A molecular phylogenetics-based approach for identifying recent hepatitis C virus transmission events

作者：Olmstead Andrea D^*; Joy Jeffrey B; Montoya Vincent; Luo Iris; Poon Art F Y; Jacka Brendan; Lamoury Francois; Applegate Tanya; Montaner Julio; Khudyakov Yury; Grebely Jason; Cook Darrel; Harrigan P Richard; Krajden Mel

来源：Infection, Genetics and Evolution, 2015, 33: 101-109.

DOI：10.1016/j.meegid.2015.04.017

• Hepatitis C virus
• Recent transmission clusters
• British Columbia
• Epidemiology
• Sequencing
• Phylogenetics
• Surveillance
• Seroconversion

Improved surveillance methods are needed to better understand the current hepatitis C virus (HCV) disease burden and to monitor the impact of prevention and treatment interventions on HCV transmission dynamics. Sanger sequencing (HCV NS5B, HVR1 and Core-E1-HVR1) and phylogenetics were applied to samples from individuals diagnosed with HCV in British Columbia, Canada in 2011. This included individuals with two or three sequential samples collected <1 year apart. Patristic distances between sequential samples were used to set cutoffs to identify recent transmission clusters. Factors associated with transmission clustering were analyzed using logistic regression. From 618 individuals, 646 sequences were obtained. Depending on the cutoff used, 63 (10%) to 92 (15%) unique individuals were identified within transmission clusters of predicted recent origin. Clustered individuals were more likely to be <40 years old (Adjusted Odds Ratio (AOR) 2.12, 95% CI 1.21-3.73), infected with genotype la (AOR 6.60, 95% CI 1.98-41.0), and to be seroconverters with estimated infection duration of <1 year (AOR 3.13, 95% CI 1.29-7.36) or >1 year (AOR 2.19, 95% CI1.22-3.97).
Conclusion: Systematic application of molecular phylogenetics may be used to enhance traditional surveillance methods through identification of recent transmission clusters.

• 出版日期2015-7