Non-coding RNA, epigenetics and genome stability

Genome dynamics

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https://www.igh.cnrs.fr/uploads/media/5e5e2047f2c32/arn-non-codants.jpg

Over the past several years RNA-based immunity against genomic invaders has been discovered in all branches of life ranging from the CRISPR-Cas systems in bacteria to piRNAs in animals. piRNAs, in Drosophila germline cells are encoded by specific loci called piRNA clusters. These loci establish and maintain memory of “nonself ” by generating small guides to induce an adaptive defense against genomic parasites like transposable elements (TEs). At the heart of this defense mechanism resides a piRNA induced silencing complex (piRISC) which consists of a piRNA and its associated Argonaute protein partner. Within piRISC, the small RNA determines target specificity by base pairing, while its Argonaute partner governs effector activity. The mRNA can be either cleaved in the cytoplasm (PTGS) or bound in the nucleus leading to TGS.

Biogenesis and function of the piRNAs in Drosophila germline cells

In the lab, we are dissecting the biogenesis and the role of piRISC in Drosophila. We have demonstrated that the Argonaute Piwi protein is required during Drosophila embryonic development for the activation of piRNA clusters via the deposition of H3K9me3 repressive marks. Once established in the embryo, this epigenetic mark will be maintained in a Piwi-independent manner during the whole ovarian development.

For our studies we combine fly genetics, proteomics and deep sequencing approaches (small RNA-seq, RNA-seq, ChIP-seq), using molecular and cell biology tools (CRISPR/dCas9).

CHAMBEYRON Severine
Researcher

OGIYAMA Yuki
Researcher

PELISSON Alain
Researcher

MUGAT Bruno
Gestionnaire parc binoculaires et injection
ITA

AUDOUIN Katell
IT

GUILLAUME Mickael
IT

MOHAMED Mourdas
IT

NICOT Simon
Postdoc

LUGAGNE Anais
PhD Student

PUBLICATIONS OF THE TEAM

The Mi-2 nucleosome remodeler and the Rpd3 histone deacetylase are involved in piRNA-guided heterochromatin formation

Published the 04/06/2020 - Nature Communications volume

Bruno Mugat, Simon Nicot, Carolina Varela-Chavez, Christophe Jourdan, Kaoru Sato, Eugenia Basyuk, François Juge, Mikiko C. Siomi, Alain Pélisson & Séverine Chambeyron

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The somatic piRNA pathway controls germline transposition over generations.

Published the 13/10/2018 - Nucleic Acids Res , 46(18):9524-9536 30312469

Barckmann B, El-Barouk M, Pélisson A, Mugat B, Li B, Franckhauser C, Fiston Lavier AS, Mirouze M, Fablet M, Chambeyron S

Identification of misexpressed genetic elements in hybrids between Drosophila-related species

Published the 01/01/2017 - Sci Rep. , 7, 40618 28091568

Lopez-Maestre H, Carnelossi EA, Lacroix V, Burlet N, Mugat B, Chambeyron S, Carareto CM, Vieira C

Piwi Is Required during Drosophila Embryogenesis to License Dual-Strand piRNA Clusters for Transposon Repression in Adult Ovaries

Published the 01/01/2017 - Molecular Cell , 66, 3, 411-419 28457744

Akkouche, A., Mugat, B., Barckmann, B., Varela-Chavez, C., Li, B., Raffel, R., Pelisson, A., Chambeyron, S.

Transposable Element Misregulation Is Linked to the Divergence between Parental piRNA Pathways in Drosophila Hybrids

Published the 01/01/2017 - Genome Biol Evol. , 9(6):1450-1470 28854624

Romero-Soriano V, Modolo L, Lopez-Maestre H, Mugat B, Pessia E, Chambeyron S, Vieira C, Garcia Guerreiro MP

MicroRNA-Dependent Transcriptional Silencing of Transposable Elements in Drosophila Follicle Cells

Published the 01/01/2015 - PLoS Genet , 11(5):e1005194 25993106

Mugat B, Akkouche A, Serrano V, Armenise C, Li B, Brun C, Fulga TA, Van Vactor D, Pélisson A, Chambeyron S

Fast and Accurate Method to Purify Small Noncoding RNAs from Drosophila Ovaries

Published the 01/01/2014 - Methods Mol Biol , 1093, 171-182 24178565

Grentzinger T, Chambeyron S.

Insect small non-coding RNA involved in epigenetic regulations

Published the 01/01/2014 - Current Opinion in Insect Science , 1, 1-19

Chambeyron, S., Seitz, H.

A user-friendly chromatographic method to purify small regulatory RNAs

Published the 01/01/2014 - Methods , 67,1, 91-101 23727218

Grentzinger T, Armenise C, Pelisson A, Brun C, Mugat B, Chambeyron S.

Maternally deposited germline piRNAs silence the tirant retrotransposon in somatic cells

Published the 01/01/2013 - EMBO reports , 14, 5, 458-464. doi: 10.1038/embor.2013.38 23559065

Akkouche A, Grentzinger T, Fablet M, Armenise C, Burlet N, Braman V, Chambeyron S. §, Vieira C§ (co-dernier auteur)

Epigenetics and transgenerational inheritance

Published the 01/01/2013 - Genome Biol. , 14(5):306 23714099

Brasset E, Chambeyron S.

A user-friendly chromatographic method to purify small regulatory RNAs

Published the 01/01/2013 - Methods , doi:pii: S1046-2023(13)00161-8. 10.1016/j.ymeth.2013.05.011 23727218

Grentzinger T, Armenise C, Pelisson A, Brun C, Mugat B, Chambeyron S

piRNA-mediated transgenerational inheritance of an acquired trait

Published the 01/01/2012 - Genome Res. , 22, 10, 1877-1888 22555593

Grentzinger T, Armenise C, Brun C, Mugat B, Serrano V, Pelisson A, Chambeyron S.

PUBLICATIONS COMMUNES

Aubergine iCLIP Reveals piRNA-Dependent Decay of mRNAs Involved in Germ Cell Development in the Early Embryo

Barckmann,B., Pierson,S., Dufourt, J., Papin, C., Armenise, C., Port, F., Grentzinger, T., Chambeyron, S., Baronian, G., Desvignes, JP., Curk, T., Simonelig, M.
2015 - Cell Rep , 12(7):1205-1216 26257181
Service porteur : mRNA Regulation and Development

VARELA CHAVEZ Carolina
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JOURDAN Christophe
Université de Montpellier
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SANTT Olivier
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PAYEN-GROSCHENE Genevieve
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CHARBONNEL Cyril
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COTE Marjorie
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DENIS Jerome
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DEPOLLIER Julien
2nd stage DEA
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DISSON Olivier
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GREENER Marc
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LAOUINI Dorsaf
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MEJLUMIAN Lucine
CHU Purpan
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MISSERI Yolande
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POPKOVA Anna
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ROBERT Valerie
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SALEME Marie-carmen
Post-doc / Philadelphia USA.
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SAROT Emeline
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SOUAMES Semi
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TENINGES Danielle
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TERZIAN Christophe
EPHE - Laboratoire d'Ecologie - UMR7625. Paris
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SERRANO Vincent
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BARBAROSSA Adrien
IGMM: Assembly and Traffic of Ribonucleoproteins- Rémy Bordonné
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DAAKOUR Sarah
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AUDONNET Laure
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YOUNESY Amale
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Research Director working on “Non-coding RNA, epigenetics and genome stability”
Scientific Focus Areas: piRNA, chromatin, epigenetics, transposable elements, bio-informatics

Education

2011 - HDR, University of Montpellier I (France)
2002 - Ph.D. in Molecular Biology and Genetics - University of Montpellier II (France)
1998 - Master II - University of Montpellier I, (France)

Research Experience

2010-present - Group Leader (DR2) of Non-coding RNA, epigenetics and genome stability at IGH CNRS-UMR9002 (Montpellier, France).
2005-2009 - Project Leader (CR2) at IGH CNRS (Montpellier, France).
2002-2005 - Post-doctoral research associate at the MRC (Edinburgh, UK) in Prof. W. Bickmore lab.
1998-2002 - PhD studentship at IGH CNRS (Montpellier, France) in Dr. A. Bucheton lab.

Training activities

• 2 PhD students supervision: T. Grentzinger (2010 - July 2013); M. El Barouk (2013 - December 2016)
• 4 post-docs: Dr V. Serrano (2010-2012) ; Dr C. Varela Chavez (2014-2016) ; Dr A. Akkouche (2013-2016) ; Dr B. Barckmann (2016-2017)
• 4 engineers since 2010: B. Mugat, C. Brun, C. Armenise and B. Li
• Master students’ lab training (1 per year since 2010)
• Teaching graduate students at French and European Universities every year (Paris, Montpellier and Zurich)

Addition Scientific Activities

2017 - Co-organizer of a symposium for the 20 years of the IGH
2015 - Co-organizer International Congres of Transposable Elements, Saint Malo, France
2015 - Co-organizer 29th French Drosophila Conference - Presqu’île du Ponant, France
2013 - Co-organizer of National Congres of Transposable Element”, Montpellier, France

Fellowships and awards

2016-present - Prime d’Excellence Scientifique, CNRS.

Current Grants:

2016-2017 - Partenariats Hubert Curien (PHC) PROCOPE 2017: Echange Allemagne – France.
2015-2017 - Fondation Cancer (ARC): Subvention.
2014-2017 - Fondation pour la Recherche Médicale (FRM): Programme Epigénétique « DEP20131128518 »

Previous Grants:

2013-2016 - Fondation ARC: Post-doctoral fellowship
2010-2014 - National Research Agency (ANR)
2010-2012 - Fondation pour la Recherche Médicale (FRM): Fellowship for a Bioinformatician
2009-2011 - Association pour la Recherche sur le Cancer (ARC): Subvention fixe
2009-2012 - Sequencing project by the GIS IBiSA Génoscope, Paris