Literature DB >> 27663774

Alternative Watson-Crick Synthetic Genetic Systems.

Steven A Benner1, Nilesh B Karalkar1, Shuichi Hoshika1, Roberto Laos1, Ryan W Shaw1, Mariko Matsuura1, Diego Fajardo1, Patricia Moussatche1.   

Abstract

In its "grand challenge" format in chemistry, "synthesis" as an activity sets out a goal that is substantially beyond current theoretical and technological capabilities. In pursuit of this goal, scientists are forced across uncharted territory, where they must answer unscripted questions and solve unscripted problems, creating new theories and new technologies in ways that would not be created by hypothesis-directed research. Thus, synthesis drives discovery and paradigm changes in ways that analysis cannot. Described here are the products that have arisen so far through the pursuit of one grand challenge in synthetic biology: Recreate the genetics, catalysis, evolution, and adaptation that we value in life, but using genetic and catalytic biopolymers different from those that have been delivered to us by natural history on Earth. The outcomes in technology include new diagnostic tools that have helped personalize the care of hundreds of thousands of patients worldwide. In science, the effort has generated a fundamentally different view of DNA, RNA, and how they work.
Copyright © 2016 Cold Spring Harbor Laboratory Press; all rights reserved.

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Year:  2016        PMID: 27663774      PMCID: PMC5088529          DOI: 10.1101/cshperspect.a023770

Source DB:  PubMed          Journal:  Cold Spring Harb Perspect Biol        ISSN: 1943-0264            Impact factor:   10.005


  75 in total

1.  Synthetic biology.

Authors:  A Michael Sismour; Steven A Benner
Journal:  Expert Opin Biol Ther       Date:  2005-11       Impact factor: 4.388

2.  Role of frontier orbitals in chemical reactions.

Authors:  K Fukui
Journal:  Science       Date:  1982-11-19       Impact factor: 47.728

3.  An alternative nucleobase code: characterization of purine-purine DNA double helices bearing guanine-isoguanine and diaminopurine 7-deaza-xanthine base pairs.

Authors:  Benjamin D Heuberger; Christopher Switzer
Journal:  Chembiochem       Date:  2008-11-24       Impact factor: 3.164

4.  In vitro selection with artificial expanded genetic information systems.

Authors:  Kwame Sefah; Zunyi Yang; Kevin M Bradley; Shuichi Hoshika; Elizabeth Jiménez; Liqin Zhang; Guizhi Zhu; Savita Shanker; Fahong Yu; Diane Turek; Weihong Tan; Steven A Benner
Journal:  Proc Natl Acad Sci U S A       Date:  2013-12-30       Impact factor: 11.205

5.  Helicase-Dependent Isothermal Amplification of DNA and RNA by Using Self-Avoiding Molecular Recognition Systems.

Authors:  Zunyi Yang; Chris McLendon; Daniel Hutter; Kevin M Bradley; Shuichi Hoshika; Carole B Frye; Steven A Benner
Journal:  Chembiochem       Date:  2015-05-07       Impact factor: 3.164

6.  Flexizymes: their evolutionary history and the origin of catalytic function.

Authors:  Jumpei Morimoto; Yuuki Hayashi; Kazuhiro Iwasaki; Hiroaki Suga
Journal:  Acc Chem Res       Date:  2011-06-28       Impact factor: 22.384

7.  Evolution of functional six-nucleotide DNA.

Authors:  Liqin Zhang; Zunyi Yang; Kwame Sefah; Kevin M Bradley; Shuichi Hoshika; Myong-Jung Kim; Hyo-Joong Kim; Guizhi Zhu; Elizabeth Jiménez; Sena Cansiz; I-Ting Teng; Carole Champanhac; Christopher McLendon; Chen Liu; Wen Zhang; Dietlind L Gerloff; Zhen Huang; Weihong Tan; Steven A Benner
Journal:  J Am Chem Soc       Date:  2015-05-20       Impact factor: 15.419

8.  Redesigning nucleic acids.

Authors:  S A Benner; T R Battersby; B Eschgfaller; D Hutter; J T Kodra; S Lutz; T Arslan; D K Baschlin; M Blattler; M Egli; C Hammer; H A Held; J Horlacher; Z Huang; B Hyrup; T F Jenny; S C Jurczyk; M Konig; U von Krosigk; M J Lutz; L J MacPherson; S E Moroney; E Muller; K P Nambiar; J A Piccirilli; C Y Switzer; J J Vogel; C Richert; A L Roughton; J Schmidt; K C Schneider; J Stackhouse
Journal:  Pure Appl Chem       Date:  1998-02       Impact factor: 2.453

9.  PCR with an expanded genetic alphabet.

Authors:  Denis A Malyshev; Young Jun Seo; Phillip Ordoukhanian; Floyd E Romesberg
Journal:  J Am Chem Soc       Date:  2009-10-21       Impact factor: 15.419

10.  The use of thymidine analogs to improve the replication of an extra DNA base pair: a synthetic biological system.

Authors:  A Michael Sismour; Steven A Benner
Journal:  Nucleic Acids Res       Date:  2005-09-28       Impact factor: 16.971

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  22 in total

Review 1.  Beyond DNA and RNA: The Expanding Toolbox of Synthetic Genetics.

Authors:  Alexander I Taylor; Gillian Houlihan; Philipp Holliger
Journal:  Cold Spring Harb Perspect Biol       Date:  2019-06-03       Impact factor: 10.005

2.  Structure and Biophysics for a Six Letter DNA Alphabet that Includes Imidazo[1,2-a]-1,3,5-triazine-2(8H)-4(3H)-dione (X) and 2,4-Diaminopyrimidine (K).

Authors:  Isha Singh; Myong-Jung Kim; Robert W Molt; Shuichi Hoshika; Steven A Benner; Millie M Georgiadis
Journal:  ACS Synth Biol       Date:  2017-08-15       Impact factor: 5.110

Review 3.  Rewriting the Genetic Code.

Authors:  Takahito Mukai; Marc J Lajoie; Markus Englert; Dieter Söll
Journal:  Annu Rev Microbiol       Date:  2017-07-11       Impact factor: 15.500

4.  Regulation of Protein Activity and Cellular Functions Mediated by Molecularly Evolved Nucleic Acids.

Authors:  Jie Tan; Mengmeng Zhao; Jie Wang; Zhihao Li; Ling Liang; Liqin Zhang; Quan Yuan; Weihong Tan
Journal:  Angew Chem Int Ed Engl       Date:  2019-01-14       Impact factor: 15.336

5.  Hachimoji DNA and RNA: A genetic system with eight building blocks.

Authors:  Shuichi Hoshika; Nicole A Leal; Myong-Jung Kim; Myong-Sang Kim; Nilesh B Karalkar; Hyo-Joong Kim; Alison M Bates; Norman E Watkins; Holly A SantaLucia; Adam J Meyer; Saurja DasGupta; Joseph A Piccirilli; Andrew D Ellington; John SantaLucia; Millie M Georgiadis; Steven A Benner
Journal:  Science       Date:  2019-02-22       Impact factor: 47.728

6.  A Tool for the Import of Natural and Unnatural Nucleoside Triphosphates into Bacteria.

Authors:  Aaron W Feldman; Emil C Fischer; Michael P Ledbetter; Jen-Yu Liao; John C Chaput; Floyd E Romesberg
Journal:  J Am Chem Soc       Date:  2018-01-17       Impact factor: 15.419

7.  Ligand-Guided Selection with Artificially Expanded Genetic Information Systems against TCR-CD3ε.

Authors:  Hasan Zumrut; Zunyi Yang; Nicole Williams; Joekeem Arizala; Sana Batool; Steven A Benner; Prabodhika Mallikaratchy
Journal:  Biochemistry       Date:  2020-01-08       Impact factor: 3.162

Review 8.  Unnatural bases for recognition of noncoding nucleic acid interfaces.

Authors:  Shiqin Miao; Yufeng Liang; Sarah Rundell; Debmalya Bhunia; Shekar Devari; Oliver Munyaradzi; Dennis Bong
Journal:  Biopolymers       Date:  2020-09-24       Impact factor: 2.505

9.  Screening of Minimalist Noncanonical Sites in Duplex DNA and RNA Reveals Context and Motif-Selective Binding by Fluorogenic Base Probes.

Authors:  Yufeng Liang; Shiqin Miao; Jie Mao; Shekaraiah Devari; Maricarmen Gonzalez; Dennis Bong
Journal:  Chemistry       Date:  2021-11-24       Impact factor: 5.236

Review 10.  Triazole-Modified Nucleic Acids for the Application in Bioorganic and Medicinal Chemistry.

Authors:  Dagmara Baraniak; Jerzy Boryski
Journal:  Biomedicines       Date:  2021-05-31
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