Identification of adenovirus-encoded small RNAs by deep RNA sequencing

Hongxing Zhao, Maoshan Chen, Ulf Pettersson

Research output: Contribution to journalArticleResearchpeer-review

11 Citations (Scopus)

Abstract

Using deep RNA sequencing, we have studied the expression of adenovirus-encoded small RNAs at different times after infection. Nineteen small RNAs which comprised more than 1% of the total pool of small RNAs at least one time point were identified. These small RNAs were between 25 and 35 nucleotides long and mapped in the region of the VA RNAI and RNAII genes. However, the overlap was incomplete and some contained a few extra nucleotides at the 3' end. This finding together with the observation that some of the small RNAs were detected before VA RNA expression had started might indicate that they are derived from other precursors than VA RNAI and II. Interestingly, the small RNAs displayed different expression profiles during the course of the infection suggesting that they have different functions. An effort was made to identify their mRNA targets by using computer prediction and deep cDNA sequencing. The most significant targets for the earliest small RNAs were genes involved in signaling pathways.

Original languageEnglish
Pages (from-to)148-155
Number of pages8
JournalVirology
Volume442
Issue number2
DOIs
Publication statusPublished - 1 Aug 2013
Externally publishedYes

Keywords

  • Adenovirus-encoded small RNA
  • RNA sequencing
  • Small RNA target prediction
  • Suppression of cellular gene expression
  • Viral defense mechanism

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