Sign epistasis caused by hierarchy within signalling cascades [PDF]
Nature Communications, 2018 Sign epistasis clearly constrains evolution, but its causes are difficult to decipher. Here, the authors study epistasis in a signalling cascade, and arrive at a general criterion and understanding of sign epistasis as arising from the inherent hierarchy
Philippe Nghe +2 more
doaj +8 more sources
Pervasive sign epistasis between conjugative plasmids and drug-resistance chromosomal mutations. [PDF]
PLoS Genetics, 2011 Multidrug-resistant bacteria arise mostly by the accumulation of plasmids and chromosomal mutations. Typically, these resistant determinants are costly to the bacterial cell.
Rui F Silva +6 more
doaj +7 more sources
Mechanistic causes of sign epistasis and its applications [PDF]
Frontiers in GeneticsMapping genetic variations to phenotypic variations poses a significant challenge, as mutations often combine unexpectedly, diverging from assumed additive effects even in the same environment.
Jinqiu Zhang +5 more
doaj +6 more sources
Magnitude and sign epistasis among deleterious mutations in a positive-sense plant RNA virus [PDF]
Heredity, 2012 How epistatic interactions between mutations determine the genetic architecture of fitness is of central importance in evolution. The study of epistasis is particularly interesting for RNA viruses because of their genomic compactness, lack of genetic ...
Santiago F Elena
exaly +10 more sources
Reciprocal sign epistasis between frequently experimentally evolved adaptive mutations causes a rugged fitness landscape. [PDF]
PLoS Genetics, 2011 The fitness landscape captures the relationship between genotype and evolutionary fitness and is a pervasive metaphor used to describe the possible evolutionary trajectories of adaptation.
Daniel J Kvitek, Gavin Sherlock
doaj +7 more sources
Orthogonal Decomposition of the Genetic Variance for Epistatic Traits Under Linkage Disequilibrium—Applications to the Analysis of Bateson-Dobzhansky-Müller Incompatibilities and Sign Epistasis [PDF]
Frontiers in Genetics, 2019 The one-century-old theory of orthogonal genetic variance decomposition originated the field of quantitative genetics and has kept on being improved ever since.
José M. Álvarez-Castro +1 more
doaj +7 more sources
Mapping the fitness landscape of gene expression uncovers the cause of antagonism and sign epistasis between adaptive mutations. [PDF]
PLoS Genetics, 2014 How do adapting populations navigate the tensions between the costs of gene expression and the benefits of gene products to optimize the levels of many genes at once?
Hsin-Hung Chou +3 more
doaj +8 more sources
On the mechanistic nature of epistasis in a canonical cis-regulatory element [PDF]
eLife, 2017 Understanding the relation between genotype and phenotype remains a major challenge. The difficulty of predicting individual mutation effects, and particularly the interactions between them, has prevented the development of a comprehensive theory that ...
Mato Lagator +4 more
doaj +7 more sources
Multidimensional epistasis and the transitory advantage of sex. [PDF]
PLoS Computational Biology, 2014 Identifying and quantifying the benefits of sex and recombination is a long-standing problem in evolutionary theory. In particular, contradictory claims have been made about the existence of a benefit of recombination on high dimensional fitness ...
Stefan Nowak +3 more
doaj +5 more sources
Direct coupling analysis of epistasis in allosteric materials.
PLoS Computational Biology, 2020 In allosteric proteins, the binding of a ligand modifies function at a distant active site. Such allosteric pathways can be used as target for drug design, generating considerable interest in inferring them from sequence alignment data.
Barbara Bravi +3 more
doaj +2 more sources