Aligning functional network constraint to evolutionary outcomes

Wollenberg Valero, Katharina C.

doi:10.1186/s12862-020-01613-8

Aligning functional network constraint to evolutionary outcomes

Wollenberg Valero, Katharina C.

Authors

Katharina C. Wollenberg Valero

Abstract

Background. Functional constraint through genomic architecture is suggested to be an important dimension of genome evolution, but quantitative evidence for this idea is rare. In this contribution, existing evidence and discussions on genomic architecture as constraint for convergent evolution, rapid adaptation, and genic adaptation are summarized into alternative, testable hypotheses. Network architecture statistics from protein-protein interaction networks are then used to calculate differences in evolutionary outcomes on the example of genomic evolution among yeast, and the results are used to evaluate statistical support for these longstanding hypotheses. Results.A discriminant function analysis lent statistical support to classifying the yeast interactome into hub, intermediate and peripheral nodes based on network neighborhood connectivity, betweenness centrality, and average shortest path length. Quantitative support for the existence of genomic architecture as mechanistic basis for evolutionary constraint is then revealed through utilizing these statistical parameters of the protein-protein interaction network in combination with estimators of protein evolution. Conclusions.As functional genetic networks are becoming increasingly available, it will now be possible to evaluate functional genetic network constraint against variables describing complex phenotypes and environments, for better understanding of commonly observed deterministic patterns of evolution in non-model organisms. The hypothesis framework and methodological approach outlined herein may help to quantify the extrinsic versus intrinsic dimensions of evolutionary constraint, and result in a better understanding of how fast, effectively, or deterministically organisms adapt.

Citation

Wollenberg Valero, K. C. (2020). Aligning functional network constraint to evolutionary outcomes. BMC evolutionary biology, 20(1), Article 58. https://doi.org/10.1186/s12862-020-01613-8

Journal Article Type	Article
Acceptance Date	Apr 15, 2020
Online Publication Date	May 24, 2020
Publication Date	May 24, 2020
Deposit Date	Apr 14, 2020
Publicly Available Date	Apr 20, 2020
Journal	BMC Evolutionary Biology
Print ISSN	1471-2148
Publisher	Springer Verlag
Peer Reviewed	Peer Reviewed
Volume	20
Issue	1
Article Number	58
DOI	https://doi.org/10.1186/s12862-020-01613-8
Keywords	Evolution; Constraint; Adaptation; Systems biology
Public URL	https://hull-repository.worktribe.com/output/1591942
Publisher URL	https://bmcevolbiol.biomedcentral.com/articles/10.1186/s12862-020-01613-8

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Copyright Statement
This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.