COEVOL Multi-Scale Coevolution

Evolutionary Genetics of Interactions Group

Fablet Marie

Maîtresse de conférence universitaire

UCBL

Address: 69622 VILLEURBANNE cedex
69376 LYON cedex 08

Tel: 04 72 43 29 16

Email

Almost 50% of our genome is made of transposable elements, which are sequences able to move and multiply along the chromosomes. Among these sequences, endogenous retroviruses are remnants of ancient viral infections, which are now transmitted from one generation to another in a gene-like manner.

Within and between species dynamics of transposable elements

Our group is interested in the dynamics of these sequences in the genomes of natural populations, based on the twin species model D. melanogaster / D. simulans. The amount of transposable elements in the genomes of these natural populations is highly variable, as are the activity and regulation of these sequences. This allows a powerful comparative approach to dissect the involved mechanisms.

In order to understand the observed variability, we are investigating the epigenetic control of TEs, particularly via the piRNA class of small interfering RNAs. We are exploring the link between differences in TE dynamics and variability in the regulation by piRNAs, using sequencing data as well as laboratory experiments.

Epigenetics and genome stability: how the environment affects transposable element stability

We study genome stability through the diversity of the epigenetic pathways controlling TEs, in normal conditions and when the environment changes. We use fresh Drosophila samples coming from temperate (France) and tropical (Brasil) areas, that are submitted to various environmental stress. We then characterize TE content and activity as well as epigenetic regulation using NGS technologies.

Endogenous Retroviruses and Immunity

We want to investigate the interplay between the host immune responses to arbovirus (Arthropod Borne virus) infections and the TE and Endogenous Retroviruses (ERV) genomic control mechanisms (RNA interference: piRNA and siRNA pathways) using Drosophila as an in vivo model system. To this end, we will take advantage of the natural variability existing between and within species for ERVs (copy numbers, activities, and control by the piRNA pathway).
 

Publications

Display of 1 to 30 publications on 32 in total

Effects of Arboviral Infections on Transposable Element Transcript Levels in Aedes aegypti

Chloé Garambois, Matthieu Boulesteix, Marie Fablet

Genome Biology and Evolution . 16 ( 5 ) : evae092

DOI: 10.1093/gbe/evae092

Journal article

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Identification and quantification of transposable element transcripts using Long-Read RNA-seq in Drosophila germline tissues

Rita Rebollo, Pierre Gerenton, Eric Cumunel, Arnaud Mary, François Sabot, Nelly Burlet...

Peer Community Journal . 4 ( e89 )

DOI: 10.24072/pcjournal.457

Journal article

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Impact of Heat Stress on Transposable Element Expression and Derived Small RNAs in Drosophila subobscura

Alejandra Bodelón, Marie Fablet, Daniel Siqueira de Oliveira, Cristina Vieira, Maria Pilar García Guerreiro

Genome Biology and Evolution . 15 ( 11 ) : evad189

DOI: 10.1093/gbe/evad189

Journal article

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A quantitative, genome-wide analysis in Drosophila reveals transposable elements’ influence on gene expression is species-specific

Marie Fablet, Judit Salces-Ortiz, Angelo Jacquet, Bianca Menezes, Corentin Dechaud, Philippe Veber...

Genome Biology and Evolution . 15 ( 9 ) : evad160

DOI: 10.1093/gbe/evad160

Journal article

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ChimeraTE: a pipeline to detect chimeric transcripts derived from genes and transposable elements

Daniel Oliveira, Marie Fablet, Anaïs Larue, Agnès Vallier, Claudia Carareto, Rita Rebollo...

Nucleic Acids Research . 51 ( 18 ) : 9764-9784

DOI: 10.1093/nar/gkad671

Journal article

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High Stability of the Epigenome in Drosophila Interspecific Hybrids

Alejandra Bodelón, Marie Fablet, Philippe Veber, Cristina Vieira, Maria Pilar García Guerreiro

Genome Biology and Evolution . 14 ( 2 )

DOI: 10.1093/gbe/evac024

Journal article

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Phenotypic and Transcriptomic Responses to Stress Differ According to Population Geography in an Invasive Species

Pierre Marin, Angelo Jaquet, Justine Picarle, Marie Fablet, Vincent Merel, Marie Laure Delignette-Muller...

Genome Biology and Evolution . 13 ( 9 ) : evab208

DOI: 10.1093/gbe/evab208

Journal article

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The Worldwide Invasion of Drosophila suzukii Is Accompanied by a Large Increase of Transposable Element Load and a Small Number of Putatively Adaptive Insertions

Vincent Mérel, Patricia Gibert, Inessa Buch, Valentina Rodriguez Rada, Arnaud Estoup, Mathieu Gautier...

Molecular Biology and Evolution . 38 ( 10 ) : 4252-4267

DOI: 10.1093/molbev/msab155

Journal article

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Infections by Transovarially Transmitted DMelSV in Drosophila Have No Impact on Ovarian Transposable Element Transcripts but Increase Their Amounts in the Soma

Marlène Roy, Barbara Viginier, Camille A Mayeux, Maxime Ratinier, Marie Fablet

Genome Biology and Evolution . 13 ( 9 )

DOI: 10.1093/gbe/evab207

Journal article

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Syndrome de Klinefelter, rôle du chromosome Y dans l’espérance de vie humaine ?

Jordan Teoli, Claire Bardel, Marie Fablet, Gabriel Marais, François Gueyffier, Jean-François Lemaître...

36ème Congrès de la Société Française d'Endocrinologie (SFE Marseille 2020) . 81 ( 4 ) : 194

DOI: 10.1016/j.ando.2020.07.150

Conference paper

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A transposon story : from TE content to TE dynamic invasion of Drosophila genomes using the single-molecule sequencing technology from Oxford Nanopore

Mohamed Mourdas, Nguyet Thi-Minh Dang, Yuki Ogyama, Nelly Burlet, Bruno Mugat, Matthieu Boulesteix...

Cells . 9 ( 8 ) : 1776

DOI: 10.3390/cells9081776

Journal article

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Viral infection impacts transposable element transcript amounts in Drosophila

Marlène Roy, Barbara Viginier, Edouard Saint-Michel, Frederick Arnaud, Maxime Ratinier, Marie Fablet

Proceedings of the National Academy of Sciences of the United States of America . 117 ( 22 ) : 12249-12257

DOI: 10.1073/pnas.2006106117

Journal article

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Dynamic Interactions Between the Genome and an Endogenous Retrovirus: Tirant in Drosophila simulans Wild-Type Strains

Marie Fablet, Angelo Jacquet, Rita Rebollo, Annabelle A. Haudry, Carine Rey, Judit Salces-Ortiz...

G3 . 9 ( 3 ) : 855-865

DOI: 10.1534/g3.118.200789

Journal article

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The somatic piRNA pathway controls germline transposition over generations

Bridlin Barckmann, Marianne El-Barouk, Alain Pélisson, Bruno Mugat, Blaise Maxime Li, Céline Franckhauser...

Nucleic Acids Research . 46 ( 18 ) : 9524 - 9536

DOI: 10.1093/nar/gky761

Journal article

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An attempt to select non-genetic variation in resistance to starvation and reduced chill coma recovery time in Drosophila melanogaster

Bianca Menezes, Judit Salces-Ortiz, Héloise Muller, Nelly Burlet, Sonia Martinez, Marie Fablet...

Journal of Experimental Biology . 221 ( 23 ) : jeb186254

DOI: 10.1242/jeb.186254

Journal article

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Transposable Element Dynamics in an Invasive Species

V. Mérel, Marie Fablet, M. Boulesteix, Arnaud A Estoup, Patricia Gibert, Cristina Vieira

Congrès National des Éléments Transposables (CNET 2018) .

Conference paper

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TEtools facilitates big data expression analysis of transposable elements and reveals an antagonism between their activity and that of piRNA genes

Emmanuelle Lerat, Marie Fablet, Laurent Modolo, Hélène Lopez-Maestre, Cristina Vieira

Nucleic Acids Research . 45 : 13

DOI: 10.1093/nar/gkw953

Journal article

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Self and Nonself from a Genomic Perspective: Transposable Elements

Marie Fablet, Judit Salces-Ortiz, Bianca Fraga Menezes, Marlène Roy, Cristina Vieira

Evolutionary Biology: Self/Nonself Evolution, Species and Complex Traits Evolution, Methods and Concepts . 2 ( 5 ) : 111-128

DOI: 10.1007/978-3-319-61569-1_6

Book chapter

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Variable expression levels detected in the Drosophila effectors of piRNA biogenesis

Marie Fablet, Abdou Akkouche, Virginie Braman, Cristina Vieira

Gene . 537 ( 1 ) : 149-153

DOI: 10.1016/j.gene.2013.11.095

Journal article

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Host Control of Insect Endogenous Retroviruses: Small RNA Silencing and Immune Response

Marie Fablet

Viruses . 6 : 4447-4464

DOI: 10.3390/v6114447

Journal article

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Maternally deposited germline piRNAs silence the tirant retrotransposon in somatic cells

Abdou Akkouche, Thomas Grentzinger, Marie Fablet, Claudia Armenise, Nelly Burlet, Virginie Braman...

EMBO Reports . 14 ( 5 ) : 458-64

DOI: 10.1038/embor.2013.38

Journal article

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A comparative analysis of the amounts and dynamics of transposable elements in natural populations of Drosophila melanogaster and Drosophila simulans.

Cristina Vieira, Marie Fablet, Emmanuelle Lerat, Matthieu Boulesteix, Rita Rebollo, Nelly Burlet...

Journal of Environmental Radioactivity . 113 : 83-86

DOI: 10.1016/j.jenvrad.2012.04.001

Journal article

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tirant, a newly discovered active endogenous retrovirus in Drosophila simulans.

Abdou Akkouche, Rita Rebollo, Nelly Burlet, Caroline Esnault, Sonia Martinez, Barbara Viginier...

Journal of Virology . 86 ( 7 ) : 3675-3681

DOI: 10.1128/JVI.07146-11

Journal article

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Evolvability, epigenetics and transposable elements

Marie Fablet, C. Vieira

Biomolecular concepts . 2 : 333-341

Journal article

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Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila

M. Fablet, E. Lerat, R. Rebollo, B. Horard, N. Burlet, S. Martinez...

FASEB Journal . 23 : 54-62

Journal article

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Infra- and Transspecific Clues to Understanding the Dynamics of Transposable Elements

Cristina Vieira, M. Fablet, E. Lerat

genome dyn stab . -- : 115-123

Journal article

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Genomic environment influences the dynamics of the tirant LTR retrotransposon in Drosophila.

Marie Fablet, Emmanuelle Lerat, Rita Rebollo, Béatrice Horard, Nelly Burlet, Sonia Martinez...

FASEB Journal . 23 ( 5 ) : 1482-9

DOI: 10.1096/fj.08-123513

Journal article

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Evolutionary Origin and Functions of Retrogene Introns

M. Fablet, M. Bueno, L. Potrzebowski, H. Kaessmann

Molecular Biology and Evolution . 26(9) : 2147-2156

Journal article

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The evolution of retrotransposon regulatory regions and its consequences on the Drosophila melanogaster and Homo sapiens host genomes

Marie Fablet, Rita Rebollo, Christian Biémont, Cristina Vieira

Gene . 390 ( 1-2 ) : 84-91

DOI: 10.1016/j.gene.2006.08.005

Journal article

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