Effects of synonymous mutations beyond codon bias: the evidence for adaptive synonymous substitutions from microbial evolution experiments
SF Bailey, LA Alonso Morales… - Genome biology and …, 2021 - academic.oup.com
Synonymous mutations are often assumed to be neutral with respect to fitness because they
do not alter the encoded amino acid and so cannot be “seen” by natural selection. Yet a …
do not alter the encoded amino acid and so cannot be “seen” by natural selection. Yet a …
High-resolution lineage tracking reveals travelling wave of adaptation in laboratory yeast
In rapidly adapting asexual populations, including many microbial pathogens and viruses,
numerous mutant lineages often compete for dominance within the population,,,–. These …
numerous mutant lineages often compete for dominance within the population,,,–. These …
[HTML][HTML] Microbial experimental evolution in a massively multiplexed and high-throughput era
Experimental evolution with microbial model systems has transformed our understanding of
the basic rules underlying ecology and evolution. Experiments leveraging evolution as a …
the basic rules underlying ecology and evolution. Experiments leveraging evolution as a …
[HTML][HTML] Genetic diversity and evolution of viral populations
R Sanjuan, P Domingo-Calap - Encyclopedia of virology, 2021 - ncbi.nlm.nih.gov
Population genetic diversity plays a prominent role in viral evolution, pathogenesis, immune
escape, and drug resistance. Different mechanisms are responsible for creating and …
escape, and drug resistance. Different mechanisms are responsible for creating and …
Longitudinal linked-read sequencing reveals ecological and evolutionary responses of a human gut microbiome during antibiotic treatment
Gut microbial communities can respond to antibiotic perturbations by rapidly altering their
taxonomic and functional composition. However, little is known about the strain-level …
taxonomic and functional composition. However, little is known about the strain-level …
Evolutionary dynamics drives role specialization in a community of players
The progression of game theory from classical to evolutionary and spatial games provided a
powerful means to study cooperation, and enabled a better understanding of general …
powerful means to study cooperation, and enabled a better understanding of general …
Recombination resolves the cost of horizontal gene transfer in experimental populations of Helicobacter pylori
ANT Nguyen, LC Woods, R Gorrell… - Proceedings of the …, 2022 - National Acad Sciences
Horizontal gene transfer (HGT) is important for microbial evolution, yet we know little about
the fitness effects and dynamics of horizontally transferred genetic variants. In this study, we …
the fitness effects and dynamics of horizontally transferred genetic variants. In this study, we …
Epistasis facilitates functional evolution in an ancient transcription factor
A protein's genetic architecture–the set of causal rules by which its sequence produces its
functions–also determines its possible evolutionary trajectories. Prior research has …
functions–also determines its possible evolutionary trajectories. Prior research has …
Adaptation dynamics between copy-number and point mutations
Together, copy-number and point mutations form the basis for most evolutionary novelty,
through the process of gene duplication and divergence. While a plethora of genomic data …
through the process of gene duplication and divergence. While a plethora of genomic data …
Transcriptional noise and exaptation as sources for bacterial sRNAs
Understanding how new genes originate and integrate into cellular networks is key to
understanding evolution. Bacteria present unique opportunities for both the natural history …
understanding evolution. Bacteria present unique opportunities for both the natural history …