Alternative splicing of barley clock genes in response to low temperature

evidence for alternative splicing conservation

Cristiane P. G. Calixto, Craig G. Simpson, Robert Waugh, John W. S. Brown (Lead / Corresponding author)

Research output: Contribution to journalArticle

6 Citations (Scopus)
101 Downloads (Pure)

Abstract

Alternative splicing (AS) is a regulated mechanism that generates multiple transcripts from individual genes. It is widespread in eukaryotic genomes and provides an effective way to control gene expression. At low temperatures, AS regulates Arabidopsis clock genes through dynamic changes in the levels of productive mRNAs. We examined AS in barley clock genes to assess whether temperature-dependent AS responses also occur in a monocotyledonous crop species. We identify changes in AS of various barley core clock genes including the barley orthologues of Arabidopsis AtLHY and AtPRR7 which showed the most pronounced AS changes in response to low temperature. The AS events modulate the levels of functional and translatable mRNAs, and potentially protein levels, upon transition to cold. There is some conservation of AS events and/or splicing behaviour of clock genes between Arabidopsis and barley. In addition, novel temperature-dependent AS of the core clock gene HvPPD-H1 (a major determinant of photoperiod response and AtPRR7 orthologue) is conserved in monocots. HvPPD-H1 showed a rapid, temperature-sensitive isoform switch which resulted in changes in abundance of AS variants encoding different protein isoforms. This novel layer of low temperature control of clock gene expression, observed in two very different species, will help our understanding of plant adaptation to different environments and ultimately offer a new range of targets for plant improvement.
Original languageEnglish
Article numbere0168028
Pages (from-to)1-24
Number of pages24
JournalPLoS ONE
Volume11
Issue number12
DOIs
Publication statusPublished - 13 Dec 2016

Fingerprint

alternative splicing
Alternative Splicing
Hordeum
Clocks
Conservation
Genes
barley
Temperature
temperature
genes
Arabidopsis
Gene expression
Protein Isoforms
Gene Expression
protein isoforms
gene expression
Messenger RNA
plant adaptation
Photoperiod
Liliopsida

Cite this

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title = "Alternative splicing of barley clock genes in response to low temperature: evidence for alternative splicing conservation",
abstract = "Alternative splicing (AS) is a regulated mechanism that generates multiple transcripts from individual genes. It is widespread in eukaryotic genomes and provides an effective way to control gene expression. At low temperatures, AS regulates Arabidopsis clock genes through dynamic changes in the levels of productive mRNAs. We examined AS in barley clock genes to assess whether temperature-dependent AS responses also occur in a monocotyledonous crop species. We identify changes in AS of various barley core clock genes including the barley orthologues of Arabidopsis AtLHY and AtPRR7 which showed the most pronounced AS changes in response to low temperature. The AS events modulate the levels of functional and translatable mRNAs, and potentially protein levels, upon transition to cold. There is some conservation of AS events and/or splicing behaviour of clock genes between Arabidopsis and barley. In addition, novel temperature-dependent AS of the core clock gene HvPPD-H1 (a major determinant of photoperiod response and AtPRR7 orthologue) is conserved in monocots. HvPPD-H1 showed a rapid, temperature-sensitive isoform switch which resulted in changes in abundance of AS variants encoding different protein isoforms. This novel layer of low temperature control of clock gene expression, observed in two very different species, will help our understanding of plant adaptation to different environments and ultimately offer a new range of targets for plant improvement.",
author = "Calixto, {Cristiane P. G.} and Simpson, {Craig G.} and Robert Waugh and Brown, {John W. S.}",
note = "This work was supported by a grant from the Biotechnology and Biological Sciences Research Council [BB/G024979/1 - European Research Area network (ERA-NET) Plant Genomics (Plant Alternative Splicing and Abiotic Stress)] Dr. John W. S. Brown; Scottish Government Rural and Environment Science and Analytical Services division (RESAS) Dr. John W. S. Brown; Coordenac¸{\~a}o de Aperfeic¸oamento de Pessoal de Nivel Superior (CAPES) Dr Cristiane P. G. Calixto.",
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Alternative splicing of barley clock genes in response to low temperature : evidence for alternative splicing conservation. / Calixto, Cristiane P. G.; Simpson, Craig G.; Waugh, Robert; Brown, John W. S. (Lead / Corresponding author).

In: PLoS ONE, Vol. 11, No. 12, e0168028, 13.12.2016, p. 1-24.

Research output: Contribution to journalArticle

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AU - Calixto, Cristiane P. G.

AU - Simpson, Craig G.

AU - Waugh, Robert

AU - Brown, John W. S.

N1 - This work was supported by a grant from the Biotechnology and Biological Sciences Research Council [BB/G024979/1 - European Research Area network (ERA-NET) Plant Genomics (Plant Alternative Splicing and Abiotic Stress)] Dr. John W. S. Brown; Scottish Government Rural and Environment Science and Analytical Services division (RESAS) Dr. John W. S. Brown; Coordenac¸ão de Aperfeic¸oamento de Pessoal de Nivel Superior (CAPES) Dr Cristiane P. G. Calixto.

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