%0 Journal Article
%T Genome wide snRNP motifs and regulatory sequences in HIV1 isolates
%A Paushali Roy
%A Protip Basu
%A Sayak Ganguli
%A Abhijit Datta
%J International Journal of Bioinformatics Research
%D 2009
%I Bioinfo Publications
%X The pathogenesis of HIV-1 is complex and characterized by the interplay of both viral and hostfactors. Within HIV 1 genome there are several snRNP motifs responsible for pre mRNA splicing andstabilization. By locating these motifs within the genome and disturbing them may result in an impairedability of the cells to sustain HIV-1 replication. One of such regulatory sequences is riboswitches thatregulate the dimerization of HIV-1 RNA, which is an essential step during packaging. The current workwas undertaken to identify possible regulatory RNA motifs in the HIV1 genome from different isolates.The current work has successfully identified multiple snRNP motifs in the genome sequences ofdifferent strains of HIV-1 isolates. The identification of the multiple snRNP motifs in the genomicsequences of the various isolates lead us to believe that future studies with artificially constructedsnRNPs might have the potential to inhibit HIV1 replication. Apart from containing snRNP motifs theyalso possess regulatory riboswitch motifs. Riboswitches bind metabolites and control the dimerizationand packaging of the genome. Thus the occurrence of such motifs further strengthens the idea thatapart from serving as a regulatory domain for structural constraints such motifs may also regulategenome integration and production of the necessary products by using the host transcriptionalmachinery. It is however beyond doubt that such sequence motifs must have originated in the RNAworld as they have the power to mediate RNA induced regulation of gene expression.
%K Riboswitch
%K snRNP motifs
%K HIV-1
%K gene regulation
%K RNA processing
%U http://www.bioinfo.in/uploadfiles/12585390361_2_3_Bioinfo.pdf