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Co-opted transposons help perpetuate conserved higher-order chromosomal structures

View ORCID ProfileMayank NK Choudhary, Ryan Z Friedman, Julia T Wang, Hyo Sik Jang, Xiaoyu Zhuo, Ting Wang
doi: https://doi.org/10.1101/485342
Mayank NK Choudhary
Washington University in St. Louis
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  • ORCID record for Mayank NK Choudhary
Ryan Z Friedman
Washington University in St. Louis
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Julia T Wang
Washington University in St. Louis
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Hyo Sik Jang
Washington University in St. Louis
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Xiaoyu Zhuo
Washington University in St. Louis
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Ting Wang
Washington University in St. Louis
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  • For correspondence: twang@wustl.edu
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Abstract

Transposable elements (TEs) shape genome regulation by harboring regulatory factor binding sites---including CTCF-binding sites known to tether chromatin loops and mark domain boundaries. The mechanisms underlying the emergence and evolution of these 3D genome structures remain unprobed. We find that TEs contribute extensively to emergence of species-specific loops in humans and mice by depositing novel anchor CTCF motifs, as well as to maintenance of conserved loops via CTCF binding site turnover. Deleting such TEs in human cells leads to collapse of conserved 3D structures. TEs have long been considered a source of genetic innovation; by comparing topologies, we show that TEs contribute regulatory plasticity that helps maintain conserved genome architecture---revealing a new paradigm for defining noncoding, regulatory conservation beyond classic DNA sequence preservation.

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Posted December 05, 2018.
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Co-opted transposons help perpetuate conserved higher-order chromosomal structures
Mayank NK Choudhary, Ryan Z Friedman, Julia T Wang, Hyo Sik Jang, Xiaoyu Zhuo, Ting Wang
bioRxiv 485342; doi: https://doi.org/10.1101/485342
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Co-opted transposons help perpetuate conserved higher-order chromosomal structures
Mayank NK Choudhary, Ryan Z Friedman, Julia T Wang, Hyo Sik Jang, Xiaoyu Zhuo, Ting Wang
bioRxiv 485342; doi: https://doi.org/10.1101/485342

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