Highly efficient libraries design for saturation mutagenesis

Pines, Gur; Pines, Assaf; Eckert, Carrie A.

doi:10.1093/synbio/ysac006

Title: Highly efficient libraries design for saturation mutagenesis

Journal Article · 27 April 2022 · Synthetic Biology

DOI: https://doi.org/10.1093/synbio/ysac006 · OSTI ID:1872794

; Pines, Assaf;

Abstract Saturation mutagenesis is a semi-rational approach for protein engineering where sites are saturated either entirely or partially to include amino acids of interest. We previously reported on a codon compression algorithm, where a set of minimal degenerate codons are selected according to user-defined parameters such as the target organism, type of saturation and usage levels. Here, we communicate an addition to our web tool that considers the distance between the wild-type codon and the library, depending on its purpose. These forms of restricted collections further reduce library size, lowering downstream screening efforts or, in turn, allowing more comprehensive saturation of multiple sites. The library design tool can be accessed via http://www.dynamcc.com/dynamcc_d/. Graphical Abstract

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Research Organization:: National Renewable Energy Laboratory (NREL), Golden, CO (United States); Oak Ridge National Laboratory (ORNL), Oak Ridge, TN (United States)

Sponsoring Organization:: USDOE; USDOE Office of Energy Efficiency and Renewable Energy (EERE), Transportation Office. Bioenergy Technologies Office; USDOE Office of Science (SC), Biological and Environmental Research (BER)

Grant/Contract Number:: AC05-00OR22725; AC36-08GO28308; SC0018368

OSTI ID:: 1872794

Report Number(s):: NREL/JA-2700-78936; ysac006

Journal Information:: Synthetic Biology, Journal Name: Synthetic Biology Journal Issue: 1 Vol. 7; ISSN 2397-7000

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United Kingdom

Language:: English

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59 BASIC BIOLOGICAL SCIENCES
codon compression
design software
library design
mutagenesis
protein engineering
saturation mutagenesis

Title: Highly efficient libraries design for saturation mutagenesis

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