rssf.i2bc.paris-saclay.frPage equipe Gautheret – Institute for Integrative Biology of the

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It is a reservoir of genetic information, a chemical catalyst and a genetic regulator. RNA is fundamental to biology as it may be the first informational molecule at the origin of life. But RNA is also important in medicine, as it is now used as a vaccine, drug, and target for therapies. Our team uses bioinformatics and molecular biology to understand the function of RNA and to discover novel RNA molecules in bacteria and human. We combine these tools with artificial intelligence methods to identify RNAs that can be used as predictive biomarkers in medical applications. Discovery of new RNAs Our most popular RNA discovery tools are: CRISPR-CasFinder and CRISPR-Casdb for the retrieval of CRISPR elements and CAS genes in bacterial genomes: https://crisprcas.i2bc.paris-saclay.fr Arnold, a simple web tool for the identification of transcription terminators in bacteria: http://rssf.i2bc.paris-saclay.fr/toolbox/arnold/index.php Dtr’prok: a Galaxy pipeline for the identifcation of bacterial small RNAs from RNA-seq data: http://rssf.i2bc.paris-saclay.fr/Software/detrprok.php DE-kupl: a Unix pipeline for the identification of unreferenced variant RNAs in RNA-seq data: https://github.com/Transipedia/dekupl In parallel, Maria Costa is developing new sequencing methods to identify modified nucleotides in RNA. Our team is thus part of a new discipline, epitranscriptomics, which aims to elucidate the repertoire of chemical modifications affecting a given transcriptome and to understand the impact of these modifications in the genetic expression program of the organism. RNA structures, interactions and functions Fabrice Leclerc develops bioinformatics tools for the prediction of RNA-protein contacts in three-dimensional space. These programs also predict the RNA sequences that form the best substrates for a given RNA-binding protein. Such tools have potential applications in the design of new drugs. Maria Costa uses different experimental approaches to study the biology of group II introns, introns that are both ribozymes (catalytic RNAs) and highly abundant mobile genetic elements in bacterial genomes. Group II introns are also of great evolutionary interest as ancestors of fundamental systems in eukaryotes such as nuclear introns, the spliceosome, and retrotransposons. Moreover, these introns are the basis for the development of powerful biotechnological tools for bacterial genome engineering, non-coding RNA mapping or high throughput sequencing. Detailed description of the theme Artistic view of a possible RNA world, with the first proto-cells containing RNA carrying genetic information, ribozymes, and proteins and metabolites (Credit: Fabrice Leclerc). team Daniel GAUTHERET Group Leader Professor Twitter Maria COSTA Researcher Claire TOFFANO-NIOCHE Researcher Gilles VERGNAUD Volunteer Researcher Fabrice LECLERC Researcher Christine POURCEL Volunteer Researcher Antoine LAINE Assistant Engineer Lucie GOMES Master Intern Hugues HERRMANN Master Intern Haoliang XUE PhD student Yunfeng WANG PhD student Roy GONZALEZ-ALEMAN PhD student Taher YACOUB PhD student Coline GARDOU Intern student Mehdi ABDELLI PhD student Latest publications Gilles Vergnaud, Michel S. Zygmunt, Roland T. Ashford, Adrian M. Whatmore, and Axel Cloeckaert Genomic Diversity and Zoonotic Potential of Brucella neotomae DOI: 10.3201/eid3001.221783 https://wwwnc.cdc.gov/eid/article/30/1/22-1783_article González-Alemán,R., Chevrollier,N., Simoes,M., Montero-Cabrera,L. and Leclerc,F. (2021) MCSS-Based Predictions of Binding Mode and Selectivity of Nucleotide Ligands. J Chem Theory Comput, 10.1021/acs.jctc.0c01339. Shevtsov, Vladislav, Alma Kairzhanova, Alexandr Shevtsov, Alexandr Shustov, Ruslan Kalendar, Sarsenbay Abdrakhmanov, Larissa Lukhnova, Uinkul Izbanova, Yerlan Ramankulov, Gilles Vergnaud. Genetic diversity of Francisella tularensis subsp. holarctica in Kazakhstan. PLoS Negl Trop Dis. 2021;15(5):e0009419. https://doi.org/10.1371/journal.pntd.0009419 . For all the publications of the Team c lick on the button below. see the publications External funding Follow us on Twitter Contact us Copyright © 2021. All rights reserved I2BC. Legal notice & website credits Legal notice & website credits Scroll...