Identification of unusual and novel HIV type 1 spliced transcripts generated in vivo

AIDS Research and Human Retroviruses
Cristina CarreraM Thomson

Abstract

HIV-1 transcripts are generated through a complex alternative splicing mechanism, resulting in the production of multiple RNAs coding for each viral protein. HIV-1 RNA splicing has been analyzed mostly in in vitro assays, and in vivo data are scarce. Here we analyze HIV-1 transcripts generated in peripheral blood mononuclear cells of HIV-1-infected individuals by RT-PCR amplification and sequencing of RNA extracted from unstimulated cells. We identify several unusual or unreported transcripts, most of them splicing within the Nef coding sequence. The majority are predicted to code for a Nef C-terminal 34 amino acid peptide, but others code for Vpr, a truncated Tat, and a 41 amino acid peptide encoded in an antisense exon. We also identify nef and env transcripts splicing four nucleotides downstream of SA5. These results represent the first report on the in vivo generation of diverse novel HIV-1-spliced transcripts, frequently encoding a Nef C-terminal peptide.

References

Nov 1, 1994·AIDS Research and Human Retroviruses·M NeumannG N Pavlakis
May 6, 2006·The Journal of Biological Chemistry·Martin LützelbergerJørgen Kjems
Oct 4, 2007·Retrovirology·Sébastien LandryBenoit Barbeau
Aug 25, 2009·Advances in Virus Research·C Martin Stoltzfus

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Citations

Apr 2, 2013·AIDS Research and Human Retroviruses·Yolanda VegaMichael M Thomson
Jan 8, 2015·Current Opinion in HIV and AIDS·Alex HarwigBen Berkhout
Jul 20, 2016·Proceedings of the National Academy of Sciences of the United States of America·Hiromi ImamichiH Clifford Lane
Jan 26, 2017·Frontiers in Microbiology·Simon Langer, Daniel Sauter
Aug 1, 2018·Proceedings of the National Academy of Sciences of the United States of America·Biswajit DasJonathan Karn
Jul 9, 2020·Journal of Clinical Medicine·Paula Martínez-RománVerónica Briz

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Methods Mentioned

BETA
electrophoresis
PCR

Software Mentioned

Sequence Locator Tool

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Alternative splicing

Alternative splicing a regulated gene expression process that allows a single genetic sequence to code for multiple proteins. Here is that latest research.