[HTML][HTML] Polishing the craft of genetic diversity creation in directed evolution

KL Tee, TS Wong - Biotechnology advances, 2013 - Elsevier
Genetic diversity creation is a core technology in directed evolution where a high quality
mutant library is crucial to its success. Owing to its importance, the technology in genetic …

Dynamics and constraints of enzyme evolution

M Kaltenbach, N Tokuriki - Journal of Experimental Zoology …, 2014 - Wiley Online Library
The wealth of distinct enzymatic functions found in nature is impressive and the on‐going
evolutionary divergence of enzymatic functions continues to generate new and efficient …

CRISPR-Cas9 circular permutants as programmable scaffolds for genome modification

BL Oakes, C Fellmann, H Rishi, KL Taylor, SM Ren… - Cell, 2019 - cell.com
The ability to engineer natural proteins is pivotal to a future, pragmatic biology. CRISPR
proteins have revolutionized genome modification, yet the CRISPR-Cas9 scaffold is not …

Targeted insertional mutagenesis libraries for deep domain insertion profiling

W Coyote-Maestas, D Nedrud, S Okorafor… - Nucleic acids …, 2020 - academic.oup.com
Abstract Domain recombination is a key principle in protein evolution and protein
engineering, but inserting a donor domain into every position of a target protein is not easily …

Engineering modular biosensors to confer metabolite-responsive regulation of transcription

AKD Younger, NC Dalvie, AG Rottinghaus… - ACS synthetic …, 2017 - ACS Publications
Efforts to engineer microbial factories have benefitted from mining biological diversity and
high throughput synthesis of novel enzymatic pathways, yet screening and optimizing …

A split transcriptional repressor that links protein solubility to an orthogonal genetic circuit

Y Zeng, AM Jones, EE Thomas, B Nassif… - ACS synthetic …, 2018 - ACS Publications
Monitoring the aggregation of proteins within the cellular environment is key to investigating
the molecular mechanisms underlying the formation of off-pathway protein assemblies …

Development of novel metabolite-responsive transcription factors via transposon-mediated protein fusion

AKD Younger, PY Su, AJ Shepard… - Protein Engineering …, 2018 - academic.oup.com
Naturally evolved metabolite-responsive biosensors enable applications in metabolic
engineering, ranging from screening large genetic libraries to dynamically regulating …

Circular permutation profiling by deep sequencing libraries created using transposon mutagenesis

JT Atkinson, AM Jones, Q Zhou… - Nucleic acids …, 2018 - academic.oup.com
Deep mutational scanning has been used to create high-resolution DNA sequence maps
that illustrate the functional consequences of large numbers of point mutations. However …

Protein tolerance to random circular permutation correlates with thermostability and local energetics of residue-residue contacts

JT Atkinson, AM Jones, V Nanda… - … , Design and Selection, 2019 - academic.oup.com
Adenylate kinase (AK) orthologs with a range of thermostabilities were subjected to random
circular permutation, and deep mutational scanning was used to evaluate where new …

Tolerance of a knotted near-Infrared fluorescent protein to random circular permutation

N Pandey, BE Kuypers, B Nassif, EE Thomas… - Biochemistry, 2016 - ACS Publications
Bacteriophytochrome photoreceptors (BphP) are knotted proteins that have been developed
as near-infrared fluorescent protein (iRFP) reporters of gene expression. To explore how …