Putative HIV and SIV G-Quadruplex Sequences in Coding and Noncoding Regions Can Form G-Quadruplexes

Journal of Nucleic Acids
Petra KrafčíkováViktor Viglasky

Abstract

The HIV virus is one of the most studied viruses in the world. This is especially true in terms of gene sequencing, and to date more than 9 thousand genomic sequences of HIV isolates have been sequenced and analyzed. In this study, a series of DNA sequences, which have the potential to form G-quadruplex structures, is analyzed. Several such sequences were found in various coding and noncoding virus domains, including the U3 LTR, tat, rev, env, and vpx regions. Interestingly, a homological sequence to the already well-known HIV integrase aptamer was identified in the minus-strand. The sequences derived from original isolates were analyzed using standard spectral and electrophoretic methods. In addition, a recently developed methodology is applied which uses induced circular dichroism spectral profiles of G-quadruplex-ligand (Thiazole Orange) complexes to determine if G-rich sequences can adopt G-quadruplex structure. Targeting the G-quadruplexes or peptide domains corresponding to the G-rich coding sequence in HIV offers researchers attractive therapeutic targets which would be of particular use in the development of novel antiviral therapies. The analysis of G-rich regions can provide researchers with a path to find specific ta...Continue Reading

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Citations

May 30, 2019·Molecules : a Journal of Synthetic Chemistry and Natural Product Chemistry·Emilia Puig LombardiAlain Nicolas
May 29, 2021·Pharmacological Reviews·Ardavan AbiriHamid-Reza Rahimi
Jul 25, 2021·International Journal of Molecular Sciences·Lukáš TriznaViktor Víglaský

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Datasets Mentioned

BETA
KU168289.1
KU168259.1

Methods Mentioned

BETA
electrophoresis
NMR
circular dichroism

Software Mentioned

Basic Local Alignment Search Tool ( BLAST )
QuadBase2
QGRS
BLAST
QGRS mapper
G4Hunter

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