Mechanisms of enhancer action: the known and the unknown

A Panigrahi, BW O'Malley - Genome biology, 2021 - Springer
Differential gene expression mechanisms ensure cellular differentiation and plasticity to
shape ontogenetic and phylogenetic diversity of cell types. A key regulator of differential …

Ever-changing landscapes: transcriptional enhancers in development and evolution

HK Long, SL Prescott, J Wysocka - Cell, 2016 - cell.com
A class of cis-regulatory elements, called enhancers, play a central role in orchestrating
spatiotemporally precise gene-expression programs during development. Consequently …

Changes in regeneration-responsive enhancers shape regenerative capacities in vertebrates

W Wang, CK Hu, A Zeng, D Alegre, D Hu, K Gotting… - Science, 2020 - science.org
INTRODUCTION The ability to regenerate tissues lost to damage or disease is widely but
nonuniformly distributed in vertebrates. Some animals such as teleost fishes can regenerate …

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 …

Cis-regulatory elements: molecular mechanisms and evolutionary processes underlying divergence

PJ Wittkopp, G Kalay - Nature Reviews Genetics, 2012 - nature.com
Cis-regulatory sequences, such as enhancers and promoters, control development and
physiology by regulating gene expression. Mutations that affect the function of these …

The evolution of gene expression in cis and trans

SA Signor, SV Nuzhdin - Trends in Genetics, 2018 - cell.com
There is abundant variation in gene expression between individuals, populations, and
species. The evolution of gene regulation and expression within and between species is …

The loci of repeated evolution: a catalog of genetic hotspots of phenotypic variation

A Martin, V Orgogozo - Evolution, 2013 - academic.oup.com
What is the nature of the genetic changes underlying phenotypic evolution? We have
catalogued 1008 alleles described in the literature that cause phenotypic differences among …

Comparative studies of gene expression and the evolution of gene regulation

IG Romero, I Ruvinsky, Y Gilad - Nature Reviews Genetics, 2012 - nature.com
The hypothesis that differences in gene regulation have an important role in speciation and
adaptation is more than 40 years old. With the advent of new sequencing technologies, we …

Biophysics of protein evolution and evolutionary protein biophysics

T Sikosek, HS Chan - Journal of The Royal Society …, 2014 - royalsocietypublishing.org
The study of molecular evolution at the level of protein-coding genes often entails comparing
large datasets of sequences to infer their evolutionary relationships. Despite the importance …

Social insect genomes exhibit dramatic evolution in gene composition and regulation while preserving regulatory features linked to sociality

DF Simola, L Wissler, G Donahue… - Genome …, 2013 - genome.cshlp.org
Genomes of eusocial insects code for dramatic examples of phenotypic plasticity and social
organization. We compared the genomes of seven ants, the honeybee, and various solitary …