Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence
Deep sequencing analyses have shown that a large fraction of genomes is transcribed, but the significance of this transcription is much debated. Here, we characterize the phylogenetic turnover of poly-adenylated transcripts in a comprehensive sampling of taxa of the mouse (genus Mus), spanning a phy...
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doaj-027a619973314bdaa56edb03be04e75b2021-05-05T00:14:38ZengeLife Sciences Publications LtdeLife2050-084X2016-02-01510.7554/eLife.09977Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergenceRafik Neme0https://orcid.org/0000-0001-8462-5291Diethard Tautz1https://orcid.org/0000-0002-0460-5344Max-Planck Institute for Evolutionary Biology, Plön, GermanyMax-Planck Institute for Evolutionary Biology, Plön, GermanyDeep sequencing analyses have shown that a large fraction of genomes is transcribed, but the significance of this transcription is much debated. Here, we characterize the phylogenetic turnover of poly-adenylated transcripts in a comprehensive sampling of taxa of the mouse (genus Mus), spanning a phylogenetic distance of 10 Myr. Using deep RNA sequencing we find that at a given sequencing depth transcriptome coverage becomes saturated within a taxon, but keeps extending when compared between taxa, even at this very shallow phylogenetic level. Our data show a high turnover of transcriptional states between taxa and that no major transcript-free islands exist across evolutionary time. This suggests that the entire genome can be transcribed into poly-adenylated RNA when viewed at an evolutionary time scale. We conclude that any part of the non-coding genome can potentially become subject to evolutionary functionalization via de novo gene evolution within relatively short evolutionary time spans.https://elifesciences.org/articles/09977transcriptomeevolutionde novo genes |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Rafik Neme Diethard Tautz |
spellingShingle |
Rafik Neme Diethard Tautz Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence eLife transcriptome evolution de novo genes |
author_facet |
Rafik Neme Diethard Tautz |
author_sort |
Rafik Neme |
title |
Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence |
title_short |
Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence |
title_full |
Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence |
title_fullStr |
Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence |
title_full_unstemmed |
Fast turnover of genome transcription across evolutionary time exposes entire non-coding DNA to de novo gene emergence |
title_sort |
fast turnover of genome transcription across evolutionary time exposes entire non-coding dna to de novo gene emergence |
publisher |
eLife Sciences Publications Ltd |
series |
eLife |
issn |
2050-084X |
publishDate |
2016-02-01 |
description |
Deep sequencing analyses have shown that a large fraction of genomes is transcribed, but the significance of this transcription is much debated. Here, we characterize the phylogenetic turnover of poly-adenylated transcripts in a comprehensive sampling of taxa of the mouse (genus Mus), spanning a phylogenetic distance of 10 Myr. Using deep RNA sequencing we find that at a given sequencing depth transcriptome coverage becomes saturated within a taxon, but keeps extending when compared between taxa, even at this very shallow phylogenetic level. Our data show a high turnover of transcriptional states between taxa and that no major transcript-free islands exist across evolutionary time. This suggests that the entire genome can be transcribed into poly-adenylated RNA when viewed at an evolutionary time scale. We conclude that any part of the non-coding genome can potentially become subject to evolutionary functionalization via de novo gene evolution within relatively short evolutionary time spans. |
topic |
transcriptome evolution de novo genes |
url |
https://elifesciences.org/articles/09977 |
work_keys_str_mv |
AT rafikneme fastturnoverofgenometranscriptionacrossevolutionarytimeexposesentirenoncodingdnatodenovogeneemergence AT diethardtautz fastturnoverofgenometranscriptionacrossevolutionarytimeexposesentirenoncodingdnatodenovogeneemergence |
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1721476453154947072 |