Reducing metabolic burden in the PACEmid evolver system by remastering high‐copy phagemid vectors by Beth India Davenport, Jure Tica, Mark Isalan

“…Brödel et al. (2016) engineered 12 such cIλ transcription factor variants using a directed evolution ‘PACEmid’ system. The variants operate as dual activator/repressors and expand gene circuit construction possibilities. …”
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A Selection for Intein Splicing inPhage Assisted Continuous Evolution by Hennes, Andrew

“…Rational approaches are highly biased and preexisting directed evolution methods are laborious and often struggle with guaranteeing splicing dependance in a selection. …”
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Increasing 2-methyl-1-butanol tolerance of prokaryotic industrial strains by using randomized libraries of camp receptor protein. by Khoo, Choon Mong.

“…This investigation was done based on the directed evolution concept. Three better strains were discovered with their mutations determined. …”
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Engineering receptor-based decoys for the treatment of cancer using a yeast surface display platform by Wang, Y

“…In this study, I used yeast surface display and directed evolution approaches to engineer a high affinity RAGE V domain, the ligand binding domain of the RAGE receptor, that has an enhanced binding capacity to multiple RAGE ligands. …”

Epoxide Hydrolases: Multipotential Biocatalysts by Marek Bučko, Katarína Kaniaková, Helena Hronská, Peter Gemeiner, Michal Rosenberg

“…The review covers new approaches to discover epoxide hydrolases using genome mining and enzyme metagenomics, as well as improving enzyme activity, enantioselectivity, enantioconvergence, and thermostability by directed evolution and a rational design. Further improvements in operational and storage stabilization, reusability, pH stabilization, and thermal stabilization by immobilization techniques are discussed in this study. …”
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Protein-protein interface analysis of the non-ribosomal peptide synthetase peptidyl carrier protein and enzymatic domains by Joshua C. Corpuz, Javier O. Sanlley, Michael D. Burkart

“…Integrating our understanding of how the PCP recognizes partner proteins with the potential to use directed evolution and combinatorial biosynthetic methods will enhance future efforts in discovery and production of new bioactive compounds.…”
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Fabrication of Microfluidic Devices for Emulsion Formation by Microstereolithography by Max J. Männel, Elif Baysak, Julian Thiele

“…Droplet microfluidics—the art and science of forming droplets—has been revolutionary for high-throughput screening, directed evolution, single-cell sequencing, and material design. …”
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Reverse evolution leads to genotypic incompatibility despite functional and active site convergence by Miriam Kaltenbach, Colin J Jackson, Eleanor C Campbell, Florian Hollfelder, Nobuhiko Tokuriki

“…Here, we perform an experimental test of evolutionary reversibility using directed evolution from a phosphotriesterase to an arylesterase, and back, and examine the underlying molecular basis. …”
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Recent Progress and Opportunities for Nucleic Acid Aptamers by Jonghoe Byun

“…Coined three decades ago, the term aptamer and directed evolution have now reached their maturity. The concept that nucleic acid could modulate the activity of target protein as ligand emerged from basic science studies of viruses. …”
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Widefield imaging of rapid pan-cortical voltage dynamics with an indicator evolved for one-photon microscopy by Xiaoyu Lu, Yunmiao Wang, Zhuohe Liu, Yueyang Gou, Dieter Jaeger, François St-Pierre

“…Here, we developed a high-throughput platform to screen for GEVIs that combine fast kinetics with high brightness, sensitivity, and photostability under widefield one-photon illumination. Rounds of directed evolution produced JEDI-1P, a green-emitting fluorescent indicator with enhanced performance across all metrics. …”
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ACIDES: on-line monitoring of forward genetic screens for protein engineering by Takahiro Nemoto, Tommaso Ocari, Arthur Planul, Muge Tekinsoy, Emilia A. Zin, Deniz Dalkara, Ulisse Ferrari

“…Abstract Forward genetic screens of mutated variants are a versatile strategy for protein engineering and investigation, which has been successfully applied to various studies like directed evolution (DE) and deep mutational scanning (DMS). …”
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Recent Applications of Flavin-Dependent Monooxygenases in Biosynthesis, Pharmaceutical Development, and Environmental Science by Yuze Guan, Xi Chen

“…As our comprehension of FMOs’ catalytic mechanisms and structures advances, through the use of cutting-edge biotechnologies like computational design and directed evolution, FMOs are poised to occupy an increasingly significant role in both scientific exploration and industrial applications.…”
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Low-N protein engineering with data-efficient deep learning by Biswas, Surojit, Khimulya, Grigory, Alley, Ethan C, Esvelt, Kevin M, Church, George M

“…Here we introduce a machine learning-guided paradigm that can use as few as 24 functionally assayed mutant sequences to build an accurate virtual fitness landscape and screen ten million sequences via in silico directed evolution. As demonstrated in two dissimilar proteins, GFP from Aequorea victoria (avGFP) and E. coli strain TEM-1 β-lactamase, top candidates from a single round are diverse and as active as engineered mutants obtained from previous high-throughput efforts. …”
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Strain engineering of industrial strains by using randomized libraries of transcription factor (biofuel-1-propanol). by Yong, Wai Wan.

“…A randomized library of this particular portion of gene is generated via directed evolution technique, particularly error-prone Polymerase Chain Reaction (ep-PCR). …”
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Engineering the CYP101 system for in vivo oxidation of unnatural substrates. by Bell, S, Harford-Cross, C, Wong, L

“…This new in vivo system can be used for preparative scale reactions for product characterization, and will greatly facilitate directed evolution of the CYP101 enzyme for enhanced activity and selectivity of substrate oxidation.…”

Recent advances in simultaneous thermostability-activity improvement of industrial enzymes through structure modification by Nezhad, Nima Ghahremani, Raja Abd Rahman, Raja Noor Zaliha, M. Normi, Yahaya, Oslan, Siti Nurbaya, Mohd Shariff, Fairolniza, Leow, Thean Chor

“…Three functional protein engineering approaches, including directed evolution, rational design, and semi-rational design, are employed to manipulate protein structure on a genetic basis. …”

Enhanced secretory production of hemolysin-mediated cyclodextrin glucanotransferase in Escherichia coli by random mutagenesis of the ABC transporter system by Low, Kheng Oon, Mahadi, Nor Muhammad, Abdul Rahim, Raha, Rabu, Amir, Abu Bakar, Farah Diba, Abdul Murad, Abdul Munir, Md. Illias, Rosli

“…To produce an improved-secretion variant, the hly components (hlyAs, hlyB and hlyD) were engineered by directed evolution using error-prone PCR. Hly mutants were screened on solid LB-starch plate for halo zone larger than the parent strain. …”

Computational biology / by Fenyo, David

Design principles for ligand-sensing, conformation-switching ribozymes. by Xi Chen, Andrew D Ellington

“…A number of ligand-sensing, conformational-switching ribozymes (also known as allosteric ribozymes or aptazymes) have been generated by some combination of directed evolution or rational design. Such sensor elements typically fuse a molecular recognition domain (aptamer) with a catalytic signal generator (ribozyme). …”
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Machine learning modeling of family wide enzyme-substrate specificity screens. by Samuel Goldman, Ria Das, Kevin K Yang, Connor W Coley

“…While machine learning and in silico directed evolution are well-posed for this predictive modeling challenge, efforts to date have primarily aimed to increase activity against a single known substrate, rather than to identify enzymes capable of acting on new substrates of interest. …”
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