Complexity of the alternative splicing landscape in plants

The Plant Cell
Anireddy S N ReddyAndrea Barta

Abstract

Alternative splicing (AS) of precursor mRNAs (pre-mRNAs) from multiexon genes allows organisms to increase their coding potential and regulate gene expression through multiple mechanisms. Recent transcriptome-wide analysis of AS using RNA sequencing has revealed that AS is highly pervasive in plants. Pre-mRNAs from over 60% of intron-containing genes undergo AS to produce a vast repertoire of mRNA isoforms. The functions of most splice variants are unknown. However, emerging evidence indicates that splice variants increase the functional diversity of proteins. Furthermore, AS is coupled to transcript stability and translation through nonsense-mediated decay and microRNA-mediated gene regulation. Widespread changes in AS in response to developmental cues and stresses suggest a role for regulated splicing in plant development and stress responses. Here, we review recent progress in uncovering the extent and complexity of the AS landscape in plants, its regulation, and the roles of AS in gene regulation. The prevalence of AS in plants has raised many new questions that require additional studies. New tools based on recent technological advances are allowing genome-wide analysis of RNA elements in transcripts and of chromatin modif...Continue Reading

Associated Proceedings Papers

Jan 14, 2019·Chong WangGaurav Sablok

References

Jun 25, 2014·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Pamela S SoltisDouglas E Soltis
Nov 26, 2014·Annual Review of Genetics·Mi-Jeong YooDouglas E Soltis
Sep 4, 2014·Journal of Experimental Botany·Katarzyna KruszkaZofia Szweykowska-Kulinska
Jun 12, 2014·International Journal of Molecular Sciences·Shengming YangHongyan Zhu
Oct 1, 2014·International Journal of Molecular Sciences·Tiago M D CruzPaula Duque
Dec 27, 2015·Plant Science : an International Journal of Experimental Plant Biology·Bo ZhangFa-Ju Chen
Oct 16, 2015·Proceedings of the National Academy of Sciences of the United States of America·Hua JiangSheila McCormick
Mar 1, 2016·Wiley Interdisciplinary Reviews. RNA·Hsiao-Lin V Wang, Julia A Chekanova
Oct 18, 2015·Plant Science : an International Journal of Experimental Plant Biology·Rajesh Chandra MisraSumit Ghosh
Jul 17, 2015·Plant Signaling & Behavior·Kranthi K MandadiKaren-Beth G Scholthof
Mar 20, 2016·Biochimica Et Biophysica Acta·Douglas E SoltisPamela S Soltis
May 16, 2014·Wiley Interdisciplinary Reviews. RNA·Eva Stauffer, Alexis Maizel
Jan 16, 2015·RNA Biology·Ezequiel PetrilloAlberto R Kornblihtt
Jul 25, 2015·Molecular Plant·Peng Cui, Liming Xiong
Apr 30, 2015·Journal of Experimental Botany·Mónika HrtyanKamil Růžička
Jul 1, 2015·Frontiers in Plant Science·Andrés Romanowski, Marcelo J Yanovsky
May 7, 2015·Methods : a Companion to Methods in Enzymology·Hongzhu CuiDmitry Korkin
May 29, 2015·The Arabidopsis Book·Karen S Browning, Julia Bailey-Serres
Apr 4, 2015·Current Opinion in Plant Biology·Sergei FilichkinTodd C Mockler
Dec 19, 2014·Journal of Experimental Botany·Thangasamy SaminathanUmesh K Reddy
Jun 1, 2016·Nature Plants·Sridevi SureshkumarSureshkumar Balasubramanian
Nov 5, 2014·PloS One·Janusz NiedojadłoDariusz J Smoliński
Apr 29, 2016·Journal of Integrative Plant Biology·Arunkumar SrinivasanVittoria Brambilla
Aug 6, 2016·Bioinformatics·Li ChenLongjiang Fan

Citations

Feb 9, 1978·Nature·W Gilbert
Oct 10, 1986·Nucleic Acids Research·K Hartmuth, Andrea Barta
Dec 1, 1996·The Plant Cell·Sergiy LopatoAndrea Barta
Sep 2, 1997·Proceedings of the National Academy of Sciences of the United States of America·M MorrisonM B Roth
Dec 14, 1999·The Journal of Biological Chemistry·M Golovkin, Anireddy S N Reddy
Mar 10, 2001·Nature·E S LanderInternational Human Genome Sequencing Consortium
Apr 21, 2001·Molecular and Cellular Biology·E J Wagner, M A Garcia-Blanco
Nov 17, 2001·Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences·Dorothee Staiger
May 25, 2002·Molecular and Cellular Biology·Mark H L LambermonZdravko J Lorković
Aug 15, 2002·The Journal of Biological Chemistry·Sergiy LopatoAndrea Barta
Jan 22, 2003·The Plant Journal : for Cell and Molecular Biology·Dorothee StaigerLuca Eckstein
Jul 24, 2004·Biochemical Society Transactions·Maria Kalyna, Andrea Barta
Aug 18, 2004·Proceedings of the National Academy of Sciences of the United States of America·Yukio Kurihara, Yuichiro Watanabe
Sep 3, 2004·The Plant Journal : for Cell and Molecular Biology·Hadas Ner-GaonRobert Fluhr
Dec 2, 2004·Molecular and Cellular Biology·Emanuele Buratti, Francisco E Baralle
Mar 9, 2005·Current Opinion in Plant Biology·Keith L Adams, Jonathan F Wendel
Aug 16, 2005·The Plant Journal : for Cell and Molecular Biology·Koichi Hori, Yuichiro Watanabe
Aug 20, 2005·Molecular Cell·José María IzquierdoJuan Valcárcel
Dec 21, 2005·Genome Research·Zhixi SuXun Gu
Mar 8, 2006·Molecular Biology and Evolution·Kei Iida, Mitiko Go
Apr 25, 2006·Proceedings of the National Academy of Sciences of the United States of America·Bing-Bing Wang, Volker Brendel
May 17, 2006·Genome Research·Liying CuiClaude W dePamphilis
Jun 20, 2006·The Journal of Biological Chemistry·Christine P DonahueMichael S Wolfe
Jun 30, 2006·Nucleic Acids Research·Sergio de la Fuente van BentemHeribert Hirt

Related Concepts

Nested Transcripts
Primary RNA Transcript
Sequence Determinations, RNA
Cross Reactions
Gene Expression Regulation, Plant
Gene Expression
Nuclear mRNA Cis Splicing, via Spliceosome
Nonsense Mediated mRNA Decay
Plant Development
RNA Splicing

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