[HTML][HTML] In vivo hypermutation and continuous evolution

RS Molina, G Rix, AA Mengiste, B Álvarez… - Nature Reviews …, 2022 - nature.com
Directed evolution has revolutionized biomolecular engineering by applying cycles of
mutation, amplification and selection to genes of interest (GOIs). However, classical directed …

Evolutionary pathways and trajectories in antibiotic resistance

F Baquero, JL Martinez, V F. Lanza… - Clinical Microbiology …, 2021 - Am Soc Microbiol
Evolution is the hallmark of life. Descriptions of the evolution of microorganisms have
provided a wealth of information, but knowledge regarding “what happened” has precluded …

The evolution, evolvability and engineering of gene regulatory DNA

ED Vaishnav, CG de Boer, J Molinet, M Yassour, L Fan… - Nature, 2022 - nature.com
Mutations in non-coding regulatory DNA sequences can alter gene expression, organismal
phenotype and fitness,–. Constructing complete fitness landscapes, in which DNA …

(Non) parallel evolution

DI Bolnick, RDH Barrett, KB Oke… - Annual Review of …, 2018 - annualreviews.org
Parallel evolution across replicate populations has provided evolutionary biologists with
iconic examples of adaptation. When multiple populations colonize seemingly similar …

Empirical fitness landscapes and the predictability of evolution

JAGM De Visser, J Krug - Nature Reviews Genetics, 2014 - nature.com
The genotype–fitness map (that is, the fitness landscape) is a key determinant of evolution,
yet it has mostly been used as a superficial metaphor because we know little about its …

[HTML][HTML] Scalable, continuous evolution of genes at mutation rates above genomic error thresholds

A Ravikumar, GA Arzumanyan, MKA Obadi… - Cell, 2018 - cell.com
Directed evolution is a powerful approach for engineering biomolecules and understanding
adaptation. However, experimental strategies for directed evolution are notoriously labor …

Evolutionary mechanisms shaping the maintenance of antibiotic resistance

P Durão, R Balbontín, I Gordo - Trends in microbiology, 2018 - cell.com
Antibiotics target essential cellular functions but bacteria can become resistant by acquiring
either exogenous resistance genes or chromosomal mutations. Resistance mutations …

[HTML][HTML] Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently

A Currin, N Swainston, PJ Day, DB Kell - Chemical Society Reviews, 2015 - pubs.rsc.org
The amino acid sequence of a protein affects both its structure and its function. Thus, the
ability to modify the sequence, and hence the structure and activity, of individual proteins in …

[HTML][HTML] Cancer evolution and the limits of predictability in precision cancer medicine

KA Lipinski, LJ Barber, MN Davies, M Ashenden… - Trends in cancer, 2016 - cell.com
The ability to predict the future behavior of an individual cancer is crucial for precision
cancer medicine. The discovery of extensive intratumor heterogeneity and ongoing clonal …

The geologic history of primary productivity

PW Crockford, YMB On, LM Ward, R Milo, I Halevy - Current Biology, 2023 - cell.com
The rate of primary productivity is a keystone variable in driving biogeochemical cycles
today and has been throughout Earth's past. 1 For example, it plays a critical role in …