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 …

Best practices in designing, sequencing, and identifying random DNA barcodes

MS Johnson, S Venkataram, S Kryazhimskiy - Journal of molecular …, 2023 - Springer
Random DNA barcodes are a versatile tool for tracking cell lineages, with applications
ranging from development to cancer to evolution. Here, we review and critically evaluate …

The evolutionary dynamics and fitness landscape of clonal hematopoiesis

CJ Watson, AL Papula, GYP Poon, WH Wong… - Science, 2020 - science.org
Somatic mutations acquired in healthy tissues as we age are major determinants of cancer
risk. Whether variants confer a fitness advantage or rise to detectable frequencies by chance …

Mutualism-enhancing mutations dominate early adaptation in a two-species microbial community

S Venkataram, HY Kuo, EFY Hom… - Nature Ecology & …, 2023 - nature.com
Species interactions drive evolution while evolution shapes these interactions. The resulting
eco-evolutionary dynamics and their repeatability depend on how adaptive mutations …

Bacterial adaptation is constrained in complex communities

T Scheuerl, M Hopkins, RW Nowell, DW Rivett… - Nature …, 2020 - nature.com
A major unresolved question is how bacteria living in complex communities respond to
environmental changes. In communities, biotic interactions may either facilitate or constrain …

High-resolution lineage tracking reveals travelling wave of adaptation in laboratory yeast

AN Nguyen Ba, I Cvijović, JI Rojas Echenique… - Nature, 2019 - nature.com
In rapidly adapting asexual populations, including many microbial pathogens and viruses,
numerous mutant lineages often compete for dominance within the population,,,–. These …

Inheritance of somatic mutations by animal offspring

KL Vasquez Kuntz, SA Kitchen, TL Conn… - Science …, 2022 - science.org
Since 1892, it has been widely assumed that somatic mutations are evolutionarily irrelevant
in animals because they cannot be inherited by offspring. However, some nonbilaterians …

Single-cell copy number variant detection reveals the dynamics and diversity of adaptation

S Lauer, G Avecilla, P Spealman, G Sethia… - PLoS …, 2018 - journals.plos.org
Copy number variants (CNVs) are a pervasive source of genetic variation and evolutionary
potential, but the dynamics and diversity of CNVs within evolving populations remain …

Evolution, microbes, and changing ocean conditions

S Collins, PW Boyd, MA Doblin - Annual Review of Marine …, 2020 - annualreviews.org
Experimental evolution and the associated theory are underutilized in marine microbial
studies; the two fields have developed largely in isolation. Here, we review evolutionary …

Quantifying the local adaptive landscape of a nascent bacterial community

JA Ascensao, KM Wetmore, BH Good, AP Arkin… - Nature …, 2023 - nature.com
The fitness effects of all possible mutations available to an organism largely shape the
dynamics of evolutionary adaptation. Yet, whether and how this adaptive landscape …