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Herpesvirus Effectors of RNA synthesis, Processing, Export and Stability

Total Cost €


EC-Contrib. €






 HERPES project word cloud

Explore the words cloud of the HERPES project. It provides you a very rough idea of what is the project "HERPES" about.

multiple    insights    hsv    interacts    orchestrated    screen    molecular    cas9    proteomics    made    quantitative    responsible    governing    ctd    thousands    unaltered    exploring    splicing    polymerase    thereby    lytic    inhibit    observation    triggers    throughput    aptamer    track    visualise    intensively    methodology    termination    biology    poly    depicted    human    read    cellular    bioinformatic    utilise    surprising    downstream    induces    screening    laboratory    rna    intervals    tens    simplex    levels    imaging    molecules    aberrant    infection    seq    herpes    textbook    dynamic    molecule    transcriptional    contrast    translation    sites    virus    cells    hypothesis    unbiased    employing    alterations    innovative    phosphorylation    machinery    transcription    events    combines    export    proteins    mechanisms    fascinating    synthesis    knockout    stability    broad    sequencing    ranging    disruption    cutting    single    suffering    viral    pathogen    phenomena    generation    fundamental    coupling    mnet    characterise    extends    elucidate    genes    edge    hypothesize    genome    nucleotides    data   

Project "HERPES" data sheet

The following table provides information about the project.


Organization address
address: SANDERRING 2
postcode: 97070

contact info
title: n.a.
name: n.a.
surname: n.a.
function: n.a.
email: n.a.
telephone: n.a.
fax: n.a.

 Coordinator Country Germany [DE]
 Project website
 Total cost 1˙994˙375 €
 EC max contribution 1˙994˙375 € (100%)
 Programme 1. H2020-EU.1.1. (EXCELLENT SCIENCE - European Research Council (ERC))
 Code Call ERC-2016-COG
 Funding Scheme ERC-COG
 Starting year 2017
 Duration (year-month-day) from 2017-05-01   to  2022-04-30


Take a look of project's partnership.

# participants  country  role  EC contrib. [€] 


 Project objective

Herpes simplex virus 1 (HSV-1) is an important human pathogen, which intensively interacts with the cellular transcriptional machinery at multiple levels during lytic infection. Employing next-generation sequencing to study RNA synthesis, processing and translation in short intervals throughout lytic HSV-1 infection, my laboratory made the surprising observation that HSV-1 triggers widespread disruption of transcription termination of cellular but not viral genes. Transcription commonly extends for tens-of-thousands of nucleotides beyond poly(A)-sites and into downstream genes. In contrast to textbook knowledge, HSV-1 infection does not inhibit splicing but induces a broad range of aberrant splicing events associated with disruption of transcription termination. Exploring these fascinating phenomena will provide fundamental insights into RNA biology of human cells. The proposed work combines both hypothesis-driven and innovative unbiased screening approaches. I will utilise cutting-edge methodology ranging from high-throughput studies to advanced single molecule imaging. Thereby, I will detail the molecular mechanisms responsible for disruption of transcription termination and aberrant splicing. I will identify novel cellular proteins governing transcription termination using a genome-wide Cas9-knockout screen. I will develop RNA aptamer technology to visualise and track single RNA molecules suffering from poly(A) read-through. I will elucidate why transcription termination of some cellular and all viral genes remains unaltered throughout infection. I hypothesize that the alterations in RNA processing are depicted by specific changes in RNA Polymerase II CTD phosphorylation and in the associated proteins. I will characterise these dynamic changes using mNET-seq and quantitative proteomics. Finally, data-driven quantitative bioinformatic modelling will detail how the coupling of RNA synthesis, processing, export, stability and translation is orchestrated by HSV-1.


year authors and title journal last update
List of publications.
2019 Florian Erhard, Marisa A. P. Baptista, Tobias Krammer, Thomas Hennig, Marius Lange, Panagiota Arampatzi, Christopher S. Jürges, Fabian J. Theis, Antoine-Emmanuel Saliba, Lars Dölken
scSLAM-seq reveals core features of transcription dynamics in single cells
published pages: 419-423, ISSN: 0028-0836, DOI: 10.1038/s41586-019-1369-y
Nature 571/7765 2019-11-07
2018 Florian Erhard, Anne Halenius, Cosima Zimmermann, Anne L\'Hernault, Daniel J Kowalewski, Michael P Weekes, Stefan Stevanovic, Ralf Zimmer, Lars Dölken
Improved Ribo-seq enables identification of cryptic translation events
published pages: 363-366, ISSN: 1548-7091, DOI: 10.1038/nmeth.4631
Nature Methods 15/5 2019-04-18
2018 Marisa A P Baptista, Lars Dölken
RNA dynamics revealed by metabolic RNA labeling and biochemical nucleoside conversions
published pages: 171-172, ISSN: 1548-7091, DOI: 10.1038/nmeth.4608
Nature Methods 15/3 2019-04-18
2017 Emanuel Wyler, Jennifer Menegatti, Vedran Franke, Christine Kocks, Anastasiya Boltengagen, Thomas Hennig, Kathrin Theil, Andrzej Rutkowski, Carmelo Ferrai, Laura Baer, Lisa Kermas, Caroline Friedel, Nikolaus Rajewsky, Altuna Akalin, Lars Dölken, Friedrich Grässer, Markus Landthaler
Widespread activation of antisense transcription of the host genome during herpes simplex virus 1 infection
published pages: , ISSN: 1474-760X, DOI: 10.1186/s13059-017-1329-5
Genome Biology 18/1 2019-04-18
2018 Thomas Hennig, Marco Michalski, Andrzej J. Rutkowski, Lara Djakovic, Adam W. Whisnant, Marie-Sophie Friedl, Bhaskar Anand Jha, Marisa A. P. Baptista, Anne L’Hernault, Florian Erhard, Lars Dölken, Caroline C. Friedel
HSV-1-induced disruption of transcription termination resembles a cellular stress response but selectively increases chromatin accessibility downstream of genes
published pages: e1006954, ISSN: 1553-7374, DOI: 10.1371/journal.ppat.1006954
PLOS Pathogens 14/3 2019-04-18
2018 Christopher Jürges, Lars Dölken, Florian Erhard
Dissecting newly transcribed and old RNA using GRAND-SLAM
published pages: i218-i226, ISSN: 1367-4803, DOI: 10.1093/bioinformatics/bty256
Bioinformatics 34/13 2019-04-18

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