title: 2D-PAGE as an effective method of RNA degradome analysis.
abstract: The continuously growing interest in small regulatory RNA exploration is one of the important factors that have inspired the recent development of new high throughput techniques such as DNA microarrays or next generation sequencing. Each of these methods offers some significant advantages but at the same time each of them is expensive, laborious and challenging especially in terms of data analysis. Therefore, there is still a need to develop new analytical methods enabling the fast, simple and cost-effective examination of the complex RNA mixtures. Recently, increasing attention has been focused on the RNA degradome as a potential source of riboregulators. Accordingly, we attempted to employ a two-dimensional gel electrophoresis as a quick and uncomplicated method of profiling RNA degradome in plant or human cells. This technique has been successfully used in proteome analysis. However, its application in nucleic acids studies has been very limited. Here we demonstrate that two dimensional electrophoresis is a technique which allows one to quickly and cost-effectively identify and compare the profiles of 10-90 nucleotide long RNA accumulation in various cells and organs.
authors.affiliation: Institute of Bioorganic Chemistry, Polish Academy of Sciences, Noskowskiego 12/14, 61-704, Poznan, Poland.
authors.forename: Martyna
authors.initials: M
authors.lastname: Nowacka
authors.forename: Paulina
authors.initials: P
authors.lastname: Jackowiak
authors.forename: Agnieszka
authors.initials: A
authors.lastname: Rybarczyk
authors.forename: Tomasz
authors.initials: T
authors.lastname: Magacz
authors.forename: Pawel M
authors.initials: PM
authors.lastname: Strozycki
authors.forename: Jan
authors.initials: J
authors.lastname: Barciszewski
authors.forename: Marek
authors.initials: M
authors.lastname: Figlerowicz
mesh_terms: D017360:Arabidopsis / Q000382:microbiology; D020369:Bradyrhizobium / Q000235:genetics; D003001:Cloning, Molecular; D017931:DNA Primers / Q000235:genetics; D015180:Electrophoresis, Gel, Two-Dimensional / Q000379:methods*; D006367:HeLa Cells; D006801:Humans; D031297:Lupinus / Q000382:microbiology; D018515:Plant Leaves / Q000235:genetics; D020871:RNA Stability / Q000235:genetics*; D058727:RNA, Small Untranslated / Q000032:analysis* / Q000302:isolation & purification*; D053204:Root Nodules, Plant / Q000382:microbiology
chemical_list: D017931:DNA Primers; D058727:RNA, Small Untranslated