Directed evolution: methodologies and applications

Y Wang, P Xue, M Cao, T Yu, ST Lane… - Chemical reviews, 2021 - ACS Publications
Directed evolution aims to expedite the natural evolution process of biological molecules
and systems in a test tube through iterative rounds of gene diversifications and library …

Genome‐scale engineering for systems and synthetic biology

KM Esvelt, HH Wang - Molecular systems biology, 2013 - embopress.org
Genome‐modification technologies enable the rational engineering and perturbation of
biological systems. Historically, these methods have been limited to gene insertions or …

Metabolic engineering of Escherichia coli using CRISPR–Cas9 meditated genome editing

Y Li, Z Lin, C Huang, Y Zhang, Z Wang, Y Tang… - Metabolic …, 2015 - Elsevier
Engineering cellular metabolism for improved production of valuable chemicals requires
extensive modulation of bacterial genome to explore complex genetic spaces. Here, we …

Genomically recoded organisms expand biological functions

MJ Lajoie, AJ Rovner, DB Goodman, HR Aerni… - science, 2013 - science.org
We describe the construction and characterization of a genomically recoded organism
(GRO). We replaced all known UAG stop codons in Escherichia coli MG1655 with …

Biocontainment of genetically modified organisms by synthetic protein design

DJ Mandell, MJ Lajoie, MT Mee, R Takeuchi… - Nature, 2015 - nature.com
Genetically modified organisms (GMOs) are increasingly deployed at large scales and in
open environments. Genetic biocontainment strategies are needed to prevent unintended …

Recoded organisms engineered to depend on synthetic amino acids

AJ Rovner, AD Haimovich, SR Katz, Z Li, MW Grome… - Nature, 2015 - nature.com
Genetically modified organisms (GMOs) are increasingly used in research and industrial
systems to produce high-value pharmaceuticals, fuels and chemicals. Genetic isolation and …

Codon usage of highly expressed genes affects proteome-wide translation efficiency

I Frumkin, MJ Lajoie, CJ Gregg… - Proceedings of the …, 2018 - National Acad Sciences
Although the genetic code is redundant, synonymous codons for the same amino acid are
not used with equal frequencies in genomes, a phenomenon termed “codon usage bias.” …

The no-SCAR (Scarless Cas9 Assisted Recombineering) system for genome editing in Escherichia coli

CR Reisch, KLJ Prather - Scientific reports, 2015 - nature.com
Genome engineering methods in E. coli allow for easy to perform manipulations of the
chromosome in vivo with the assistance of the λ-Red recombinase system. These methods …

CRMAGE: CRISPR optimized mage recombineering

C Ronda, LE Pedersen, MOA Sommer, AT Nielsen - Scientific reports, 2016 - nature.com
A bottleneck in metabolic engineering and systems biology approaches is the lack of
efficient genome engineering technologies. Here, we combine CRISPR/Cas9 and λ Red …

Recombineering and MAGE

TM Wannier, PN Ciaccia, AD Ellington… - Nature Reviews …, 2021 - nature.com
Recombination-mediated genetic engineering, also known as recombineering, is the
genomic incorporation of homologous single-stranded or double-stranded DNA into …