ArticleNature communications2022
NODULIN HOMEOBOX is required for heterochromatin homeostasis in Arabidopsis.
Article in Nature communications, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 10 papers.
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Who cites it
10 citing papers in PubMed, 11 citations in OpenAlex.
- A functional atlas of transposon-encoded products and their integration into host networks.Nature communications · 2026Article
- KNOX II Transcription Factor HOS59 Regulates Gypsy Transposable Elements to Modulate Panicle Development in Rice.Plant, cell & environment · 2026Article
- Herpes simplex virus type 1 R-loops are targets for APOBEC-mediated mutagenesis.Genome biology · 2026Article
- Evolutionary interplay between viruses and R-loops.FEBS letters · 2025Review
- Plant mobile domain protein-DNA motif modules counteract Polycomb silencing to stabilize gene expression.Nature plants · 2025Article
- Chromosomal R-loops: who R they?Biologia futura · 2024Review
- DNA methylome, R-loop and clinical exome profiling of patients with sporadic amyotrophic lateral sclerosis.Scientific data · 2024Article
- Voice from both sides: a molecular dialogue between transcriptional activators and repressors in seed-to-seedling transition and crop adaptation.Frontiers in plant science · 2024Review
- Accessible gene borders establish a core structural unit for chromatin architecture in Arabidopsis.Nucleic acids research · 2023Article
- Coding and noncoding transcriptomes of NODULIN HOMEOBOX (NDX)-deficient Arabidopsis inflorescence.Scientific data · 2023Article
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Authors and funding
12 authors at 3 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Arabidopsis NODULIN HOMEOBOX (NDX) is a nuclear protein described as a regulator of specific euchromatic genes within transcriptionally active chromosome arms. Here we show that NDX is primarily a heterochromatin regulator that functions in pericentromeric regions to control siRNA production and non-CG methylation. Most NDX binding sites coincide with pericentromeric het-siRNA loci that mediate transposon silencing, and are antagonistic with R-loop structures that are prevalent in euchromatic chromosomal arms. Inactivation of NDX leads to differential siRNA accumulation and DNA methylation, of which CHH/CHG hypomethylation colocalizes with NDX binding sites. Hi-C analysis shows significant chromatin structural changes in the ndx mutant, with decreased intrachromosomal interactions at pericentromeres where NDX is enriched in wild-type plants, and increased interchromosomal contacts between KNOT-forming regions, similar to those observed in DNA methylation mutants. We conclude that NDX is a key regulator of heterochromatin that is functionally coupled to het-siRNA loci and non-CG DNA methylation pathways.
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