Engineering Rubisco to enhance CO2 utilization by Lei Zhao, Zhen Cai, Yin Li, Yanping Zhang

“…Moreover, the establishment of a screening system in E. coli opens up possibilities for obtaining high-performance mutant enzymes through directed evolution. Finally, this review emphasizes the utilization of Rubisco in microorganisms, not only expanding their carbon-fixing capabilities but also holding significant potential for enhancing biotransformation processes.…”
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Absorption and Emission Spectroscopic Investigation of the Thermal Dynamics of the Archaerhodopsin 3 Based Fluorescent Voltage Sensor Archon2 by Alfons Penzkofer, Arita Silapetere, Peter Hegemann

“…Archon2 is a fluorescent voltage sensor derived from Archaerhodopsin 3 (Arch) of <i>Halorubrum sodomense</i> using robotic multidimensional directed evolution approach. Here we report absorption and emission spectroscopic studies of Archon2 in Tris buffer at pH 8. …”
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Bioengineered Enzymes and Precision Fermentation in the Food Industry by Fatma Boukid, Seedhabadee Ganeshan, Yingxin Wang, Mehmet Çağlar Tülbek, Michael T. Nickerson

“…The advent of enzyme engineering approaches such as rational design, directed evolution, and semi-rational design provided much-needed impetus for tailor-made enzymes with improved or novel catalytic properties. …”
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Mapping the homodimer interface of an optimized, artificial, transmembrane protein activator of the human erythropoietin receptor. by Emily B Cohen, Susan J Jun, Zachary Bears, Francisco N Barrera, Miriam Alonso, Donald M Engelman, Daniel DiMaio

“…Here, we used a directed-evolution approach to explore the structural basis for the ability of transmembrane proteins to activate the hEPOR. …”
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Witnessing the structural evolution of an RNA enzyme by Xavier Portillo, Yu-Ting Huang, Ronald R Breaker, David P Horning, Gerald F Joyce

“…An RNA polymerase ribozyme that has been the subject of extensive directed evolution efforts has attained the ability to synthesize complex functional RNAs, including a full-length copy of its own evolutionary ancestor. …”
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Industrial robustness: understanding the mechanism of tolerance for the Populus hydrolysate-tolerant mutant strain of Clostridium thermocellum. by Jessica L Linville, Miguel Rodriguez, Miriam Land, Mustafa H Syed, Nancy L Engle, Timothy J Tschaplinski, Jonathan R Mielenz, Chris D Cox

“…METHODOLOGY/PRINCIPAL FINDINGS:In this study, we developed a 17.5% v/v Populus hydrolysate tolerant mutant strain of C. thermocellum by directed evolution. The genome of the wild type strain, six intermediate population samples and seven single colony isolates were sequenced to elucidate the mechanism of tolerance. …”
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Expanding the Spectrum of Pancreatic Cancers Responsive to Vesicular Stomatitis Virus-Based Oncolytic Virotherapy: Challenges and Solutions by Molly C. Holbrook, Dakota W. Goad, Valery Z. Grdzelishvili

“…Several alternative approaches have been shown to break the resistance of PDACs to VSV without compromising VSV oncoselectivity, including (i) combinations of VSV with JAK1/2 inhibitors (such as ruxolitinib); (ii) triple combinations of VSV with ruxolitinib and polycations improving both VSV replication and attachment; (iii) combinations of VSV with chemotherapeutic drugs (such as paclitaxel) arresting cells in the G2/M phase; (iv) arming VSV with p53 transgenes; (v) directed evolution approach producing more effective OVs. …”
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Genetic Constructs for the Control of Astrocytes’ Activity by Anastasia A. Borodinova, Pavel M. Balaban, Ilya B. Bezprozvanny, Alla B. Salmina, Olga L. Vlasova

“…Potentially, these constraints may be bypassed with the latest strategies of generating novel synthetic AAV serotypes with specified properties by rational engineering of AAV capsids or using directed evolution approach by searching within a more specific promoter or its replacement with the unique enhancer sequences characterized using modern molecular techniques (ChIP-seq, scATAC-seq, snATAC-seq) to drive the selective transgene expression in the target population of cells or desired brain regions. …”
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Fantastic AAV Gene Therapy Vectors and How to Find Them—Random Diversification, Rational Design and Machine Learning by Jonas Becker, Julia Fakhiri, Dirk Grimm

“…We first review traditional and novel directed evolution approaches, including high-throughput screening of AAV capsid libraries. …”
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Vector redesign and in‐droplet cell‐growth improves enrichment and recovery in live Escherichia coli by Bernard D. G. Eenink, Tomasz S. Kaminski, Erich Bornberg‐Bauer, Joachim Jose, Florian Hollfelder, Bert vanLoo

“…Abstract Directed evolution (DE) is a widely used method for improving the function of biomolecules via multiple rounds of mutation and selection. …”
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Enzyme-catalyzed allylic oxidation reactions: A mini-review by Maoyao Wang, Maoyao Wang, Xiaojian Zhou, Xiaojian Zhou, Zhongqiang Wang, Zhongqiang Wang, Yongzheng Chen, Yongzheng Chen

“…As a result, scientists have found some new enzymes and mutants through techniques of gene mining and enzyme-directed evolution in recent years. This review summarizes the recent developments in biocatalytic selective oxidation of olefins by different kinds of biocatalysts.…”
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Dps-dependent in vivo mutation enhances long-term host adaptation in Vibrio cholerae. by Mei Luo, Guozhong Chen, Chunrong Yi, Baoshuai Xue, Xiaoman Yang, Yao Ma, Zixin Qin, Jin Yan, Xiaoyun Liu, Zhi Liu

“…Our results revealed a new phenotype in which increased fitness of V. cholerae in the host gut via spontaneous production nonmotile mutants regulated by cyclin Dps, which may represent a novel adaptation strategy for directed evolution of pathogens in the host.…”
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EMERGING ENGINEERING PRINCIPLES FOR YIELD IMPROVEMENT IN MICROBIAL CELL DESIGN by Santiago Comba, Ana Arabolaza, Hugo Gramajo

“…Traditional methods used to improve the production of target compounds from engineered biosynthetic pathways in non-native hosts include: codon usage optimization, elimination of the accumulation of toxic intermediates or byproducts, enhanced production of rate-limiting enzymes, selection of appropriate promoter and ribosome binding sites, application of directed evolution of enzymes, and chassis re-circuit. Overall, these approaches tend to be specific for each engineering project rather than a systematic practice based on a more generalizable strategy. …”
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Cloning and characterization of a novel 2-ketoisovalerate reductase from the beauvericin producer <it>Fusarium proliferatum</it> LF061 by Zhang Tao, Jia XiaoPeng, Zhuo Ying, Liu Mei, Gao Hong, Liu JinTao, Zhang Lixin

“…KivRFp has been shown to have useful properties, such as moderate thermal stability and broad pH optima, and may serve as the starting points for future protein engineering and directed evolution, towards the goal of developing efficient enzyme for downstream biotechnological applications.…”
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Potential application of TurboID-based proximity labeling in studying the protein interaction network in plant response to abiotic stress by Kaixin Zhang, Kaixin Zhang, Yinyin Li, Tengbo Huang, Ziwei Li

“…TurboID, a biotin ligase produced by directed evolution, has the advantages of non-toxicity, time-saving and high catalytic efficiency compared to other classic protein-labeling enzymes. …”
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Non-Invasive Sorting of Lipid Producing Microalgae With Dielectrophoresis Using Microelectrodes by Schor, Alisha R, Buie, Cullen

“…This tool can lower production costs by aiding in strain selection, online culture monitoring, or directed evolution studies. Dielectrophoresis (DEP) is the polarization of particles or cells in a non-uniform electric field, which leads to a Coulomb force on the cell. …”
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Escherichia coli “Marionette” strains with 12 highly optimized small-molecule sensors by Meyer, Adam J., Segall-Shapiro, Thomas Hale, Glassey, Emerson, Zhang, Jing, Voigt, Christopher A.

“…Here, we have developed a directed evolution strategy to simultaneously select for lower background, high dynamic range, increased sensitivity, and low cross-talk. …”
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Thermal Proteome Profiling to Identify Protein-ligand Interactions in the Apicomplexan Parasite Toxoplasma gondii by Herneisen, Alice, Lourido, Sebastian

“…In parasites, such deconvolution has been achieved via chemogenomic approaches-for example, directed evolution followed by whole-genome sequencing or genome-wide knockout screens. …”
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Rapid directed molecular evolution of fluorescent proteins in mammalian cells by Babakhanova, Siranush, Jung, Erica E, Namikawa, Kazuhiko, Zhang, Hanbin, Wang, Yangdong, Subach, Oksana M, Korzhenevskiy, Dmitry A, Rakitina, Tatiana V, Xiao, Xian, Wang, Wenjing, Shi, Jing, Drobizhev, Mikhail, Park, Demian, Eisenhard, Lea, Tang, Hongyun, Köster, Reinhard W, Subach, Fedor V, Boyden, Edward S, Piatkevich, Kiryl D

“…Using this method, we were able to perform screening of large gene libraries containing up to 2 × 107 independent random genes of fluorescent proteins expressed in HEK cells, completing one iteration of directed evolution in a course of 8 days. We employed this approach to develop a set of green and near-infrared fluorescent proteins with enhanced intracellular brightness. …”
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NMR structural studies of membrane active peptides and proteins by Mukesh Mahajan

“…VK22 is a helical peptide is used as a template for directed evolution by Ala scanning mutagenesis. Several polar and positively charged residues from the peptide were systematically replaced by Alanine to increase the hydrophobicity of the peptides and to reduce the complexity of system. …”
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