Mobile genetic element flexibility as an underlying principle to bacterial evolution

AJ Weisberg, JH Chang - Annual Review of Microbiology, 2023 - annualreviews.org
Mobile genetic elements are key to the evolution of bacteria and traits that affect host and
ecosystem health. Here, we use a framework of a hierarchical and modular system that …

Transcription factors: from enhancer binding to developmental control

F Spitz, EEM Furlong - Nature reviews genetics, 2012 - nature.com
Developmental progression is driven by specific spatiotemporal domains of gene
expression, which give rise to stereotypically patterned embryos even in the presence of …

Controlling gene expression with deep generative design of regulatory DNA

J Zrimec, X Fu, AS Muhammad, C Skrekas… - Nature …, 2022 - nature.com
Abstract Design of de novo synthetic regulatory DNA is a promising avenue to control gene
expression in biotechnology and medicine. Using mutagenesis typically requires screening …

An atlas of human metabolism

JL Robinson, P Kocabaş, H Wang, PE Cholley… - Science …, 2020 - science.org
Genome-scale metabolic models (GEMs) are valuable tools to study metabolism and
provide a scaffold for the integrative analysis of omics data. Researchers have developed …

[HTML][HTML] Common disease is more complex than implied by the core gene omnigenic model

NR Wray, C Wijmenga, PF Sullivan, J Yang… - Cell, 2018 - cell.com
The evidence that most adult-onset common diseases have a polygenic genetic architecture
fully consistent with robust biological systems supported by multiple back-up mechanisms is …

Systems biology and gene networks in neurodevelopmental and neurodegenerative disorders

NN Parikshak, MJ Gandal, DH Geschwind - Nature Reviews Genetics, 2015 - nature.com
Genetic and genomic approaches have implicated hundreds of genetic loci in
neurodevelopmental disorders and neurodegeneration, but mechanistic understanding …

Explaining intraspecific diversity in plant secondary metabolites in an ecological context

BD Moore, RL Andrew, C Külheim, WJ Foley - New Phytologist, 2014 - Wiley Online Library
Plant secondary metabolites (PSM s) are ubiquitous in plants and play many ecological
roles. Each compound can vary in presence and/or quantity, and the composition of the …

Evolutionary psychiatry: foundations, progress and challenges

RM Nesse - World Psychiatry, 2023 - Wiley Online Library
Evolutionary biology provides a crucial foundation for medicine and behavioral science that
has been missing from psychiatry. Its absence helps to explain slow progress; its advent …

Structural basis for DNA binding specificity by the auxin-dependent ARF transcription factors

DR Boer, A Freire-Rios, WAM Van Den Berg, T Saaki… - Cell, 2014 - cell.com
Auxin regulates numerous plant developmental processes by controlling gene expression
via a family of functionally distinct DNA-binding auxin response factors (ARFs), yet the …

[HTML][HTML] Evolvability as a function of purifying selection in TEM-1 β-lactamase

MA Stiffler, DR Hekstra, R Ranganathan - Cell, 2015 - cell.com
Evolvability—the capacity to generate beneficial heritable variation—is a central property of
biological systems. However, its origins and modulation by environmental factors have not …