of antiviral strategies.

Congratulations to Virginie, Melissa and Susi as well as our alumni Alexey, Darya, Lila, and Antonio, and all the co-authors for this long-lasting and highly collaborative effort!

Last but not least, we thank the patients who participated in this study.

Read more here: Multi-proteomic profiling of the varicella-zoster virus-host interface reveals host susceptibilities to severe infection

Text by Virginie.

A Bright New Arrival: Axioscan 7 Joins Our Lab

July gave us a great reason to celebrate: we welcomed a valuable new addition to our equipment lineup—the Axioscan 7 slide scanning microscope. This high-speed scanner, designed for fluorescence, brightfield, and polarization imaging, brings both advanced capabilities and a touch of futuristic charm with its glowing slide loading racks. Beyond its striking appearance, the Axioscan 7 is set to become an essential tool for many of our lab’s growing projects. To get started, our team received in-depth training from Zeiss representatives, and we are excited to begin generating high-resolution images with this powerful instrument.

Anastasiia is excited to use Axioscan 7!

Text by Anastasiia, photos by Yiqi.

Congratulations Dr Wang!

At the height of summer, Anqi successfully defended her doctoral thesis on a new form of cell death regulation. Congratulations Dr Wang! The journey of discovery is never easy, but your dedication and resilience carried you through. 

It took courage to leave pandas and hotpots behind and pursue a PhD far away from home. We’re grateful for your decision five years ago, and we look forward to following your exciting projects in the years to come!

Text by Yiqi, photos by Weiqi, Yicheng and Di.

NoVir: Towards Better Protection Against Future Pandemics

The European Union by their EU4Health Programme will fund NoVir – a consortium of four European partners which will enhance public health resilience against future pandemics. This nearly €10 million grant will establish IFN-λ mRNA as an antiviral treatment option to be prepared against virus infections.

Based on our finding that IFN-λ mRNA formulations (ETH47) prevent virus infections (Macht et al., Embo Reports, 2024), and a highly successful phase-I clinical trial, the ERC is funding a 2-year project covering two phase II clinical trials and accommodating pre-clinical research. This collaborative effort between Ethris (Carsten Rudolph, Thomas Langenickel), Aarhus University (Soren Riis Paludan), and us will enable the development of ETH47 as an antiviral treatment that may be active against diverse viruses.

The NoVir project will run from 1 May 2025, to 30 April 2027 and will include the following aspects:

  • Clinical rhinovirus challenge study in asthmatic and chronic obstructive pulmonary disease (COPD) patients, populations at high risk for severe viral infections.
  • Clinical study in healthy volunteers infected with influenza to assess ETH47’s antiviral efficacy.
  • Preclinical research exploring ETH47’s protective effects against diverse viral pathogens.
  • ETH47’s impact on intravaginal, ocular, and systemic infections.
  • ETH47’s synergism with existing antiviral treatments.

We are very excited to research the breadth of ETH47 as a pan-antiviral agent that may help battle future epidemics and pandemics.

 

Vilber Fusion Absolute – our brand new imager!

It is our great pleasure to welcome a new “lab member”  Vilber Fusion Absolute! It is capable of both chemiluminescence and fluorescence imaging, and has an automated image acquisition program. With its high-quality images and advanced software, we can even perform absolute quantification of proteins. 

We can’t wait to analyse our Western Blots with Vilber Fusion Absolute!

Text by Yiqi, photos by Yicheng and Melissa.

Lara testing out the Fusion Absolute.

Goodbye Schnecke, hello TranslaTUM!

A bit over six years ago, the Innates moved from MPI to the lovely “Schneckebunker” in the city centre. Now, after years of planning and replanning, we have moved again to our new home in TranslaTUM! Leaving Schnecke was not easy – it contained so much of our memories, and a bit too much of stuff (or trash, the borderline was often unclear). After all, this building has been occupied by researchers for more than three decades! It took us a while to sort out the things to bring with us while admiring the design of some historical lab pieces…

The big days came at the end of December – carton after carton, truck after truck, we were moving! There were unexpected challenges every day, and it was a stressful time for everyone. However, we managed it with an incredible team effort. 

We had our last Christmas party in Schnecke and decorated the walls with colourful paintings. Many ex-Innates came to experience Schnecke one last time. In the upcoming years, it will be replaced by a brand-new building for multiple sclerosis research. 

Goodbye Schnecke – thank you for hosting us with your special charm! Hello TranslaTUM – we’re ready for a fresh start!  

Text by Yiqi, photos by Dorsa, Lara and Virginie.

Uncovering the importance of protein turnover regulation in IAV infection

Protein turnover is crucial to the cellular response to internal and external changes. In our publication in Cell Systems, we systematically profiled the protein turnover changes in cells infected by the influenza A virus (IAV). We identified more than a thousand virus-affected proteins with turnover changes (tVAPs) and demonstrated their important roles in IAV infection by intersecting them with published IAV interactome and genome-wide screens and performing additional functional analyses. We further investigated a splicing factor GPKOW, which we found to be an antiviral tVAP that modulates the host’s innate immune response. The data can be explored here: https://pulsechase.innatelab.org/

Congratulations to Yiqi, Chris, Philipp and Alexey – it was a successful collaboration across multiple generations of Innates!

Read more here: Protein turnover regulation is critical for influenza A virus infection

Text by Yiqi.

Congratulations Dr Krey!

At the beginning of October, the world welcomed another fresh doctor – Karsten held a great defence on his thesis “Unveiling Antiviral Roles of Interferon-Stimulated Genes Through Time-Resolved CRISPR/Cas9 Screening”. Congratulations Dr Krey – you deserve an additional doctor title in engineering, for the amount of equipment you fixed in the lab!

With your dedication and creativity, we believe you’ll be accomplished in anything you do in your future endeavours! Dear Karsten, we are grateful to have a warm-hearted and resourceful colleague like you, and we wish you all the best in your new life in Vienna!

Read his first author papers here:

Text and photo by Yiqi.

Goodbye Sabri!

At the end of summer, we had to part ways with our beloved data scientist Sabri. Once again, we had a farewell party, where we enjoyed an amazing homemade dinner by Sabri, trying to engrave the two most important teachings of Sabri in our mind – “Have you tried switching it off and on again?” and “GIGO – garbage in, garbage out”.

Dear Sabri, thank you for analysing our proteomics and Incucyte data and keeping our IT system in shape. You’re always approachable and ready to help, it was our pleasure working with you! We wish you all the best in your new career!  

Text by Yiqi.

mRNA therapy as a potential treatment against SARS-CoV-2

In our publication in EMBO reports, we investigated the effectiveness of LNP-formulated IFNλ1  mRNA (ETH47) in treating SARS-CoV-2 infection. ETH47 successfully induced an ISG response without excessive inflammation and inhibited SARS-CoV-2 replication in our in vitro and in vivo models. These promising results highlighted the possibility of using mRNA therapy in treating virus infections and laid the foundations for the upcoming clinical trials of ETH47.

Congratulations to Yiqi, Vince, and our collaborators from ETHRIS and Aarhus University!

Read more here: Mucosal IFNλ1 mRNA-based immunomodulation effectively reduces SARS-CoV-2 induced mortality in mice

Text by Yiqi.