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Citation
AlHaj Abed, J., Erceg, J., Goloborodko, A., Nguyen, S.C., McCole, R.B., Saylor, W., Fudenberg, G., Lajoie, B.R., Dekker, J., Mirny, L.A., Wu, C.T. (2019). Highly structured homolog pairing reflects functional organization of the Drosophila genome.  Nat. Commun. 10(1): 4485.
FlyBase ID
FBrf0243630
Publication Type
Research paper
Abstract

Trans-homolog interactions have been studied extensively in Drosophila, where homologs are paired in somatic cells and transvection is prevalent. Nevertheless, the detailed structure of pairing and its functional impact have not been thoroughly investigated. Accordingly, we generated a diploid cell line from divergent parents and applied haplotype-resolved Hi-C, showing that homologs pair with varying precision genome-wide, in addition to establishing trans-homolog domains and compartments. We also elucidate the structure of pairing with unprecedented detail, observing significant variation across the genome and revealing at least two forms of pairing: tight pairing, spanning contiguous small domains, and loose pairing, consisting of single larger domains. Strikingly, active genomic regions (A-type compartments, active chromatin, expressed genes) correlated with tight pairing, suggesting that pairing has a functional implication genome-wide. Finally, using RNAi and haplotype-resolved Hi-C, we show that disruption of pairing-promoting factors results in global changes in pairing, including the disruption of some interaction peaks.

PubMed ID
PubMed Central ID
PMC6776532 (PMC) (EuropePMC)
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    Language of Publication
    English
    Additional Languages of Abstract
    Parent Publication
    Publication Type
    Journal
    Abbreviation
    Nat. Commun.
    Title
    Nature communications
    ISBN/ISSN
    2041-1723
    Data From Reference
    Genes (3)
    Cell Lines (2)