Ant pheromone communication relies on an expanded odorant receptor repertoire, with many genes in large genomic tandem arrays. Glotzer et al. describe a novel mechanism, conserved across ants and othe...

Genome function requires regulated genome motion. However, tools to directly observe this motion in vivo have been limited in coverage and resolution. Here we introduce an approach to tile mammalian c...

Genes are often activated by enhancers located at large genomic distances, and the importance of this positioning is poorly understood. By relocating promoter-reporter constructs into thousands of alt...

In an effort to make Oligopaint FISH probes more broadly available to the research community, we offer DNA and RNA FISH probe design, synthesis, and generation. By dedicating a full-time staff memb…

In this Comment, Wendy Bickmore discusses mechanistic models of how 3D genome organization facilitates communication between distant enhancers and their target promoters to regulate gene expression.

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Genes burst. Instead of being monotonously transcribed by a steady stream of RNA polymerases, active genes undergo transient and random pulses of transcription that are referred to as gene bursting. T...

The precise spatial and temporal regulation of gene expression through enhancer-promoter (E-P) interactions represents a fundamental mechanism underly…

Genomic analysis of more than 100 Rosa species uncovers a multi-step process for the de novo origination of SCREP, a taxon-restricted gene specific to the Rosa genus, highlighting its function in modu...

Coupling of a FREP1 variant to a gene-drive system allows the spread of a host malaria resistance allele through the mosquito population.

A nanoscale 3D DNA tracing workflow visualizes Cohesin-dependent loops in single, structurally well-preserved cells. Computer simulations based on the tracing data give further insight into how Cohesi...

Nature Structural & Molecular Biology, Published online: 15 July 2025; doi:10.1038/s41594-025-01615-4Gene activity levels predict how often and how strongly genes turn on and off. Using live imaging in fruit fly embryos, the authors uncover a conserved rule linking transcriptional bursts to gene activity across time, space and species.

The REX element is associated with long-range enhancer–promoter interactions.

Activation of an LTR retrotransposon inserted upstream of the Fgf8 gene produces viral-like particles in the mouse developing limb, triggering apoptosis and causing limb malformation. This phenotype c...

Here the authors show that reducing enhancer-promoter distance at the Pitx1 locus increases proportion of Pitx1 forelimb expressing cells, worsening skeletal defects in Liebenberg syndrome. They also ...

scMicro-C is a new method that provides high-resolution maps of the 3D genome. scMicro-C identifies structures called ‘promoter stripes’, which link a gene promoter to multiple downstream enhancers.

The REX element is associated with long-range enhancer–promoter interactions.

Lu et al. discover that the Mediator complex regulates transcription termination through the MED23-FIP1 connection. Mediator associates with the CPSF complex, and MED23 binds to 3′ mRNAs directly. Int...

Karpinska, Zhu and colleagues characterize the structure-function relationship of the genome during cellular differentiation and demonstrate a role for enhancer-promoter interactions in gene regulatio...

It is commonly assumed that multicellular organisms contain the same genetic information in all the cells of an individual. However, there is a growing list of species in which parts of the genome are...