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Amplification and pyrosequencing of near-full-length hepatitis C virus for typing and monitoring antiviral resistant strains  P. Trémeaux, A. Caporossi,

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Presentation on theme: "Amplification and pyrosequencing of near-full-length hepatitis C virus for typing and monitoring antiviral resistant strains  P. Trémeaux, A. Caporossi,"— Presentation transcript:

1 Amplification and pyrosequencing of near-full-length hepatitis C virus for typing and monitoring antiviral resistant strains  P. Trémeaux, A. Caporossi, C. Ramière, E. Santoni, N. Tarbouriech, M.-A. Thélu, K. Fusillier, L. Geneletti, O. François, V. Leroy, W.P. Burmeister, P. André, P. Morand, S. Larrat  Clinical Microbiology and Infection  Volume 22, Issue 5, Pages 460.e1-460.e10 (May 2016) DOI: /j.cmi Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

2 Fig. 1 Distribution of next-generation sequencing quality scores along hepatitis C virus (HCV) genome. Distribution of PHRED scores every 500 bp across HCV genome on six examples. Data are presented as box plots in which 50% of values lie within box. Horizontal lines drawn through middle of boxes represent median values. Top and bottom of each box are 25th and 75th percentiles of all values. Nucleotide numbering is based on sequence of HCV strain H77 (GenBank accession no. AF009606). Clinical Microbiology and Infection  , 460.e1-460.e10DOI: ( /j.cmi ) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

3 Fig. 2 Depth of coverage along hepatitis C virus (HCV) genome. Examples of sequence depth of coverage obtained for six samples. Nucleotide numbering is based on sequence of HCV strain H77 (GenBank accession no. AF009606). Clinical Microbiology and Infection  , 460.e1-460.e10DOI: ( /j.cmi ) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

4 Fig. 3 Typing of near-full-length hepatitis C virus genomes using a phylogenetic analysis. Phylogenetic analysis of 19 near-full-length genomes were obtained and compared to 86 reference sequences identified by their GenBank number. Bootstrap resampling (1000 replications) support values are shown at nodes. Tree is rooted using genotype 2 sequences; all horizontal branch lengths are drawn to scale of nucleotide substitutions per site. Clinical Microbiology and Infection  , 460.e1-460.e10DOI: ( /j.cmi ) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

5 Fig. 4 Location of mutations appeared during treatment on hepatitis C virus RNA polymerase NS5B structure in complex with sofosbuvir and RNA. Structure representation was generated with PyMOL based on PDB entry 4WTG. Protein is coloured beige, RNA strands are coloured grey, sofosbuvir is represented in stick and residues corresponding to described mutations are coloured green for patient 7, red for patient 9, blue for patient 11 and yellow for patient 15. Clinical Microbiology and Infection  , 460.e1-460.e10DOI: ( /j.cmi ) Copyright © 2016 European Society of Clinical Microbiology and Infectious Diseases Terms and Conditions

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