Comparison of methods to detect HIV dual infection.

TitleComparison of methods to detect HIV dual infection.
Publication TypeJournal Article
Year of Publication2010
AuthorsPacold M, Smith D, Little S, Cheng P M, Jordan P, Ignacio C, Richman D, Pond S K
JournalAIDS Res Hum Retroviruses
Volume26
Issue12
Pagination1291-8
Date Published2010 Dec
ISSN1931-8405
KeywordsAdult, Cluster Analysis, Genetic Variation, High-Throughput Nucleotide Sequencing, HIV, HIV Infections, Humans, Male, Middle Aged, Molecular Sequence Data, Sequence Analysis, DNA, Sequence Homology, Virology
Abstract

Current methods to detect intraclade HIV dual infection are poorly suited for determining its prevalence in large cohorts. To investigate the potential of ultra-deep sequencing to screen for dual infection, we compared it to bulk sequence-based synonymous mixture index and the current standard of single genome sequencing. The synonymous mixture index identified samples likely to harbor dual infection, while ultra-deep sequencing captured more intra-host viral diversity than single genome sequencing at approximately 40% of the cost and 20% of the laboratory and analysis time. The synonymous mixture index and ultra-deep sequencing are promising methods for rapid and cost-effective systematic identification of HIV dual infection.

DOI10.1089/aid.2010.0042
PubMed URLhttp://www.ncbi.nlm.nih.gov/pubmed/20954840?dopt=Abstract
PMCPMC3011997
Alternate TitleAIDS Res. Hum. Retroviruses
PubMed ID20954840