Literature DB >> 28869851

Repurposing ribosomes for synthetic biology.

Yi Liu1, Do Soon Kim2, Michael C Jewett3.   

Abstract

The translation system is the cell's factory for protein biosynthesis, stitching together hundreds to thousands of amino acids into proteins, which are required for the structure, function, and regulation of living systems. The extraordinary synthetic capability of this system, which includes the ribosome and its associated factors required for polymerization, has driven extensive efforts to harness it for societal use in areas as diverse as energy, materials, and medicine. A powerful example is recombinant protein production, which has impacted the lives of patients through the synthesis of biopharmaceuticals such as insulin. In nature, however, only limited sets of monomers are utilized, thereby resulting in limited sets of biopolymers (i.e., proteins). Expanding nature's repertoire of ribosomal monomers could yield new classes of enzymes, therapeutics, materials, and chemicals with diverse, genetically encoded chemistry. Here, we discuss recent progress towards engineering ribosomes both in vivo and in vitro. These fundamental and technical breakthroughs open doors for advanced applications in biotechnology and synthetic biology.
Copyright © 2017 Elsevier Ltd. All rights reserved.

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Year:  2017        PMID: 28869851      PMCID: PMC5696040          DOI: 10.1016/j.cbpa.2017.07.012

Source DB:  PubMed          Journal:  Curr Opin Chem Biol        ISSN: 1367-5931            Impact factor:   8.822


  61 in total

1.  A network of orthogonal ribosome x mRNA pairs.

Authors:  Oliver Rackham; Jason W Chin
Journal:  Nat Chem Biol       Date:  2005-07-17       Impact factor: 15.040

2.  Addition of an alpha-hydroxy acid to the genetic code of bacteria.

Authors:  Jiantao Guo; Jiangyun Wang; J Christopher Anderson; Peter G Schultz
Journal:  Angew Chem Int Ed Engl       Date:  2008       Impact factor: 15.336

3.  Synthesis of polyester by means of genetic code reprogramming.

Authors:  Atsushi Ohta; Hiroshi Murakami; Eri Higashimura; Hiroaki Suga
Journal:  Chem Biol       Date:  2007-12

4.  Synthesis of orthogonal transcription-translation networks.

Authors:  Wenlin An; Jason W Chin
Journal:  Proc Natl Acad Sci U S A       Date:  2009-05-14       Impact factor: 11.205

5.  Cogenerating Synthetic Parts toward a Self-Replicating System.

Authors:  Jun Li; Wilhelm Haas; Kirsten Jackson; Erkin Kuru; Michael C Jewett; Z Hugh Fan; Steven Gygi; George M Church
Journal:  ACS Synth Biol       Date:  2017-03-29       Impact factor: 5.110

6.  Engineered rRNA enhances the efficiency of selenocysteine incorporation during translation.

Authors:  Ross Thyer; Aleksandra Filipovska; Oliver Rackham
Journal:  J Am Chem Soc       Date:  2012-12-27       Impact factor: 15.419

Review 7.  Repurposing the translation apparatus for synthetic biology.

Authors:  Benjamin J Des Soye; Jaymin R Patel; Farren J Isaacs; Michael C Jewett
Journal:  Curr Opin Chem Biol       Date:  2015-07-15       Impact factor: 8.822

8.  In vitro complementation analysis localizes 23S rRNA posttranscriptional modifications that are required for Escherichia coli 50S ribosomal subunit assembly and function.

Authors:  R Green; H F Noller
Journal:  RNA       Date:  1996-10       Impact factor: 4.942

9.  Enhanced D-amino acid incorporation into protein by modified ribosomes.

Authors:  Larisa M Dedkova; Nour Eddine Fahmi; Serguei Y Golovine; Sidney M Hecht
Journal:  J Am Chem Soc       Date:  2003-06-04       Impact factor: 15.419

10.  Evolved orthogonal ribosomes enhance the efficiency of synthetic genetic code expansion.

Authors:  Kaihang Wang; Heinz Neumann; Sew Y Peak-Chew; Jason W Chin
Journal:  Nat Biotechnol       Date:  2007-06-24       Impact factor: 54.908

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  11 in total

1.  A Highly Productive, One-Pot Cell-Free Protein Synthesis Platform Based on Genomically Recoded Escherichia coli.

Authors:  Benjamin J Des Soye; Vincent R Gerbasi; Paul M Thomas; Neil L Kelleher; Michael C Jewett
Journal:  Cell Chem Biol       Date:  2019-11-06       Impact factor: 8.116

2.  Mutational characterization and mapping of the 70S ribosome active site.

Authors:  Anne E d'Aquino; Tasfia Azim; Nikolay A Aleksashin; Adam J Hockenberry; Antje Krüger; Michael C Jewett
Journal:  Nucleic Acids Res       Date:  2020-03-18       Impact factor: 16.971

Review 3.  Diversity, versatility and complexity of bacterial gene regulation mechanisms: opportunities and drawbacks for applications in synthetic biology.

Authors:  Indra Bervoets; Daniel Charlier
Journal:  FEMS Microbiol Rev       Date:  2019-05-01       Impact factor: 16.408

4.  Three-dimensional structure-guided evolution of a ribosome with tethered subunits.

Authors:  Do Soon Kim; Andrew Watkins; Erik Bidstrup; Joongoo Lee; Ved Topkar; Camila Kofman; Kevin J Schwarz; Yan Liu; Grigore Pintilie; Emily Roney; Rhiju Das; Michael C Jewett
Journal:  Nat Chem Biol       Date:  2022-07-14       Impact factor: 16.174

Review 5.  Specialised ribosomes as versatile regulators of gene expression.

Authors:  Minju Joo; Ji-Hyun Yeom; Younkyung Choi; Hyeon Jun; Wooseok Song; Hyun-Lee Kim; Kangseok Lee; Eunkyoung Shin
Journal:  RNA Biol       Date:  2022-01       Impact factor: 4.766

6.  Engineered ribosomes with tethered subunits for expanding biological function.

Authors:  Erik D Carlson; Anne E d'Aquino; Do Soon Kim; Emily M Fulk; Kim Hoang; Teresa Szal; Alexander S Mankin; Michael C Jewett
Journal:  Nat Commun       Date:  2019-09-02       Impact factor: 14.919

7.  Expanding the limits of the second genetic code with ribozymes.

Authors:  Joongoo Lee; Kenneth E Schwieter; Andrew M Watkins; Do Soon Kim; Hao Yu; Kevin J Schwarz; Jongdoo Lim; Jaime Coronado; Michelle Byrom; Eric V Anslyn; Andrew D Ellington; Jeffrey S Moore; Michael C Jewett
Journal:  Nat Commun       Date:  2019-11-08       Impact factor: 14.919

8.  Toward an orthogonal central dogma.

Authors:  Chang C Liu; Michael C Jewett; Jason W Chin; Chris A Voigt
Journal:  Nat Chem Biol       Date:  2018-01-16       Impact factor: 15.040

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

Authors:  Vanessa E DeLey Cox; Megan F Cole; Eric A Gaucher
Journal:  ACS Synth Biol       Date:  2019-01-15       Impact factor: 5.110

10.  A versatile cis-acting element reporter system to study the function, maturation and stability of ribosomal RNA mutants in archaea.

Authors:  Michael Jüttner; Matthias Weiß; Nina Ostheimer; Corinna Reglin; Michael Kern; Robert Knüppel; Sébastien Ferreira-Cerca
Journal:  Nucleic Acids Res       Date:  2020-02-28       Impact factor: 16.971

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