In vivo enhancer analysis of human conserved non-coding sequences

Len A. Pennacchio (), Nadav Ahituv, Alan M. Moses, Shyam Prabhakar, Marcelo A. Nobrega, Malak Shoukry, Simon Minovitsky, Inna Dubchak, Amy Holt, Keith D. Lewis, Ingrid Plajzer-Frick, Jennifer Akiyama, Sarah De Val, Veena Afzal, Brian L. Black, Olivier Couronne, Michael B. Eisen, Axel Visel and Edward M. Rubin
Additional contact information
Len A. Pennacchio: US Department of Energy Joint Genome Institute
Nadav Ahituv: MS 84-171, Lawrence Berkeley National Laboratory
Alan M. Moses: MS 84-171, Lawrence Berkeley National Laboratory
Shyam Prabhakar: MS 84-171, Lawrence Berkeley National Laboratory
Marcelo A. Nobrega: MS 84-171, Lawrence Berkeley National Laboratory
Malak Shoukry: MS 84-171, Lawrence Berkeley National Laboratory
Simon Minovitsky: MS 84-171, Lawrence Berkeley National Laboratory
Inna Dubchak: US Department of Energy Joint Genome Institute
Amy Holt: MS 84-171, Lawrence Berkeley National Laboratory
Keith D. Lewis: MS 84-171, Lawrence Berkeley National Laboratory
Ingrid Plajzer-Frick: MS 84-171, Lawrence Berkeley National Laboratory
Jennifer Akiyama: MS 84-171, Lawrence Berkeley National Laboratory
Sarah De Val: University of California
Veena Afzal: MS 84-171, Lawrence Berkeley National Laboratory
Brian L. Black: University of California
Olivier Couronne: US Department of Energy Joint Genome Institute
Michael B. Eisen: MS 84-171, Lawrence Berkeley National Laboratory
Axel Visel: MS 84-171, Lawrence Berkeley National Laboratory
Edward M. Rubin: US Department of Energy Joint Genome Institute

Nature, 2006, vol. 444, issue 7118, 499-502

Abstract: Gene regulators unmasked Identifying the non-coding DNA sequences that act at a distance to regulate patterns of gene expression is not a simple matter; one useful pointer is evolutionary sequence conservation. An in vivo analysis of 167 non-coding elements in the human genome that are extremely conserved based on comparisons with pufferfish, rat and mouse genomes, has identified 75 previously unknown tissue-specific enhancers. These are active in embryos on day 11, most of them directing expression in the developing nervous system. The success of this method suggests that the further 5,500 non-coding sequences conserved between humans and pufferfish may yield another new batch of gene enhancers.

Date: 2006
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DOI: 10.1038/nature05295

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