Isolation and identification of post-transcriptional gene silencing-related micro-RNAs by functionalized silicon nanowire field-effect transistor

Chen K.-I.Pan C.-Y.Li K.-H.Huang Y.-C.Lu C.-W.Tang C.-Y.Su Y.-W.Tseng L.-W.Tseng K.-C.Lin C.-Y.Chen C.-D.Lin S.-S.YIT-TSONG CHENSHIH-SHUN LINCHIEN-YUAN PAN2020-02-102020-02-10201520452322https://scholars.lib.ntu.edu.tw/handle/123456789/457019Many transcribed RNAs are non-coding RNAs, including microRNAs (miRNAs), which bind to complementary sequences on messenger RNAs to regulate the translation efficacy. Therefore, identifying the miRNAs expressed in cells/organisms aids in understanding genetic control in cells/organisms. In this report, we determined the binding of oligonucleotides to a receptor-modified silicon nanowire field-effect transistor (SiNW-FET) by monitoring the changes in conductance of the SiNW-FET. We first modified a SiNW-FET with a DNA probe to directly and selectively detect the complementary miRNA in cell lysates. This SiNW-FET device has 7-fold higher sensitivity than reverse transcription-quantitative polymerase chain reaction in detecting the corresponding miRNA. Next, we anchored viral p19 proteins, which bind the double-strand small RNAs (ds-sRNAs), on the SiNW-FET. By perfusing the device with synthesized ds-sRNAs of different pairing statuses, the dissociation constants revealed that the nucleotides at the 3′-overhangs and pairings at the terminus are important for the interactions. After perfusing the total RNA mixture extracted from Nicotiana benthamiana across the device, this device could enrich the ds-sRNAs for sequence analysis. Finally, this bionanoelectronic SiNW-FET, which is able to isolate and identify the interacting protein-RNA, adds an additional tool in genomic technology for the future study of direct biomolecular interactions.[SDGs]SDG3microRNA; nanowire; silicon; chemistry; conformation; devices; gene expression profiling; gene silencing; genetics; nanotechnology; procedures; RNA interference; RNA processing; transistor; Gene Expression Profiling; Gene Silencing; MicroRNAs; Nanotechnology; Nanowires; Nucleic Acid Conformation; RNA Interference; RNA Processing, Post-Transcriptional; Silicon; Transistors, ElectronicIsolation and identification of post-transcriptional gene silencing-related micro-RNAs by functionalized silicon nanowire field-effect transistorjournal article10.1038/srep173752-s2.0-84948659700https://www2.scopus.com/inward/record.uri?eid=2-s2.0-84948659700&doi=10.1038%2fsrep17375&partnerID=40&md5=7316b3478c8ccfeba8cc3d74f57c2466