Liquid chromatin Hi-C characterizes compartment-dependent chromatin interaction dynamics
Program in Systems Biology; Department of Biochemistry and Molecular Pharmacology; Program in Bioinformatics and Integrative Biology; Graduate School of Biomedical Sciences
Biochemistry | Genomics | Molecular Biology | Structural Biology
Nuclear compartmentalization of active and inactive chromatin is thought to occur through microphase separation mediated by interactions between loci of similar type. The nature and dynamics of these interactions are not known. We developed liquid chromatin Hi-C to map the stability of associations between loci. Before fixation and Hi-C, chromosomes are fragmented, which removes strong polymeric constraint, enabling detection of intrinsic locus-locus interaction stabilities. Compartmentalization is stable when fragments are larger than 10-25 kb. Fragmentation of chromatin into pieces smaller than 6 kb leads to gradual loss of genome organization. Lamin-associated domains are most stable, whereas interactions for speckle- and polycomb-associated loci are more dynamic. Cohesin-mediated loops dissolve after fragmentation. Liquid chromatin Hi-C provides a genome-wide view of chromosome interaction dynamics.
Epigenomics, Genomic analysis
DOI of Published Version
Belaghzal H, Borrman T, Stephens AD, Lafontaine DL, Venev SV, Weng Z, Marko JF, Dekker J. Liquid chromatin Hi-C characterizes compartment-dependent chromatin interaction dynamics. Nat Genet. 2021 Mar;53(3):367-378. doi: 10.1038/s41588-021-00784-4. Epub 2021 Feb 11. PMID: 33574602; PMCID: PMC7946813. Link to article on publisher's site
Belaghzal H, Borrman TM, Stephens AD, Lafontaine DL, Venev SV, Weng Z, Marko JF, Dekker J. (2021). Liquid chromatin Hi-C characterizes compartment-dependent chromatin interaction dynamics. UMass Chan Medical School Faculty Publications. https://doi.org/10.1038/s41588-021-00784-4. Retrieved from https://escholarship.umassmed.edu/faculty_pubs/2007