The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos
Name
s41467-019-12211-8.pdf
Description
Published version
Size
2.52 MB
Format
Adobe PDF
Checksum (MD5)
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Author(s)
Erceg, Jelena
AlHaj Abed, Jumana
Goloborodko, Anton
Lajoie, Bryan R.
Fudenberg, Geoffrey
Abdennur, Nezar Alexander
Imakaev, Maksim Viktorovich
McCole, Ruth B.
Nguyen, Son C.
Saylor, Wren
Date Issued
October 2019
Journal
Nature Communications
Publisher
Springer Science and Business Media LLC
Citation
Erceg, Jelena et al. "The genome-wide multi-layered architecture of chromosome pairing in early Drosophila embryos." Nature Communications 10, 1 (October 2019): 4486 © 2019 Springer Nature
Version
Final published version
Abstract
Genome organization involves cis and trans chromosomal interactions, both implicated in gene regulation, development, and disease. Here, we focus on trans interactions in Drosophila, where homologous chromosomes are paired in somatic cells from embryogenesis through adulthood. We first address long-standing questions regarding the structure of embryonic homolog pairing and, to this end, develop a haplotype-resolved Hi-C approach to minimize homolog misassignment and thus robustly distinguish trans-homolog from cis contacts. This computational approach, which we call Ohm, reveals pairing to be surprisingly structured genome-wide, with trans-homolog domains, compartments, and interaction peaks, many coinciding with analogous cis features. We also find a significant genome-wide correlation between pairing, transcription during zygotic genome activation, and binding of the pioneer factor Zelda. Our findings reveal a complex, highly structured organization underlying homolog pairing, first discovered a century ago in Drosophila. Finally, we demonstrate the versatility of our haplotype-resolved approach by applying it to mammalian embryos.
MIT Department
Massachusetts Institute of Technology. Department of Physics
Massachusetts Institute of Technology. Institute for Medical Engineering & Science
Terms of Use
Creative Commons Attribution 4.0 International license
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DOI of Published Version
https://doi.org/10.1038/s41467-019-12211-8
