The evolving art of creating genetic diversity: From directed evolution to synthetic biology
Published 2021 View Full Article
- Home
- Publications
- Publication Search
- Publication Details
Title
The evolving art of creating genetic diversity: From directed evolution to synthetic biology
Authors
Keywords
Mutagenesis, Pathway assembly, Genetic engineering, Directed evolution, Synthetic biology, Metabolic engineering
Journal
BIOTECHNOLOGY ADVANCES
Volume -, Issue -, Pages 107762
Publisher
Elsevier BV
Online
2021-05-15
DOI
10.1016/j.biotechadv.2021.107762
References
Ask authors/readers for more resources
Related references
Note: Only part of the references are listed.- How to build a genome
- (2020) Michael Eisenstein NATURE
- Application of combinatorial optimization strategies in synthetic biology
- (2020) Gita Naseri et al. Nature Communications
- Practically useful protein-design methods combining phylogenetic and atomistic calculations
- (2020) Jonathan Weinstein et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- Rapid prototyping of microbial production strains for the biomanufacture of potential materials monomers
- (2020) Christopher J. Robinson et al. METABOLIC ENGINEERING
- A VersaTile-driven platform for rapid hit-to-lead development of engineered lysins
- (2020) H. Gerstmans et al. Science Advances
- SCRaMbLE generates evolved yeasts with increased alkali tolerance
- (2019) Lu Ma et al. Microbial Cell Factories
- GeneORator: an effective strategy for navigating protein sequence space more efficiently through Boolean OR-type DNA libraries
- (2019) Andrew Currin et al. ACS Synthetic Biology
- Highly Efficient Single-Pot Scarless Golden Gate Assembly
- (2019) Mohammad HamediRad et al. ACS Synthetic Biology
- Lessons from Two Design–Build–Test–Learn Cycles of Dodecanol Production in Escherichia coli Aided by Machine Learning
- (2019) Paul Opgenorth et al. ACS Synthetic Biology
- The Crucial Role of Methodology Development in Directed Evolution of Selective Enzymes
- (2019) Ge Qu et al. ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
- Synthetic evolution
- (2019) Anna J. Simon et al. NATURE BIOTECHNOLOGY
- Building a global alliance of biofoundries
- (2019) Nathan Hillson et al. Nature Communications
- A Framework for the Modular and Combinatorial Assembly of Synthetic Gene Circuits
- (2019) Javier Santos-Moreno et al. ACS Synthetic Biology
- CRIMoClo plasmids for modular assembly and orthogonal chromosomal integration of synthetic circuits in Escherichia coli
- (2019) Stefano Vecchione et al. Journal of Biological Engineering
- Unbiased libraries in protein directed evolution
- (2019) Victor Sayous et al. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS
- Machine Learning in Enzyme Engineering
- (2019) Stanislav Mazurenko et al. ACS Catalysis
- Synthetic yeast genome reveals its versatility
- (2018) Jee Loon Foo et al. NATURE
- Darwin Assembly: fast, efficient, multi-site bespoke mutagenesis
- (2018) Christopher Cozens et al. NUCLEIC ACIDS RESEARCH
- HotSpot Wizard 3.0: web server for automated design of mutations and smart libraries based on sequence input information
- (2018) Lenka Sumbalova et al. NUCLEIC ACIDS RESEARCH
- Precise control of SCRaMbLE in synthetic haploid and diploid yeast
- (2018) Bin Jia et al. Nature Communications
- In vitro DNA SCRaMbLE
- (2018) Yi Wu et al. Nature Communications
- MIDAS: A Modular DNA Assembly System for Synthetic Biology
- (2018) Craig J. van Dolleweerd et al. ACS Synthetic Biology
- Single Day Construction of Multigene Circuits with 3G Assembly
- (2018) Andrew D. Halleran et al. ACS Synthetic Biology
- Automated Design of Efficient and Functionally Diverse Enzyme Repertoires
- (2018) Olga Khersonsky et al. MOLECULAR CELL
- Machine-Learning-Guided Mutagenesis for Directed Evolution of Fluorescent Proteins
- (2018) Yutaka Saito et al. ACS Synthetic Biology
- Start-Stop Assembly: a functionally scarless DNA assembly system optimized for metabolic engineering
- (2018) George M Taylor et al. NUCLEIC ACIDS RESEARCH
- T5 exonuclease-dependent assembly offers a low-cost method for efficient cloning and site-directed mutagenesis
- (2018) Yongzhen Xia et al. NUCLEIC ACIDS RESEARCH
- Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli
- (2018) Adrian J. Jervis et al. ACS Synthetic Biology
- Comprehensive Profiling of Four Base Overhang Ligation Fidelity by T4 DNA Ligase and Application to DNA Assembly
- (2018) Vladimir Potapov et al. ACS Synthetic Biology
- Engineering biological systems using automated biofoundries
- (2017) Ran Chao et al. METABOLIC ENGINEERING
- Ultrahigh-Throughput Improvement and Discovery of Enzymes Using Droplet-Based Microfluidic Screening
- (2017) Alexis Autour et al. Micromachines
- Scarless assembly of unphosphorylated DNA fragments with a simplified DATEL method
- (2017) Wenwen Ding et al. Bioengineered
- Enzyme engineering: A synthetic biology approach for more effective library generation and automated high-throughput screening
- (2017) Daniela Quaglia et al. PLoS One
- Automated Structure- and Sequence-Based Design of Proteins for High Bacterial Expression and Stability
- (2016) Adi Goldenzweig et al. MOLECULAR CELL
- Bioinformatics for the synthetic biology of natural products: integrating across the Design–Build–Test cycle
- (2016) Pablo Carbonell et al. NATURAL PRODUCT REPORTS
- Synthetic biology to access and expand nature's chemical diversity
- (2016) Michael J. Smanski et al. NATURE REVIEWS MICROBIOLOGY
- How mutational epistasis impairs predictability in protein evolution and design
- (2016) Charlotte M. Miton et al. PROTEIN SCIENCE
- Metabolic Burden: Cornerstones in Synthetic Biology and Metabolic Engineering Applications
- (2016) Gang Wu et al. TRENDS IN BIOTECHNOLOGY
- Rationally reduced libraries for combinatorial pathway optimization minimizing experimental effort
- (2016) Markus Jeschek et al. Nature Communications
- DATEL: A Scarless and Sequence-Independent DNA Assembly Method Using Thermostable Exonucleases and Ligase
- (2016) Peng Jin et al. ACS Synthetic Biology
- Combinatorial Evolution of Enzymes and Synthetic Pathways Using One-Step PCR
- (2016) Peng Jin et al. ACS Synthetic Biology
- A Web Interface for Codon Compression
- (2016) Andrea L. Halweg-Edwards et al. ACS Synthetic Biology
- EcoFlex: A Multifunctional MoClo Kit for E. coli Synthetic Biology
- (2016) Simon J. Moore et al. ACS Synthetic Biology
- Improving Metabolic Pathway Efficiency by Statistical Model-Based Multivariate Regulatory Metabolic Engineering
- (2016) Peng Xu et al. ACS Synthetic Biology
- Direct Combinatorial Pathway Optimization
- (2016) Pieter Coussement et al. ACS Synthetic Biology
- Flux Control at the Malonyl-CoA Node through Hierarchical Dynamic Pathway Regulation in Saccharomyces cerevisiae
- (2016) Florian David et al. ACS Synthetic Biology
- Directed evolution 2.0: improving and deciphering enzyme properties
- (2015) Feng Cheng et al. CHEMICAL COMMUNICATIONS
- Synthetic biology for the directed evolution of protein biocatalysts: navigating sequence space intelligently
- (2015) Andrew Currin et al. CHEMICAL SOCIETY REVIEWS
- MDC-Analyzer-facilitated combinatorial strategy for improving the activity and stability of halohydrin dehalogenase from Agrobacterium radiobacter AD1
- (2015) Xiong Wang et al. JOURNAL OF BIOTECHNOLOGY
- Bricks and blueprints: methods and standards for DNA assembly
- (2015) Arturo Casini et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Synthesis and cell-free cloning of DNA libraries using programmable microfluidics
- (2015) Tuval Ben Yehezkel et al. NUCLEIC ACIDS RESEARCH
- A Robust and Versatile Method of Combinatorial Chemical Synthesis of Gene Libraries via Hierarchical Assembly of Partially Randomized Modules
- (2015) Blagovesta Popova et al. PLoS One
- Topological features of rugged fitness landscapes in sequence space
- (2015) Dmitry A. Kondrashov et al. TRENDS IN GENETICS
- Scalable amplification of strand subsets from chip-synthesized oligonucleotide libraries
- (2015) Thorsten L. Schmidt et al. Nature Communications
- Economical analysis of saturation mutagenesis experiments
- (2015) Carlos G. Acevedo-Rocha et al. Scientific Reports
- Enhancing flavonoid production by systematically tuning the central metabolic pathways based on a CRISPR interference system in Escherichia coli
- (2015) Junjun Wu et al. Scientific Reports
- Accurate DNA Assembly and Genome Engineering with Optimized Uracil Excision Cloning
- (2015) Ana Mafalda Cavaleiro et al. ACS Synthetic Biology
- ANT: Software for Generating and Evaluating Degenerate Codons for Natural and Expanded Genetic Codes
- (2015) Martin K. M. Engqvist et al. ACS Synthetic Biology
- CIDAR MoClo: Improved MoClo Assembly Standard and New E. coli Part Library Enable Rapid Combinatorial Design for Synthetic and Traditional Biology
- (2015) Sonya V. Iverson et al. ACS Synthetic Biology
- BASIC: A New Biopart Assembly Standard for Idempotent Cloning Provides Accurate, Single-Tier DNA Assembly for Synthetic Biology
- (2015) Marko Storch et al. ACS Synthetic Biology
- Flexible and Versatile Strategy for the Construction of Large Biochemical Pathways
- (2015) Yongbo Yuan et al. ACS Synthetic Biology
- Multivariate modular metabolic engineering for pathway and strain optimization
- (2014) Bradley Walters Biggs et al. CURRENT OPINION IN BIOTECHNOLOGY
- Functional optimization of gene clusters by combinatorial design and assembly
- (2014) Michael J Smanski et al. NATURE BIOTECHNOLOGY
- SwiftLib: rapid degenerate-codon-library optimization through dynamic programming
- (2014) Timothy M. Jacobs et al. NUCLEIC ACIDS RESEARCH
- PaperClip: rapid multi-part DNA assembly from existing libraries
- (2014) Maryia Trubitsyna et al. NUCLEIC ACIDS RESEARCH
- New insights into the QuikChangeTM process guide the use of Phusion DNA polymerase for site-directed mutagenesis
- (2014) Yongzhen Xia et al. NUCLEIC ACIDS RESEARCH
- SpeedyGenes: an improved gene synthesis method for the efficient production of error-corrected, synthetic protein libraries for directed evolution
- (2014) Andrew Currin et al. PROTEIN ENGINEERING DESIGN & SELECTION
- Software-Supported USER Cloning Strategies for Site-Directed Mutagenesis and DNA Assembly
- (2014) Hans Jasper Genee et al. ACS Synthetic Biology
- Codon Compression Algorithms for Saturation Mutagenesis
- (2014) Gur Pines et al. ACS Synthetic Biology
- Rapid and Reliable DNA Assembly via Ligase Cycling Reaction
- (2014) Stefan de Kok et al. ACS Synthetic Biology
- Modular construction of plasmids by parallel assembly of linear vector components
- (2013) XinZheng Gao et al. ANALYTICAL BIOCHEMISTRY
- Multi-fragment site-directed mutagenic overlap extension polymerase chain reaction as a competitive alternative to the enzymatic assembly method
- (2013) Marcus Wäneskog et al. ANALYTICAL BIOCHEMISTRY
- ProxiMAX randomization: a new technology for non-degenerate saturation mutagenesis of contiguous codons
- (2013) Mohammed Ashraf et al. BIOCHEMICAL SOCIETY TRANSACTIONS
- Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly
- (2013) Joseph P. Torella et al. NUCLEIC ACIDS RESEARCH
- Navigating the protein fitness landscape with Gaussian processes
- (2013) P. A. Romero et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Rapid gene splicing and multi-sited mutagenesis by one-step overlap extension polymerase chain reaction
- (2012) Huilin Wei et al. ANALYTICAL BIOCHEMISTRY
- An asymmetric PCR-based, reliable and rapid single-tube native DNA engineering strategy
- (2012) Yanzhen Bi et al. BMC BIOTECHNOLOGY
- A dynamic metabolite valve for the control of central carbon metabolism
- (2012) Kevin V. Solomon et al. METABOLIC ENGINEERING
- Reducing Codon Redundancy and Screening Effort of Combinatorial Protein Libraries Created by Saturation Mutagenesis
- (2012) Sabrina Kille et al. ACS Synthetic Biology
- Fast track assembly of multigene constructs using Golden Gate cloning and the MoClo system
- (2012) Stefan Werner et al. Bioengineered
- Quikgene: A gene synthesis method integrated with ligation-free cloning
- (2011) Yanjun Mao et al. ANALYTICAL BIOCHEMISTRY
- When Second Best Is Good Enough: Another Probabilistic Look at Saturation Mutagenesis
- (2011) Yuval Nov APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- Regulation and control of metabolic fluxes in microbes
- (2011) Luca Gerosa et al. CURRENT OPINION IN BIOTECHNOLOGY
- DNA assembly for synthetic biology: from parts to pathways and beyond
- (2011) Tom Ellis et al. Integrative Biology
- A Modular Cloning System for Standardized Assembly of Multigene Constructs
- (2011) Ernst Weber et al. PLoS One
- Error correction in gene synthesis technology
- (2011) Siying Ma et al. TRENDS IN BIOTECHNOLOGY
- Overlap extension PCR cloning: a simple and reliable way to create recombinant plasmids
- (2010) Anton Bryksin et al. BIOTECHNIQUES
- Sequence space and the ongoing expansion of the protein universe
- (2010) Inna S. Povolotskaya et al. NATURE
- Chemical synthesis of the mouse mitochondrial genome
- (2010) Daniel G Gibson et al. NATURE METHODS
- Synthetic biology: applications come of age
- (2010) Ahmad S. Khalil et al. NATURE REVIEWS GENETICS
- Synthesis of high-quality libraries of long (150mer) oligonucleotides by a novel depurination controlled process
- (2010) Emily M. LeProust et al. NUCLEIC ACIDS RESEARCH
- Ultrahigh-throughput screening in drop-based microfluidics for directed evolution
- (2010) J. J. Agresti et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Directed evolution: new parts and optimized function
- (2009) Michael J Dougherty et al. CURRENT OPINION IN BIOTECHNOLOGY
- Directed enzyme evolution: climbing fitness peaks one amino acid at a time
- (2009) Cara A Tracewell et al. CURRENT OPINION IN CHEMICAL BIOLOGY
- Synthetic protein scaffolds provide modular control over metabolic flux
- (2009) John E Dueber et al. NATURE BIOTECHNOLOGY
- Enzymatic assembly of DNA molecules up to several hundred kilobases
- (2009) Daniel G Gibson et al. NATURE METHODS
- Exploring protein fitness landscapes by directed evolution
- (2009) Philip A. Romero et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- Synthesis of DNA fragments in yeast by one-step assembly of overlapping oligonucleotides
- (2009) Daniel G. Gibson NUCLEIC ACIDS RESEARCH
- A novel solid phase technology for high-throughput gene synthesis
- (2008) Jan Van den Brulle et al. BIOTECHNIQUES
- Addressing the Numbers Problem in Directed Evolution
- (2008) Manfred T. Reetz et al. CHEMBIOCHEM
- DNA assembler, an in vivo genetic method for rapid construction of biochemical pathways
- (2008) Zengyi Shao et al. NUCLEIC ACIDS RESEARCH
- A One Pot, One Step, Precision Cloning Method with High Throughput Capability
- (2008) Carola Engler et al. PLoS One
- Complete Chemical Synthesis, Assembly, and Cloning of a Mycoplasma genitalium Genome
- (2008) D. G. Gibson et al. SCIENCE
- Gene synthesis demystified
- (2008) Michael J. Czar et al. TRENDS IN BIOTECHNOLOGY
Find Funding. Review Successful Grants.
Explore over 25,000 new funding opportunities and over 6,000,000 successful grants.
ExploreBecome a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get Started