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Aligning functional network constraint to evolutionary outcomes

Valero, Katharina Wollenberg

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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.

Journal Article Type Article
Journal BMC evolutionary biology
Print ISSN 1471-2148
Publisher Springer Verlag
Peer Reviewed Peer Reviewed
Volume 20
Article Number 58
APA6 Citation Valero, K. W. (in press). Aligning functional network constraint to evolutionary outcomes. BMC evolutionary biology, 20, https://doi.org/10.1186/s12862-020-01613-8
DOI https://doi.org/10.1186/s12862-020-01613-8
Keywords Evolution; Constraint; Adaptation; Systems biology
Publisher URL https://bmcevolbiol.biomedcentral.com/articles/10.1186/s12862-020-01613-8

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Copyright Statement
© The Author(s). 2020. Open Access. This article is licensed under a Creative Commons Attribution 4.0 International License,
which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain
permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. 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 in a credit line to the data.





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