Nikolaou, ChristoforosBermúdez, IgnacioManichanh, ChaysavanhGarcía Martínez, JoséGuigó Serra, RodericPérez Ortín, José E.Roca, Joaquim2015-02-062015-02-062013Nikolaou C, Bermúdez I, Manichanh C, García-Martinez J, Guigó R, Pérez-Ortín JE et al. Topoisomerase II regulates yeast genes with singular chromatin architectures. Nucleic Acids Res. 2013;41(20):9243-56. DOI: 10.1093/nar/gkt7070305-1048http://hdl.handle.net/10230/23103Eukaryotic topoisomerase II (topo II) is the essential decatenase of newly replicated chromosomes and the main relaxase of nucleosomal DNA. Apart from these general tasks, topo II participates in more specialized functions. In mammals, topo IIα interacts with specific RNA polymerases and chromatin-remodeling complexes, whereas topo IIβ regulates developmental genes in conjunction with chromatin remodeling and heterochromatin transitions. Here we show that in budding yeast, topo II regulates the expression of specific gene subsets. To uncover this, we carried out a genomic transcription run-on shortly after the thermal inactivation of topo II. We identified a modest number of genes not involved in the general stress response but strictly dependent on topo II. These genes present distinctive functional and structural traits in comparison with the genome average. Yeast topo II is a positive regulator of genes with well-defined promoter architecture that associates to chromatin remodeling complexes; it is a negative regulator of genes extremely hypo-acetylated with complex promoters and undefined nucleosome positioning, many of which are involved in polyamine transport. These findings indicate that yeast topo II operates on singular chromatin architectures to activate or repress DNA transcription and that this activity produces functional responses to ensure chromatin stability.application/pdfeng© 2013 Christoforos Nikolau et al. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution License which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly citedCromatinaExpressió gènicaSaccharomyces cerevisiaeADNinfo:eu-repo/semantics/articlehttp://dx.doi.org/10.1093/nar/gkt707info:eu-repo/semantics/openAccess