CV Science

Michele Trabucchi PhD

Course and current status

EDUCATION:

 

June 2014: HDR, University of Cote d’Azur (France)

 

2002: European Ph.D. in the Cellular and Molecular Biology program at the University of Rouen (France), Dr. Hubert Vaudry (Coordinator)

 

1996: B.S., Biology with top marks and honors. University of Genova (Italy)

 

 

Professional experience:

 

From 2022 to 2026: nominated Member of the National CSS1- Inserm.

 

In 2022: member of the Scientific Committee of the SiFRARN 12^th meeting

 

From 2020: member of the Executive Committee of the National Research Group in RNA (GDR RNA).

 

From 2017: Professional promotion at Inserm, Directeur de recherche de 2ème classe (DR2).

 

From 2016 to 2021: elected Member of the National CSS1- Inserm.

 

From 2015: Assistant Editor at Frontiers Molecular Biosciences.

 

From 2012 to 2017: Tenure position at Inserm, Chargé de recherche de 1ère classe (CR1).

 

From 2011 to 2015: ATIP/Avenir label of my team. 

 

From 2011: Group Leader in C3M (Inserm Unit), at the University of Cote d’Azur (France).

 

2009 –2011: Assistant Project Biologist at the University of California, San Diego (CA), School of Medicine, Dept. of Medicine. 

 

2004 –2008: Second Post-Doctoral Training at the University of California, San Diego (CA), in the laboratory of Dr. Michael G. Rosenfeld.

 

2002 − 2004: First Post-Doctoral Training at the University of Genova (Italy), School of Medicine, in the laboratory of Dr. Giorgio Corte. 

Scientific summary

I investigate small noncoding RNA-mediated mechanisms that regulate the gene expression in normal and pathological events of human cell physiology, including macrophages and sperm cells. Current efforts are to determine the biochemical and biological relevance of sequence-specific mode of action of small noncoding RNAs and their associated molecular complexes at gene-specific and genome-wide scales. An integration of biochemical, cellular and epigenetic model systems is employed, incorporating high-throughput sequencing, mass-spectrometry and bioinformatics approaches, to study the contributions of small noncoding RNAs to the development of specialized functions in cell physiology and the pathogenesis of inflammatory diseases.

 

Research Interests:

MICRORNA

We are investigating the complexity of post-transcriptional repression mediated by microRNAs in human cells. In the context of post-transcriptional control, a combinatorial code between CIS (RNA sequence domains) and TRANS elements (RNA-binding proteins and microRNAs) enables a fine control of the fate of target RNAs, by masking or exposing specific binding sites.

The challenge is now to integrate the interplay between microRNA- and RNA-binding protein-binding in subcellular compartments to decode the complexity of the post-transcriptional control in human cell physiology/pathology. Anti-sense oligonucleotide and pharmacological antagonist for small noncoding RNA biogenesis are being explored to effect cell-specific changes in gene expression as the basis for ‘RNA therapeutics’.

 

Selected publications:

1. Serra F*, Bottini S*, Pratella D, Stathopoulou MG, Sebille W, El-Hami L, et al. Trabucchi M# (2021) Systemic CLIP-seq analysis and game theory approach to model microRNA mode of binding. Nucleic Acids Res. 49(11):e66.
2. M. Trabucchi# and R. Mategot (2019) Subcellular heterogeneity of the microRNA machinery. Trends in Genetics 35(1): 15. (Review)
3. S. Bottini, D. Pratella, V. Grandjean, E. Repetto, M. Trabucchi# (2018) Recent development on CLIP-seq analysis and implications in miRNA targeting. Briefings in Bioinformatics doi: 10.1093/bib/bbx063.
4. S. Bottini*, N. Hamouda-Tekaya*, R. Mategot, L.E. Zaragosi, S. Audebert, S. Pisano, V. Grandjean, C. Mauduit, M. Benahmed, P. Barbry, E. Repetto, M. Trabucchi# (2017) Post-transcriptional gene silencing mediated by microRNAs is controlled by nucleoplasmic Sfpq. Nature Communications 8(1):1189.
5. S. Bottini, N. Hamouda-Tekaya, B. Tanasa, L.E. Zaragosi, V. Grandjean, E. Repetto, M. Trabucchi# (2017) From benchmarking HITS-CLIP peak detection programs to a new method for identification of miRNA-binding sites from Ago2-CLIP data. Nucleic Acids Research 45(9):e71.
6. P. Bruscella, S. Bottini, C. Baudesson, J.M, Pawlotsky, C. Feray, M. Trabucchi# (2017) Viruses and miRNAs: More Friends than Foes. Front Microbiol. 8:824. (Review)
7. B. Siddeek, N. Lakhdari, L. Inoubli, R. Paul-Bellon, V. Isnard, E. Thibault, A. Bongain, D. Chevalier, E. Repetto, M. Trabucchi, J.F. Michiels, U. Simeoni, M. Urtizberea, C. Mauduit, M. Benahmed#  (2016) Developmental epigenetic programming of adult germ cell death disease: polycomb protein EZH2 -miR-101 pathway. Epigenomics 8(11):1459-1479.
8. E. Repetto, P. Briata, N. Kuziner, B.D. Harfe, M.T. McManus, R. Gherzi, M.G. Rosenfeld, M. Trabucchi# (2012) Let-7b/c enhance the stability of a tissue-specific mRNA during mammalian organogenesis as part of a feedback loop involving KSRP. Plos Genetics Jul;8(7): e1002823.
9. Q. Hu, B. Tanasa*, M. Trabucchi*, W. Li, J. Zhang, K.A. Ohgi, D.W. Rose, C.K. Glass, M.G. Rosenfeld (2012) DICER- and AGO3-dependent generation of retinoic acid-induced DR2 Alu RNAs regulates human stem cell proliferation. Nature Structural & Molecular Biology 19, 1168-1175.

10.R. Gherzi*, M. Trabucchi*, M. Ponassi, I.E. Gallouzi, M.G. Rosenfeld, P. Briata (2010). Pitx2, a required factor in myoblast differentiation, is phosphorylated by AKT and controls cyclin D1 mRNA decay. Cell Death & Differ 17(6):975-983.

11.  M. Trabucchi, P. Briata, M.F. Garcia-Mayoral, A.D. Haase, W. Filipowicz, A. Ramos, R. Gherzi, M.G. Rosenfeld (2009). The RNA-binding Protein KSRP Promotes the Biogenesis of a Subset of miRNAs. Nature 459:1010-1014.

 

 

Immune and inflammatory diseases

Macrophages are involved in regulation of the initiation, development, and resolution of inflammatory processes. In addition, these cells play important immunoregulatory and tissue-repairing roles. The deregulation of macrophage phenotype and function is increasingly being recognized in several inflammatory and autoimmune disorders. We and others demonstrated that different classes of small noncoding RNAs, such as the YRNA, play a role in gene expression (de)regulation in macrophage functions in health and disease. We are investigating the mechanisms and functional consequences of Ro60-YRNA complex deregulation in autoimmune disease and their cardiometabolic co-morbidities. From a clinical point of view, the data generated here will serve to mechanistically evaluate the resistance of immune-suppressor treatments to systemic immune and inflammatory diseases.

 

Selected publications:

1. Costa VL, Ruidavets JB, Bongard V, Perret B, Repetto E, Stathopoulou MG, Serra F, Benahmed M, Mauduit C, Grandjean V, Ferrières J, Martinez LO#, Trabucchi M.# (2021) Prediction of coronary heart disease incidence in a general male population by circulating non-coding small RNA sRNY1-5p in a nested case-control study. Sci Rep. 11(1):1837. doi: 10.1038/s41598-021-81221-8.
2. Martis N, Jamme M, Bagnis-Isnard C, Pouteil-Noble C, Presne C, Vigneau C, et al. (2021) Systemic autoimmune disorders associated with thrombotic microangiopathy: A cross-sectional analysis from the French National TMA registry: Systemic autoimmune disease-associated TMA. Eur J Intern Med.
3. Levraut M, Legros L, Drappier C, Béné MC, Queyrel V, Raynaud S, Martis N (2020) Low prevalence of JAK2 V617F mutation in patients with thrombosis and normal blood counts: a retrospective impact study. J Thromb Thrombolys. 50(4):995-1003.
4. Z. Hizir, S. Bottini, V. Grandjean, M. Trabucchi#, E. Repetto# (2017) RNY-derived small RNAs promotes macrophage inflammation and cell death. Cell Death & Disease 8:e2530.
5. Z. Hizir, M. Trabucchi#, E. Repetto# (2016) Valeur diagnostique des petits ARN dérivés des Y-RNAs dans les cardiopathies coronariennes. Med Sci (Paris). 32(3):248-51. (Review)
6. E. Repetto#, L. Lichtenstein, Z. Hizir, N. Tekaya, M. Benahmed, J.B. Ruidavets, L.E. Zaragosi, B. Perret, L. Bouchareychas, A. Genoux, R. Lotte, R. Ruimy, J. Ferrières, P. Barbry, L.O. Martinez, M. Trabucchi#. (2015) RNY-derived small RNAs as a signature of Coronary Artery Disease. BMC Medicine 13(1):259.
7. S. Saccani# and M. Trabucchi# (2015) Regulation of stimulus-inducible gene expression in myeloid cells. Seminars in Immunology Feb;27(1):33-43 (Review)
8. T. Ruggiero*, M. Trabucchi*, F. De Santa, S. Zupo, B.D. Harfe, M.T. McManus, M.G. Rosenfeld, P. Briata, R. Gherzi (2009). LPS induces KH-type splicing regulatory protein-dependent processing of microRNA-155 precursors in macrophages. FASEB J 23:2898-2908.