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High-order epistasis shapes evolutionary trajectories [PDF]
PLoS Computational Biology, 2017 High-order epistasis-where the effect of a mutation is determined by interactions with two or more other mutations-makes small, but detectable, contributions to genotype-fitness maps. While epistasis between pairs of mutations is known to be an important
Michael J Harms, Zachary R Sailer
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Pervasive epistasis exposes intramolecular networks in adaptive enzyme evolution
Nature Communications, 2023 Enzyme evolution is characterized by constant alterations of the intramolecular residue networks supporting their functions. The rewiring of these network interactions can give rise to epistasis.
Charlotte M Miton +2 more
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Free energy perturbations in enzyme kinetic models reveal cryptic epistasis. [PDF]
PLoS Computational BiologyEpistasis-the context-dependence of mutational effects-is a key driver of protein evolution, influencing adaptive pathways and functional diversity.
Karol Buda, Nobuhiko Tokuriki
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Function-specific epistasis shapes evolutionary trajectories towards antibiotic resistance [PDF]
Nature CommunicationsPre-existing mutations can influence subsequent evolution by constraining or opening evolutionary pathways through epistatic interactions. In some cases, global epistasis allows evolutionary pathways to be predicted from the fitness of the genetic ...
Gabriela Petrungaro +4 more
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Functional bottlenecks can emerge from non-epistatic underlying traits. [PDF]
PLoS Computational BiologyProtein fitness landscapes frequently exhibit epistasis, where the effect of a mutation depends on the genetic context in which it occurs, i.e., the rest of the protein sequence.
Anna Ottavia Schulte +3 more
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Global epistasis emerges from a generic model of a complex trait
eLife, 2021 Epistasis between mutations can make adaptation contingent on evolutionary history. Yet despite widespread ‘microscopic’ epistasis between the mutations involved, microbial evolution experiments show consistent patterns of fitness increase between ...
Gautam Reddy, Michael M Desai
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Emergence and propagation of epistasis in metabolic networks
eLife, 2021 Epistasis is often used to probe functional relationships between genes, and it plays an important role in evolution. However, we lack theory to understand how functional relationships at the molecular level translate into epistasis at the level of whole-
Sergey Kryazhimskiy
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A network model for the correlation between epistasis and genomic complexity. [PDF]
PLoS ONE, 2008 The study of genetic interactions (epistasis) is central to the understanding of genome organization and evolution. A general correlation between epistasis and genomic complexity has been recently shown, such that in simpler genomes epistasis is ...
Rafael Sanjuán, Miguel R Nebot
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Biomolecules, 2023 The accuracy of predicting seven human phenotypes of 3657–7564 individuals using global epistasis effects was evaluated and compared to the accuracy of haplotype genomic prediction using 380,705 SNPs and 10-fold cross-validation studies.
Zuoxiang Liang +2 more
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PyToxo: a Python tool for calculating penetrance tables of high-order epistasis models
BMC Bioinformatics, 2022 Background Epistasis is the interaction between different genes when expressing a certain phenotype. If epistasis involves more than two loci it is called high-order epistasis. High-order epistasis is an area under active research because it could be the
Borja González-Seoane +3 more
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