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Evidence for a common evolutionary rate in metazoan transcriptional networks
Genome sequences diverge more rapidly in mammals than in other animal lineages, such as birds or insects. However, the effect of this rapid divergence on transcriptional evolution remains unclear. Recent reports have indicated a faster divergence of transcription factor binding in mammals than in in...
Autores principales: | , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
eLife Sciences Publications, Ltd
2015
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4764585/ https://www.ncbi.nlm.nih.gov/pubmed/26682651 http://dx.doi.org/10.7554/eLife.11615 |
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author | Carvunis, Anne-Ruxandra Wang, Tina Skola, Dylan Yu, Alice Chen, Jonathan Kreisberg, Jason F Ideker, Trey |
author_facet | Carvunis, Anne-Ruxandra Wang, Tina Skola, Dylan Yu, Alice Chen, Jonathan Kreisberg, Jason F Ideker, Trey |
author_sort | Carvunis, Anne-Ruxandra |
collection | PubMed |
description | Genome sequences diverge more rapidly in mammals than in other animal lineages, such as birds or insects. However, the effect of this rapid divergence on transcriptional evolution remains unclear. Recent reports have indicated a faster divergence of transcription factor binding in mammals than in insects, but others found the reverse for mRNA expression. Here, we show that these conflicting interpretations resulted from differing methodologies. We performed an integrated analysis of transcriptional network evolution by examining mRNA expression, transcription factor binding and cis-regulatory motifs across >25 animal species, including mammals, birds and insects. Strikingly, we found that transcriptional networks evolve at a common rate across the three animal lineages. Furthermore, differences in rates of genome divergence were greatly reduced when restricting comparisons to chromatin-accessible sequences. The evolution of transcription is thus decoupled from the global rate of genome sequence evolution, suggesting that a small fraction of the genome regulates transcription. DOI: http://dx.doi.org/10.7554/eLife.11615.001 |
format | Online Article Text |
id | pubmed-4764585 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2015 |
publisher | eLife Sciences Publications, Ltd |
record_format | MEDLINE/PubMed |
spelling | pubmed-47645852016-02-25 Evidence for a common evolutionary rate in metazoan transcriptional networks Carvunis, Anne-Ruxandra Wang, Tina Skola, Dylan Yu, Alice Chen, Jonathan Kreisberg, Jason F Ideker, Trey eLife Computational and Systems Biology Genome sequences diverge more rapidly in mammals than in other animal lineages, such as birds or insects. However, the effect of this rapid divergence on transcriptional evolution remains unclear. Recent reports have indicated a faster divergence of transcription factor binding in mammals than in insects, but others found the reverse for mRNA expression. Here, we show that these conflicting interpretations resulted from differing methodologies. We performed an integrated analysis of transcriptional network evolution by examining mRNA expression, transcription factor binding and cis-regulatory motifs across >25 animal species, including mammals, birds and insects. Strikingly, we found that transcriptional networks evolve at a common rate across the three animal lineages. Furthermore, differences in rates of genome divergence were greatly reduced when restricting comparisons to chromatin-accessible sequences. The evolution of transcription is thus decoupled from the global rate of genome sequence evolution, suggesting that a small fraction of the genome regulates transcription. DOI: http://dx.doi.org/10.7554/eLife.11615.001 eLife Sciences Publications, Ltd 2015-12-18 /pmc/articles/PMC4764585/ /pubmed/26682651 http://dx.doi.org/10.7554/eLife.11615 Text en © 2015, Carvunis et al http://creativecommons.org/licenses/by/4.0/ This article is distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use and redistribution provided that the original author and source are credited. |
spellingShingle | Computational and Systems Biology Carvunis, Anne-Ruxandra Wang, Tina Skola, Dylan Yu, Alice Chen, Jonathan Kreisberg, Jason F Ideker, Trey Evidence for a common evolutionary rate in metazoan transcriptional networks |
title | Evidence for a common evolutionary rate in metazoan transcriptional networks |
title_full | Evidence for a common evolutionary rate in metazoan transcriptional networks |
title_fullStr | Evidence for a common evolutionary rate in metazoan transcriptional networks |
title_full_unstemmed | Evidence for a common evolutionary rate in metazoan transcriptional networks |
title_short | Evidence for a common evolutionary rate in metazoan transcriptional networks |
title_sort | evidence for a common evolutionary rate in metazoan transcriptional networks |
topic | Computational and Systems Biology |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4764585/ https://www.ncbi.nlm.nih.gov/pubmed/26682651 http://dx.doi.org/10.7554/eLife.11615 |
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