Literature DB >> 28983660

Synthetic genome recoding: new genetic codes for new features.

James Kuo1,2, Finn Stirling1,2, Yu Heng Lau1,2, Yekaterina Shulgina3, Jeffrey C Way1,2, Pamela A Silver4,5.   

Abstract

Full genome recoding, or rewriting codon meaning, through chemical synthesis of entire bacterial chromosomes has become feasible in the past several years. Recoding an organism can impart new properties including non-natural amino acid incorporation, virus resistance, and biocontainment. The estimated cost of construction that includes DNA synthesis, assembly by recombination, and troubleshooting, is now comparable to costs of early stage development of drugs or other high-tech products. Here, we discuss several recently published assembly methods and provide some thoughts on the future, including how synthetic efforts might benefit from the analysis of natural recoding processes and organisms that use alternative genetic codes.

Entities:  

Keywords:  Alternative genetic code; Editing; Reassignment

Mesh：

Substances：

Year:  2017        PMID： 28983660      PMCID： PMC5849531          DOI： 10.1007/s00294-017-0754-z

Source DB:  PubMed          Journal:  Curr Genet        ISSN： 0172-8083            Impact factor:   3.886


  59 in total

Review 1.  Expanding the genetic code.

Authors:  Lei Wang; Jianming Xie; Peter G Schultz
Journal:  Annu Rev Biophys Biomol Struct       Date:  2006

2.  Causes and effects of N-terminal codon bias in bacterial genes.

Authors:  Daniel B Goodman; George M Church; Sriram Kosuri
Journal:  Science       Date:  2013-09-26       Impact factor: 47.728

3.  Exploring the potential impact of an expanded genetic code on protein function.

Authors:  Han Xiao; Fariborz Nasertorabi; Sei-Hyun Choi; Gye Won Han; Sean A Reed; Raymond C Stevens; Peter G Schultz
Journal:  Proc Natl Acad Sci U S A       Date:  2015-05-18       Impact factor: 11.205

4.  Programmable bacteria detect and record an environmental signal in the mammalian gut.

Authors:  Jonathan W Kotula; S Jordan Kerns; Lev A Shaket; Layla Siraj; James J Collins; Jeffrey C Way; Pamela A Silver
Journal:  Proc Natl Acad Sci U S A       Date:  2014-03-17       Impact factor: 11.205

5.  Comparative genomics of biotechnologically important yeasts.

Authors:  Robert Riley; Sajeet Haridas; Kenneth H Wolfe; Mariana R Lopes; Chris Todd Hittinger; Markus Göker; Asaf A Salamov; Jennifer H Wisecaver; Tanya M Long; Christopher H Calvey; Andrea L Aerts; Kerrie W Barry; Cindy Choi; Alicia Clum; Aisling Y Coughlan; Shweta Deshpande; Alexander P Douglass; Sara J Hanson; Hans-Peter Klenk; Kurt M LaButti; Alla Lapidus; Erika A Lindquist; Anna M Lipzen; Jan P Meier-Kolthoff; Robin A Ohm; Robert P Otillar; Jasmyn L Pangilinan; Yi Peng; Antonis Rokas; Carlos A Rosa; Carmen Scheuner; Andriy A Sibirny; Jason C Slot; J Benjamin Stielow; Hui Sun; Cletus P Kurtzman; Meredith Blackwell; Igor V Grigoriev; Thomas W Jeffries
Journal:  Proc Natl Acad Sci U S A       Date:  2016-08-17       Impact factor: 11.205

Review 6.  Synonymous but not the same: the causes and consequences of codon bias.

Authors:  Joshua B Plotkin; Grzegorz Kudla
Journal:  Nat Rev Genet       Date:  2010-11-23       Impact factor: 53.242

Review 7.  Genetic code flexibility in microorganisms: novel mechanisms and impact on physiology.

Authors:  Jiqiang Ling; Patrick O'Donoghue; Dieter Söll
Journal:  Nat Rev Microbiol       Date:  2015-09-22       Impact factor: 60.633

8.  Genomic Recoding Broadly Obstructs the Propagation of Horizontally Transferred Genetic Elements.

Authors:  Natalie Jing Ma; Farren J Isaacs
Journal:  Cell Syst       Date:  2016-07-14       Impact factor: 10.304

9.  Recoded organisms engineered to depend on synthetic amino acids.

Authors:  Alexis J Rovner; Adrian D Haimovich; Spencer R Katz; Zhe Li; Michael W Grome; Brandon M Gassaway; Miriam Amiram; Jaymin R Patel; Ryan R Gallagher; Jesse Rinehart; Farren J Isaacs
Journal:  Nature       Date:  2015-01-21       Impact factor: 49.962

Review 10.  Designing logical codon reassignment - Expanding the chemistry in biology.

Authors:  Anaëlle Dumas; Lukas Lercher; Christopher D Spicer; Benjamin G Davis
Journal:  Chem Sci       Date:  2014-07-14       Impact factor: 9.825
View more
  7 in total

Review 1.  Controlling the Implementation of Transgenic Microbes: Are We Ready for What Synthetic Biology Has to Offer?

Authors:  Finn Stirling; Pamela A Silver
Journal:  Mol Cell       Date:  2020-05-21       Impact factor: 17.970

Review 2.  Building genomes to understand biology.

Authors:  Alessandro L V Coradini; Cara B Hull; Ian M Ehrenreich
Journal:  Nat Commun       Date:  2020-12-02       Impact factor: 14.919

3.  Context matters: On the road to responsible biosafety technologies in synthetic biology.

Authors:  Amalia Kallergi; Enrique Asin-Garcia; Vitor Ap Martins Dos Santos; Laurens Landeweerd
Journal:  EMBO Rep       Date:  2020-12-28       Impact factor: 9.071

4.  Addicting Escherichia coli to New-to-Nature Reactions.

Authors:  Rudy Rubini; Clemens Mayer
Journal:  ACS Chem Biol       Date:  2020-11-23       Impact factor: 5.100

5.  ReScribe: An Unrestrained Tool Combining Multiplex Recombineering and Minimal-PAM ScCas9 for Genome Recoding Pseudomonas putida.

Authors:  Enrique Asin-Garcia; Maria Martin-Pascual; Luis Garcia-Morales; Richard van Kranenburg; Vitor A P Martins Dos Santos
Journal:  ACS Synth Biol       Date:  2021-09-22       Impact factor: 5.110

6.  Changing the biological Rosetta stone: the (commercial) potential of recoded microbes.

Authors:  Javier Santos-Moreno; Yolanda Schaerli
Journal:  Microb Biotechnol       Date:  2019-08-01       Impact factor: 5.813

Review 7.  Importance of the 5' regulatory region to bacterial synthetic biology applications.

Authors:  Lisa Tietze; Rahmi Lale
Journal:  Microb Biotechnol       Date:  2021-06-25       Impact factor: 5.813
  7 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.