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Transcriptome survey reveals increased complexity of the alternative splicing landscape in Arabidopsis.
Alternative splicing (AS) is a key regulatory mechanism that contributes to transcriptome and proteome diversity. As very few genome-wide studies analyzing AS in plants are available, we have…
Complexity of the Alternative Splicing Landscape in Plants[C][W][OPEN]
Widespread changes in AS in response to developmental cues and stresses suggest a role for regulated splicing in plant development and stress responses, and new tools based on recent technological advances are allowing genome-wide analysis of RNA elements in transcripts and of chromatin modifications that regulate AS.
Alternative splicing and nonsense-mediated decay modulate expression of important regulatory genes in Arabidopsis
- M. Kalyna, C. Simpson, John W. S. Brown
- Biology, Environmental ScienceNucleic acids research
- 29 November 2011
It is shown that AS/NMD regulates the abundance of transcripts of many genes important for plant development and adaptation including transcription factors, RNA processing factors and stress response genes.
Genome analysis: RNA recognition motif (RRM) and K homology (KH) domain RNA-binding proteins from the flowering plant Arabidopsis thaliana.
It is evident that among all eukaryotes, only those RNA-binding proteins that are involved in the most essential processes of post-transcriptional gene regulation are preserved in structure and, most probably, in function.
atSRp30, one of two SF2/ASF-like proteins from Arabidopsis thaliana, regulates splicing of specific plant genes.
- S. Lopato, M. Kalyna, S. Dorner, R. Kobayashi, A. Krainer, A. Barta
- BiologyGenes & development
- 15 April 1999
The results of the structural and expression analyses of both genes suggest that atSRp34/SR1 acts as a general splicing factor, whereas atSR p30 functions as a specific splicing modulator.
Alternative splicing in plants – coming of age
Strategies for RNA folding and assembly
- R. Schroeder, A. Barta, K. Semrad
- Biology, ChemistryNature Reviews Molecular Cell Biology
- 1 November 2004
Large, dynamic RNA–protein complexes, such as the ribosome or the spliceosome, require numerous proteins that coordinate conformational switches of the RNA components during assembly and during their respective activities.
Evolutionary conservation and regulation of particular alternative splicing events in plant SR proteins
It is shown that atRSp31, a member of the RS subfamily, does not autoregulate alternative splicing of its similarily positioned intron, and Interestingly, thisAlternative splicing event is regulated by atRSZ33, which is conserved from green algae to flowering plants.
Implementing a Rational and Consistent Nomenclature for Serine/Arginine-Rich Protein Splicing Factors (SR Proteins) in Plants
The proposed subdivision of plant SR proteins into different subfamilies will allow grouping of paralogous proteins and simple assignment of newly discovered SR orthologs from other plant species and will promote functional comparisons in diverse plant species.
Ectopic expression of atRSZ33 reveals its function in splicing and causes pleiotropic changes in development.
Investigation by promoter-beta-glucuronidase fusion and in situ hybridization revealed that atRSZ33 is expressed during embryogenesis and early stages of seedling formation, as well as in flower and root development, and changes in activity of an auxin-responsive promoter suggest that auxin signaling is disturbed in these transgenic plants.