RNA secondary structure and nucleotide composition of the conserved hallmark sequence of Leishmania SIDER2 retroposons are essential for endonucleolytic cleavage and mRNA degradation
Publication Date
July 13, 2017
Authors
Hiva Azizi, Tatiany P. Romão, Karen Santos Charret, Prasad K. Padmanabhan, et al
Volume
12
Issue
7
Pages
e0180678
DOI
https://dx.plos.org/10.1371/journal.pone.0180678
Publisher URL
http://journals.plos.org/plosone/article?id=10.1371%2Fjournal.pone.0180678
Scopus
85023617997
Mendeley
http://www.mendeley.com/research/rna-secondary-structure-nucleotide-composition-conserved-hallmark-sequence-leishmania-sider2-retropo
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Mendeley | Further Information

{"title"=>"RNA secondary structure and nucleotide composition of the conserved hallmark sequence of Leishmania SIDER2 retroposons are essential for endonucleolytic cleavage and mRNA degradation", "type"=>"journal", "authors"=>[{"first_name"=>"Hiva", "last_name"=>"Azizi", "scopus_author_id"=>"25026680200"}, {"first_name"=>"Tatiany P.", "last_name"=>"Romão", "scopus_author_id"=>"6507404366"}, {"first_name"=>"Karen Santos", "last_name"=>"Charret", "scopus_author_id"=>"12645850900"}, {"first_name"=>"Prasad K.", "last_name"=>"Padmanabhan", "scopus_author_id"=>"9437068300"}, {"first_name"=>"Osvaldo P.", "last_name"=>"De Melo Neto", "scopus_author_id"=>"6507532385"}, {"first_name"=>"Michaela", "last_name"=>"Müller-McNicoll", "scopus_author_id"=>"55199447800"}, {"first_name"=>"Barbara", "last_name"=>"Papadopoulou", "scopus_author_id"=>"7003939303"}], "year"=>2017, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-85023617997", "pmid"=>"28704426", "sgr"=>"85023617997", "doi"=>"10.1371/journal.pone.0180678", "isbn"=>"1111111111", "issn"=>"19326203", "pui"=>"617293323"}, "id"=>"80464a4a-5c30-3340-b89f-34d70204ace5", "abstract"=>"We have reported previously that Short Interspersed Degenerate Retroposons of the SIDER2 subfamily, largely located within 3'UTRs of Leishmania transcripts, promote rapid turnover of mRNAs through endonucleolytic cleavage within the highly conserved second tandem 79-nt hallmark sequence (79-nt SII). Here, we used site-directed mutagenesis and in silico RNA structural studies to delineate the cis-acting requirements within 79-nt SII for cleavage and mRNA degradation. The putative cleavage site(s) and other nucleotides predicted to alter the RNA secondary structure of 79-nt SII were either deleted or mutated and their effect on mRNA turnover was monitored using a gene reporter system. We found that short deletions of 8-nt spanning the two predicted cleavage sites block degradation of SIDER2-containing transcripts, leading to mRNA accumulation. Furthermore, single or double substitutions of the dinucleotides targeted for cleavage as well as mutations altering the predicted RNA secondary structure encompassing both cleavage sites also prevent mRNA degradation, confirming that these dinucleotides are the bona fide cleavage sites. In line with these results, we show that stage-regulated SIDER2 inactivation correlates with the absence of endonucleolytic cleavage. Overall, these data demonstrate that both cleavage sites within the conserved 79-nt SII as well as RNA folding in this region are essential for SIDER2-mediated mRNA decay, and further support that SIDER2-harboring transcripts are targeted for degradation by endonucleolytic cleavage.", "link"=>"http://www.mendeley.com/research/rna-secondary-structure-nucleotide-composition-conserved-hallmark-sequence-leishmania-sider2-retropo", "reader_count"=>5, "reader_count_by_academic_status"=>{"Researcher"=>1, "Student > Postgraduate"=>1, "Student > Master"=>1, "Student > Bachelor"=>1, "Unspecified"=>1}, "reader_count_by_user_role"=>{"Researcher"=>1, "Student > Postgraduate"=>1, "Student > Master"=>1, "Student > Bachelor"=>1, "Unspecified"=>1}, "reader_count_by_subject_area"=>{"Biochemistry, Genetics and Molecular Biology"=>1, "Agricultural and Biological Sciences"=>2, "Immunology and Microbiology"=>1, "Unspecified"=>1}, "reader_count_by_subdiscipline"=>{"Immunology and Microbiology"=>{"Immunology and Microbiology"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>2}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>1}, "Unspecified"=>{"Unspecified"=>1}}, "group_count"=>0}

Scopus | Further Information

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