Identification of hepatitis C virus transmission using a next-generation sequencing approach.
Here, we describe a transmission event of hepatitis C virus (HCV) among injection drug users. Next-generation sequencing (NGS) was used to assess the intrahost viral genetic variation. Deep amplicon sequencing of HCV hypervariable region 1 allowed for a detailed analysis of the structure of the viral population. Establishment of the genetic relatedness between cases was accomplished by phylogenetic analysis. NGS is a powerful tool with applications in molecular epidemiology studies and outbreak investigations.
Instituto de Diagnóstico y Referencia Epidemiológicos, Secretaría de Salud, Mexico City, Mexico.
Alejandro
A
Escobar-Gutiérrez
Mauricio
M
Vazquez-Pichardo
Mayra
M
Cruz-Rivera
Pilar
P
Rivera-Osorio
Juan Carlos
JC
Carpio-Pedroza
Juan Alberto
JA
Ruíz-Pacheco
Karina
K
Ruiz-Tovar
Gilberto
G
Vaughan
D000328:Adult; D055030:Drug Users; D016174:Hepacivirus / Q000145:classification / Q000235:genetics*; D006526:Hepatitis C / Q000209:etiology / Q000635:transmission* / Q000821:virology; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D008297:Male; D008875:Middle Aged; D058889:Molecular Typing; D010802:Phylogeny; D017422:Sequence Analysis, DNA; D015819:Substance Abuse, Intravenous / Q000150:complications*; D017361:Viral Nonstructural Proteins / Q000235:genetics; D014764:Viral Proteins / Q000235:genetics; D012324:RNA-Dependent RNA Polymerase
D017361:Viral Nonstructural Proteins; D014764:Viral Proteins; C400562:HVR1 protein, Hepatitis C virus; C087036:NS-5 protein, hepatitis C virus; D012324:RNA-Dependent RNA Polymerase