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The dynamic three-dimensional organization of the diploid yeast genome
 Authors and Affiliations  Authors and Affiliations
Seungsoo Kim1, Ivan Liachko1, Donna G Brickner2, Kate Cook1, William S Noble1, Jason H Brickner2, Jay Shendure1,3,*, Maitreya J Dunham1,*
1Department of Genome Sciences, University of Washington, Seattle, United States;
2Department of Molecular Biosciences, Northwestern University, Evanston, United States;
3Howard Hughes Medical Institute, University of Washington, Seattle, United States
*For correspondence
Abstract
The budding yeast Saccharomyces cerevisiae is a long-standing model for the three-dimensional organization of eukaryotic genomes. However, even in this well-studied model, it is unclear how homolog pairing in diploids or environmental conditions influence overall genome organization. Here, we performed high-throughput chromosome conformation capture on diverged Saccharomyces hybrid diploids to obtain the first global view of chromosome conformation in diploid yeasts. After controlling for the Rabl-like orientation using a polymer model, we observe significant homolog proximity that increases in saturated culture conditions. Surprisingly, we observe a localized increase in homologous interactions between the HAS1-TDA1 alleles specifically under galactose induction and saturated growth. This pairing is accompanied by relocalization to the nuclear periphery and requires Nup2, suggesting a role for nuclear pore complexes. Together, these results reveal that the diploid yeast genome has a dynamic and complex 3D organization.
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