Improving industrial yeast strains: exploiting natural and artificial diversity

J Steensels, T Snoek, E Meersman… - FEMS microbiology …, 2014 - academic.oup.com
Yeasts have been used for thousands of years to make fermented foods and beverages,
such as beer, wine, sake, and bread. However, the choice for a particular yeast strain or …

Variation in the mutation rate across mammalian genomes

A Hodgkinson, A Eyre-Walker - Nature reviews genetics, 2011 - nature.com
It has been known for many years that the mutation rate varies across the genome. However,
only with the advent of large genomic data sets is the full extent of this variation becoming …

Quantitative evolutionary dynamics using high-resolution lineage tracking

SF Levy, JR Blundell, S Venkataram, DA Petrov… - Nature, 2015 - nature.com
Evolution of large asexual cell populations underlies∼ 30% of deaths worldwide, including
those caused by bacteria, fungi, parasites, and cancer. However, the dynamics underlying …

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 …

Global epistasis makes adaptation predictable despite sequence-level stochasticity

S Kryazhimskiy, DP Rice, ER Jerison, MM Desai - Science, 2014 - science.org
Epistatic interactions between mutations can make evolutionary trajectories contingent on
the chance occurrence of initial mutations. We used experimental evolution in …

Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis

CB Ford, RR Shah, MK Maeda, S Gagneux… - Nature …, 2013 - nature.com
A key question in tuberculosis control is why some strains of M. tuberculosis are
preferentially associated with resistance to multiple drugs. We demonstrate that M …

Precise estimates of mutation rate and spectrum in yeast

YO Zhu, ML Siegal, DW Hall… - Proceedings of the …, 2014 - National Acad Sciences
Mutation is the ultimate source of genetic variation. The most direct and unbiased method of
studying spontaneous mutations is via mutation accumulation (MA) lines. Until recently, MA …

A genome-wide view of the spectrum of spontaneous mutations in yeast

M Lynch, W Sung, K Morris, N Coffey… - Proceedings of the …, 2008 - National Acad Sciences
The mutation process ultimately defines the genetic features of all populations and, hence,
has a bearing on a wide range of issues involving evolutionary genetics, inheritance, and …

Evolutionary rescue can prevent extinction following environmental change

G Bell, A Gonzalez - Ecology letters, 2009 - Wiley Online Library
The ubiquity of global change and its impacts on biodiversity poses a clear and urgent
challenge for evolutionary biologists. In many cases, environmental change is so …

Tuberculosis treatment failure associated with evolution of antibiotic resilience

Q Liu, J Zhu, CL Dulberger, S Stanley, S Wilson… - Science, 2022 - science.org
The widespread use of antibiotics has placed bacterial pathogens under intense pressure to
evolve new survival mechanisms. Genomic analysis of 51,229 Mycobacterium tuberculosis …