Literature DB >> 36175543

The structure of genotype-phenotype maps makes fitness landscapes navigable.

Sam F Greenbury1,2, Ard A Louis3, Sebastian E Ahnert4,5.   

Abstract

Fitness landscapes are often described in terms of 'peaks' and 'valleys', indicating an intuitive low-dimensional landscape of the kind encountered in everyday experience. The space of genotypes, however, is extremely high dimensional, which results in counter-intuitive structural properties of genotype-phenotype maps. Here we show that these properties, such as the presence of pervasive neutral networks, make fitness landscapes navigable. For three biologically realistic genotype-phenotype map models-RNA secondary structure, protein tertiary structure and protein complexes-we find that, even under random fitness assignment, fitness maxima can be reached from almost any other phenotype without passing through fitness valleys. This in turn indicates that true fitness valleys are very rare. By considering evolutionary simulations between pairs of real examples of functional RNA sequences, we show that accessible paths are also likely to be used under evolutionary dynamics. Our findings have broad implications for the prediction of natural evolutionary outcomes and for directed evolution.
© 2022. Crown.

Entities:  

Year:  2022        PMID: 36175543     DOI: 10.1038/s41559-022-01867-z

Source DB:  PubMed          Journal:  Nat Ecol Evol        ISSN: 2397-334X            Impact factor:   19.100


  38 in total

1.  M.V. Volkenstein, evolutionary thinking and the structure of fitness landscapes.

Authors:  M Conrad; W Ebeling
Journal:  Biosystems       Date:  1992       Impact factor: 1.973

Review 2.  Perspective: Sign epistasis and genetic constraint on evolutionary trajectories.

Authors:  Daniel M Weinreich; Richard A Watson; Lin Chao
Journal:  Evolution       Date:  2005-06       Impact factor: 3.694

3.  Empirical fitness landscapes reveal accessible evolutionary paths.

Authors:  Frank J Poelwijk; Daniel J Kiviet; Daniel M Weinreich; Sander J Tans
Journal:  Nature       Date:  2007-01-25       Impact factor: 49.962

Review 4.  Colloquium papers: Adaptive landscapes and protein evolution.

Authors:  Maurício Carneiro; Daniel L Hartl
Journal:  Proc Natl Acad Sci U S A       Date:  2009-09-30       Impact factor: 11.205

5.  Cryptic genetic variation accelerates evolution by opening access to diverse adaptive peaks.

Authors:  Jia Zheng; Joshua L Payne; Andreas Wagner
Journal:  Science       Date:  2019-07-26       Impact factor: 47.728

6.  On the (un)predictability of a large intragenic fitness landscape.

Authors:  Claudia Bank; Sebastian Matuszewski; Ryan T Hietpas; Jeffrey D Jensen
Journal:  Proc Natl Acad Sci U S A       Date:  2016-11-18       Impact factor: 11.205

Review 7.  Evolution in the light of fitness landscape theory.

Authors:  Inês Fragata; Alexandre Blanckaert; Marco António Dias Louro; David A Liberles; Claudia Bank
Journal:  Trends Ecol Evol       Date:  2018-12-21       Impact factor: 17.712

8.  Evolutionary accessibility of mutational pathways.

Authors:  Jasper Franke; Alexander Klözer; J Arjan G M de Visser; Joachim Krug
Journal:  PLoS Comput Biol       Date:  2011-08-18       Impact factor: 4.475

9.  Pairwise and higher-order genetic interactions during the evolution of a tRNA.

Authors:  Júlia Domingo; Guillaume Diss; Ben Lehner
Journal:  Nature       Date:  2018-05-30       Impact factor: 49.962

10.  An experimental assay of the interactions of amino acids from orthologous sequences shaping a complex fitness landscape.

Authors:  Victoria O Pokusaeva; Dinara R Usmanova; Ekaterina V Putintseva; Lorena Espinar; Karen S Sarkisyan; Alexander S Mishin; Natalya S Bogatyreva; Dmitry N Ivankov; Arseniy V Akopyan; Sergey Ya Avvakumov; Inna S Povolotskaya; Guillaume J Filion; Lucas B Carey; Fyodor A Kondrashov
Journal:  PLoS Genet       Date:  2019-04-10       Impact factor: 5.917

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