Rhythmic diel pattern of gene expression in juvenile maize leaf.

<h4>Background</h4>Numerous biochemical and physiological parameters of living organisms follow a circadian rhythm. Although such rhythmic behavior is particularly pronounced in plants, which are strictly dependent on the daily photoperiod, data on the molecular aspects of the diurnal cy...

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Autores principales:	Maciej Jończyk, Alicja Sobkowiak, Paweł Siedlecki, Przemysław Biecek, Joanna Trzcinska-Danielewicz, Jerzy Tiuryn, Jan Fronk, Paweł Sowiński
Formato:	article
Lenguaje:	EN
Publicado:	Public Library of Science (PLoS) 2011
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/395b3756468a43809b7d774de7009193
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spelling	oai:doaj.org-article:395b3756468a43809b7d774de70091932021-11-18T06:47:45ZRhythmic diel pattern of gene expression in juvenile maize leaf.1932-620310.1371/journal.pone.0023628https://doaj.org/article/395b3756468a43809b7d774de70091932011-01-01T00:00:00Zhttps://www.ncbi.nlm.nih.gov/pmc/articles/pmid/21858187/?tool=EBIhttps://doaj.org/toc/1932-6203<h4>Background</h4>Numerous biochemical and physiological parameters of living organisms follow a circadian rhythm. Although such rhythmic behavior is particularly pronounced in plants, which are strictly dependent on the daily photoperiod, data on the molecular aspects of the diurnal cycle in plants is scarce and mostly concerns the model species Arabidopsis thaliana. Here we studied the leaf transcriptome in seedlings of maize, an important C4 crop only distantly related to A. thaliana, throughout a cycle of 10 h darkness and 14 h light to look for rhythmic patterns of gene expression.<h4>Results</h4>Using DNA microarrays comprising ca. 43,000 maize-specific probes we found that ca. 12% of all genes showed clear-cut diel rhythms of expression. Cluster analysis identified 35 groups containing from four to ca. 1,000 genes, each comprising genes of similar expression patterns. Perhaps unexpectedly, the most pronounced and most common (concerning the highest number of genes) expression maxima were observed towards and during the dark phase. Using Gene Ontology classification several meaningful functional associations were found among genes showing similar diel expression patterns, including massive induction of expression of genes related to gene expression, translation, protein modification and folding at dusk and night. Additionally, we found a clear-cut tendency among genes belonging to individual clusters to share defined transcription factor-binding sequences.<h4>Conclusions</h4>Co-expressed genes belonging to individual clusters are likely to be regulated by common mechanisms. The nocturnal phase of the diurnal cycle involves gross induction of fundamental biochemical processes and should be studied more thoroughly than was appreciated in most earlier physiological studies. Although some general mechanisms responsible for the diel regulation of gene expression might be shared among plants, details of the diurnal regulation of gene expression seem to differ between taxa.Maciej JończykAlicja SobkowiakPaweł SiedleckiPrzemysław BiecekJoanna Trzcinska-DanielewiczJerzy TiurynJan FronkPaweł SowińskiPublic Library of Science (PLoS)articleMedicineRScienceQENPLoS ONE, Vol 6, Iss 8, p e23628 (2011)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Maciej Jończyk Alicja Sobkowiak Paweł Siedlecki Przemysław Biecek Joanna Trzcinska-Danielewicz Jerzy Tiuryn Jan Fronk Paweł Sowiński Rhythmic diel pattern of gene expression in juvenile maize leaf.
description	<h4>Background</h4>Numerous biochemical and physiological parameters of living organisms follow a circadian rhythm. Although such rhythmic behavior is particularly pronounced in plants, which are strictly dependent on the daily photoperiod, data on the molecular aspects of the diurnal cycle in plants is scarce and mostly concerns the model species Arabidopsis thaliana. Here we studied the leaf transcriptome in seedlings of maize, an important C4 crop only distantly related to A. thaliana, throughout a cycle of 10 h darkness and 14 h light to look for rhythmic patterns of gene expression.<h4>Results</h4>Using DNA microarrays comprising ca. 43,000 maize-specific probes we found that ca. 12% of all genes showed clear-cut diel rhythms of expression. Cluster analysis identified 35 groups containing from four to ca. 1,000 genes, each comprising genes of similar expression patterns. Perhaps unexpectedly, the most pronounced and most common (concerning the highest number of genes) expression maxima were observed towards and during the dark phase. Using Gene Ontology classification several meaningful functional associations were found among genes showing similar diel expression patterns, including massive induction of expression of genes related to gene expression, translation, protein modification and folding at dusk and night. Additionally, we found a clear-cut tendency among genes belonging to individual clusters to share defined transcription factor-binding sequences.<h4>Conclusions</h4>Co-expressed genes belonging to individual clusters are likely to be regulated by common mechanisms. The nocturnal phase of the diurnal cycle involves gross induction of fundamental biochemical processes and should be studied more thoroughly than was appreciated in most earlier physiological studies. Although some general mechanisms responsible for the diel regulation of gene expression might be shared among plants, details of the diurnal regulation of gene expression seem to differ between taxa.
format	article
author	Maciej Jończyk Alicja Sobkowiak Paweł Siedlecki Przemysław Biecek Joanna Trzcinska-Danielewicz Jerzy Tiuryn Jan Fronk Paweł Sowiński
author_facet	Maciej Jończyk Alicja Sobkowiak Paweł Siedlecki Przemysław Biecek Joanna Trzcinska-Danielewicz Jerzy Tiuryn Jan Fronk Paweł Sowiński
author_sort	Maciej Jończyk
title	Rhythmic diel pattern of gene expression in juvenile maize leaf.
title_short	Rhythmic diel pattern of gene expression in juvenile maize leaf.
title_full	Rhythmic diel pattern of gene expression in juvenile maize leaf.
title_fullStr	Rhythmic diel pattern of gene expression in juvenile maize leaf.
title_full_unstemmed	Rhythmic diel pattern of gene expression in juvenile maize leaf.
title_sort	rhythmic diel pattern of gene expression in juvenile maize leaf.
publisher	Public Library of Science (PLoS)
publishDate	2011
url	https://doaj.org/article/395b3756468a43809b7d774de7009193
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_version_	1718424345219432448

Rhythmic diel pattern of gene expression in juvenile maize leaf.

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