Global transcriptome analysis reveals circadian control of splicing events in Arabidopsis thaliana
Autor: | Estefania Mancini, Ruben Gustavo Schlaen, Soledad Perez-Santángelo, Marcelo J. Yanovsky, Andrés Romanowski |
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Jazyk: | angličtina |
Rok vydání: | 2020 |
Předmět: |
0106 biological sciences
0301 basic medicine Arabidopsis thaliana Biología Circadian clock Arabidopsis Computational biology Plant Science CIRCADIAN CLOCK Genes Plant 01 natural sciences purl.org/becyt/ford/1 [https] Ciencias Biológicas Transcriptome 03 medical and health sciences Splicing factor alternative splicing SPLICING FACTORS circadian clock Genetics SPF30 ALTERNATIVE SPLICING Circadian rhythm purl.org/becyt/ford/1.6 [https] Gene biology Gene Expression Profiling Alternative splicing Intron ARABIDOPSIS THALIANA Cell Biology biology.organism_classification Exon skipping Circadian Rhythm 030104 developmental biology circadian rhythms splicing factors RNA splicing CIRCADIAN RHYTHMS CIENCIAS NATURALES Y EXACTAS 010606 plant biology & botany |
Zdroj: | Plant Journal, 103(2), 889. Blackwell Publishing Ltd Romanowski, A, Schlaen, R G, Perez-Santangelo, S, Mancini, E & Yanovsky, M J 2020, ' Global transcriptome analysis reveals circadian control of splicing events in Arabidopsis thaliana ', The Plant Journal, vol. 103, no. 2, pp. 889-902 . https://doi.org/10.1111/tpj.14776 CONICET Digital (CONICET) Consejo Nacional de Investigaciones Científicas y Técnicas instacron:CONICET |
ISSN: | 0960-7412 |
Popis: | The circadian clock of Arabidopsis thaliana controls many physiological and molecular processes, allowing plants to anticipate daily changes in their environment. However, developing a detailed understanding of how oscillations in mRNA levels are connected to oscillations in co/post-transcriptional processes, such as splicing, has remained a challenge. Here we applied a combined approach using deep transcriptome sequencing and bioinformatics tools to identify novel circadian-regulated genes and splicing events. Using a stringent approach, we identified 300 intron retention, eight exon skipping, 79 alternative 3' splice site usage, 48 alternative 5' splice site usage, and 350 multiple (more than one event type) annotated events under circadian regulation. We also found seven and 721 novel alternative exonic and intronic events. Depletion of the circadian-regulated splicing factor AtSPF30 homologue resulted in the disruption of a subset of clock-controlled splicing events. Altogether, our global circadian RNA-seq coupled with an in silico, event-centred, splicing analysis tool offers a new approach for studying the interplay between the circadian clock and the splicing machinery at a global scale. The identification of many circadian-regulated splicing events broadens our current understanding of the level of control that the circadian clock has over this co/post-transcriptional regulatory layer. Fil: Romanowski, Andrés. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina Fil: Schlaen, Rubén Gustavo. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina Fil: Perez Santangelo, Maria Soledad. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina Fil: Mancini, Estefania. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina Fil: Yanovsky, Marcelo Javier. Consejo Nacional de Investigaciones Científicas y Técnicas. Oficina de Coordinación Administrativa Parque Centenario. Instituto de Investigaciones Bioquímicas de Buenos Aires. Fundación Instituto Leloir. Instituto de Investigaciones Bioquímicas de Buenos Aires; Argentina |
Databáze: | OpenAIRE |
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