Journal ArticleDOI
Empirical fitness landscapes and the predictability of evolution
TLDR
This work reviews recent empirical and theoretical developments of the genotype–fitness map, identifies methodological issues and organizing principles, and discusses possibilities to develop more realistic fitness landscape models.Abstract:
A central topic in biology concerns how genotypes determine phenotypes and functions of organisms that affect their evolutionary fitness. This Review discusses recent advances in the development of empirical fitness landscapes and their contribution to theoretical analyses of the predictability of evolution. The genotype–fitness map (that is, the fitness landscape) is a key determinant of evolution, yet it has mostly been used as a superficial metaphor because we know little about its structure. This is now changing, as real fitness landscapes are being analysed by constructing genotypes with all possible combinations of small sets of mutations observed in phylogenies or in evolution experiments. In turn, these first glimpses of empirical fitness landscapes inspire theoretical analyses of the predictability of evolution. Here, we review these recent empirical and theoretical developments, identify methodological issues and organizing principles, and discuss possibilities to develop more realistic fitness landscape models.read more
Citations
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Posted ContentDOI
Local adaptation mediated niche expansion in correlation with genetic richness
TL;DR: In this paper, the authors investigated the relationship between the genome, adaptation and the niche in Escherichia coli and found that local adaptation caused common niche expansion, whereas niche expansion for generality or speciality was decided by genetic richness.
Journal ArticleDOI
Geometric speed limit for acceleration by natural selection in evolutionary processes
TL;DR: In this article , the authors derived a new speed limit in population dynamics, which is a fundamental limit on the evolutionary rate, based on the correlation between the observable of interest and the growth rate.
Journal ArticleDOI
Recombination and peak jumping.
TL;DR: In this paper, the authors show that genetic recombination can be a powerful mechanism for escaping suboptimal peaks in fitness landscapes, where the optimal genotype can be generated by shuffling genes present in the population, then recombination will produce the genotype.
Proceedings ArticleDOI
Quantifying Deception: A Case Study in the Evolution of Antimicrobial Resistance
TL;DR: A discrete population model is developed to simulate within-host evolution on 19 empirical fitness landscapes of Plasmodium falciparum under different dosage levels of two anti-malarial drugs and it is shown that the proposed metrics of deception are predictive of some important aspects of evolutionary dynamics.
Posted ContentDOI
Lexical landscapes as large in silico data for examining advanced properties of fitness landscapes
TL;DR: It is argued that the greater Lexical Landscapes approach can serve as a platform that offers an astronomical number of fitness landscapes for exploration or theoretical formalism in evolutionary biology.
References
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Journal ArticleDOI
Evolution in Mendelian Populations.
TL;DR: Page 108, last line of text, for "P/P″" read "P′/ P″."
Journal ArticleDOI
Evolution in Mendelian populations
TL;DR: The frequency of a given gene in a population may be modified by a number of conditions including recurrent mutation to and from it, migration, selection of various sorts and, far from least in importance, were chance variation.
Book
Wonderful Life: The Burgess Shale and the Nature of History
TL;DR: In this article, the authors explore what the Burgess Shale tells us about evolution and the nature of history and find that it holds the remains of an ancient sea where dozens of strange creatures lived.
Journal ArticleDOI
Epistasis--the essential role of gene interactions in the structure and evolution of genetic systems.
TL;DR: There is a renewed appreciation both for the importance of studying gene interactions and for addressing these questions in a unified, quantitative manner with the advent of high-throughput functional genomics.