Publications de Julien Léonard Duc

Cancer cells subvert the primate-specific KRAB zinc finger protein ZNF93 to control APOBEC3B

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Sandra Eloise Kjeldsen, Charlène Mireille Raymonde Raclot, Cyril David Son-Tuyên Pulver, Evaristo Jose Planet Letschert, Filipe Amândio Brandão Sanches Vong Martins, Olga Marie Louise Rosspopoff, Romain Forey

ZNF93 is a primate-restricted Krüppel-associated box zinc finger protein responsible for repressing 20- to 12-My-old L1 transposable elements. Here, we reveal that ZNF93 also regulates the key cancer driver APOBEC3B—a mutagenic enzyme linked to tumorigenes ...

Proceedings of the National Academy of Sciences2025

Injury-induced intestinal stem cell renewal requires capillary morphogenesis gene 2

Béatrice Kunz, Olivier Burri, Françoise Gisou van der Goot Grunberg, Nathalie Brandenberg, Julien Léonard Duc, Romain Guiet, Audrey Geneviève Chuat, Lucie Josepha Marie Bracq

Patients with the rare genetic disorder Hyaline Fibromatosis Syndrome (HFS) often succumb before 18 months of age due to severe diarrhea. As HFS is caused by loss-of-function mutations in the gene encoding capillary morphogenesis gene 2 (CMG2), these sympt ...

Springer Science and Business Media LLC2025

Clusters of lineage-specific genes are anchored by ZNF274 in repressive perinucleolar compartments

Didier Trono, Julien Léonard Duc, Sandra Eloise Kjeldsen, Shaoline Sheppard, Delphine Yvette L Grun, Olga Marie Louise Rosspopoff

Long known as the site of ribosome biogenesis, the nucleolus is increasingly recognized for its role in shaping three-dimensional (3D) genome organization. Still, the mechanisms governing the targeting of selected regions of the genome to nucleolus-associa ...

American Association for the Advancement of Science (AAAS)2024

Statistical learning quantifies transposable element-mediated cis-regulation

Didier Trono, Julien Léonard Duc, Alexandre Coudray, Cyril David Son-Tuyên Pulver, Shaoline Sheppard, Evaristo Jose Planet Letschert, Raphaël Gérard Théodore Michel Marie de Deloÿe et Fourcade de Fondeville, Julien Paul André Pontis, Delphine Yvette L Grun

Background: Transposable elements (TEs) have colonized the genomes of most metazoans, and many TE-embedded sequences function as cis-regulatory elements (CREs) for genes involved in a wide range of biological processes from early embryo- genesis to innate ...

2023

Genetic features and genomic targets of human KRAB-zinc finger proteins

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Sandra Eloise Kjeldsen, Jonas Caspar De Tribolet-Hardy, Bara Khubieh, Jacques Fellay, Michaël Imbeault, Alexandre Coudray, Cyril David Son-Tuyên Pulver, Evaristo Jose Planet Letschert, Christian Axel Wandall Thorball, Romain Forey

Krüppel-associated box (KRAB) domain-containing zinc finger proteins (KZFPs) are one of the largest groups of transcription factors encoded by tetrapods, with 378 members in human alone. KZFP genes are often grouped in clusters reflecting amplification by ...

2023

Efficient and sensitive profiling of RNA–protein interactions using TLC-CLIP

Didier Trono, Julien Léonard Duc, Christina Ernst

RNA-binding proteins are instrumental for post-transcriptional gene regulation, controlling all aspects throughout the lifecycle of RNA molecules. However, transcriptome-wide methods to profile RNA-protein interactions in vivo remain technically challengin ...

2023

Primate-specific transposable elements shape transcriptional networks during human development

Matthias Lütolf, Didier Trono, Julien Léonard Duc, Sandra Eloise Kjeldsen, Cyril David Son-Tuyên Pulver, Evaristo Jose Planet Letschert, Andrea Manfrin, Julien Paul André Pontis, Delphine Yvette L Grun, Christopher James Playfoot

The human genome harbors more than 4.5 million transposable element (TE)-derived insertions, the result of recurrent waves of invasion and internal propagation. Here they show that TEs belonging to evolutionarily recent subfamilies go on to regulate later ...

Nature Portfolio2022

Transposon-activated POU5F1B promotes colorectal cancer growth and metastasis

Didier Trono, Laurence Gouzi Abrami, Julien Léonard Duc, Sandra Eloise Kjeldsen, Alexandre Coudray, Sagane Dind, Evaristo Jose Planet Letschert, Laia Simo Riudalbas

The treatment of colorectal cancer (CRC) is an unmet medical need in absence of early diagnosis. Here, upon characterizing cancer-specific transposable element-driven transpochimeric gene transcripts (TcGTs) produced by this tumor in the SYSCOL cohort, we ...

Nature Research2022

KRAB zinc finger protein ZNF676 controls the transcriptional influence of LTR12-related endogenous retrovirus sequences

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Jonas Caspar De Tribolet-Hardy, Alexandra Iouranova, Michaël Imbeault, Alexandre Coudray, Tamara Rossy, Alexandre Louis André Persat, Delphine Yvette L Grun

Background Transposable element-embedded regulatory sequences (TEeRS) and their KRAB-containing zinc finger protein (KZFP) controllers are increasingly recognized as modulators of gene expression. We aim to characterize the contribution of this system to g ...

2022

Transposable elements and their KZFP controllers are drivers of transcriptional innovation in the developing human brain

Didier Trono, Julien Léonard Duc, Alexandre Coudray, Sagane Dind, Shaoline Sheppard, Evaristo Jose Planet Letschert, Christopher James Playfoot

Transposable elements (TEs) account for more than 50% of the human genome and many have been co-opted throughout evolution to provide regulatory functions for gene expression networks. Several lines of evidence suggest that these networks are fine-tuned by ...

COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT2021

Transposon-activated POU5F1B promotes colorectal cancer growth and metastasis

Didier Trono, Laurence Gouzi Abrami, Julien Léonard Duc, Sandra Eloise Kjeldsen, Alexandre Coudray, Sagane Dind, Evaristo Jose Planet Letschert, Laia Simo Riudalbas

AMER ASSOC CANCER RESEARCH2021

Primate-restricted KRAB zinc finger proteins and target retrotransposons control gene expression in human neurons

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Bart Deplancke, Charlène Mireille Raymonde Raclot, Alexandre Coudray, Christian Axel Wandall Thorball, Julien Paul André Pontis, Evgeniia Pankevich, Delphine Yvette L Grun, Christopher James Playfoot

In the first days of embryogenesis, transposable element-embedded regulatory sequences (TEeRS) are silenced by Kruppel-associated box (KRAB) zinc finger proteins (KZFPs). Many TEeRS are subsequently co-opted in transcription networks, but how KZFPs influen ...

2020

Transpochimeric gene trancripts (tcgts) as cancer biomarkers

Didier Trono, Julien Léonard Duc, Evaristo Jose Planet Letschert, Laia Simo Riudalbas

The invention relates to methods for detecting or predicting the likelihood of a cancer in a subject as well as to compositions, pharmaceutical compositions and methods of treatment of cancer. ...

2020

DPPA2 and DPPA4 are necessary to establish a 2C‐like state in mouse embryonic stem cells

Didier Trono, Julien Léonard Duc, Alexandre Coudray, Alberto De Iaco

After fertilization of the transcriptionally silent oocyte, expression from both parental chromosomes is launched through zygotic genome activation (ZGA), occurring in the mouse at the 2-cell (2C) stage. Among the first elements to be transcribed are the D ...

2019

Hominoid-Specific Transposable Elements and KZFPs Facilitate Human Embryonic Genome Activation and Control Transcription in Naive Human ESCs

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Sandra Eloise Kjeldsen, Julien Duc, Alexandre Coudray, Evaristo Jose Planet Letschert, Julien Paul André Pontis

Expansion of transposable elements (TEs) coincides with evolutionary shifts in gene expression. TEs frequently harbor binding sites for transcriptional regulators, thus enabling coordinated genome-wide activation of species- and context-specific gene expre ...

2019

The interactome of KRAB zinc finger proteins reveals the evolutionary history of their functional diversification

Didier Trono, Priscilla Turelli, Ruedi Aebersold, Julien Léonard Duc, Michaël Imbeault, Cécile Piot, Andrea Coluccio, Pierre-Yves Joseph Laurent Helleboid, Christian Axel Wandall Thorball, Julien Paul André Pontis

Krüppel‐associated box (KRAB)‐containing zinc finger proteins (KZFPs) are encoded in the hundreds by the genomes of higher vertebrates, and many act with the heterochromatin‐inducing KAP1 as repressors of transposable elements (TEs) during early embryogene ...

2019

ZFP30 promotes adipogenesis through the KAP1-mediated activation of a retrotransposon-derived Pparg2 enhancer

Carine Delattre-Gubelmann, Didier Trono, Julien Léonard Duc, Bart Deplancke, Sunil Kumar Raghav, Marco Cassano, Michaël Imbeault, Petra Catalina Schwalie, Suk Min Jang, Riccardo Dainese, Julie Marie Russeil, Wanze Chen, Evgeniia Pankevich

Krüppel-associated box zinc finger proteins (KZFPs) constitute the largest family of mammalian transcription factors, but most remain completely uncharacterized. While initially proposed to primarily repress transposable elements, recent reports have revea ...

Nature Research2019

KAP1 facilitates reinstatement of heterochromatin after DNA replication

Didier Trono, Priscilla Turelli, Annamaria Kauzlaric, Julien Léonard Duc, Sandra Eloise Kjeldsen, Benjamin Rauwel, Andrea Coluccio, Suk Min Jang, Julien Paul André Pontis, Geneviève Almouzni

During cell division, maintenance of chromatin features from the parental genome requires their proper establishment on its newly synthetized copy. The loss of epigenetic marks within heterochromatin, typically enriched in repetitive elements, endangers ge ...

2018

Individual retrotransposon integrants are differentially controlled by KZFP/KAP1-dependent histone methylation, DNA methylation and TET-mediated hydroxymethylation in naïve embryonic stem cells

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Sandra Eloise Kjeldsen, Gabriela Ecco, Andrea Coluccio

BACKGROUND: The KZFP/KAP1 (KRAB zinc finger proteins/KRAB-associated protein 1) system plays a central role in repressing transposable elements (TEs) and maintaining parent-of-origin DNA methylation at imprinting control regions (ICRs) during the wave of g ...

2018

KRAB-ZFPs and transposable elements rewire early human embryonic development transcriptional networks

Didier Trono, Priscilla Turelli, Julien Léonard Duc, Julien Duc, Alexandra Iouranova, Michaël Imbeault, Alexandre Coudray

MARY ANN LIEBERT, INC2018