PCR Amplification Strategies Towards Full-length HIV-1 Genome Sequencing

Chao Chun Liu; Hezhao Ji

doi:10.2174/1570162X16666180626152252

PCR Amplification Strategies Towards Full-length HIV-1 Genome Sequencing

Curr HIV Res. 2018;16(2):98-105. doi: 10.2174/1570162X16666180626152252.

Authors

Chao Chun Liu¹, Hezhao Ji^{1

2}

Affiliations

¹ National Microbiology Laboratory at JC Wilt Infectious Diseases Research Center, Public Health Agency of Canada, Winnipeg, Canada.
² Department of Medical Microbiology and Infectious Diseases, University of Manitoba, Winnipeg, Canada.

PMID: 29943704
DOI: 10.2174/1570162X16666180626152252

Abstract

The advent of next-generation sequencing has enabled greater resolution of viral diversity and improved feasibility of full viral genome sequencing allowing routine HIV-1 full genome sequencing in both research and diagnostic settings. Regardless of the sequencing platform selected, successful PCR amplification of the HIV-1 genome is essential for sequencing template preparation. As such, full HIV-1 genome amplification is a crucial step in dictating the successful and reliable sequencing downstream. Here we reviewed existing PCR protocols leading to HIV-1 full genome sequencing. In addition to the discussion on basic considerations on relevant PCR design, the advantages as well as the pitfalls of the published protocols were reviewed.

Keywords: Full genome; HIV-1; Methods; Next generation sequencing; PCR; Sequencing..

Publication types

Review

MeSH terms

Genome, Viral*
HIV Infections / virology*
HIV-1 / genetics*
Humans
Polymerase Chain Reaction / economics
Polymerase Chain Reaction / methods
Polymerase Chain Reaction / standards
RNA, Viral*
Sensitivity and Specificity
Whole Genome Sequencing*

Substances

RNA, Viral