Common principles and best practices for engineering microbiomes
Despite broad scientific interest in harnessing the power of Earth's microbiomes, knowledge
gaps hinder their efficient use for addressing urgent societal and environmental challenges …
gaps hinder their efficient use for addressing urgent societal and environmental challenges …
The emergence of adaptive laboratory evolution as an efficient tool for biological discovery and industrial biotechnology
Harnessing the process of natural selection to obtain and understand new microbial
phenotypes has become increasingly possible due to advances in culturing techniques …
phenotypes has become increasingly possible due to advances in culturing techniques …
The dynamics of molecular evolution over 60,000 generations
The outcomes of evolution are determined by a stochastic dynamical process that governs
how mutations arise and spread through a population. However, it is difficult to observe …
how mutations arise and spread through a population. However, it is difficult to observe …
[HTML][HTML] Adaptive evolution within gut microbiomes of healthy people
Natural selection shapes bacterial evolution in all environments. However, the extent to
which commensal bacteria diversify and adapt within the human gut remains unclear. Here …
which commensal bacteria diversify and adapt within the human gut remains unclear. Here …
Identification of Mutations in Laboratory-Evolved Microbes from Next-Generation Sequencing Data Using breseq
DE Deatherage, JE Barrick - Engineering and analyzing multicellular …, 2014 - Springer
Next-generation DNA sequencing (NGS) can be used to reconstruct eco-evolutionary
population dynamics and to identify the genetic basis of adaptation in laboratory evolution …
population dynamics and to identify the genetic basis of adaptation in laboratory evolution …
GUIDANCE2: accurate detection of unreliable alignment regions accounting for the uncertainty of multiple parameters
Inference of multiple sequence alignments (MSAs) is a critical part of phylogenetic and
comparative genomics studies. However, from the same set of sequences different MSAs …
comparative genomics studies. However, from the same set of sequences different MSAs …
The unexhausted potential of E. coli
ZD Blount - elife, 2015 - elifesciences.org
E. coli's hardiness, versatility, broad palate and ease of handling have made it the most
intensively studied and best understood organism on the planet. However, research on E …
intensively studied and best understood organism on the planet. However, research on E …
Tempo and mode of genome evolution in a 50,000-generation experiment
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 …
mutations, making it difficult to determine what proportion of mutations in an evolving lineage …
Within-host evolution of bacterial pathogens
Whole-genome sequencing has opened the way for investigating the dynamics and
genomic evolution of bacterial pathogens during the colonization and infection of humans …
genomic evolution of bacterial pathogens during the colonization and infection of humans …
Genomics for monitoring and understanding species responses to global climate change
All life forms across the globe are experiencing drastic changes in environmental conditions
as a result of global climate change. These environmental changes are happening rapidly …
as a result of global climate change. These environmental changes are happening rapidly …