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PMID: 30760640 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

Control of Cognate Sense mRNA Translation by cis-Natural Antisense RNAs.

Plant physiology ·Vol. 180 ·No. 1 ·2019-00-00 ·Pages 305-322

Deforges J, Reis RS, Jacquet P, Sheppard S, Gadekar VP, Hart-Smith G, Tanzer A, Hofacker IL, Iseli C, Xenarios I, Poirier Y

Abstract

Cis-Natural Antisense Transcripts (cis-NATs), which overlap protein coding genes and are transcribed from the opposite DNA strand, constitute an important group of noncoding RNAs. Whereas several examples of cis-NATs regulating the expression of their cognate sense gene are known, most cis-NATs function by altering the steady-state level or structure of mRNA via changes in transcription, mRNA stability, or splicing, and very few cases involve the regulation of sense mRNA translation. This study was designed to systematically search for cis-NATs influencing cognate sense mRNA translation in Arabidopsis (Arabidopsis thaliana). Establishment of a pipeline relying on sequencing of total polyA+ and polysomal RNA from Arabidopsis grown under various conditions (i.e. nutrient deprivation and phytohormone treatments) allowed the identification of 14 cis-NATs whose expression correlated either positively or negatively with cognate sense mRNA translation. With use of a combination of cis-NAT stable over-expression in transgenic plants and transient expression in protoplasts, the impact of cis-NAT expression on mRNA translation was confirmed for 4 out of 5 tested cis-NAT:sense mRNA pairs. These results expand the number of cis-NATs known to regulate cognate sense mRNA translation and provide a foundation for future studies of their mode of action. Moreover, this study highlights the role of this class of noncoding RNAs in translation regulation.

MeSH Terms
Arabidopsis/genetics Arabidopsis Proteins/genetics DNA-Binding Proteins/genetics Gene Expression Regulation, Plant Plants, Genetically Modified Protein Biosynthesis RNA, Antisense/genetics RNA, Messenger/genetics RNA, Plant Reproducibility of Results Sequence Analysis, RNA Transcription Factors/genetics
Chemicals
Arabidopsis Proteins DNA-Binding Proteins RNA, Antisense RNA, Messenger RNA, Plant Transcription Factors WRKY45 protein, Arabidopsis
Authors & Affiliations
11 authors, click to expand affiliations / ORCID
Deforges Jules
Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland.
Reis Rodrigo S ORCID
Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland.
Jacquet Philippe
Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland.
Sheppard Shaoline ORCID
Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland.
Gadekar Veerendra P ORCID
Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria.
Hart-Smith Gene ORCID
School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney NSW 2052, Australia.
Tanzer Andrea ORCID
Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria.
Hofacker Ivo L ORCID
Institute of Theoretical Chemistry, University of Vienna, Wahringer Str 17, A-1090 Vienna, Austria.
Iseli Christian ORCID
Swiss Institute of Bioinformatics, CH-1015 Lausanne, Switzerland.
Xenarios Ioannis ORCID
Swiss Institute of Bioinformatics, CH-1015 Lausanne, Switzerland.
Poirier Yves ORCID
Department of Plant Molecular Biology, University of Lausanne, Biophore Building, CH-1015 Lausanne, Switzerland yves.poirier@unil.ch.
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Article Info
Journal
Plant physiology
Abbr.
Plant Physiol
ISSN
1532-2548
DOI
10.1104/pp.19.00043
Email
yves.poirier@unil.ch
Published
2019-00-00
Epub
2019-00-13
Pages
305-322
Language
English
Region
United States
NLM ID
0401224
PMCID
PMC6501089
Subset
IM
External Links
PubMed source DOI: 10.1104/pp.19.00043 PMC Full Text View journal details
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