Next-Generation Sequencing of Small RNAs from HIV-Infected Cells Identifies Phased microRNA Expression Patterns and Candidate Novel microRNAs Differentially Expressed upon Infection

Chang, Stewart T.; Thomas, Matthew J.; Sova, Pavel; Green, Richard R.; Palermo, Robert E.; Katze, Michael G.

We verified the expression of the EPB41L2-encoded mi-croRNA by performing quantitative PCR (qPCR) using an additional HIV infection experiment sampled at increased frequency, 4-hour intervals through 24 hpi (see Fig. S5A in the supplemental material). The microRNA was detected in all samples by qPCR, but out of the five time points sampled, the largest downregulation was observed at 24 hpi, consistent with the downregulation observed in the small RNA-Seq data (see Fig. S5A ). Altered expression of the EPB41L2-encoded microRNA may therefore be specific to late stages of infection with live virus.