ArticlePLoS biology2023
Systematic characterization of photoperiodic gene expression patterns reveals diverse seasonal transcriptional systems in Arabidopsis.
Article in PLoS biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 8 papers.
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Who cites it
8 citing papers in PubMed, 13 citations in OpenAlex.
- Photoperiodic patterns in miRNA-mRNA pairs and tRNA fragments revealed by time-course co-sequencing in Arabidopsis.PLoS genetics · 2026Article
- Effects of Growth Phases and Intensification of Light on Secondary Metabolites and Agro-Morphological Traits of the St. John's Wort (Plants (Basel, Switzerland) · 2026Article
- Integrated transcriptome and metabolome analyses uncover stage-specific dynamic regulatory networks during sesame floral development.Frontiers in plant science · 2026Article
- A genetic screen identifies the E3 ubiquitin ligase MPSR1 as a suppressor of early flowering of the sensitivity to red light reduced 1 mutant.Scientific reports · 2025Article
- Overexpression ofJournal of fungi (Basel, Switzerland) · 2025Article
- Exploring the metabolic daylength measurement system: implications for photoperiodic growth.The New phytologist · 2025Review
- Plants distinguish different photoperiods to independently control seasonal flowering and growth.Science (New York, N.Y.) · 2024Article
- Parallel mechanisms detect different photoperiods to independently control seasonal flowering and growth in plants.bioRxiv : the preprint server for biology · 2023Article
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Authors and funding
5 authors at 1 institution in 1 country.
Funding
Abstract
Photoperiod is an annual cue measured by biological systems to align growth and reproduction with the seasons. In plants, photoperiodic flowering has been intensively studied for over 100 years, but we lack a complete picture of the transcriptional networks and cellular processes that are photoperiodic. We performed a transcriptomics experiment on Arabidopsis plants grown in 3 different photoperiods and found that thousands of genes show photoperiodic alteration in gene expression. Gene clustering, daily expression integral calculations, and cis-element analysis then separate photoperiodic genes into co-expression subgroups that display 19 diverse seasonal expression patterns, opening the possibility that many photoperiod measurement systems work in parallel in Arabidopsis. Then, functional enrichment analysis predicts co-expression of important cellular pathways. To test these predictions, we generated a comprehensive catalog of genes in the phenylpropanoid biosynthesis pathway, overlaid gene expression data, and demonstrated that photoperiod intersects with 2 major phenylpropanoid pathways differentially, controlling flavonoids but not lignin. Finally, we describe the development of a new app that visualizes photoperiod transcriptomic data for the wider community.
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Registered trials
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.