Nanoplasmonic probes of RNA folding and assembly during pre-mRNA splicing

Anh H. Nguyen, Jong Uk Lee, Sang Jun Sim

Research output: Contribution to journalArticlepeer-review

7 Citations (Scopus)

Abstract

RNA splicing plays important roles in transcriptome and proteome diversity. Herein, we describe the use of a nanoplasmonic system that unveils RNA folding and assembly during pre-mRNA splicing wherein the quantification of mRNA splice variants is not taken into account. With a couple of SERS-probes and plasmonic probes binding at the boundary sites of exon-2/intron-2 and intron-2/exon-3 of the pre-mature RNA of the β-globin gene, the splicing process brings the probes into the plasmonic bands. For plasmonic probes, a plasmon shift increase of ∼29 nm, corresponding to intron removal and exon-2 and exon-3 connection to form the mRNA molecule, is measured by plasmonic coupling. The increased scattering intensity and surface-enhanced Raman scattering (SERS) fingerprinting reveal the clear dynamics of pre-mRNA splicing. Moreover, a time-resolved experiment of individual RNA molecules exhibited a successful splicing and an inhibited splicing event by 33 μM biflavonoid isoginkgetin, a general inhibitor of RNA splicing. The results suggest that the RNA splicing is successfully monitored with the nanoplasmonic system. Thus, this platform can be useful for studying RNA nanotechnology, biomolecular folding, alternative splicing, and maturation of microRNA.

Original languageEnglish
Pages (from-to)4599-4607
Number of pages9
JournalNanoscale
Volume8
Issue number8
DOIs
Publication statusPublished - 2016 Feb 28

Bibliographical note

Funding Information:
This study was supported by the National Research Foundation of Korea (NRF) grants (NRF-2013R1A2A1A01015644) and the grants (2014M1A8A1049278) from Korea Carbon Capture and Sequestration (CCS) R&D Centre of the National Research Foundation (NRF) of the Ministry of Science, ICT, and Future Planning of Korea.

Publisher Copyright:
© The Royal Society of Chemistry 2016.

ASJC Scopus subject areas

  • General Materials Science

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