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Langer, C. C. H.

Publications and source records attributed to Langer, C. C. H..

3 recordsLinked to original sources

Cohesin-mediated DNA loop extrusion resolves sister chromatids in G2 phase

Genetic information is stored in linear DNA molecules, which fold extensively inside cells. DNA replication along the folded template path yields two sister chromatids that initially occupy the same nuclear region in a highly intertwined arrangement. Dividing cells must disentangle and condense the sister chromatids into separate bodies such that a microtubule-based spindle can move them to opposite poles. While the spindle-mediated transport of sister chromatids has been studied in detail, the chromosome-intrinsic mechanics pre-segregating sister chromatids have remained elusive. Here, we show that human sister chromatids resolve extensively already during interphase, in a process dependent on the loop-extruding activity of cohesin, but not that of condensins. Increasing cohesins looping capability increases sister DNA resolution in interphase nuclei to an extent normally seen only during mitosis, despite the presence of abundant arm cohesion. That cohesin can resolve sister chromatids so extensively in the absence of mitosis-specific activities indicates that DNA loop extrusion is a generic mechanism for segregating replicated genomes, shared across different Structural Maintenance of Chromosomes (SMC) protein complexes in all kingdoms of life.

cell biology↗

HiCognition: a visual exploration and hypothesis testing tool for 3D genomics

The 3D organization of the genome and epigenetic marks play important roles in gene expression, DNA repair, and chromosome segregation. Understanding how structure and composition of the chromatin fiber contribute to function requires integrated analysis of multiple genomics datasets from various techniques, experimental conditions, and cell states. Genome browsers facilitate such analysis, yet currently visualize only a few regions at a time and lack statistical functions that are often necessary to extract meaningful information. Here, we present HiCognition, a visual exploration and machine-learning tool based on a new genomic region set concept, which enables detection of patterns and associations between 3D chromosome conformation and collections of 1D genomics profiles of any type. By revealing how transcriptional activity and cohesin subunit isoforms contribute to chromosome conformation, we showcase how the flexible user interface and machine learning tools of HiCognition can help understand the relationship between structure and function of the genome.

bioinformatics↗

A chromatin phase transition protects mitotic chromosomes against microtubule perforation

Dividing eukaryotic cells package extremely long chromosomal DNA molecules into discrete bodies to enable microtubule-mediated transport of one genome copy to each of the newly forming daughter cells1-3. Assembly of mitotic chromosomes involves DNA looping by condensin4-8 and chromatin compaction by global histone deacetylation9-13. While condensin confers mechanical resistance towards spindle pulling forces14-16, it is not known how histone deacetylation affects material properties and segregation mechanics of mitotic chromosomes. Here, we show how global histone deacetylation at the onset of mitosis induces a chromatin-intrinsic phase transition that endows chromosomes with specific characteristics necessary for their precise movement during cellular division. Deacetylation-mediated compaction of chromatin forms a structure dense in negative charge and allows mitotic chromosomes to resist perforation by microtubules as they are pushed to the metaphase plate. Hyperacetylated mitotic chromosomes lack a defined surface boundary, are frequently perforated by microtubules, and are prone to missegregation. Our study highlights the different contributions of DNA loop formation and chromatin-intrinsic phase separation to genome segregation in dividing cells.

cell biology↗