Epistasis and adaptation on fitness landscapes

C Bank - Annual Review of Ecology, Evolution, and Systematics, 2022 - annualreviews.org
Epistasis occurs when the effect of a mutation depends on its carrier's genetic background.
Despite increasing evidence that epistasis for fitness is common, its role during evolution is …

Empirical fitness landscapes and the predictability of evolution

JAGM De Visser, J Krug - Nature Reviews Genetics, 2014 - nature.com
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 …

Statistically learning the functional landscape of microbial communities

A Skwara, K Gowda, M Yousef… - Nature ecology & …, 2023 - nature.com
Microbial consortia exhibit complex functional properties in contexts ranging from soils to
bioreactors to human hosts. Understanding how community composition determines …

A rugged yet easily navigable fitness landscape

A Papkou, L Garcia-Pastor, JA Escudero, A Wagner - Science, 2023 - science.org
Fitness landscape theory predicts that rugged landscapes with multiple peaks impair
Darwinian evolution, but experimental evidence is limited. In this study, we used genome …

Long-term dynamics of adaptation in asexual populations

MJ Wiser, N Ribeck, RE Lenski - Science, 2013 - science.org
Experimental studies of evolution have increased greatly in number in recent years,
stimulated by the growing power of genomic tools. However, organismal fitness remains the …

Adaptation in protein fitness landscapes is facilitated by indirect paths

NC Wu, L Dai, CA Olson, JO Lloyd-Smith, R Sun - Elife, 2016 - elifesciences.org
The structure of fitness landscapes is critical for understanding adaptive protein evolution.
Previous empirical studies on fitness landscapes were confined to either the neighborhood …

Inferring the shape of global epistasis

J Otwinowski, DM McCandlish, JB Plotkin - Proceedings of the National …, 2018 - pnas.org
Genotype–phenotype relationships are notoriously complicated. Idiosyncratic interactions
between specific combinations of mutations occur and are difficult to predict. Yet it is …

Evolution in the light of fitness landscape theory

I Fragata, A Blanckaert, MAD Louro, DA Liberles… - Trends in ecology & …, 2019 - cell.com
By formalizing the relationship between genotype or phenotype and fitness, fitness
landscapes harbor information on molecular and evolutionary constraints. The shape of the …

Protein engineering via Bayesian optimization-guided evolutionary algorithm and robotic experiments

R Hu, L Fu, Y Chen, J Chen, Y Qiao… - Briefings in …, 2023 - academic.oup.com
Directed protein evolution applies repeated rounds of genetic mutagenesis and phenotypic
screening and is often limited by experimental throughput. Through in silico prioritization of …

Should evolutionary geneticists worry about higher-order epistasis?

DM Weinreich, Y Lan, CS Wylie… - Current opinion in …, 2013 - Elsevier
Natural selection drives evolving populations up the fitness landscape, the projection from
nucleotide sequence space to organismal reproductive success. While it has long been …