A5089764437- RNA and protein synthesis mechanisms
- RNA Research and Splicing
- Bacteriophages and microbial interactions
- RNA modifications and cancer
- Genomics and Phylogenetic Studies
- Plant Virus Research Studies
- Nuclear Structure and Function
- Plant and Fungal Interactions Research
- Photosynthetic Processes and Mechanisms
- Extracellular vesicles in disease
- Chromosomal and Genetic Variations
- Bacterial Genetics and Biotechnology
- Plant Disease Resistance and Genetics
- Antibiotic Resistance in Bacteria
- Genomics and Chromatin Dynamics
Laboratoire de Chimie Bactérienne
2023-2025
Wellcome Centre for Cell Biology
2016-2023
University of Edinburgh
2016-2023
Centre National de la Recherche Scientifique
2011-2023
Institut de Microbiologie de la Méditerranée
2023
Université Paris Cité
2017
Délégation Paris 7
2017
Edinburgh College
2017
Sorbonne Université
2011-2014
Wellcome Trust
2014
Abstract Early eukaryotic ribosome biogenesis involves large multi-protein complexes, which co-transcriptionally associate with pre-ribosomal RNA to form the small subunit processome. The precise mechanisms by two of largest complexes—UtpA and UtpB—interact nascent are poorly understood. Here, we combined biochemical structural biology approaches ensembles RNA–protein cross-linking data elucidate essential functions both complexes. We show that UtpA contains a composite RNA-binding site...
RNA polymerase III (RNAPIII) synthesizes a range of highly abundant small stable RNAs, principally pre-tRNAs. Here we report the genome-wide analysis nascent transcripts attached to RNAPIII under permissive and restrictive growth conditions. This revealed strikingly uneven distributions across transcription units, generally with predominant 5′ peak. peak was higher for more heavily transcribed genes, suggesting that initiation site clearance is rate-limiting during transcription....
Article10 June 2016Open Access Transparent process Strand-specific, high-resolution mapping of modified RNA polymerase II Laura Milligan Wellcome Trust Centre for Cell Biology, University Edinburgh, UK Search more papers by this author Vân A Huynh-Thu School Informatics, Department Electrical Engineering and Computer Science, Liège, Belgium Clémentine Delan-Forino Alex Tuck Friedrich Miescher Institute Biomedical Research, Basel, Switzerland European Molecular Biology Laboratory,...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes RNA. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but it was unclear how substrates follow each pathway vivo. We used CRAC (UV crosslinking analysis cDNA) growing cells to identify transcriptome-wide interactions RNAs with major nuclear exosome-cofactor Mtr4 individual subunits...
Sporulation allows certain bacteria to survive extreme conditions for extended periods posing challenges public health and food safety. Transcriptional level of regulation relying on σ factors has been well studied in the non-pathogenic model bacterium Bacillus subtilis, while post-transcriptional control remains poorly understood. RNA-binding proteins (RBPs) small non-coding RNAs (sRNAs) modulate gene expression by affecting mRNA stability or translation. Recent studies suggest that...
Viroids are the smallest known pathogenic agents. They noncoding, single-stranded, closed-circular, "naked" RNAs, which replicate through RNA-RNA transcription. of Avsunviroidae family possess a hammerhead ribozyme in their sequence, allowing self-cleavage during replication. To date, viroids have only been detected plant cells. Here, we investigate replication Avocado sunblotch viroid (ASBVd) nonconventional host, yeast Saccharomyces cerevisiae. We demonstrate that ASBVd RNA strands both...
Abstract During nuclear surveillance in yeast, the RNA exosome functions together with TRAMP complexes. These include DEAH-box helicase Mtr4 an RNA-binding protein (Air1 or Air2) and a poly(A) polymerase (Trf4 Trf5). To better determine how substrates are targeted, we analyzed interactions for components. Mass spectrometry identified three distinct complexes formed vivo. preferentially assemble on different classes of transcripts. Unexpectedly, many substrates, including pre-rRNAs pre-mRNAs,...
Viroids are small pathogenic circular single-stranded RNAs, present in two complementary sequences, named plus and minus, infected plant cells. A high degree of complementarities between different regions the RNAs allows them to adopt complex structures. Since viroids naked non-coding interactions with host factors appear be closely related their structural catalytic characteristics. Avocado sunblotch viroid (ASBVd), a member family Avsunviroidae, replicates via symmetric RNA-dependant...
<ns4:p><ns4:italic>Background: </ns4:italic>The exosome complex plays key roles in RNA processing and degradation Eukaryotes Archaea. Outstanding structural studies identified multiple pathways for substrates into the <ns4:italic>in vitro</ns4:italic>, but identifying pathway followed by individual species vivo</ns4:italic> remains challenging.</ns4:p><ns4:p> <ns4:italic>Methods: </ns4:italic>We attempted to address this question using RNase protection. <ns4:italic>In RNA-protein...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
<ns4:p><ns4:italic>Background: </ns4:italic>The exosome complex plays key roles in RNA processing and degradation Eukaryotes Archaea. Outstanding structural studies identified multiple pathways for substrates into the <ns4:italic>in vitro</ns4:italic>, but identifying pathway followed by individual species vivo</ns4:italic> remains challenging.</ns4:p><ns4:p> <ns4:italic>Methods: </ns4:italic>We attempted to address this question using RNase protection. <ns4:italic>In RNA-protein...
ABSTRACT During nuclear surveillance in yeast, the RNA exosome functions together with TRAMP complexes. These include DEAH-box helicase Mtr4 an RNA-binding protein (Air1 or Air2) and a poly(A) polymerase (Trf4 Trf5). To better determine how substrates are targeted, we analyzed interactions for components. Mass spectrometry identified three distinct complexes formed vivo . preferentially assemble on different classes of transcripts. Unexpectedly, many substrates, including pre-rRNAs...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...
The RNA exosome complex functions in both the accurate processing and rapid degradation of many classes eukaryotes Archaea. Functional structural analyses indicate that can either be threaded through central channel or more directly access active sites ribonucleases Rrp44 Rrp6, but most cases, it remains unclear how substrates follow each pathway vivo. Here we describe method for using an UV cross-linking technique termed CRAC to generate stringent, transcriptome-wide mapping...