dorsal/arxiv
View SchemaHierarchy and Feedback in the Evolution of the E. coli Transcription Network
| Authors | M. Cosentino Lagomarsino, P. Jona, B. Bassetti, H. Isambert |
|---|---|
| Categories | |
| ArXiv ID | q-bio/0701035 |
| URL | https://arxiv.org/abs/q-bio/0701035 |
| DOI | 10.1073/pnas.0609023104 |
Abstract
The E.coli transcription network has an essentially feedforward structure, with, however, abundant feedback at the level of self-regulations. Here, we investigate how these properties emerged during evolution. An assessment of the role of gene duplication based on protein domain architecture shows that (i) transcriptional autoregulators have mostly arisen through duplication, while (ii) the expected feedback loops stemming from their initial cross-regulation are strongly selected against. This requires a divergent coevolution of the transcription factor DNA-binding sites and their respective DNA cis-regulatory regions. Moreover, we find that the network tends to grow by expansion of the existing hierarchical layers of computation, rather than by addition of new layers. We also argue that rewiring of regulatory links due to mutation/selection of novel transcription factor/DNA binding interactions appears not to significantly affect the network global hierarchy, and that horizontally transferred genes are mainly added at the bottom, as new target nodes. These findings highlight the important evolutionary roles of both duplication and selective deletion of crosstalks between autoregulators in the emergence of the hierarchical transcription network of E.coli.
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"abstract": "The E.coli transcription network has an essentially feedforward structure,\nwith, however, abundant feedback at the level of self-regulations. Here, we\ninvestigate how these properties emerged during evolution. An assessment of the\nrole of gene duplication based on protein domain architecture shows that (i)\ntranscriptional autoregulators have mostly arisen through duplication, while\n(ii) the expected feedback loops stemming from their initial cross-regulation\nare strongly selected against. This requires a divergent coevolution of the\ntranscription factor DNA-binding sites and their respective DNA cis-regulatory\nregions. Moreover, we find that the network tends to grow by expansion of the\nexisting hierarchical layers of computation, rather than by addition of new\nlayers. We also argue that rewiring of regulatory links due to\nmutation/selection of novel transcription factor/DNA binding interactions\nappears not to significantly affect the network global hierarchy, and that\nhorizontally transferred genes are mainly added at the bottom, as new target\nnodes. These findings highlight the important evolutionary roles of both\nduplication and selective deletion of crosstalks between autoregulators in the\nemergence of the hierarchical transcription network of E.coli.",
"arxiv_id": "q-bio/0701035",
"authors": [
"M. Cosentino Lagomarsino",
"P. Jona",
"B. Bassetti",
"H. Isambert"
],
"categories": [
"q-bio.MN",
"q-bio.QM"
],
"doi": "10.1073/pnas.0609023104",
"title": "Hierarchy and Feedback in the Evolution of the E. coli Transcription Network",
"url": "https://arxiv.org/abs/q-bio/0701035"
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