ArticleGenome biology2015
An integrative analysis of post-translational histone modifications in the marine diatom Phaeodactylum tricornutum.
Article in Genome biology, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 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
46 citing papers in PubMed, 126 citations in OpenAlex.
- Multi-dimensional epigenomic dynamics converge on H3K4-mediated regulation of low-COPlant communications · 2025Article
- Chromatin profiling identifies putative dual roles for H3K27me3 in regulating cell type-specific genes and transposable elements in choanoflagellates.Nature communications · 2025Article
- Identification of novel H2A histone variants across diverse clades of algae.Genome biology · 2025Article
- Glutamate Methylation, a Novel Histone Mark in Diatoms: Mass Spectrometry Identification and Structural Characterization.Plant direct · 2025Article
- The Expansion and Diversification of Epigenetic Regulatory Networks Underpins Major Transitions in the Evolution of Land Plants.Molecular biology and evolution · 2025Article
- DiatOmicBase: a versatile gene-centered platform for mining functional omics data in diatom research.The Plant journal : for cell and molecular biology · 2025Article
- Genome-wide assessment of genetic diversity and transcript variations in 17 accessions of the model diatomISME communications · 2024Article
- Harnessing genetic engineering to drive economic bioproduct production in algae.Frontiers in bioengineering and biotechnology · 2024Review
- Epigenetic Regulation in Response to COMicrobial ecology · 2023Article
- The dynamic duo: how DNA methylation and gene transcription help diatoms thrive in modern oceans.Journal of experimental botany · 2023Article
- Chromosome-Wide Distribution and Characterization of H3K36me3 and H3K27Ac in the Marine Model DiatomPlants (Basel, Switzerland) · 2023Article
- Histone Maps inInternational journal of molecular sciences · 2023Article
- PhaeoEpiView: an epigenome browser of the newly assembled genome of the model diatom Phaeodactylum tricornutum.Scientific reports · 2023Article
- The model diatom Phaeodactylum tricornutum provides insights into the diversity and function of microeukaryotic DNA methyltransferases.Communications biology · 2023Article
- Whole-genome scanning reveals environmental selection mechanisms that shape diversity in populations of the epipelagic diatom Chaetoceros.PLoS biology · 2022Article
- A phylogenetic and proteomic reconstruction of eukaryotic chromatin evolution.Nature ecology & evolution · 2022Article
- Review
- Advances in proteome-wide analysis of plant lysine acetylation.Plant communications · 2022Review
- Not all Is SET for Methylation: Evolution of Eukaryotic Protein Methyltransferases.Methods in molecular biology (Clifton, N.J.) · 2022Article
- A metabolic, phylogenomic and environmental atlas of diatom plastid transporters from the model speciesFrontiers in plant science · 2022Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
17 authors at 5 institutions in 5 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundNucleosomes are the building blocks of chromatin where gene regulation takes place. Chromatin landscapes have been profiled for several species, providing insights into the fundamental mechanisms of chromatin-mediated transcriptional regulation of gene expression. However, knowledge is missing for several major and deep-branching eukaryotic groups, such as the Stramenopiles, which include the diatoms. Diatoms are highly diverse and ubiquitous species of phytoplankton that play a key role in global biogeochemical cycles. Dissecting chromatin-mediated regulation of genes in diatoms will help understand the ecological success of these organisms in contemporary oceans.
resultsHere, we use high resolution mass spectrometry to identify a full repertoire of post-translational modifications on histones of the marine diatom Phaeodactylum tricornutum, including eight novel modifications. We map five histone marks coupled with expression data and show that P. tricornutum displays both unique and broadly conserved chromatin features, reflecting the chimeric nature of its genome. Combinatorial analysis of histone marks and DNA methylation demonstrates the presence of an epigenetic code defining activating or repressive chromatin states. We further profile three specific histone marks under conditions of nitrate depletion and show that the histone code is dynamic and targets specific sets of genes.
conclusionsThis study is the first genome-wide characterization of the histone code from a stramenopile and a marine phytoplankton. The work represents an important initial step for understanding the evolutionary history of chromatin and how epigenetic modifications affect gene expression in response to environmental cues in marine environments.
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.