Transcriptional autoregulatory loops are highly conserved in vertebrate evolution.
BACKGROUND: Feedback loops are the simplest building blocks of transcriptional regulatory networks and therefore their behavior in the course of evolution is of prime interest. METHODOLOGY: We address the question of enrichment of the number of autoregulatory feedback loops in higher organisms. Firs...
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doaj-c5bdc62cc3024077a0d51af84f11d2ed2020-11-24T21:51:14ZengPublic Library of Science (PLoS)PLoS ONE1932-62032008-01-0139e321010.1371/journal.pone.0003210Transcriptional autoregulatory loops are highly conserved in vertebrate evolution.Szymon M KiełbasaMartin VingronBACKGROUND: Feedback loops are the simplest building blocks of transcriptional regulatory networks and therefore their behavior in the course of evolution is of prime interest. METHODOLOGY: We address the question of enrichment of the number of autoregulatory feedback loops in higher organisms. First, based on predicted autoregulatory binding sites we count the number of autoregulatory loops. We compare it to estimates obtained either by assuming that each (conserved) gene has the same chance to be a target of a given factor or by assuming that each conserved sequence position has an equal chance to be a binding site of the factor. CONCLUSIONS: We demonstrate that the numbers of putative autoregulatory loops conserved between human and fugu, danio or chicken are significantly higher than expected. Moreover we show, that conserved autoregulatory binding sites cluster close to the factors' starts of transcription. We conclude, that transcriptional autoregulatory feedback loops constitute a core transcriptional network motif and their conservation has been maintained in higher vertebrate organism evolution.http://europepmc.org/articles/PMC2527657?pdf=render |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Szymon M Kiełbasa Martin Vingron |
spellingShingle |
Szymon M Kiełbasa Martin Vingron Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. PLoS ONE |
author_facet |
Szymon M Kiełbasa Martin Vingron |
author_sort |
Szymon M Kiełbasa |
title |
Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
title_short |
Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
title_full |
Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
title_fullStr |
Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
title_full_unstemmed |
Transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
title_sort |
transcriptional autoregulatory loops are highly conserved in vertebrate evolution. |
publisher |
Public Library of Science (PLoS) |
series |
PLoS ONE |
issn |
1932-6203 |
publishDate |
2008-01-01 |
description |
BACKGROUND: Feedback loops are the simplest building blocks of transcriptional regulatory networks and therefore their behavior in the course of evolution is of prime interest. METHODOLOGY: We address the question of enrichment of the number of autoregulatory feedback loops in higher organisms. First, based on predicted autoregulatory binding sites we count the number of autoregulatory loops. We compare it to estimates obtained either by assuming that each (conserved) gene has the same chance to be a target of a given factor or by assuming that each conserved sequence position has an equal chance to be a binding site of the factor. CONCLUSIONS: We demonstrate that the numbers of putative autoregulatory loops conserved between human and fugu, danio or chicken are significantly higher than expected. Moreover we show, that conserved autoregulatory binding sites cluster close to the factors' starts of transcription. We conclude, that transcriptional autoregulatory feedback loops constitute a core transcriptional network motif and their conservation has been maintained in higher vertebrate organism evolution. |
url |
http://europepmc.org/articles/PMC2527657?pdf=render |
work_keys_str_mv |
AT szymonmkiełbasa transcriptionalautoregulatoryloopsarehighlyconservedinvertebrateevolution AT martinvingron transcriptionalautoregulatoryloopsarehighlyconservedinvertebrateevolution |
_version_ |
1725879747355869184 |