Literature DB >> 25734836

Conditional control of alternative splicing through light-triggered splice-switching oligonucleotides.

James Hemphill1,2, Qingyang Liu2, Rajendra Uprety2, Subhas Samanta1, Michael Tsang3, Rudolph L Juliano4, Alexander Deiters1,2.   

Abstract

The spliceosome machinery is composed of several proteins and multiple small RNA molecules that are involved in gene regulation through the removal of introns from pre-mRNAs in order to assemble exon-based mRNA containing protein-coding sequences. Splice-switching oligonucleotides (SSOs) are genetic control elements that can be used to specifically control the expression of genes through correction of aberrant splicing pathways. A current limitation with SSO methodologies is the inability to achieve conditional control of their function paired with high spatial and temporal resolution. We addressed this limitation through site-specific installation of light-removable nucleobase-caging groups as well as photocleavable backbone linkers into synthetic SSOs. This enables optochemical OFF → ON and ON → OFF switching of their activity and thus precise control of alternative splicing. The use of light as a regulatory element allows for tight spatial and temporal control of splice switching in mammalian cells and animals.

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Year:  2015        PMID: 25734836      PMCID: PMC5545098          DOI: 10.1021/jacs.5b00580

Source DB:  PubMed          Journal:  J Am Chem Soc        ISSN: 0002-7863            Impact factor:   15.419


  44 in total

Review 1.  Microinjection of DNA, RNA, and protein into the fertilized zebrafish egg for analysis of gene function.

Authors:  N Holder; Q Xu
Journal:  Methods Mol Biol       Date:  1999

Review 2.  Alternative RNA splicing in the nervous system.

Authors:  P J Grabowski; D L Black
Journal:  Prog Neurobiol       Date:  2001-10       Impact factor: 11.685

3.  Aberrant splicing and altered spatial expression patterns in fruitless mutants of Drosophila melanogaster.

Authors:  S F Goodwin; B J Taylor; A Villella; M Foss; L C Ryner; B S Baker; J C Hall
Journal:  Genetics       Date:  2000-02       Impact factor: 4.562

Review 4.  Alternative splicing takes shape during neuronal development.

Authors:  Paula Grabowski
Journal:  Curr Opin Genet Dev       Date:  2011-04-19       Impact factor: 5.578

Review 5.  Role of alternative splicing in generating isoform diversity among plasma membrane calcium pumps.

Authors:  E E Strehler; D A Zacharias
Journal:  Physiol Rev       Date:  2001-01       Impact factor: 37.312

Review 6.  Light-controlled tools.

Authors:  Clara Brieke; Falk Rohrbach; Alexander Gottschalk; Günter Mayer; Alexander Heckel
Journal:  Angew Chem Int Ed Engl       Date:  2012-07-24       Impact factor: 15.336

Review 7.  The spliceosome.

Authors:  A I Lamond
Journal:  Bioessays       Date:  1993-09       Impact factor: 4.345

8.  Comparative genomic and expression analysis of group B1 sox genes in zebrafish indicates their diversification during vertebrate evolution.

Authors:  Yuich Okuda; Hiroki Yoda; Masanori Uchikawa; Makoto Furutani-Seiki; Hiroyuki Takeda; Hisato Kondoh; Yusuke Kamachi
Journal:  Dev Dyn       Date:  2006-03       Impact factor: 3.780

9.  Switching on transgene expression by correcting aberrant splicing using multi-targeting steric-blocking oligonucleotides.

Authors:  Sarah Resina; Ryszard Kole; Adrian Travo; Bernard Lebleu; Alain R Thierry
Journal:  J Gene Med       Date:  2007-06       Impact factor: 4.565

10.  Optochemical control of deoxyoligonucleotide function via a nucleobase-caging approach.

Authors:  Qingyang Liu; Alexander Deiters
Journal:  Acc Chem Res       Date:  2013-08-28       Impact factor: 22.384

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  17 in total

Review 1.  Optochemical Control of Biological Processes in Cells and Animals.

Authors:  Nicholas Ankenbruck; Taylor Courtney; Yuta Naro; Alexander Deiters
Journal:  Angew Chem Int Ed Engl       Date:  2018-02-01       Impact factor: 15.336

2.  Optically controlled release of DNA based on nonradiative relaxation process of quenchers.

Authors:  Yusuke Ogura; Atsushi Onishi; Takahiro Nishimura; Jun Tanida
Journal:  Biomed Opt Express       Date:  2016-05-09       Impact factor: 3.732

Review 3.  Mammalian synthetic biology in the age of genome editing and personalized medicine.

Authors:  Patrick Ho; Yvonne Y Chen
Journal:  Curr Opin Chem Biol       Date:  2017-06-16       Impact factor: 8.822

4.  Genetic Code Expansion in Zebrafish Embryos and Its Application to Optical Control of Cell Signaling.

Authors:  Jihe Liu; James Hemphill; Subhas Samanta; Michael Tsang; Alexander Deiters
Journal:  J Am Chem Soc       Date:  2017-06-28       Impact factor: 15.419

5.  Development of Light-Activated CRISPR Using Guide RNAs with Photocleavable Protectors.

Authors:  Piyush K Jain; Vyas Ramanan; Arnout G Schepers; Nisha S Dalvie; Apekshya Panda; Heather E Fleming; Sangeeta N Bhatia
Journal:  Angew Chem Int Ed Engl       Date:  2016-08-24       Impact factor: 15.336

Review 6.  Translational control of gene function through optically regulated nucleic acids.

Authors:  Kristie E Darrah; Alexander Deiters
Journal:  Chem Soc Rev       Date:  2021-11-29       Impact factor: 54.564

7.  In Situ Imaging of mRNA Splicing Variants by SpliceRCA.

Authors:  Xiaojun Ren; Jinghong Li
Journal:  Methods Mol Biol       Date:  2022

8.  Conditional Deoxyribozyme-Nanoparticle Conjugates for miRNA-Triggered Gene Regulation.

Authors:  Jiahui Zhang; Rong Ma; Aaron Blanchard; Jessica Petree; Hanjoong Jo; Khalid Salaita
Journal:  ACS Appl Mater Interfaces       Date:  2020-08-17       Impact factor: 9.229

9.  Light-induced modulation of DNA recognition by the Rad4/XPC damage sensor protein.

Authors:  Amirrasoul Tavakoli; Debamita Paul; Hong Mu; Jagannath Kuchlyan; Saroj Baral; Anjum Ansari; Suse Broyde; Jung-Hyun Min
Journal:  RSC Chem Biol       Date:  2021-01-06

10.  Site-Directed RNA Editing in Vivo Can Be Triggered by the Light-Driven Assembly of an Artificial Riboprotein.

Authors:  Alfred Hanswillemenke; Tahsin Kuzdere; Paul Vogel; Gáspár Jékely; Thorsten Stafforst
Journal:  J Am Chem Soc       Date:  2015-12-10       Impact factor: 15.419

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