User profiles for Joshua L. Payne

Joshua L. Payne

Principal Scientist, pRED Roche
Verified email at env.ethz.ch
Cited by 1912

The causes of evolvability and their evolution

JL Payne, A Wagner - Nature Reviews Genetics, 2019 - nature.com
Evolvability is the ability of a biological system to produce phenotypic variation that is both
heritable and adaptive. It has long been the subject of anecdotal observations and theoretical …

The robustness and evolvability of transcription factor binding sites

JL Payne, A Wagner - Science, 2014 - science.org
Robustness, the maintenance of a character in the presence of genetic change, can help
preserve adaptive traits but also may hinder evolvability, the ability to bring forth novel …

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

J Zheng, JL Payne, A Wagner - Science, 2019 - science.org
Cryptic genetic variation can facilitate adaptation in evolving populations. To elucidate the
underlying genetic mechanisms, we used directed evolution in Escherichia coli to accumulate …

A thousand empirical adaptive landscapes and their navigability

J Aguilar-Rodríguez, JL Payne, A Wagner - Nature ecology & evolution, 2017 - nature.com
The adaptive landscape is an iconic metaphor that pervades evolutionary biology. It was
mostly applied in theoretical models until recent years, when empirical data began to allow …

[HTML][HTML] Mechanisms of mutational robustness in transcriptional regulation

JL Payne, A Wagner - Frontiers in Genetics, 2015 - frontiersin.org
Robustness is the invariance of a phenotype in the face of environmental or genetic change.
The phenotypes produced by transcriptional regulatory circuits are gene expression …

Mutation bias shapes the spectrum of adaptive substitutions

…, DM McCandlish, JL Payne - Proceedings of the …, 2022 - National Acad Sciences
Evolutionary adaptation often occurs by the fixation of beneficial mutations. This mode of
adaptation can be characterized quantitatively by a spectrum of adaptive substitutions, ie, a …

[HTML][HTML] From genotypes to organisms: State-of-the-art and perspectives of a cornerstone in evolutionary dynamics

…, BS Khatri, J Krug, AA Louis, NS Martin, JL Payne… - Physics of Life …, 2021 - Elsevier
Understanding how genotypes map onto phenotypes, fitness, and eventually organisms is
arguably the next major missing piece in a fully predictive theory of evolution. We refer to this …

[HTML][HTML] Transition bias influences the evolution of antibiotic resistance in Mycobacterium tuberculosis

JL Payne, F Menardo, A Trauner, S Borrell… - PLoS …, 2019 - journals.plos.org
Transition bias, an overabundance of transitions relative to transversions, has been widely
reported among studies of the rates and spectra of spontaneous mutations. However, …

Robustness, evolvability, and the logic of genetic regulation

JL Payne, JH Moore, A Wagner - Artificial life, 2014 - direct.mit.edu
In gene regulatory circuits, the expression of individual genes is commonly modulated by a
set of regulating gene products, which bind to a gene's cis-regulatory region. This region …

Analysis of a threshold model of social contagion on degree-correlated networks

PS Dodds, JL Payne - Physical Review E, 2009 - APS
We analytically determine when a range of abstract social contagion models permit global
spreading from a single seed on degree-correlated undirected random networks. We deduce …