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A family of transposable elements co-opted into developmental enhancers in the mouse neocortex

Author

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  • James H. Notwell

    (Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA)

  • Tisha Chung

    (Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA)

  • Whitney Heavner

    (Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA
    Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA)

  • Gill Bejerano

    (Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA
    Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA
    Stanford University, 279 Campus Drive West (MC 5329), Beckman Center B-300, Stanford, California 94305-5329, USA)

Abstract

The neocortex is a mammalian-specific structure that is responsible for higher functions such as cognition, emotion and perception. To gain insight into its evolution and the gene regulatory codes that pattern it, we studied the overlap of its active developmental enhancers with transposable element (TE) families and compared this overlap to uniformly shuffled enhancers. Here we show a striking enrichment of the MER130 repeat family among active enhancers in the mouse dorsal cerebral wall, which gives rise to the neocortex, at embryonic day 14.5. We show that MER130 instances preserve a common code of transcriptional regulatory logic, function as enhancers and are adjacent to critical neocortical genes. MER130, a nonautonomous interspersed TE, originates in the tetrapod or possibly Sarcopterygii ancestor, which far predates the appearance of the neocortex. Our results show that MER130 elements were recruited, likely through their common regulatory logic, as neocortical enhancers.

Suggested Citation

  • James H. Notwell & Tisha Chung & Whitney Heavner & Gill Bejerano, 2015. "A family of transposable elements co-opted into developmental enhancers in the mouse neocortex," Nature Communications, Nature, vol. 6(1), pages 1-7, May.
    • Handle: RePEc:nat:natcom:v:6:y:2015:i:1:d:10.1038_ncomms7644
    DOI: 10.1038/ncomms7644
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    Cited by:

    1. Bert I. Crawford & Mary Jo Talley & Joshua Russman & James Riddle & Sabrina Torres & Troy Williams & Michelle S. Longworth, 2024. "Condensin-mediated restriction of retrotransposable elements facilitates brain development in Drosophila melanogaster," Nature Communications, Nature, vol. 15(1), pages 1-15, December.

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