Experimental design, population dynamics, and diversity in microbial experimental evolution

B Van den Bergh, T Swings, M Fauvart… - … and Molecular Biology …, 2018 - Am Soc Microbiol
In experimental evolution, laboratory-controlled conditions select for the adaptation of
species, which can be monitored in real time. Despite the current popularity of such …

Microbial experimental evolution–a proving ground for evolutionary theory and a tool for discovery

MJ McDonald - EMBO reports, 2019 - embopress.org
Microbial experimental evolution uses controlled laboratory populations to study the
mechanisms of evolution. The molecular analysis of evolved populations enables empirical …

Horizontal gene transfer potentiates adaptation by reducing selective constraints on the spread of genetic variation

LC Woods, RJ Gorrell, F Taylor… - Proceedings of the …, 2020 - National Acad Sciences
Horizontal gene transfer (HGT) confers the rapid acquisition of novel traits and is pervasive
throughout microbial evolution. Despite the central role of HGT, the evolutionary forces that …

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 …

[HTML][HTML] Evolutionary action of mutations reveals antimicrobial resistance genes in Escherichia coli

DC Marciano, C Wang, TK Hsu, T Bourquard… - Nature …, 2022 - nature.com
Since antibiotic development lags, we search for potential drug targets through directed
evolution experiments. A challenge is that many resistance genes hide in a noisy mutational …

On the networked architecture of genotype spaces and its critical effects on molecular evolution

J Aguirre, P Catalán, JA Cuesta… - Open …, 2018 - royalsocietypublishing.org
Evolutionary dynamics is often viewed as a subtle process of change accumulation that
causes a divergence among organisms and their genomes. However, this interpretation is …

[HTML][HTML] Minireview: Engineering evolution to reconfigure phenotypic traits in microbes for biotechnological applications

K Kim, M Kang, SH Cho, E Yoo, UG Kim, S Cho… - Computational and …, 2023 - Elsevier
Adaptive laboratory evolution (ALE) has long been used as the tool of choice for microbial
engineering applications, ranging from the production of commodity chemicals to the …

No genome is an island: toward a 21st century agenda for evolution

JA Shapiro - Annals of the New York Academy of Sciences, 2019 - Wiley Online Library
Conventional 20th century evolution thinking was based on the idea of isolated genomes for
each species. Any possibility of life‐history inputs to the germ line was strictly excluded by …

Divergent Evolution of Mutation Rates and Biases in the Long-Term Evolution Experiment with Escherichia coli

R Maddamsetti, NA Grant - Genome biology and evolution, 2020 - academic.oup.com
All organisms encode enzymes that replicate, maintain, pack, recombine, and repair their
genetic material. For this reason, mutation rates and biases also evolve by mutation …

[HTML][HTML] Inactivation of a Mismatch-Repair System Diversifies Genotypic Landscape of Escherichia coli During Adaptive Laboratory Evolution

M Kang, K Kim, D Choe, S Cho, SC Kim… - Frontiers in …, 2019 - frontiersin.org
Adaptive laboratory evolution (ALE) is used to find causal mutations that underlie improved
strain performance under the applied selection pressure. ALE studies have revealed that …