title: LNA-modified primers drastically improve hybridization to target RNA and reverse transcription.
abstract: Knowledge about the structure of RNA is crucial to understanding its biological activities. Very often, the presence of unusually thermodynamically stable structural fragments in RNAs, such as hairpins, makes it impossible to apply primer extension to visualize the results of chemical mapping experiments. However, replacement of DNA primers with LNA-modified primers overcomes this limitation. This approach was tested successfully on regulatory OxyS RNA and DsrA RNA from Escherichia coli.
authors.affiliation: Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704 Poznan, Poland.
authors.forename: Agata
authors.initials: A
authors.lastname: Fratczak
authors.forename: Ryszard
authors.initials: R
authors.lastname: Kierzek
authors.forename: Elzbieta
authors.initials: E
authors.lastname: Kierzek
mesh_terms: D001483:Base Sequence; D017931:DNA Primers / Q000378:metabolism*; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D009693:Nucleic Acid Hybridization; D009841:Oligonucleotides / Q000378:metabolism*; D012313:RNA / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D058727:RNA, Small Untranslated; D022661:RNA, Untranslated / Q000737:chemistry / Q000235:genetics; D048348:Reverse Transcription / Q000235:genetics*
chemical_list: D017931:DNA Primers; C405431:DsrA RNA, E coli; D009841:Oligonucleotides; D058727:RNA, Small Untranslated; D022661:RNA, Untranslated; C477371:locked nucleic acid; D012313:RNA