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Substitution Rate Analysis and Molecular Evolution

Bromham, Lindell

Description

The study of the tempo and mode of molecular evolution has played a key role in evolutionary biology, both as a stimulant for theoretical enrichment and as the foundation of useful analytical tools. When protein and DNA sequences were first produced, the surprising constancy of rates of change brought molecular evolution into conflict with mainstream evolutionary biology, but also stimulated the formation of new theoretical understanding of the processes of genetic change, including the...[Show more]

dc.contributor.authorBromham, Lindell
dc.contributor.editorScornavacca, C
dc.contributor.editorDelsuc, F
dc.contributor.editorGaltier, N
dc.date.accessioned2023-01-25T03:08:48Z
dc.date.available2023-01-25T03:08:48Z
dc.identifier.isbn978-2-9575069-0-3
dc.identifier.urihttp://hdl.handle.net/1885/283968
dc.description.abstractThe study of the tempo and mode of molecular evolution has played a key role in evolutionary biology, both as a stimulant for theoretical enrichment and as the foundation of useful analytical tools. When protein and DNA sequences were first produced, the surprising constancy of rates of change brought molecular evolution into conflict with mainstream evolutionary biology, but also stimulated the formation of new theoretical understanding of the processes of genetic change, including the recognition of the role of neutral mutations and genetic drift in genomic evolution. As more data were collected, it became clear that there were systematic differences in the substitution rate between species, which prompted further elaboration of ideas such as the generation time effect and the nearly neutral theory. Comparing substitution rates between species continues to provide a window on fundamental evolutionary processes. However, investigating patterns of substitution rates requires attention to potential complicating factors such as the phylogenetic non-independence of rates estimates and the time-dependence of measurement error. This chapter compares different analytical approaches to study the tempo and mode of molecular evolution, and considers the way a richer biological understanding of the causes of variation in substitution rate might inform our attempts to use molecular data to uncover evolutionary history.
dc.format.mimetypeapplication/pdf
dc.language.isoen_AU
dc.publisherOnline
dc.relation.ispartofPhylogenetics in the Genomic Era
dc.relation.isversionof1st Edition
dc.rights© 2021 The authors
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/
dc.titleSubstitution Rate Analysis and Molecular Evolution
dc.typeBook chapter
local.description.notesImported from ARIES
local.description.refereedYes
dc.date.issued2020
local.identifier.absfor310410 - Phylogeny and comparative analysis
local.identifier.absfor310400 - Evolutionary biology
local.identifier.ariespublicationu9511635xPUB2161
local.publisher.urlhttps://hal.inria.fr/
local.type.statusPublished Version
local.contributor.affiliationBromham, Lindell, College of Science, ANU
local.bibliographicCitation.startpage4.4:1
local.bibliographicCitation.lastpage4.4:21
dc.date.updated2021-11-28T07:37:44Z
local.bibliographicCitation.placeofpublicationFrance
dcterms.accessRightsOpen Access
dc.provenanceThis work is licensed under a Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International license (CC BY-NC-ND 4.0, https://creativecommons.org/licenses/by-nc-nd/4.0/). In brief, this license authorizes each and everybody to share (to copy, distribute and transmit) the work under the following conditions, without impairing or restricting the authors’ moral rights: Attribution — You must give appropriate credit, provide a link to the license, and indicate if changes were made. You may do so in any reasonable manner, but not in any way that suggests the licensor endorses you or your use. NonCommercial — You may not use the material for commercial purposes. NoDerivatives — If you remix, transform, or build upon the material, you may not distribute the modified material.
dc.rights.licenseCreative Commons Attribution licence
CollectionsANU Research Publications

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