ArticlePLoS biology2008
Evolutionary plasticity of polycomb/trithorax response elements in Drosophila species.
Article in PLoS biology, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 24 papers.
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Who cites it
24 citing papers in PubMed.
- Article
- Functional analyses of the polycomb-group genes in sea lamprey embryos undergoing programmed DNA loss.Journal of experimental zoology. Part B, Molecular and developmental evolution · 2024Article
- A theoretical model of Polycomb/Trithorax action unites stable epigenetic memory and dynamic regulation.Nature communications · 2020Article
- Genomic organization of Polycomb Response Elements and its functional implication inJournal of biosciences · 2020Article
- DNA sequence models of genome-wide Drosophila melanogaster Polycomb binding sites improve generalization to independent Polycomb Response Elements.Nucleic acids research · 2019Article
- Two-step regulation ofeLife · 2019Article
- Evolution of Polycomb-group function in the green lineage.F1000Research · 2019Review
- Sex combs reduced (Scr) regulatory region of Drosophila revisited.Molecular genetics and genomics : MGG · 2017Article
- Molecular structures guide the engineering of chromatin.Nucleic acids research · 2017Article
- Review
- Combgap contributes to recruitment of Polycomb group proteins in Drosophila.Proceedings of the National Academy of Sciences of the United States of America · 2016Article
- Adaptive selection and coevolution at the proteins of the Polycomb repressive complexes in Drosophila.Heredity · 2016Article
- Article
- Pervasive divergence of transcriptional gene regulation in Caenorhabditis nematodes.PLoS genetics · 2014Article
- Architectural and functional diversity of polycomb group response elements in Drosophila.Genetics · 2013Article
- Polycomb silencing of the Drosophila 4E-BP gene regulates imaginal disc cell growth.Developmental biology · 2013Article
- Polycomb group response elements in Drosophila and vertebrates.Advances in genetics · 2013Review
- Epigenetics of pluripotent cells.Acta naturae · 2012Article
- Genome-wide polycomb target gene prediction in Drosophila melanogaster.Nucleic acids research · 2012Article
- Modulation of the activity of a polycomb-group response element in Drosophila by a mutation in the transcriptional activator woc.G3 (Bethesda, Md.) · 2011Article
Corrections and comments
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
cis-Regulatory DNA elements contain multiple binding sites for activators and repressors of transcription. Among these elements are enhancers, which establish gene expression states, and Polycomb/Trithorax response elements (PREs), which take over from enhancers and maintain transcription states of several hundred developmentally important genes. PREs are essential to the correct identities of both stem cells and differentiated cells. Evolutionary differences in cis-regulatory elements are a rich source of phenotypic diversity, and functional binding sites within regulatory elements turn over rapidly in evolution. However, more radical evolutionary changes that go beyond motif turnover have been difficult to assess. We used a combination of genome-wide bioinformatic prediction and experimental validation at specific loci, to evaluate PRE evolution across four Drosophila species. Our results show that PRE evolution is extraordinarily dynamic. First, we show that the numbers of PREs differ dramatically between species. Second, we demonstrate that functional binding sites within PREs at conserved positions turn over rapidly in evolution, as has been observed for enhancer elements. Finally, although it is theoretically possible that new elements can arise out of nonfunctional sequence, evidence that they do so is lacking. We show here that functional PREs are found at nonorthologous sites in conserved gene loci. By demonstrating that PRE evolution is not limited to the adaptation of preexisting elements, these findings document a novel dimension of cis-regulatory evolution.
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