U1278-RNA Biology, Signaling and Cancer

VAGNER Janvier 2020.site web

Stéphan Vagner Team Leader Tel:


Our team focuses on the role of RNA regulations and RNA-binding proteins in cancer biology and anticancer therapy.

We study several aspects of RNA regulations and RNA-binding proteins: – post-transcriptional gene regulation (i.e. intronic polyadenylation, translation), – both canonical and non-canonical RNA-binding proteins, – long non-coding RNAs.

We study several aspects of cancer biology and anticancer therapies: – genome instability and genotoxic chemotherapy, – oncogenic signaling pathways and targeted therapies, – cancer-immune cells cross-talk and immunotherapy.

We study several cancers: – cutaneous melanoma, – breast cancer, – acute T lymphoblastic leukemia, – non-small cell lung cancer.

To tackle these issues, we use a combination of approaches: – biochemical analyses of RNA, proteins and their interactions, – genome-wide analyses of RNA regulations (RNA-seq, 3’seq, polysome profiling) and RNA-protein interactions (iCLIP), – analyses of cancer cell phenotypes in cell culture, – tumor biology in vivo and patients tumors.

Ongoing projects:

Axis 1: Control of genome stability and genotoxic response. 1.1- Regulation of intronic polyadenylation in response/ resistance to genotoxic agents. 1.2- Interaction between DNA-damage response proteins and RNA.

Axis 2: Tumor-intrinsic mechanisms of resistance to targeted therapies. 2.1- Dynamic reprogramming of mRNA translation in drug-tolerant cancer cells. 2.2- Direct Interaction between MAPK signaling proteins and RNAs.

Axis 3: Crosstalk between tumor cells and their environment. 3.1- T cell receptor-dependent gene regulation in acute T lymphoblastic leukemia. 3.2- Immune-dependent post-transcriptional gene regulation in melanoma. 3.3- Immunotherapies.

 Six key publications (since 2014)

(*co-corresponding authors, #co-first authors)

Shen S, Faouzi S, Bastide A, Martineau S, Malka-Mahieu H, Fu Y, Sun X, Mateus C, Routier E, Roy S, Desaubry L, André F, Eggermont A, David A, Scoazec JY, Vagner S*, Robert C* (2020). An epitranscriptomic mechanism underlies selective mRNA translation remodelling in melanoma persister cells. Nat Commun. 16;10(1):5713.

Tanaka I, Chakraborty A, Saulnier O, Benoit-Pilven C, Vacher S, Labiod D, Lam EWF, Bièche I, Delattre O, Pouzoulet F, Auboeuf D, Vagner S, Dutertre M. (2020). ZRANB2 and SYF2-mediated splicing programs converging on ECT2 are involved in breast cancer cell resistance to doxorubicin. Nucleic Acids Res. 18;48(5):2676-2693.

Cerezo M#, Guemiri R#, Druillennec S, Girault I, Malka-Mahieu H, Shen S, Allard D, Martineau S, Welsch C, Agoussi S, Estrada C, Adam J, Libenciuc C, Routier E, Roy S, Désaubry L, Eggermont AM, Sonenberg N, Scoazec JY, Eychène A, Vagner S*, Robert C*. (2018) Translational control of tumor immune escape via the eIF4F-STAT1-PDL1 axis in melanoma. Nat Med, 24:1877-1886

Trinquand A#, Dos Santos NR#, Tran Quang C#, Rocchetti F, ZaniboniB, BelhocineM, Da Costa De Jesus  C, Lhermitte L, Tesio M, Dussiot M, Cosset F, Verhoeyen E, Pflumio F, Ifrah N, Dombret H, Spicuglia S, Chatenoud L, Gross DA, Hermine O, Macintyre E, Ghysdael J*, Asnafi V* (2016) Triggering The Tcr Developmental Checkpoint Activates A Therapeutically Targetable Tumor Suppressive Pathway In T-Cell Leukemia. Cancer Discov, 6:972-985.

Passaro D, Irigoyen M, Catherinet C, Gachet S, Da Costa De Jesus C, Lasgi C, Tran Quang C, Ghysdael J (2015). CXCR4 Is Required For Leukemia Initiating Cell Activity In T-Cell Acute Lymphoblastic LeukemiaCancer Cell, 27:769-779.

Boussemart, L., Malka-Mahieu, H., Girault, I., Allard, D., Hemmingsson, O., Tomasic, G., Thomas, M., Basmadjian, C., Ribeiro, N., Thuaud, F., Mateus, C., Routier, E., Kamsu-Kom, N., Agoussi, S., Eggermont, A. M., Desaubry, L., Robert, C.*, and Vagner, S.* (2014) eIF4F is a nexus of resistance to anti-BRAF and anti-MEK cancer therapiesNature, 513:105-109

Key publications

Year of publication 2021

Lucilla Fabbri, Alina Chakraborty, Caroline Robert, Stéphan Vagner (2021 Sep 4)

The plasticity of mRNA translation during cancer progression and therapy resistance.

Nature reviews. Cancer : 558-577 : DOI : 10.1038/s41568-021-00380-y
Charlotte Audoynaud, Stéphan Vagner, Sarah Lambert (2021 Jul 5)

Non-homologous end-joining at challenged replication forks: an RNA connection?

Trends in genetics : TIG : DOI : S0168-9525(21)00166-9
Shensi Shen, Isabelle Girault, Hélène Malka-Mahieu, Caroline Robert, Stéphan Vagner (2021 Jun 23)

detection of the eIF4F translation initiation complex in mammalian cells and tissues.

STAR protocols : 100621 : DOI : 10.1016/j.xpro.2021.100621
Martin Dutertre, Rym Sfaxi, Stéphan Vagner (2021 Feb 27)

Reciprocal Links between Pre-messenger RNA 3′-End Processing and Genome Stability.

Trends in biochemical sciences : DOI : S0968-0004(21)00023-2
Andrey Kleshnin, Léa Monet, Marina Plays, Hugo Vaysset, Claire Rougeulle, Stéphan Vagner (2021 Jan 6)

Amid darkness, light will prevail – a report on the 2020 annual SFC meeting on “Dark genome and Cancer”

Bulletin du cancer : DOI : S0007-4551(20)30510-5

Year of publication 2018

Caroline Robert, Stéphan Vagner (2018 Nov 1)

Boosting Immunity by Targeting Post-translational Prenylation of Small GTPases.

Cell : 901-902 : DOI : S0092-8674(18)31385-0
All publications