The population genetics of pathogenic Escherichia coli

E Denamur, O Clermont, S Bonacorsi… - Nature Reviews …, 2021 - nature.com
Escherichia coli is a commensal of the vertebrate gut that is increasingly involved in various
intestinal and extra-intestinal infections as an opportunistic pathogen. Numerous pathotypes …

The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology

TE Sandberg, MJ Salazar, LL Weng, BO Palsson… - Metabolic …, 2019 - Elsevier
Harnessing the process of natural selection to obtain and understand new microbial
phenotypes has become increasingly possible due to advances in culturing techniques …

Mutation rate of SARS-CoV-2 and emergence of mutators during experimental evolution

M Amicone, V Borges, MJ Alves, J Isidro… - … medicine, and public …, 2022 - academic.oup.com
Background and objectives To understand how organisms evolve, it is fundamental to study
how mutations emerge and establish. Here, we estimated the rate of mutation accumulation …

Evolutionary genomics can improve prediction of species' responses to climate change

AM Waldvogel, B Feldmeyer, G Rolshausen… - Evolution …, 2020 - academic.oup.com
Global climate change (GCC) increasingly threatens biodiversity through the loss of species,
and the transformation of entire ecosystems. Many species are challenged by the pace of …

A comprehensive, CRISPR-based functional analysis of essential genes in bacteria

JM Peters, A Colavin, H Shi, TL Czarny, MH Larson… - Cell, 2016 - cell.com
Essential gene functions underpin the core reactions required for cell viability, but their
contributions and relationships are poorly studied in vivo. Using CRISPR interference, we …

Escherichia coli as a host for metabolic engineering

S Pontrelli, TY Chiu, EI Lan, FYH Chen, P Chang… - Metabolic …, 2018 - Elsevier
Over the past century, Escherichia coli has become one of the best studied organisms on
earth. Features such as genetic tractability, favorable growth conditions, well characterized …

Ecological genomics of local adaptation

O Savolainen, M Lascoux, J Merilä - Nature Reviews Genetics, 2013 - nature.com
It is increasingly important to improve our understanding of the genetic basis of local
adaptation because of its relevance to climate change, crop and animal production, and …

Genome-wide map** of mutations at single-nucleotide resolution for protein, metabolic and genome engineering

AD Garst, MC Bassalo, G Pines, SA Lynch… - Nature …, 2017 - nature.com
Improvements in DNA synthesis and sequencing have underpinned comprehensive
assessment of gene function in bacteria and eukaryotes. Genome-wide analyses require …

Tempo and mode of genome evolution in a 50,000-generation experiment

O Tenaillon, JE Barrick, N Ribeck, DE Deatherage… - Nature, 2016 - nature.com
Adaptation by natural selection depends on the rates, effects and interactions of many
mutations, making it difficult to determine what proportion of mutations in an evolving lineage …

The effects of temperature on cellular physiology

BD Knapp, KC Huang - Annual Review of Biophysics, 2022 - annualreviews.org
Temperature impacts biological systems across all length and timescales. Cells and the
enzymes that comprise them respond to temperature fluctuations on short timescales, and …