Strategies for in vitro engineering of the translation machinery

A simple, robust, and low-cost method to produce the PURE cell-free system.

(2019) Barbora Lavickova et al.   ACS Synthetic Biology

Incorporation of Modified Amino Acids by Engineered Elongation Factors with Expanded Substrate Capabilities

(2019) Vanessa E. DeLey Cox et al.   ACS Synthetic Biology

BioBitsTM Health: Classroom activities exploring engineering, biology, and human health with fluorescent readouts

(2019) Jessica C. Stark et al.   ACS Synthetic Biology

Assembly and functionality of the ribosome with tethered subunits

(2019) Nikolay A. Aleksashin et al.   Nature Communications

Expanding the Scope of Protein Synthesis Using Modified Ribosomes

(2019) Larisa M Dedkova et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Charging the code — tRNA modification complexes

(2019) Rościsław Krutyhołowa et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

Cell-free gene expression: an expanded repertoire of applications

(2019) Adam D. Silverman et al.   NATURE REVIEWS GENETICS

Engineered ribosomes with tethered subunits for expanding biological function

(2019) Erik D. Carlson et al.   Nature Communications

Rapid and Scalable Characterization of CRISPR Technologies Using an E. coli Cell-Free Transcription-Translation System

(2018) Ryan Marshall et al.   MOLECULAR CELL

Design of glycosylation sites by rapid synthesis and analysis of glycosyltransferases

(2018) Weston Kightlinger et al.   Nature Chemical Biology

Ribosomal synthesis and folding of peptide-helical aromatic foldamer hybrids

(2018) Joseph M. Rogers et al.   Nature Chemistry

Oligonucleotide-mediated tRNA sequestration enables one-pot sense codon reassignment in vitro

(2018) Zhenling Cui et al.   NUCLEIC ACIDS RESEARCH

Atomic mutagenesis of stop codon nucleotides reveals the chemical prerequisites for release factor-mediated peptide release

(2018) Thomas Philipp Hoernes et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Rapid acquisition and model-based analysis of cell-free transcription–translation reactions from nonmodel bacteria

(2018) Simon J. Moore et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Field-deployable viral diagnostics using CRISPR-Cas13

(2018) Cameron Myhrvold et al.   SCIENCE

Cell-free protein synthesis from genomically recoded bacteria enables multisite incorporation of noncanonical amino acids

(2018) Rey W. Martin et al.   Nature Communications

Point-of-care production of therapeutic proteins of good-manufacturing-practice quality

(2018) Rajani Adiga et al.   Nature Biomedical Engineering

Next-generation genetic code expansion

(2018) Pol Arranz-Gibert et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Ribosomal Incorporation of Consecutive β-Amino Acids

(2018) Takayuki Katoh et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Reconstitution of 30S ribosomal subunits in vitro using ribosome biogenesis factors

(2018) Daichi Tamaru et al.   RNA

A low-cost paper-based synthetic biology platform for analyzing gut microbiota and host biomarkers

(2018) Melissa K. Takahashi et al.   Nature Communications

BioBits™ Explorer: A modular synthetic biology education kit

(2018) Ally Huang et al.   Science Advances

BioBits™ Bright: A fluorescent synthetic biology education kit

(2018) Jessica C. Stark et al.   Science Advances

Controlling orthogonal ribosome subunit interactions enables evolution of new function

(2018) Wolfgang H. Schmied et al.   NATURE

Mechanistic insights into the slow peptide bond formation with D-amino acids in the ribosomal active site

(2018) Sergey V Melnikov et al.   NUCLEIC ACIDS RESEARCH

High-Throughput Optimization Cycle of a Cell-Free Ribosome Assembly and Protein Synthesis System

(2018) Filippo Caschera et al.   ACS Synthetic Biology

R213I mutation in release factor 2 (RF2) is one step forward for engineering an omnipotent release factor in bacteriaEscherichia coli

(2017) Gürkan Korkmaz et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Preservation of protein expression systems at elevated temperatures for portable therapeutic production

(2017) David K. Karig et al.   Journal of the Royal Society Interface

Synthetic microbial consortia enable rapid assembly of pure translation machinery

(2017) Fernando Villarreal et al.   Nature Chemical Biology

Biosynthesis and genetic encoding of phosphothreonine through parallel selection and deep sequencing

(2017) Michael Shaofei Zhang et al.   NATURE METHODS

De novo design and synthesis of a 30-cistron translation-factor module

(2017) Tyson R. Shepherd et al.   NUCLEIC ACIDS RESEARCH

Logical engineering of D-arm and T-stem of tRNA that enhances d-amino acid incorporation

(2017) Takayuki Katoh et al.   NUCLEIC ACIDS RESEARCH

Amino acid substrates impose polyamine, eIF5A, or hypusine requirement for peptide synthesis

(2017) Byung-Sik Shin et al.   NUCLEIC ACIDS RESEARCH

Cogenerating Synthetic Parts toward a Self-Replicating System

(2017) Jun Li et al.   ACS Synthetic Biology

Directed Evolution of a Cyclized Peptoid–Peptide Chimera against a Cell-Free Expressed Protein and Proteomic Profiling of the Interacting Proteins to Create a Protein–Protein Interaction Inhibitor

(2016) Takashi Kawakami et al.   ACS Chemical Biology

Portable, On-Demand Biomolecular Manufacturing

(2016) Keith Pardee et al.   CELL

Rapid, Low-Cost Detection of Zika Virus Using Programmable Biomolecular Components

(2016) Keith Pardee et al.   CELL

Cell-free compartmentalized protein synthesis inside double emulsion templated liposomes with in vitro synthesized and assembled ribosomes

(2016) Filippo Caschera et al.   CHEMICAL COMMUNICATIONS

Molecular insights into protein synthesis with proline residues

(2016) Sergey Melnikov et al.   EMBO REPORTS

In Vivo Biosynthesis of a β-Amino Acid-Containing Protein

(2016) Clarissa Melo Czekster et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Ribosomal Synthesis of Peptides with Multiple β-Amino Acids

(2016) Tomoshige Fujino et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

A cell-free framework for rapid biosynthetic pathway prototyping and enzyme discovery

(2016) Ashty S. Karim et al.   METABOLIC ENGINEERING

Expanding the amino acid repertoire of ribosomal polypeptide synthesis via the artificial division of codon boxes

(2016) Yoshihiko Iwane et al.   Nature Chemistry

Essential structural elements in tRNAPro for EF-P-mediated alleviation of translation stalling

(2016) Takayuki Katoh et al.   Nature Communications

Combining Sense and Nonsense Codon Reassignment for Site-Selective Protein Modification with Unnatural Amino Acids

(2016) Zhenling Cui et al.   ACS Synthetic Biology

Kinetics of Ribosome-Catalyzed Polymerization Using Artificial Aminoacyl-tRNA Substrates Clarifies Inefficiencies and Improvements

(2015) Jinfan Wang et al.   ACS Chemical Biology

Ribosome Subunit Stapling for Orthogonal Translation inE. coli

(2015) Stephen D. Fried et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Genetically expanded cell-free protein synthesis using endogenous pyrrolysyl orthogonal translation system

(2015) Yonatan Chemla et al.   BIOTECHNOLOGY AND BIOENGINEERING

Initiation of mRNA translation in bacteria: structural and dynamic aspects

(2015) Claudio O. Gualerzi et al.   CELLULAR AND MOLECULAR LIFE SCIENCES

Improving Cell-Free Protein Synthesis through Genome Engineering ofEscherichia coliLacking Release Factor 1

(2015) Seok Hoon Hong et al.   CHEMBIOCHEM

Repurposing the translation apparatus for synthetic biology

(2015) Benjamin J Des Soye et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

A synthetic tRNA for EF-Tu mediated selenocysteine incorporationin vivoandin vitro

(2015) Corwin Miller et al.   FEBS LETTERS

Recent Developments of Engineered Translational Machineries for the Incorporation of Non-Canonical Amino Acids into Polypeptides

(2015) Naohiro Terasaka et al.   INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES

The Ribosome Challenge to the RNA World

(2015) Jessica C. Bowman et al.   JOURNAL OF MOLECULAR EVOLUTION

Semisynthetic tRNA Complement Mediates in Vitro Protein Synthesis

(2015) Zhenling Cui et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Characterizing and prototyping genetic networks with cell-free transcription–translation reactions

(2015) Melissa K. Takahashi et al.   METHODS

Protein synthesis by ribosomes with tethered subunits

(2015) Cédric Orelle et al.   NATURE

Evolution of translation machinery in recoded bacteria enables multi-site incorporation of nonstandard amino acids

(2015) Miriam Amiram et al.   NATURE BIOTECHNOLOGY

Rationally evolving tRNAPylfor efficient incorporation of noncanonical amino acids

(2015) Chenguang Fan et al.   NUCLEIC ACIDS RESEARCH

Implications of macromolecular crowding and reducing conditions for in vitro ribosome construction

(2015) Brian R. Fritz et al.   NUCLEIC ACIDS RESEARCH

Outwitting EF-Tu and the ribosome: translation with d-amino acids

(2015) John Achenbach et al.   NUCLEIC ACIDS RESEARCH

Role of a ribosomal RNA phosphate oxygen during the EF-G–triggered GTP hydrolysis

(2015) Miriam Koch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The integrity of the G2421-C2395 base pair in the ribosomal E-site is crucial for protein synthesis

(2015) Miriam Koch et al.   RNA Biology

Robust production of recombinant phosphoproteins using cell-free protein synthesis

(2015) Javin P. Oza et al.   Nature Communications

Facile Synthesis of N-Acyl-aminoacyl-pCpA for Preparation of Mischarged Fully Ribo tRNA

(2014) Marek Kwiatkowski et al.   BIOCONJUGATE CHEMISTRY

Paper-Based Synthetic Gene Networks

(2014) Keith Pardee et al.   CELL

Purified cell-free systems as standard parts for synthetic biology

(2014) Hideaki Matsubayashi et al.   CURRENT OPINION IN CHEMICAL BIOLOGY

Synthesis of milligram quantities of proteins using a reconstituted in vitro protein synthesis system

(2014) Yasuaki Kazuta et al.   JOURNAL OF BIOSCIENCE AND BIOENGINEERING

The impact of transcriptional tuning on in vitro integrated rRNA transcription and ribosome construction

(2014) Brian R. Fritz et al.   NUCLEIC ACIDS RESEARCH

Engineering the elongation factor Tu for efficient selenoprotein synthesis

(2014) Ken-ichi Haruna et al.   NUCLEIC ACIDS RESEARCH

Improved Cell-Free RNA and Protein Synthesis System

(2014) Jun Li et al.   PLoS One

Polyspecific pyrrolysyl-tRNA synthetases from directed evolution

(2014) Li-Tao Guo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Characterizing and Alleviating Substrate Limitations for Improved in vitro Ribosome Construction

(2014) Yi Liu et al.   ACS Synthetic Biology

Non-standard amino acid incorporation into proteins using Escherichia coli cell-free protein synthesis

(2014) Seok Hoon Hong et al.   Frontiers in Chemistry

A Tryptophanyl-tRNA Synthetase/tRNA Pair for Unnatural Amino Acid Mutagenesis inE. coli

(2013) Abhishek Chatterjee et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Incorporation of β-amino acids into dihydrofolate reductase by ribosomes having modifications in the peptidyltransferase center

(2013) Rumit Maini et al.   BIOORGANIC & MEDICINAL CHEMISTRY

Atomic Mutagenesis of the Ribosome: Towards a Molecular Understanding of Translation

(2013) Norbert Polacek   CHIMIA

Reevaluation of the d-Amino Acid Compatibility with the Elongation Event in Translation

(2013) Tomoshige Fujino et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Extensive Reprogramming of the Genetic Code for Genetically Encoded Synthesis of Highly N-Alkylated Polycyclic Peptidomimetics

(2013) Takashi Kawakami et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

In vitro integration of ribosomal RNA synthesis, ribosome assembly, and translation

(2013) M. C. Jewett et al.   Molecular Systems Biology

Directed evolution of genetic parts and circuits by compartmentalized partnered replication

(2013) Jared W Ellefson et al.   NATURE BIOTECHNOLOGY

Upgrading protein synthesis for synthetic biology

(2013) Patrick O'Donoghue et al.   Nature Chemical Biology

Cell-free co-production of an orthogonal transfer RNA activates efficient site-specific non-natural amino acid incorporation

(2013) Cem Albayrak et al.   NUCLEIC ACIDS RESEARCH

Validation of an entirely in vitro approach for rapid prototyping of DNA regulatory elements for synthetic biology

(2013) James Chappell et al.   NUCLEIC ACIDS RESEARCH

Genomically Recoded Organisms Expand Biological Functions

(2013) M. J. Lajoie et al.   SCIENCE

Cell-free Protein Synthesis from a Release Factor 1 Deficient Escherichia coli Activates Efficient and Multiple Site-specific Nonstandard Amino Acid Incorporation

(2013) Seok Hoon Hong et al.   ACS Synthetic Biology

Multiple-Site Labeling of Proteins with Unnatural Amino Acids

(2012) Karin V. Loscha et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

High-yield cell-free protein synthesis for site-specific incorporation of unnatural amino acids at two sites

(2012) Kiyoshi Ozawa et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

Evolution of multiple, mutually orthogonal prolyl-tRNA synthetase/tRNA pairs for unnatural amino acid mutagenesis in Escherichia coli

(2012) A. Chatterjee et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Reprogramming the Genetic Code

(2012) J. W. Chin   SCIENCE

EF-P Is Essential for Rapid Synthesis of Proteins Containing Consecutive Proline Residues

(2012) L. K. Doerfel et al.   SCIENCE

Translation Elongation Factor EF-P Alleviates Ribosome Stalling at Polyproline Stretches

(2012) S. Ude et al.   SCIENCE

Flexizymes: Their Evolutionary History and the Origin of Catalytic Function

(2011) Jumpei Morimoto et al.   ACCOUNTS OF CHEMICAL RESEARCH

Cell-free protein synthesis: Applications come of age

(2011) Erik D. Carlson et al.   BIOTECHNOLOGY ADVANCES

Microscale to manufacturing scale-up of cell-free cytokine production-a new approach for shortening protein production development timelines

(2011) James F. Zawada et al.   BIOTECHNOLOGY AND BIOENGINEERING

Ribosomal Synthesis of Backbone-Macrocyclic Peptides Containing γ-Amino Acids

(2011) Yukinori Ohshiro et al.   CHEMBIOCHEM

A system for the continuous directed evolution of biomolecules

(2011) Kevin M. Esvelt et al.   NATURE

Generation of chemically engineered ribosomes for atomic mutagenesis studies on protein biosynthesis

(2011) Matthias D Erlacher et al.   Nature Protocols

Flexizymes for genetic code reprogramming

(2011) Yuki Goto et al.   Nature Protocols

Tuning the affinity of aminoacyl-tRNA to elongation factor Tu for optimal decoding

(2011) J. M. Schrader et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Expanding the Genetic Code of Escherichia coli with Phosphoserine

(2011) H.-S. Park et al.   SCIENCE

Precise Manipulation of Chromosomes in Vivo Enables Genome-Wide Codon Replacement

(2011) Farren J. Isaacs et al.   SCIENCE

Adding New Chemistries to the Genetic Code

(2010) Chang C. Liu et al.   Annual Review of Biochemistry

Site-Specific Incorporation ofp-Propargyloxyphenylalanine in a Cell-Free Environment for Direct Protein−Protein Click Conjugation

(2010) Bradley C. Bundy et al.   BIOCONJUGATE CHEMISTRY

Update on designing and building minimal cells

(2010) Michael C Jewett et al.   CURRENT OPINION IN BIOTECHNOLOGY

Use of EF-Tu mutants for determining and improving aminoacylation efficiency and for purifying aminoacyl tRNAs with non-natural amino acids

(2010) T. Ohtsuki et al.   JOURNAL OF BIOCHEMISTRY

Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome

(2010) Heinz Neumann et al.   NATURE

Atomic mutagenesis reveals A2660 of 23S ribosomal RNA as key to EF-G GTPase activation

(2010) Nina Clementi et al.   Nature Chemical Biology

Evolved orthogonal ribosome purification for in vitro characterization

(2010) Oliver P. T. Barrett et al.   NUCLEIC ACIDS RESEARCH

Codon reassignment in the Escherichia coli genetic code

(2010) T. Mukai et al.   NUCLEIC ACIDS RESEARCH

Kinetic cooperativity in Escherichia coli 30S ribosomal subunit reconstitution reveals additional complexity in the assembly landscape

(2010) A. E. Bunner et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Visualizing Ribosome Biogenesis: Parallel Assembly Pathways for the 30SSubunit

(2010) Anke M. Mulder et al.   SCIENCE

Origin and Evolution of the Ribosome

(2010) G. E. Fox   Cold Spring Harbor Perspectives in Biology

Evolution of Amber Suppressor tRNAs for Efficient Bacterial Production of Proteins Containing Nonnatural Amino Acids

(2009) Jiantao Guo et al.   ANGEWANDTE CHEMIE-INTERNATIONAL EDITION

Position-Specific Incorporation of Fluorescent Non-natural Amino Acids into Maltose-Binding Protein for Detection of Ligand Binding by FRET and Fluorescence Quenching

(2009) Issei Iijima et al.   CHEMBIOCHEM

Translation Initiation with Initiator tRNA Charged with Exotic Peptides

(2009) Yuki Goto et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Quantifying epistatic interactions among the components constituting the protein translation system

(2009) Tomoaki Matsuura et al.   Molecular Systems Biology

Reprogramming the Translation Initiation for the Synthesis of Physiologically Stable Cyclic Peptides

(2008) Yuki Goto et al.   ACS Chemical Biology

High-level cell-free synthesis yields of proteins containing site-specific non-natural amino acids

(2008) Aaron R. Goerke et al.   BIOTECHNOLOGY AND BIOENGINEERING

Polymerization of α-Hydroxy Acids by Ribosomes

(2008) Atsushi Ohta et al.   CHEMBIOCHEM

The Role of 23S Ribosomal RNA Residue A2451 in Peptide Bond Synthesis Revealed by Atomic Mutagenesis

(2008) Kathrin Lang et al.   CHEMISTRY & BIOLOGY

Messenger RNA-Programmed Incorporation of Multiple N-Methyl-Amino Acids into Linear and Cyclic Peptides

(2008) Takashi Kawakami et al.   CHEMISTRY & BIOLOGY

Dynamics of Recognition between tRNA and Elongation Factor Tu

(2008) John Eargle et al.   JOURNAL OF MOLECULAR BIOLOGY

Ribosomal Synthesis of Polypeptoids and Peptoid−Peptide Hybrids

(2008) Takashi Kawakami et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

An integrated cell-free metabolic platform for protein production and synthetic biology

(2008) Michael C Jewett et al.   Molecular Systems Biology

A single-step method for purification of active His-tagged ribosomes from a genetically engineered Escherichia coli

(2008) J. Ederth et al.   NUCLEIC ACIDS RESEARCH

Side-chain recognition and gating in the ribosome exit tunnel

(2008) P. M. Petrone et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Initiating translation with D-amino acids

(2008) Y. Goto et al.   RNA