Spatially induced nestedness in a neutral model of phage-bacteria networks

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• dc.contributor.author Valverde, Sergi
• dc.contributor.author Elena, Santiago F.
• dc.contributor.author Solé Vicente, Ricard, 1962-
• dc.date.accessioned 2025-01-20T07:35:18Z
• dc.date.available 2025-01-20T07:35:18Z
• dc.date.issued 2017
• dc.description.abstract Ecological networks, both displaying mutualistic or antagonistic interactions, seem to share common structural traits: the presence of nestedness and modularity. A variety of model approaches and hypothesis have been formulated concerning the significance and implications of these properties. In phage-bacteria bipartite infection networks, nestedness seems to be the rule in many different contexts. Modeling the coevolution of a diverse virus–host ensemble is a difficult task, given the dimensionality and multi parametric nature of a standard continuous approximation. Here, we take a different approach, by using a neutral, toy model of host–phage interactions on a spatial lattice. Each individual is represented by a bit string (a digital genome) but all strings in each class (i.e. hosts or phages) share the same sets of parameters. A matching allele model of phage-virus recognition rule is enough to generate a complex, diverse ecosystem with heterogeneous patterns of interaction and nestedness, provided that interactions take place under a spatially constrained setting. It is found that nestedness seems to be an emergent property of the co-evolutionary dynamics. Our results indicate that the enhanced diversity resulting from localized interactions strongly promotes the presence of nested infection matrices.en
• dc.description.sponsorship The authors would like to thank the members of the Complex Systems Lab and our colleagues at the Santa Fe Institute for fruitful discussions. This work has been supported by the Botin Foundation by Banco Santander through its Santander Universities Global Division. This work was supported by the grants BFU2015-65037-P (S.F.E.) and FIS2016-77447-R (S.V.) from Spain Ministerio de Economía, Industria y Competitividad, AEI/MINEICO/FEDER and UE. The authors also thank the Santa Fe Institute, where most of this work was done.en
• dc.format.mimetype application/pdf
• dc.identifier.citation Valverde S, Elena SF, Solé R. Spatially induced nestedness in a neutral model of phage-bacteria networks. Virus Evolution. 2017 Jul;3(2):vex021. DOI: 10.1093/ve/vex021
• dc.identifier.doi http://dx.doi.org/10.1093/ve/vex021
• dc.identifier.issn 2057-1577
• dc.identifier.uri http://hdl.handle.net/10230/69182
• dc.language.iso eng
• dc.publisher Oxford University Press
• dc.relation.ispartof Virus Evolution. 2017 Jul;3(2):vex021
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/FIS2016-77447-R
• dc.relation.projectID info:eu-repo/grantAgreement/ES/1PE/BFU2015-65037-P
• dc.rights © The Author 2017. Published by Oxford University Press. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
• dc.rights.accessRights info:eu-repo/semantics/openAccess
• dc.rights.uri http://creativecommons.org/licenses/by-nc/4.0/
• dc.subject.keyword Nested networksen
• dc.subject.keyword Coevolutionen
• dc.subject.keyword Virus–host interactionsen
• dc.subject.keyword Matching allele dynamicsen
• dc.title Spatially induced nestedness in a neutral model of phage-bacteria networksen
• dc.type info:eu-repo/semantics/article
• dc.type.version info:eu-repo/semantics/publishedVersion