Three periods of regulatory innovation during vertebrate evolution.
Abstract
The gain, loss, and modification of gene regulatory elements may underlie a substantial
proportion of phenotypic changes on animal lineages. To investigate the gain of regulatory
elements throughout vertebrate evolution, we identified genome-wide sets of putative
regulatory regions for five vertebrates, including humans. These putative regulatory
regions are conserved nonexonic elements (CNEEs), which are evolutionarily conserved
yet do not overlap any coding or noncoding mature transcript. We then inferred the
branch on which each CNEE came under selective constraint. Our analysis identified
three extended periods in the evolution of gene regulatory elements. Early vertebrate
evolution was characterized by regulatory gains near transcription factors and developmental
genes, but this trend was replaced by innovations near extracellular signaling genes,
and then innovations near posttranslational protein modifiers.
Type
Journal articleSubject
AnimalsVertebrates
Smegmamorpha
Oryzias
Cattle
Humans
Mice
Transcription Factors
DNA, Intergenic
Markov Chains
Sequence Alignment
Evolution, Molecular
Phylogeny
Gene Expression Regulation
Protein Processing, Post-Translational
Regulatory Sequences, Nucleic Acid
Conserved Sequence
Genome
Regulatory Elements, Transcriptional
Genes, Developmental
Selection, Genetic
Biological Evolution
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https://hdl.handle.net/10161/17403Published Version (Please cite this version)
10.1126/science.1202702Publication Info
Lowe, Craig B; Kellis, Manolis; Siepel, Adam; Raney, Brian J; Clamp, Michele; Salama,
Sofie R; ... Haussler, David (2011). Three periods of regulatory innovation during vertebrate evolution. Science (New York, N.Y.), 333(6045). pp. 1019-1024. 10.1126/science.1202702. Retrieved from https://hdl.handle.net/10161/17403.This is constructed from limited available data and may be imprecise. To cite this
article, please review & use the official citation provided by the journal.
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Craig Lowe
Assistant Professor of Molecular Genetics and Microbiology

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