Reference : UMR5535-SARADE-015
Workplace : MONTPELLIER
Date of publication : Monday, May 9, 2022
Scientific Responsible name : Robert FEIL
Type of Contract : PhD Student contract / Thesis offer
Contract Period : 36 months
Start date of the thesis : 1 September 2022
Proportion of work : Full time
Remuneration : 2 135,00 € gross monthly
Description of the thesis topic
Aims of PhD Project:
The incoming PhD researcher will be involved in a project that addresses the role of long non-coding RNAs (lncRNAs) and associated proteins in imprinted gene expression, an essential epigenetic phenomenon in mammals. He/she will also explore how specific lncRNAs affect gene expression as a consequence of stress responses, in embryonic stem cells and in differentiated cells. He/she will perform diverse molecular, biochemical and bioinformatics studies, and will apply functional genomics approaches in the ongoing experiments in the laboratory.
Host laboratory and Institute :
The Institute of Molecular Genetics (IGMM in Montpellier is a 'mixed research unit' between the CNRS and the University of Montpellier, with about 180 employees working in 17 research groups, 9 common services and 9 state-of-the-art technological platforms (see http://biocampus.cnrs.fr ), with a highly international atmosphere. IGMM is a multi-disciplinary institute its research outputs having international fundamental and applied impacts in molecular and cellular biology. The 'Genomic imprinting and Development' laboratory, headed by Robert Feil, explores epigenetic mechanisms with a particular interest in genomic imprinting and lncRNAs, as well as in chromatin structuration in living cells. For further information, please see http://www.igmm.cnrs.fr/.
We seek to recruit a highly motivated and dynamic student, with considerable experience in molecular and/or cellular biology, and preferably also with practical experience in bioinformatics.
Relevant publications of the host laboratory:
--Noordermeer, D., Feil, R. (2020). Differential chromatin organization and gene activity in genomic imprinting. Curr. Opin. Genet. Dev., 61, 17-24.
-- Llères, D, Moindrot, B, Pathak, R., Piras, V., Matelot, M., Pignard, B., Marchand, A., Poncelet, M., Perrin, A., Tellier, V., Feil, R., Noordermeer, D. (2019). CTCF modulates allele-specific sub-TAD structuration and imprinted gene activity at the Dlk1-Dio3 and Igf2-H19 domains. Genome Biol., 20, 272.
-- Uroda, T. Anastasakou, E., Rossi, A, Teulon, JM, Pellequer, JL, Chillon, I, Marcia M. Conserved Pseudoknots in lncRNA MEG3 Are Essential for Stimulation of the p53 Pathway. Molecular Cell 75, 982-995
-- Sanli, I., Lalevée, S., Camissa, M., Perrin, A., Rage, F., Riccio, A., Llères, D., Bertrand, E., Feil, R. (2018). Meg3 long non-coding RNA expression controls imprinting by preventing transcriptional upregulation in cis. Cell reports, 23, 337-348.272.
-- Prats-Puig, A., Carreras-Badoso, G., Bassols, J., Cavelier, P., Magret, A., Sabench, C., de Zegher, F., Ibanez, L., Feil, R, Lopez-Bermejo, A (2017). The placental imprinted DLK1-DIO3 domain: a new link to pre- and postnatal growth in humans. Am. J. Obstet. & Gynecology, 217, e1-350.
-- Kota, S.K., Lleres, D., Bouschet, T., Hirasawa, R., Marchand, A., Begon-Pescia, C., Sanli, I, Arnaud, P., Journot, L., Girardot, M. and Feil, R. (2014). ICR non-coding RNA expression controls imprinting and DNA replication at the Dlk1-Dio3 domain. Developmental Cell, 31, 19-33.
-Culture and differentiation of embryonic stem cells ; comparison between different physiological conditions.
-Analysis of chromatin and gene expression (RT-PCR, RNA-Seq, ChIP-seq etc.), data processing, bioinformatics. Fluorescence microscopy to visualize RNAs in cells.
-Functional studies using diverse CRISPR-based approaches
The candidate needs to be familiar with gene expression or chromatin research, and have theoretical and experimental experience in genetics and molecular biology, with knowledge of transcription, chromatin and/or functional genomics. Experience with bioinformatics would be welcomed as well.
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