scholarly journals Net emergence of substitutions at position 28 in NS5A of hepatitis C virus genotype 4 in patients failing direct-acting antivirals detected by next-generation sequencing

2019 ◽  
Vol 53 (1) ◽  
pp. 80-83 ◽  
Author(s):  
Thuy Nguyen ◽  
Sepideh Akhavan ◽  
Fabienne Caby ◽  
Luminita Bonyhay ◽  
Lucile Larrouy ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Next Generation ◽  
Direct Acting Antivirals ◽  
Virus Genotype ◽  
Genotype 4 ◽  
Direct Acting ◽  
Generation Sequencing

scholarly journals First next-generation sequencing full-genome characterization of a hepatitis C virus genotype 7 divergent subtype

2016 ◽  
Vol 22 (11) ◽  
pp. 947.e1-947.e8 ◽  
Author(s):  
M. Salmona ◽  
A. Caporossi ◽  
P. Simmonds ◽  
M.-A. Thélu ◽  
K. Fusillier ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Full Genome ◽  
Next Generation ◽  
Virus Genotype ◽  
Genome Characterization ◽  
Generation Sequencing

scholarly journals Characterization of Hepatitis C Virus Recombination in Cameroon by Use of Nonspecific Next-Generation Sequencing

2015 ◽  
Vol 53 (10) ◽  
pp. 3155-3164 ◽  
Author(s):  
James C. Iles ◽  
Richard Njouom ◽  
Yacouba Foupouapouognigni ◽  
David Bonsall ◽  
Rory Bowden ◽  
...  
Keyword(s):  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Consensus Sequence ◽  
Pcr Amplification ◽  
Rna Seq ◽  
Next Generation ◽  
Genotype 4 ◽  
Genotype 2 ◽  
Generation Sequencing

The importance of recombination in the evolution and genetic diversity of the hepatitis C virus (HCV) is currently uncertain. Only a small number of intergenotypic recombinants have been identified so far, and each has core and envelope genes classified as belonging to genotype 2. Here, we investigated two putative genotype 4/1 recombinants from southern Cameroon using a number of approaches, including standard Sanger sequencing, genotype-specific PCR amplification, and non-HCV-specific Illumina RNA sequencing (RNA-seq). Recombination between genotypes 1 and 4 was confirmed in both samples, and the parental lineages of each recombinant belong to HCV subtypes that are cocirculating at a high prevalence in Cameroon. Using the RNA-seq approach, we obtained a complete genome for one sample, which contained a recombination breakpoint at the E2/P7 gene junction. We developed and applied a new method, called Deep SimPlot, which can be used to visualize and identify viral recombination directly from the short sequence reads created by next-generation sequencing in conjunction with a consensus sequence.

Genetic diversity of Hepatitis C Virus in Pakistan using Next Generation Sequencing

2018 ◽  
Vol 108 ◽  
pp. 26-31 ◽  
Author(s):  
Sana Saleem ◽  
Amjad Ali ◽  
Bushra Khubaib ◽  
Madiha Akram ◽  
Zareen Fatima ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Hepatitis C Virus ◽  
Hepatitis C ◽  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing
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