ArticleThe Plant cell2012
Activation of the carbon concentrating mechanism by CO2 deprivation coincides with massive transcriptional restructuring in Chlamydomonas reinhardtii.
Article in The Plant cell, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 60 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
60 citing papers in PubMed.
- Sensitivity of Photosystem II to Photoinhibition inInternational journal of molecular sciences · 2026Article
- CIA5 and its interacting metal-binding GTPase ZNG3 are degraded by the proteasome in Zn deficiency.The Plant journal : for cell and molecular biology · 2026Article
- Primary Stress Factors and Adaptive Mechanisms of Microalgae in Space Environments and Their Applications in Space Life Support Systems.Plants (Basel, Switzerland) · 2026Review
- A nuclear CobW/WW-domain factor represses the COProceedings of the National Academy of Sciences of the United States of America · 2026Article
- Regulatory logic of theFrontiers in plant science · 2026Review
- Multi-dimensional epigenomic dynamics converge on H3K4-mediated regulation of low-COPlant communications · 2025Article
- Low Carbon Inducible2/Fatty Acid Desaturase4 locus in C. reinhardtii directs plastid peroxidase location and trans fatty acid production.Plant physiology · 2025Article
- The green algae CONature communications · 2025Article
- The separation between mRNA-ends is more variable than expected.FEBS open bio · 2024Article
- Resilience of Phytoplankton and Microzooplankton Communities under Ocean Alkalinity Enhancement in the Oligotrophic Ocean.Environmental science & technology · 2024Article
- Photosynthetic Electron Flows and Networks of Metabolite Trafficking to Sustain Metabolism in Photosynthetic Systems.Plants (Basel, Switzerland) · 2024Review
- Overexpression of genes involved in fatty acid biosynthesis increases lipid content in the NaHCOMicrobiology spectrum · 2024Article
- Epigenetic Regulation in Response to COMicrobial ecology · 2023Article
- The pyrenoid: the eukaryotic CO2-concentrating organelle.The Plant cell · 2023Article
- A phase-separated CO2-fixing pyrenoid proteome determined by TurboID in Chlamydomonas reinhardtii.The Plant cell · 2023Article
- From Feasting to Fasting: The Arginine Pathway as a Metabolic Switch in Nitrogen-DeprivedCells · 2023Review
- Widening the landscape of transcriptional regulation of green algal photoprotection.Nature communications · 2023Article
- LCIB functions as a carbonic anhydrase: evidence from yeast and Arabidopsis carbonic anhydrase knockout mutants.Photosynthesis research · 2023Article
- Adapting from Low to High: An Update to COPlants (Basel, Switzerland) · 2023Review
- Time-resolved transcriptome analysis of Scenedesmus obliquus HTB1 under 10% COMicrobial biotechnology · 2023Article
Corrections and comments
- Erratum issued
Authors and funding
6 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
A CO(2)-concentrating mechanism (CCM) is essential for the growth of most eukaryotic algae under ambient (392 ppm) and very low (<100 ppm) CO(2) concentrations. In this study, we used replicated deep mRNA sequencing and regulatory network reconstruction to capture a remarkable scope of changes in gene expression that occurs when Chlamydomonas reinhardtii cells are shifted from high to very low levels of CO(2) (≤100 ppm). CCM induction 30 to 180 min post-CO(2) deprivation coincides with statistically significant changes in the expression of an astonishing 38% (5884) of the 15,501 nonoverlapping C. reinhardtii genes. Of these genes, 1088 genes were induced and 3828 genes were downregulated by a log(2) factor of 2. The latter indicate a global reduction in photosynthesis, protein synthesis, and energy-related biochemical pathways. The magnitude of transcriptional rearrangement and its major patterns are robust as analyzed by three different statistical methods. De novo DNA motif discovery revealed new putative binding sites for Myeloid oncogene family transcription factors potentially involved in activating low CO(2)-induced genes. The (CA)(n) repeat (9 ≤ n ≤ 25) is present in 29% of upregulated genes but almost absent from promoters of downregulated genes. These discoveries open many avenues for new research.
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.