Literature DB >> 21925380

Engineering biological systems with synthetic RNA molecules.

Joe C Liang1, Ryan J Bloom, Christina D Smolke.   

Abstract

RNA molecules play diverse functional roles in natural biological systems. There has been growing interest in designing synthetic RNA counterparts for programming biological function. The design of synthetic RNA molecules that exhibit diverse activities, including sensing, regulatory, information processing, and scaffolding activities, has highlighted the advantages of RNA as a programmable design substrate. Recent advances in implementing these engineered RNA molecules as key control elements in synthetic genetic networks are highlighting the functional relevance of this class of synthetic elements in programming cellular behaviors.
Copyright © 2011 Elsevier Inc. All rights reserved.

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Year:  2011        PMID: 21925380      PMCID: PMC3176441          DOI: 10.1016/j.molcel.2011.08.023

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  79 in total

Review 1.  Gene regulation by riboswitches.

Authors:  Maumita Mandal; Ronald R Breaker
Journal:  Nat Rev Mol Cell Biol       Date:  2004-06       Impact factor: 94.444

2.  NUPACK: Analysis and design of nucleic acid systems.

Authors:  Joseph N Zadeh; Conrad D Steenberg; Justin S Bois; Brian R Wolfe; Marshall B Pierce; Asif R Khan; Robert M Dirks; Niles A Pierce
Journal:  J Comput Chem       Date:  2011-01-15       Impact factor: 3.376

Review 3.  Regulation of translation via mRNA structure in prokaryotes and eukaryotes.

Authors:  Marilyn Kozak
Journal:  Gene       Date:  2005-10-05       Impact factor: 3.688

4.  Molecular basis for temperature sensing by an RNA thermometer.

Authors:  Saheli Chowdhury; Christophe Maris; Frédéric H-T Allain; Franz Narberhaus
Journal:  EMBO J       Date:  2006-05-18       Impact factor: 11.598

5.  Improved aptazyme design and in vivo screening enable riboswitching in bacteria.

Authors:  Markus Wieland; Jörg S Hartig
Journal:  Angew Chem Int Ed Engl       Date:  2008       Impact factor: 15.336

6.  Engineering complex riboswitch regulation by dual genetic selection.

Authors:  Vandana Sharma; Yoko Nomura; Yohei Yokobayashi
Journal:  J Am Chem Soc       Date:  2008-12-03       Impact factor: 15.419

Review 7.  Attenuation in the control of expression of bacterial operons.

Authors:  C Yanofsky
Journal:  Nature       Date:  1981-02-26       Impact factor: 49.962

8.  Genetic control of mammalian T-cell proliferation with synthetic RNA regulatory systems.

Authors:  Yvonne Y Chen; Michael C Jensen; Christina D Smolke
Journal:  Proc Natl Acad Sci U S A       Date:  2010-04-26       Impact factor: 11.205

9.  Informing biological design by integration of systems and synthetic biology.

Authors:  Christina D Smolke; Pamela A Silver
Journal:  Cell       Date:  2011-03-18       Impact factor: 41.582

10.  Design of small molecule-responsive microRNAs based on structural requirements for Drosha processing.

Authors:  Chase L Beisel; Yvonne Y Chen; Stephanie J Culler; Kevin G Hoff; Christina D Smolke
Journal:  Nucleic Acids Res       Date:  2010-12-11       Impact factor: 16.971

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  72 in total

Review 1.  RNA-based therapeutics: current progress and future prospects.

Authors:  John C Burnett; John J Rossi
Journal:  Chem Biol       Date:  2012-01-27

2.  Synthetic biology: Automated design of RNA devices.

Authors:  Farren J Isaacs
Journal:  Nat Chem Biol       Date:  2012-04-17       Impact factor: 15.040

Review 3.  Synthetic RNA switches as a tool for temporal and spatial control over gene expression.

Authors:  Andrew L Chang; Joshua J Wolf; Christina D Smolke
Journal:  Curr Opin Biotechnol       Date:  2012-02-03       Impact factor: 9.740

4.  Design and use of synthetic regulatory small RNAs to control gene expression in Escherichia coli.

Authors:  Seung Min Yoo; Dokyun Na; Sang Yup Lee
Journal:  Nat Protoc       Date:  2013-08-08       Impact factor: 13.491

Review 5.  Global analysis of riboswitches by small-angle X-ray scattering and calorimetry.

Authors:  Jinwei Zhang; Christopher P Jones; Adrian R Ferré-D'Amaré
Journal:  Biochim Biophys Acta       Date:  2014-04-24

6.  Genome-wide analyses in bacteria show small-RNA enrichment for long and conserved intergenic regions.

Authors:  Chen-Hsun Tsai; Rick Liao; Brendan Chou; Michael Palumbo; Lydia M Contreras
Journal:  J Bacteriol       Date:  2014-10-13       Impact factor: 3.490

7.  Design criteria for synthetic riboswitches acting on transcription.

Authors:  Manja Wachsmuth; Gesine Domin; Ronny Lorenz; Robert Serfling; Sven Findeiß; Peter F Stadler; Mario Mörl
Journal:  RNA Biol       Date:  2015       Impact factor: 4.652

Review 8.  Strategies for manipulation of oxygen utilization by the electron transfer chain in microbes for metabolic engineering purposes.

Authors:  George N Bennett; Ka-Yiu San
Journal:  J Ind Microbiol Biotechnol       Date:  2016-10-31       Impact factor: 3.346

Review 9.  Synthetic biology in mammalian cells: next generation research tools and therapeutics.

Authors:  Florian Lienert; Jason J Lohmueller; Abhishek Garg; Pamela A Silver
Journal:  Nat Rev Mol Cell Biol       Date:  2014-01-17       Impact factor: 94.444

10.  Rational design of a synthetic mammalian riboswitch as a ligand-responsive -1 ribosomal frame-shifting stimulator.

Authors:  Ya-Hui Lin; Kung-Yao Chang
Journal:  Nucleic Acids Res       Date:  2016-08-12       Impact factor: 16.971

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