Global spatial analysis of Arabidopsis natural variants implicates 5’UTR splicing of LATE ELONGATED HYPOCOTYL in responses to temperature

James, A. B. , Sullivan, S. and Nimmo, H. G. (2018) Global spatial analysis of Arabidopsis natural variants implicates 5’UTR splicing of LATE ELONGATED HYPOCOTYL in responses to temperature. Plant, Cell and Environment, 41(7), pp. 1524-1538. (doi: 10.1111/pce.13188) (PMID:29520807) (PMCID:PMC6033021)

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Abstract

How plants perceive and respond to temperature remains an important question in the plant sciences. Temperature perception and signal transduction may occur through temperature‐sensitive intra‐molecular folding of primary mRNA transcripts. Recent studies suggested a role for retention of the first intron in the 5’UTR of the clock component LATE ELONGATED HYPOCOTYL (LHY) in response to changes in temperature. Here we identified a set of haplotypes in the LHY 5’UTR, examined their global spatial distribution and obtained evidence that haplotype can affect temperature‐dependent splicing of LHY transcripts. Correlations of haplotype spatial distributions with global bioclimatic variables and altitude point to associations with annual mean temperature and temperature fluctuation. Relatively rare relict type accessions correlate with lower mean temperature and greater temperature fluctuation and the spatial distribution of other haplotypes may be informative of evolutionary processes driving colonisation of ecosystems. We propose that haplotypes may possess distinct 5’UTR pre‐mRNA folding thermodynamics and/or specific biological stabilities based around the binding of trans‐acting RNA splicing factors, a consequence of which is scalable splicing sensitivity of a central clock component that is likely tuned to specific temperature environments.

Item Type:Articles
Status:Published
Refereed:Yes
Glasgow Author(s) Enlighten ID:Sullivan, Dr Stuart and Nimmo, Professor Hugh and James, Dr Allan
Authors: James, A. B., Sullivan, S., and Nimmo, H. G.
College/School:College of Medical Veterinary and Life Sciences > Institute of Molecular Cell and Systems Biology
Journal Name:Plant, Cell and Environment
Publisher:Wiley
ISSN:0140-7791
ISSN (Online):1365-3040
Published Online:08 March 2018
Copyright Holders:Copyright © 2018 John Wiley and Sons Ltd
First Published:First published in Plant, Cell and Environment 41(7):1524-1538
Publisher Policy:Reproduced under a Creative Commons License

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Project CodeAward NoProject NamePrincipal InvestigatorFunder's NameFunder RefLead Dept
510981Protein function underlying plasticity of the plant circadian clockHugh NimmoBiotechnology and Biological Sciences Research Council (BBSRC)BB/H000135/1RI MOLECULAR CELL & SYSTEMS BIOLOGY
607041Mechanisms and function of alternative splicing in the plant circadian clockHugh NimmoBiotechnology and Biological Sciences Research Council (BBSRC)BB/K006835/1RI MOLECULAR CELL & SYSTEMS BIOLOGY
740201Dynamic re-programming of the cold transcriptome in ArabidopsisHugh NimmoBiotechnology and Biological Sciences Research Council (BBSRC)BB/P006868/1RI MOLECULAR CELL & SYSTEMS BIOLOGY