Masachis S, Tourasse NJ, Lays C, Faucher M, Chabas S, Iost I and Darfeuille F. A genetic selection reveals functional metastable structures embedded in toxin-encoding mRNA. BioRxiv


Tourasse, N. J. and Darfeuille, F. (2020). Structural Alignment and Covariation Analysis of RNA Sequences. Bio-protocol 10(3): e3511. DOI: 10.21769/BioProtoc.3511.


Korkut DN, Alves ID, Vogel A, Chabas S, Sharma CM, Martinez D, Loquet A, Salgado GF, Darfeuille F. Structural insights into the AapA1 toxin of Helicobacter pylori. Biochim Biophys Acta Gen Subj.  2020 Jan;1864(1):129423. doi: 10.1016/j.bbagen.2019.129423


Molina-Castro SE, Tiffon C, Giraud J, Boeuf H, Sifre E, Giese A, Belleannée G, Lehours P, Bessède E, Mégraud F, Dubus P, Staedel C, Varon C. The Hippo Kinase LATS2 Controls Helicobacter pylori-Induced Epithelial-Mesenchymal Transition and Intestinal Metaplasia in Gastric Mucosa. Cell Mol Gastroenterol Hepatol. 2020;9(2):257-276. doi: 10.1016/j.jcmgh.2019.10.007. 


Giraud J, Molina-Castro S, Seeneevassen L, Sifré E, Izotte J, Tiffon C, Staedel C, Boeuf H, Fernandez S, Barthelemy P, Megraud F, Lehours P, Dubus P, Varon C. Verteporfin targeting YAP1/TAZ-TEAD transcriptional activity inhibits the tumorigenic properties of gastric cancer stem cells. Int J Cancer. 2020 Apr 15;146(8):2255-2267. doi: 10.1002/ijc.32667.



Iost I, Chabas S and Darfeuille F. Maturation of atypical ribosomal RNA in Helicobacter pylori. Nucleic Acids Res. 2019 Apr 22. doi: 10.1093/nar/gkz258.


Iost I, Jain C. A DEAD-box protein regulates ribosome assembly through control of ribosomal protein synthesis.  Nucleic Acids Res. 2019 Sep 5;47(15):8193-8206. doi: 10.1093/nar/gkz502.


Masachis S, Tourasse NJ, Lays C, Faucher M, Chabas S, Iost I and Darfeuille F. A genetic selection reveals functional metastable structures embedded in toxin-encoding mRNA. eLife2019 Aug 14;8. pii: e47549. doi: 10.7554/eLife.47549.


Blosse A, Levy M, Robe C, Staedel C, Copie-Bergman C, Lehours P. Deregulation of miRNA in Helicobacter pylori-Induced Gastric MALT Lymphoma: From Mice to Human. J Clin Med. 2019 Jun 13;8(6):845. doi: 10.3390/jcm8060845.



Masachis S, Tourasse NJ, Chabas S, Bouchez O and Darfeuille F. FASTBAC-Seq: Functional AnalysiS of Toxin–Antitoxin Systems in BACteria by Deep Sequencing, Methods in Enzymology, 2018, 612, ISSN 0076-6879,


Vo DD, Becquart C, Tran TPA, Di Giorgio A, Darfeuille F, Staedel C and Duca M. Building of neomycin-nucleobase-amino acid conjugates for the inhibition of oncogenic miRNAs biogenesis. Org Biomol Chem. 2018 Aug 29;16(34):6262-6274. doi: 10.1039/c8ob01858h.


Masachis S, Darfeuille F. Type I Toxin-Antitoxin Systems: Regulating Toxin Expression via Shine-Dalgarno Sequence Sequestration and Small RNA Binding. Microbiol Spectr. 2018 Jul;6(4). doi: 10.1128/microbiolspec.RWR-0030-2018.


Staedel C, Tran TPA, Giraud J, Darfeuille F, Di Giorgio A, Tourasse NJ, Salin F, Uriac P, Duca M. Modulation of oncogenic miRNA biogenesis using functionalized polyamines. Sci Rep. 2018 Jan 26;8(1):1667. doi: 10.1038/s41598-018-20053-5.



Zangari J, Ilie M, Rouaud F, Signetti L, Ohanna M, Didier R, Roméo B, Goldoni D, Nottet N, Staedel C, Gal J, Mari B, Mograbi B, Hofman P, Brest P. Rapid decay of engulfed extracellular miRNA by XRN1 exonuclease promotes transient epithelial-mesenchymal transition. Nucleic Acids Research.  2017 Apr 20;45(7):4131-4141. doi 10.1093/nar/gkw1284.


Arnion H, Korkut DN, Masachis Gelo S, Chabas S, Reignier J, Iost I, Darfeuille F. Mechanistic insights into type I toxin antitoxin systems in Helicobacter pylori: the importance of mRNA folding in controlling toxin expression. Nucleic Acids Research. 2017 May 5;45(8):4782-4795 doi 10.1093/nar/gkw1343.


Nguyen PH, Giraud J, Staedel C, Chambonnier L, Dubus P, Chevret E, Bœuf H, Gauthereau X, Rousseau B, Fevre M, Soubeyran I, Belleannée G, Evrard S, Collet D, Mégraud F, Varon C. All-trans retinoic acid targets gastric cancer stem cells and inhibits patient-derived gastric carcinoma tumor growth. Oncogene. 2016 May 9.

Vo DD, Tran TP, Staedel C, Benhida R, Darfeuille F, Di Giorgio A, Duca M.Oncogenic MicroRNAs Biogenesis as a Drug Target: Structure-Activity Relationship Studies on New Aminoglycoside Conjugates. Chemistry. 2016 Apr 4;22(15):5350-62.

Redko Y, Galtier E, Arnion H, Darfeuille F, Sismeiro O, Coppée JY, Médigue C, Weiman M, Cruveiller S, De Reuse H. RNase J depletion leads to massive changes in mRNA abundance in Helicobacter pylori. RNA Biol. 2016 Feb;13(2):243-53.

Book Chapter:

Pernitzsch SR, Darfeuille F, Sharma CM. The Primary Transcriptome and Noncoding RNA Repertoire of Helicobacter pylori. Helicobacter pylori Research, 189-216


Oumzil K, Benizri S, Tonelli G, Staedel C, Appavoo A, Chaffanet M, Navailles L, Barthélémy P. pH-Cleavable Nucleoside Lipids: A New Paradigm for Controlling the Stability of Lipid-Based Delivery Systems. ChemMedChem. 2015Nov;10(11):1797-801. doi: 10.1002/cmdc.201500381.


Staedel C, Varon C, Nguyen PH, Vialet B, Chambonnier L, Rousseau B, Soubeyran I, Evrard S, Couillaud F, Darfeuille F. Inhibition of Gastric Tumor Cell Growth Using Seed-targeting LNA as Specific, Long-lasting MicroRNA Inhibitors. Mol Ther Nucleic Acids. 2015 Jul 7;4:e246. doi: 10.1038/mtna.2015.18.


Bessède E, Staedel C, Acuña Amador LA, Nguyen PH, Chambonnier L, Hatakeyama M,Belleannée G, Mégraud F, Varon C. Helicobacter pylori generates cells with cancer stem cell properties via epithelial-mesenchymal transition-like changes. Oncogene. 2014 Aug 7;33(32):4123-31. doi: 10.1038/onc.2013.380.


Vo DD, Staedel C, Zehnacker L, Benhida R, Darfeuille F, Duca M. Targeting the production of oncogenic microRNAs with multimodal synthetic small molecules. ACS Chem Biol. 2014 Mar 21;9(3):711-21. doi: 10.1021/cb400668h.


Staedel C, Darfeuille F. MicroRNAs and bacterial infection. Cell Microbiol.2013 Sep;15(9):1496-507. doi: 10.1111/cmi.12159.


Iost I, Bizebard T, Dreyfus M. Functions of DEAD-box proteins in bacteria: current knowledge and pending questions. Biochim Biophys Acta. 2013 Aug;1829(8):866-77. doi: 10.1016/j.bbagrm.2013.01.012.


Redko Y, Aubert S, Stachowicz A, Lenormand P, Namane A, Darfeuille F,Thibonnier M, De Reuse H. A minimal bacterial RNase J-based degradosome isassociated with translating ribosomes. Nucleic Acids Res. 2013 Jan7;41(1):288-301. doi: 10.1093/nar/gks945.


Hocès de la Guardia A, Staedel C, Kaafarany I, Clément A, Roubaud Baudron C, Mégraud F, Lehours P. Inflammatory cytokine and microRNA responses of primary human dendritic cells cultured with Helicobacter pylori strains. Front Microbiol. 2013 Aug 20;4:236. doi: 10.3389/fmicb.2013.00236.


Gutierrez A, Laureti L, Crussard S, Abida H, Rodríguez-Rojas A, Blázquez J, Baharoglu Z, Mazel D, Darfeuille F, Vogel J, Matic I. β-Lactam antibioticspromote bacterial mutagenesis via an RpoS-mediated reduction in replication fidelity. Nat Commun. 2013;4:1610. doi: 10.1038/ncomms2607.


Baud J, Varon C, Chabas S, Chambonnier L, Darfeuille F, Staedel C. Helicobacter pylori initiates a mesenchymal transition through ZEB1 in gastric epithelial cells. PLoS One. 2013;8(4):e60315. doi: 10.1371/journal.pone.0060315.



Bui L, Abbou S, Ibarboure E, Guidolin N, Staedel C, Toulmé JJ, Lecommandoux S, Schatz C. Encapsidation of RNA-polyelectrolyte complexes with amphiphilic block copolymers: toward a new self-assembly route. J Am Chem Soc. 2012 Dec12;134(49):20189-96. doi: 10.1021/ja310397j.


Grise F, Sena S, Bidaud-Meynard A, Baud J, Hiriart JB, Makki K, Dugot-Senant N, Staedel C, Bioulac-Sage P, Zucman-Rossi J, Rosenbaum J, Moreau V. Rnd3/RhoE Is down-regulated in hepatocellular carcinoma and controls cellular invasion. Hepatology. 2012 Jun;55(6):1766-75. doi: 10.1002/hep.25568.


Jalvy-Delvaille S, Maurel M, Majo V, Pierre N, Chabas S, Combe C, Rosenbaum J, Sagliocco F, Grosset CF. Molecular basis of differential target regulation by miR-96 and miR-182: the Glypican-3 as a model. Nucleic Acids Res. 2012 Feb;40(3):1356-65. doi: 10.1093/nar/gkr843.


Belair C, Baud J, Chabas S, Sharma CM, Vogel J, Staedel C, Darfeuille F. Helicobacter pylori interferes with an embryonic stem cell micro RNA cluster to block cell cycle progression. Silence. 2011 Oct 25;2(1):7. doi: 10.1186/1758-907X-2-7.


Proux F, Dreyfus M, Iost I. Identification of the sites of action of SrmB, a DEAD-box RNA helicase involved in Escherichia coli ribosome assembly. Mol Microbiol. 2011 Oct;82(2):300-11. doi: 10.1111/j.1365-2958.2011.07779.x.


Iriondo-Alberdi J, Laxmi-Reddy K, Bouguerne B, Staedel C, Huc I. Cellularinternalization of water-soluble helical aromatic amide foldamers. Chembiochem. 2010 Aug 16;11(12):1679-85. doi: 10.1002/cbic.201000256.


Mahias K, Ahmed-El-Sayed N, Masante C, Bitard J, Staedel C, Darfeuille F,Ventura M, Astier-Gin T. Identification of a structural element of the hepatitis C virus minus strand RNA involved in the initiation of RNA synthesis. Nucleic Acids Res. 2010 Jul;38(12):4079-91. doi: 10.1093/nar/gkq109.


Sharma CM, Hoffmann S, Darfeuille F, Reignier J, Findeiss S, Sittka A, Chabas S, Reiche K, Hackermüller J, Reinhardt R, Stadler PF, Vogel J. The primary transcriptome of the major human pathogen Helicobacter pylori. Nature. 2010 Mar 11;464(7286):250-5. doi: 10.1038/nature08756.