PhD Defense of Alban CAPOROSSI on 11/26/19
PhD Defense of Alban Caporossi from BCM team on Thusday, the 26 of november at 3 pm :
" High-throughput sequencing contribution in bioinformatics analysis of hepatitis C virus genome "
Thesis supervision:
- M. le Pr. Olivier FRANÇOIS, Université Grenoble Alpes, laboratoire TIMC UMR 5525 (Director)
- M. le Dr. Michael BLUM, Université Grenoble Alpes, laboratoire TIMC UMR 5525 (Co-director)
Jury:
- M. le Pr. Philippe HALFON, Hôpital Européen, Laboratoire Alphabio Marseille (Reporter)
- M. le Pr. Thierry WIRTH, Ecole Pratique des Hautes Études, Muséum National d'Histoire Naturelle Paris (Reporter)
- M. le Pr. Rodolphe THIEBAUT, Université de Bordeaux, CHU de Bordeaux (Examiner)
- M. le Pr. Alexandre MOREAU-GAUDRY, Université Grenoble Alpes, laboratoire TIMC UMR 5525, CHU Grenoble Alpes (President)
Abstract:High-throughput sequencing has been used in this work to reconstruct with adapted methods the whole genome
of the hepatitis C virus (HCV) particularly for accurately typing the virus. Thus, we managed to detect in a study
a recombinant form of HCV circulating within a patient. We typed and detected in another study resistance
mutations of several HCV strains of different genotypes. Finally, a last study based on this approach enabled to
uncover a HCV strain belonging to a new subtype. High-throughput sequencing has also been used in this work
to detect multiple infections and analyze viral evolution with targeted HCV genes and non-specific methods for
2 HCV patients under treatment. This retrospective study enabled to define the composition of each temporal
sample, assess their nucleotide diversity, investigate viral population genetic structure and temporal evolution
and date secondary infections. Results of this analysis support the hypothesis of onset mechanism of treatment
resistance (selective sweeps).
of the hepatitis C virus (HCV) particularly for accurately typing the virus. Thus, we managed to detect in a study
a recombinant form of HCV circulating within a patient. We typed and detected in another study resistance
mutations of several HCV strains of different genotypes. Finally, a last study based on this approach enabled to
uncover a HCV strain belonging to a new subtype. High-throughput sequencing has also been used in this work
to detect multiple infections and analyze viral evolution with targeted HCV genes and non-specific methods for
2 HCV patients under treatment. This retrospective study enabled to define the composition of each temporal
sample, assess their nucleotide diversity, investigate viral population genetic structure and temporal evolution
and date secondary infections. Results of this analysis support the hypothesis of onset mechanism of treatment
resistance (selective sweeps).
Keywords:
High-throughput sequencing,Hepatitis C Virus,Whole genome,Genotyping,Multiple infection,Viral evolution