{"database":"biostudies-literature","file_versions":[],"scores":null,"additional":{"omics_type":["Unknown"],"volume":["13(1)"],"submitter":["Karanyi Z"],"funding":["National Research, Development and Innovation Fund of Hungary"],"pubmed_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 peric"],"journal":["Nature communications"],"pagination":["5058"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC9420119"],"repository":["biostudies-literature"],"pubmed_title":["NODULIN HOMEOBOX is required for heterochromatin homeostasis in Arabidopsis."],"pmcid":["PMC9420119"],"pubmed_authors":["Karanyi Z","Hetey S","Szaker HM","Horvath A","Szekvolgyi L","Mosolygo-L A","Nagy E","Fero O","Miskei M","Holb I","Boros-Olah B","Csorba T"],"additional_accession":[]},"is_claimable":false,"name":"NODULIN HOMEOBOX is required for heterochromatin homeostasis in Arabidopsis.","description":"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 peric","dates":{"release":"2022-01-01T00:00:00Z","publication":"2022 Aug","modification":"2025-04-18T19:06:22.149Z","creation":"2025-04-07T06:47:40.385Z"},"accession":"S-EPMC9420119","cross_references":{"pubmed":["36030240"],"doi":["10.1038/s41467-022-32709-y"]}}