ArticleScientific reports2017
Integrated analysis and transcript abundance modelling of H3K4me3 and H3K27me3 in developing secondary xylem.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- A haplotype-resolved reference genome for Eucalyptus grandis.G3 (Bethesda, Md.) · 2025Article
- Epigenetic regulation of lignin biosynthesis in wood formation.The New phytologist · 2025Article
- Roles for epigenetics in wood formation and stress response intrees-from basic biology to forest management.Frontiers in epigenetics and epigenomics · 2025Review
- From chromatin to crop: epigenetic innovations in bioenergy systems.Frontiers in plant science · 2025Review
- Characterization of the Cannabis sativa glandular trichome epigenome.BMC plant biology · 2024Article
- Genome-wide profiling of histone (H3) lysine 4 (K4) tri-methylation (me3) under drought, heat, and combined stresses in switchgrass.BMC genomics · 2024Article
- Deciphering the intricate hierarchical gene regulatory network: unraveling multi-level regulation and modifications driving secondary cell wall formation.Horticulture research · 2024Article
- Epigenetics at the crossroads of secondary growth regulation.Frontiers in plant science · 2022Review
- OMICs, Epigenetics, and Genome Editing Techniques for Food and Nutritional Security.Plants (Basel, Switzerland) · 2021Review
- Histone methyltransferase ATX1 dynamically regulates fiber secondary cell wall biosynthesis in Arabidopsis inflorescence stem.Nucleic acids research · 2021Article
- H3K4 trimethylation dynamics impact diverse developmental and environmental responses in plants.Planta · 2021Review
- Histone Deacetylation Controls Xylem Vessel Cell DifferentiationFrontiers in plant science · 2021Article
- Polycomb Repressive Complex 2-mediated histone modification H3K27me3 is associated with embryogenic potential in Norway spruce.Journal of experimental botany · 2020Article
- The chromatin-modifying protein HUB2 is involved in the regulation of lignin composition in xylem vessels.Journal of experimental botany · 2020Article
- Circadian clock mechanism driving mammalian photoperiodism.Nature communications · 2020Article
- Article
- Genome-wide analysis of three histone marks and gene expression in Paulownia fortunei with phytoplasma infection.BMC genomics · 2019Article
- Xylan in the Middle: Understanding Xylan Biosynthesis and Its Metabolic Dependencies Toward Improving Wood Fiber for Industrial Processing.Frontiers in plant science · 2019Review
- Quantitative Genetics and Genomics Converge to Accelerate Forest Tree Breeding.Frontiers in plant science · 2018Review
- Cork Oak Young and Traumatic Periderms Show PCD Typical Chromatin Patterns but Different Chromatin-Modifying Genes Expression.Frontiers in plant science · 2018Article
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5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Despite the considerable contribution of xylem development (xylogenesis) to plant biomass accumulation, its epigenetic regulation is poorly understood. Furthermore, the relative contributions of histone modifications to transcriptional regulation is not well studied in plants. We investigated the biological relevance of H3K4me3 and H3K27me3 in secondary xylem development using ChIP-seq and their association with transcript levels among other histone modifications in woody and herbaceous models. In developing secondary xylem of the woody model Eucalyptus grandis, H3K4me3 and H3K27me3 genomic spans were distinctly associated with xylogenesis-related processes, with (late) lignification pathways enriched for putative bivalent domains, but not early secondary cell wall polysaccharide deposition. H3K27me3-occupied genes, of which 753 (~31%) are novel targets, were enriched for transcriptional regulation and flower development and had significant preferential expression in roots. Linear regression models of the ChIP-seq profiles predicted ~50% of transcript abundance measured with strand-specific RNA-seq, confirmed in a parallel analysis in Arabidopsis where integration of seven additional histone modifications each contributed smaller proportions of unique information to the predictive models. This study uncovers the biological importance of histone modification antagonism and genomic span in xylogenesis and quantifies for the first time the relative correlations of histone modifications with transcript abundance in plants.
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