I. F. Davidson

Cohesin supercoils DNA during loop extrusion

This study shows cohesin supercoils DNA during loop extrusion, influencing genome architecture through both looping and supercoiling.

All eukaryotic SMC proteins induce a twist of -0.6 at each DNA-loop-extrusion step

The paper measures the twist induced by eukaryotic SMC proteins during DNA loop extrusion and finds all three SMC complexes induce a consistent -0.6 twist per step.

Cohesin mediates DNA loop extrusion and sister chromatid cohesion by distinct mechanisms

This study shows cohesin uses distinct mechanisms for DNA loop extrusion and sister chromatid cohesion, and that CTCF boundary interactions may rely on related mechanisms.

CTCF is a DNA-tension-dependent barrier to cohesin-mediated DNA loop extrusion

The paper shows CTCF blocks cohesin-mediated DNA loop extrusion and regulates its direction and loop size, revealing it as an active regulator rather than a passive barrier.

Can pseudotopological models for SMC-driven DNA loop extrusion explain the traversal of physical roadblocks bigger than the SMC ring size?

This study evaluates pseudotopological models of SMC-driven DNA loop extrusion and finds they conflict with experimental data on roadblock traversal.

SMC complexes can traverse physical roadblocks bigger than their ring size

The paper shows that SMC complexes can extrude DNA loops around large DNA-bound obstacles, suggesting a nontopological mechanism for loop extrusion.

MCM complexes are barriers that restrict cohesin-mediated loop extrusion

The paper shows MCM complexes block cohesin-mediated loop extrusion, reducing CTCF-anchored loops and TAD boundary insulation in G1 phase.

ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL

The paper shows that ESCO1 and CTCF protect cohesinSTAG1 from WAPL, enabling long chromatin loops that persist during G1-phase.

A Protein Engineering Approach for Uncovering Cryptic Ubiquitin-binding Sites: from a Ubiquitin-Variant Inhibitor of APC/C to K48 Chain Binding

The paper identifies a cryptic ubiquitin-binding site on APC/C using ubiquitin variants, revealing its preference for K48-linked chains and demonstrating a method for uncovering such sites in large complexes.

Absolute quantification of cohesin, CTCF and their regulators in human cells

The paper measures absolute copy numbers and dynamics of cohesin, CTCF, and related proteins in human cells, revealing that some genomic enrichment sites are unoccupied in single cells.