ArticleProceedings of the National Academy of Sciences of the United States of America2014
Phytochrome controls alternative splicing to mediate light responses in Arabidopsis.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 99 papers, 1 of them a synthesis that pooled it.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
99 citing papers in PubMed, 1 synthesis or guideline pooled it, 183 citations in OpenAlex.
- Pooled it
- Functional conservation and diversity of phytochrome B and its potential applications in crop improvement.Plant communications · 2026Review
- Loss of LEFKOTHEA Leads to Global Transcriptional and Post-Transcriptional Changes in Gene Expression During Early Light Response.Plants (Basel, Switzerland) · 2026Article
- Post-transcriptional regulation of light-stress responses and predictive modeling in vegetableFrontiers in plant science · 2026Review
- Light-regulated dual-targeting of NUCLEAR CONTROL OF PEP ACTIVITY establishes photomorphogenesis via interorganellar communication.Plant physiology · 2025Article
- Light controls gene functions through alternative splicing in fungi.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Cotyledon opening during seedling deetiolation is determined by ABA-mediated splicing regulation.EMBO reports · 2025Article
- ELD1 mediates photoperiodic flowering via OsCCA1 alternative splicing and interacts with phytochrome signaling in rice.Nature communications · 2025Article
- Shedding light on iron nutrition: exploring intersections of transcription factor cascades in light and iron deficiency signaling.Journal of experimental botany · 2025Review
- Article
- Untranslated yet indispensable-UTRs act as key regulators in the environmental control of gene expression.Journal of experimental botany · 2024Review
- Light regulates nuclear detainment of intron-retained transcripts through COP1-spliceosome to modulate photomorphogenesis.Nature communications · 2024Article
- Alternative Splicing Underpins the ALMT9 Transporter Function for Vacuolar Malic Acid Accumulation in Apple.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- What is going on inside of phytochrome B photobodies?The Plant cell · 2024Review
- Concordant Gene Expression and Alternative Splicing Regulation under Abiotic Stresses in Arabidopsis.Genes · 2024Article
- Light signaling in plants-a selective history.Plant physiology · 2024Review
- Light controls mesophyll-specific post-transcriptional splicing of photoregulatory genes by AtPRMT5.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Current technical advancements in plant epitranscriptomic studies.The plant genome · 2023Review
- SNF1-RELATED KINASE 1 and TARGET OF RAPAMYCIN control light-responsive splicing events and developmental characteristics in etiolated Arabidopsis seedlings.The Plant cell · 2023Article
- The Splicing Factor SR45 Negatively Regulates Anthocyanin Accumulation under High-Light Stress inLife (Basel, Switzerland) · 2023Article
39 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 3 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Plants monitor the ambient light conditions using several informational photoreceptors, including red/far-red light absorbing phytochrome. Phytochrome is widely believed to regulate the transcription of light-responsive genes by modulating the activity of several transcription factors. Here we provide evidence that phytochrome significantly changes alternative splicing (AS) profiles at the genomic level in Arabidopsis, to approximately the same degree as it affects steady-state transcript levels. mRNA sequencing analysis revealed that 1,505 and 1,678 genes underwent changes in their AS and steady-state transcript level profiles, respectively, within 1 h of red light exposure in a phytochrome-dependent manner. Furthermore, we show that splicing factor genes were the main early targets of AS control by phytochrome, whereas transcription factor genes were the primary direct targets of phytochrome-mediated transcriptional regulation. We experimentally validated phytochrome-induced changes in the AS of genes that are involved in RNA splicing, phytochrome signaling, the circadian clock, and photosynthesis. Moreover, we show that phytochrome-induced AS changes of SPA1-RELATED 3, the negative regulator of light signaling, physiologically contributed to promoting photomorphogenesis. Finally, photophysiological experiments demonstrated that phytochrome transduces the signal from its photosensory domain to induce light-dependent AS alterations in the nucleus. Taking these data together, we show that phytochrome directly induces AS cascades in parallel with transcriptional cascades to mediate light responses in Arabidopsis.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.