ArticleNucleic acids research2016
Multi-omics maps of cotton fibre reveal epigenetic basis for staged single-cell differentiation.
Article in Nucleic acids research, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 36 papers.
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Who cites it
36 citing papers in PubMed, 100 citations in OpenAlex.
- Bivalent chromatin states and epigenetic priming in cotton: the role of H3K4me3 and H3K27me3 in cold stress memory and resilience.Epigenetics & chromatin · 2026Review
- Re-sequencing of 180 bitter gourd accessions uncovering the genetic basis of key horticultural traits.Frontiers in plant science · 2026Article
- Regulation of DNA Methylation in Peanut Leaves and Roots: Uncovering the Molecular Mechanisms for Increased Yield After Single-Seed Sowing.Plant biotechnology journal · 2025Article
- Spatiotemporal methylome remodeling during fiber differentiation in Gossypium hirsutum.BMC genomics · 2025Article
- Intra species dissection of phytophthora capsici resistance in black pepper.Journal of advanced research · 2025Article
- Cotton transposon-related variome reveals roles of transposon-related variations in modern cotton cultivation.Journal of advanced research · 2025Article
- Population-wide DNA methylation polymorphisms at single-nucleotide resolution in 207 cotton accessions reveal epigenomic contributions to complex traits.Cell research · 2024Article
- DUSP5 regulated by YTHDF1-mediated m6A modification promotes epithelial-mesenchymal transition and EGFR-TKI resistance via the TGF-β/Smad signaling pathway in lung adenocarcinoma.Cancer cell international · 2024Article
- Pangenome analysis reveals transposon-driven genome evolution in cotton.BMC biology · 2024Article
- Histone H3 lysine 27 trimethylation suppresses jasmonate biosynthesis and signaling to affect male fertility under high temperature in cotton.Plant communications · 2023Article
- A comprehensive overview of cotton genomics, biotechnology and molecular biological studies.Science China. Life sciences · 2023Review
- Advances in understanding epigenetic regulation of plant trichome development: a comprehensive review.Horticulture research · 2023Article
- Genome-wide chromatin accessibility landscape and dynamics of transcription factor networks during ovule and fiber development in cotton.BMC biology · 2023Article
- GhWRKY41 forms a positive feedback regulation loop and increases cotton defence response against Verticillium dahliae by regulating phenylpropanoid metabolism.Plant biotechnology journal · 2023Article
- Reorganization of three-dimensional chromatin architecture in Medicago truncatula under phosphorus deficiency.Journal of experimental botany · 2023Article
- Prospects and challenges of epigenomics in crop improvement.Genes & genomics · 2022Review
- Dynamic 3D genome architecture of cotton fiber reveals subgenome-coordinated chromatin topology for 4-staged single-cell differentiation.Genome biology · 2022Article
- Gene expression and DNA methylation altering lead to the high oil content in wild allotetraploid peanut (Frontiers in plant science · 2022Article
- Multi-Dimensional Molecular Regulation of Trichome Development inFrontiers in plant science · 2022Review
- Epigenetics and its role in effecting agronomical traits.Frontiers in plant science · 2022Review
Corrections and comments
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Authors and funding
9 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Epigenetic modifications are highlighted for their great importance in regulating plant development, but their function associated with single-cell differentiation remains undetermined. Here, we used the cotton fibre, which is the epidermal hair on the cotton ovule, as a model to investigate the regulatory role of DNA methylation in cell differentiation. The level of CHH (H = A, T, or C) DNA methylation level was found to increase during fibre development, accompanied by a decrease in RNA-directed DNA methylation (RdDM). Examination of nucleosome positioning revealed a gradual transition from euchromatin to heterochromatin for chromatin dynamics in developing fibres, which could shape the DNA methylation landscape. The observed increase in DNA methylation in fibres, compared with other ovule tissue, was demonstrated to be mediated predominantly by an active H3K9me2-dependent pathway rather than the RdDM pathway, which was inactive. Furthermore, integrated multi-omics analyses revealed that dynamic DNA methylation played a role in the regulation of lipid biosynthesis and spatio-temporal modulation of reactive oxygen species during fibre differentiation. Our study illustrates two divergent pathways mediating a continuous increase of DNA methylation and also sheds further light on the epigenetic basis for single-cell differentiation in plants. These data and analyses are made available to the wider research community through a comprehensive web portal.
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