LSM Proteins Provide Accurate Splicing and Decay of Selected Transcripts to Ensure Normal<i>Arabidopsis</i>Development

Perea-Resa, Carlos; Hernández‐Verdeja, Tamara; López-Cobollo, Rosa; Castellano, M. Mar; Salinas, Julio

doi:10.1105/tpc.112.103697

Cited by 102 publications

(152 citation statements)

References 65 publications

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“…The nuclear complex consists of LSM2 to LSM8 and is required for U6 snRNA stabilization and proper pre-mRNA splicing. The cytoplasmic complex consists of LSM1 to LSM7 and is required for Pbody formation, mRNA decapping, and accurate mRNA decay in the cytoplasm (36,39). LSM4 and LSM5 are part of both complexes and, therefore, although alterations in circadian period are likely to result in part from defective splicing of specific clock genes, part of the circadian phenotype may result from the role of LSM proteins in regulating the mRNA stability of a subset of clock genes.…”

Section: Discussionmentioning

confidence: 99%

Role for LSM genes in the regulation of circadian rhythms

Perez-Santángelo

Mancini

Francey

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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Growing evidence suggests that core spliceosomal components differentially affect RNA processing of specific genes; however, whether changes in the levels or activities of these factors control specific signaling pathways is largely unknown. Here we show that some SM-like (LSM) genes, which encode core components of the spliceosomal U6 small nuclear ribonucleoprotein complex, regulate circadian rhythms in plants and mammals. We found that the circadian clock regulates the expression of LSM5 in Arabidopsis plants and several LSM genes in mouse suprachiasmatic nucleus. Further, mutations in LSM5 or LSM4 in Arabidopsis, or down-regulation of LSM3, LSM5, or LSM7 expression in human cells, lengthens the circadian period. Although we identified changes in the expression and alternative splicing of some core clock genes in Arabidopsis lsm5 mutants, the precise molecular mechanism causing period lengthening remains to be identified. Genome-wide expression analysis of either a weak lsm5 or a strong lsm4 mutant allele in Arabidopsis revealed larger effects on alternative splicing than on constitutive splicing. Remarkably, large splicing defects were not observed in most of the introns evaluated using RNA-seq in the strong lsm4 mutant allele used in this study. These findings support the idea that some LSM genes play both regulatory and constitutive roles in RNA processing, contributing to the fine-tuning of specific signaling pathways.posttranscriptional | alternative splicing | circadian clock | Arabidopsis | mammals C ircadian rhythms are persistent 24-h oscillations in biological processes that occur under constant environmental conditions. They allow organisms to coordinate multiple physiological processes with periodic or seasonal changes that occur in the environment. At the heart of the eukaryotic circadian system lies a complex set of interconnected transcriptional and translational feedback loops, in which a group of core clock genes regulate each other to ensure that their mRNA levels oscillate with a period of ∼24 h (1). The core oscillator in Arabidopsis thaliana involves two MYB domain-containing transcription factors, CIRCADIAN CLOCK ASSOCIATED 1 (CCA1) and LATE ELONGATED HYPOCOTYL (LHY), that repress the expression of TIMING OF CAB2 EXPRESSION 1 (TOC1) at the beginning of the day. In turn, TOC1, a member of the PSEUDO-RESPONSE REGULATOR (PRR) family, represses CCA1/LHY expression at the end of the day (2). Other clock components expressed throughout the day form multiple interconnected transcriptional feedback loops (2).Mounting evidence indicates that alternative splicing (AS), the process by which pre-mRNA molecules are differentially spliced to yield multiple mRNA isoforms from a single gene, plays a key role in the regulation of circadian networks in a variety of organisms, including Drosophila melanogaster (3), Neurospora crassa (4-6), and Arabidopsis (7-11). For example, the core clock genes period in Drosophila and frequency in Neurospora give rise to different mRNA isoforms through AS, which helps t...

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Section: Discussionmentioning

confidence: 99%

Role for LSM genes in the regulation of circadian rhythms

Perez-Santángelo

Mancini

Francey

et al. 2014

Proc. Natl. Acad. Sci. U.S.A.

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“…The LSM1-7 complex has been characterized in Arabidopsis. Genetic analysis of the paralogs AtLSM1A and AtLSM1B revealed their functional redundancy and importance in normal development (Perea-Resa et al, 2012;Golisz et al, 2013). Similar to DCP1, DCP2, and VCS, both LSM1A and LSM1B accumulate in PBs under heat, cold, drought, and salt stress and are required for conditional PB assembly under these conditions (Perea-Resa et al, 2012, 2016).…”

Section: Decappingmentioning

confidence: 99%

Polysomes, Stress Granules, and Processing Bodies: A Dynamic Triumvirate Controlling Cytoplasmic mRNA Fate and Function

2017

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“…The Arabidopsis supersensitive to ABA and drought1 (sad1) mutant shows an increased sensitivity to drought and ABA (Xiong et al, 2001). It encodes the homolog of LSm5 protein, a component of the U6 snRNP core (Perea-Resa et al, 2012). Recently, reduced levels of U6 snRNA and accumulation of unspliced pre-mRNAs have been observed in the sad1/lsm5 mutant, suggesting that it has a role in pre-mRNA splicing by contributing to U6 stability (Golisz et al, 2013).…”

Section: Function Of Sfs In Abiotic Stress Responsementioning

confidence: 99%

Alternative Splicing at the Intersection of Biological Timing, Development, and Stress Responses

2013

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High-throughput sequencing for transcript profiling in plants has revealed that alternative splicing (AS) affects a much higher proportion of the transcriptome than was previously assumed. AS is involved in most plant processes and is particularly prevalent in plants exposed to environmental stress. The identification of mutations in predicted splicing factors and spliceosomal proteins that affect cell fate, the circadian clock, plant defense, and tolerance/sensitivity to abiotic stress all point to a fundamental role of splicing/AS in plant growth, development, and responses to external cues. Splicing factors affect the AS of multiple downstream target genes, thereby transferring signals to alter gene expression via splicing factor/AS networks. The last two to three years have seen an ever-increasing number of examples of functional AS. At a time when the identification of AS in individual genes and at a global level is exploding, this review aims to bring together such examples to illustrate the extent and importance of AS, which are not always obvious from individual publications. It also aims to ensure that plant scientists are aware that AS is likely to occur in the genes that they study and that dynamic changes in AS and its consequences need to be considered routinely.

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LSM Proteins Provide Accurate Splicing and Decay of Selected Transcripts to Ensure NormalArabidopsisDevelopment

Cited by 102 publications

References 65 publications

Role for LSM genes in the regulation of circadian rhythms

Role for LSM genes in the regulation of circadian rhythms

Polysomes, Stress Granules, and Processing Bodies: A Dynamic Triumvirate Controlling Cytoplasmic mRNA Fate and Function

Alternative Splicing at the Intersection of Biological Timing, Development, and Stress Responses

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