Genetic load: genomic estimates and applications in non-model animals

G Bertorelle, F Raffini, M Bosse, C Bortoluzzi… - Nature Reviews …, 2022 - nature.com
Genetic variation, which is generated by mutation, recombination and gene flow, can reduce
the mean fitness of a population, both now and in the future. This 'genetic load'has been …

Codon optimality, bias and usage in translation and mRNA decay

G Hanson, J Coller - Nature reviews Molecular cell biology, 2018 - nature.com
The advent of ribosome profiling and other tools to probe mRNA translation has revealed
that codon bias—the uneven use of synonymous codons in the transcriptome—serves as a …

Mega-scale experimental analysis of protein folding stability in biology and design

K Tsuboyama, J Dauparas, J Chen, E Laine… - Nature, 2023 - nature.com
Advances in DNA sequencing and machine learning are providing insights into protein
sequences and structures on an enormous scale. However, the energetics driving folding …

Pathways of cellular proteostasis in aging and disease

CL Klaips, GG Jayaraj, FU Hartl - Journal of Cell Biology, 2018 - rupress.org
Ensuring cellular protein homeostasis, or proteostasis, requires precise control of protein
synthesis, folding, conformational maintenance, and degradation. A complex and adaptive …

Oxidative stress in bacteria and the central dogma of molecular biology

M Fasnacht, N Polacek - Frontiers in Molecular Biosciences, 2021 - frontiersin.org
Ever since the “great oxidation event,” Earth's cellular life forms had to cope with the danger
of reactive oxygen species (ROS) affecting the integrity of biomolecules and hampering …

Fitness costs of plasmids: a limit to plasmid transmission

A San Millan, RC MacLean - Microbiology spectrum, 2017 - Am Soc Microbiol
Plasmids mediate the horizontal transmission of genetic information between bacteria,
facilitating their adaptation to multiple environmental conditions. An especially important …

[HTML][HTML] Codon optimality is a major determinant of mRNA stability

V Presnyak, N Alhusaini, YH Chen, S Martin, N Morris… - Cell, 2015 - cell.com
Summary mRNA degradation represents a critical regulated step in gene expression.
Although the major pathways in turnover have been identified, accounting for disparate half …

Codon bias as a means to fine-tune gene expression

TEF Quax, NJ Claassens, D Söll, J van der Oost - Molecular cell, 2015 - cell.com
The redundancy of the genetic code implies that most amino acids are encoded by multiple
synonymous codons. In all domains of life, a biased frequency of synonymous codons is …

Codon usage influences the local rate of translation elongation to regulate co-translational protein folding

CH Yu, Y Dang, Z Zhou, C Wu, F Zhao, MS Sachs… - Molecular cell, 2015 - cell.com
Codon usage bias is a universal feature of eukaryotic and prokaryotic genomes and has
been proposed to regulate translation efficiency, accuracy, and protein folding based on the …

Cell-wide analysis of protein thermal unfolding reveals determinants of thermostability

P Leuenberger, S Ganscha, A Kahraman, V Cappelletti… - Science, 2017 - science.org
INTRODUCTION Temperature is crucially important to life. Small temperature changes can
differentiate optimal and lethal growth conditions of living organisms. Because of the higher …