Local rewiring of genome–nuclear lamina interactions by transcription. (21st February 2020)

• Record Type: Journal Article
• Authors: Brueckner, Laura; Zhao, Peiyao A; van Schaik, Tom; Leemans, Christ; Sima, Jiao; Peric‐Hupkes, Daniel; Gilbert, David M; van Steensel, Bas
• Is Part Of: EMBO journal. Volume 39:Number 6(2020)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2020-02-21
• Subjects: genome organization -- lamina‐associated domains -- nuclear lamina -- replication timing -- transcription; Molecular biology -- Periodicals; 572.805
• DOI: 10.15252/embj.2019103159
• Languages: English
• ISSNs: 0261-4189

Abstract

Abstract: Transcriptionally inactive genes are often positioned at the nuclear lamina (NL), as part of large lamina‐associated domains (LADs). Activation of such genes is often accompanied by repositioning toward the nuclear interior. How this process works and how it impacts flanking chromosomal regions are poorly understood. We addressed these questions by systematic activation or inactivation of individual genes, followed by detailed genome‐wide analysis of NL interactions, replication timing, and transcription patterns. Gene activation inside LADs typically causes NL detachment of the entire transcription unit, but rarely more than 50–100 kb of flanking DNA, even when multiple neighboring genes are activated. The degree of detachment depends on the expression level and the length of the activated gene. Loss of NL interactions coincides with a switch from late to early replication timing, but the latter can involve longer stretches of DNA. Inactivation of active genes can lead to increased NL contacts. These extensive datasets are a resource for the analysis of LAD rewiring by transcription and reveal a remarkable flexibility of interphase chromosomes. Synopsis: Detailed genomic maps reveal changes in nuclear lamina interactions of genes upon activation or inactivation of their transcription. Limitation of such changes to the gene and the DNA immediately flanking it, highlights the flexibility of the chromatin fiber. DamID maps after targeted activation or inactivation of genes visualize dynamics of nuclear lamina interactions. Gene activation causes detachment of the entire gene and generally <50–100 kb of flanking DNA. The degree of detachment depends on the expression level and appears linked to transcription elongation. Changes in lamina interactions coincide only partially with changes in replication timing. Abstract : Genomic maps acquired after transcriptional activation or inactivation of genes reveals how transcription affects their interaction with the nuclear lamina.