ArticleThe Plant cell2008
Distinct light-initiated gene expression and cell cycle programs in the shoot apex and cotyledons of Arabidopsis.
Article in The Plant cell, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 78 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
78 citing papers in PubMed, 136 citations in OpenAlex.
- SNc Nuclease GenesInternational journal of molecular sciences · 2026Article
- Conserved DNA architect couples chloroplast development to cell cycle in developing cotyledons.Nature plants · 2026Article
- Integrating meristem initiation and floral fate control: towardFrontiers in plant science · 2026Review
- Integrating multiomic resources and gene expression studies to identify candidates for engineering climate-resilientFrontiers in plant science · 2026Review
- Genome-scale transcriptome augmentation during Arabidopsis thaliana photomorphogenesis.Nature communications · 2025Article
- ESSENTIAL MEIOTIC ENDONUCLEASE 1 is required for chloroplast development and DNA repair in rice.Plant biotechnology journal · 2025Article
- Transcriptome and WGCNA reveals the potential genetic basis of photoperiod-sensitive male sterility in soybean.BMC genomics · 2025Article
- Light signal regulates endoreduplication and tomato fruit expansion through the SlPIF1a-SlTLFP8-SlCDKB2 module.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- A linker histone acts as a transcription factor to orchestrate malic acid accumulation in apple in response to sorbitol.The Plant cell · 2024Article
- Plant cuticles repress organ initiation and development during skotomorphogenesis in Arabidopsis.Plant communications · 2024Article
- Integrated 3D genome, epigenome and transcriptome analyses reveal transcriptional coordination of circadian rhythm in rice.Nucleic acids research · 2023Article
- Light, chromatin, action: nuclear events regulating light signaling in Arabidopsis.The New phytologist · 2022Review
- Signaling Mechanisms by Arabidopsis Cryptochromes.Frontiers in plant science · 2022Review
- The SlTCP26 promoting lateral branches development in tomato.Plant cell reports · 2021Article
- Cellular and transcriptomic analyses reveal two-staged chloroplast biogenesis underpinning photosynthesis build-up in the wheat leaf.Genome biology · 2021Article
- DEFECTIVE EMBRYO AND MERISTEMS genes are required for cell division and gamete viability in Arabidopsis.PLoS genetics · 2021Article
- Genome-wide identification and functional characterization of the PheE2F/DP gene family in Moso bamboo.BMC plant biology · 2021Article
- Article
- Beyond the darkness: recent lessons from etiolation and de-etiolation studies.Journal of experimental botany · 2020Review
- ErbB-3 BINDING PROTEIN 1 Regulates Translation and Counteracts RETINOBLASTOMA RELATED to Maintain the Root Meristem.Plant physiology · 2020Article
18 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
10 authors at 3 institutions in 3 countries.
Funding
Abstract
In darkness, shoot apex growth is repressed, but it becomes rapidly activated by light. We show that phytochromes and cryptochromes play largely redundant roles in this derepression in Arabidopsis thaliana. We examined the light activation of transcriptional changes in a finely resolved time course, comparing the shoot apex (meristem and leaf primordia) and the cotyledon and found >5700 differentially expressed genes. Early events specific to the shoot apices included the repression of genes for Really Interesting New Gene finger proteins and basic domain/leucine zipper and basic helix-loop-helix transcription factors. The downregulation of auxin and ethylene and the upregulation of cytokinin and gibberellin hormonal responses were also characteristic of shoot apices. In the apex, genes involved in ribosome biogenesis and protein translation were rapidly and synchronously induced, simultaneously with cell proliferation genes, preceding visible organ growth. Subsequently, the activation of signaling genes and transcriptional signatures of cell wall expansion, turgor generation, and plastid biogenesis were apparent. Furthermore, light regulates the forms and protein levels of two transcription factors with opposing functions in cell proliferation, E2FB and E2FC, through the Constitutively Photomorphogenic1 (COP1), COP9-Signalosome5, and Deetiolated1 light signaling molecules. These data provide the basis for reconstruction of the regulatory networks for light-regulated meristem, leaf, and cotyledon development.
Indexed as
Identifiers
What OpenQuestion holds
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.