Literature DB >> 23089870

RNA catalysis through compartmentalization.

Christopher A Strulson1, Rosalynn C Molden, Christine D Keating, Philip C Bevilacqua.   

Abstract

RNA performs important cellular functions in contemporary life forms. Its ability to act both as a catalyst and a storage mechanism for genetic information is also an important part of the RNA world hypothesis. Compartmentalization within modern cells allows the local concentration of RNA to be controlled and it has been suggested that this was also important in early life forms. Here, we mimic intracellular compartmentalization and macromolecular crowding by partitioning RNA in an aqueous two-phase system (ATPS). We show that the concentration of RNA is enriched by up to 3,000-fold in the dextran-rich phase of a polyethylene glycol/dextran ATPS and demonstrate that this can lead to approximately 70-fold increase in the rate of ribozyme cleavage. This rate enhancement can be tuned by the relative volumes of the two phases in the ATPS. Our observations support the importance of compartmentalization in the attainment of function in an RNA World as well as in modern biology.

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Year:  2012        PMID: 23089870     DOI: 10.1038/nchem.1466

Source DB:  PubMed          Journal:  Nat Chem        ISSN: 1755-4330            Impact factor:   24.427


  37 in total

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Authors:  Andrew D Griffiths; Dan S Tawfik
Journal:  EMBO J       Date:  2003-01-02       Impact factor: 11.598

2.  Molecular evolution: booting up life.

Authors:  Gerald F Joyce
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3.  Characterization of a native hammerhead ribozyme derived from schistosomes.

Authors:  Edith M Osborne; Janell E Schaak; Victoria J Derose
Journal:  RNA       Date:  2005-02       Impact factor: 4.942

4.  Dynamic microcompartmentation in synthetic cells.

Authors:  M Scott Long; Clinton D Jones; Marcus R Helfrich; Lauren K Mangeney-Slavin; Christine D Keating
Journal:  Proc Natl Acad Sci U S A       Date:  2005-03-23       Impact factor: 11.205

5.  Movement of eukaryotic mRNAs between polysomes and cytoplasmic processing bodies.

Authors:  Muriel Brengues; Daniela Teixeira; Roy Parker
Journal:  Science       Date:  2005-09-01       Impact factor: 47.728

6.  Robust protein protein interactions in crowded cellular environments.

Authors:  Eric J Deeds; Orr Ashenberg; Jaline Gerardin; Eugene I Shakhnovich
Journal:  Proc Natl Acad Sci U S A       Date:  2007-09-11       Impact factor: 11.205

7.  Thermodynamics of RNA folding in a conserved ribosomal RNA domain.

Authors:  L G Laing; D E Draper
Journal:  J Mol Biol       Date:  1994-04-15       Impact factor: 5.469

8.  The crystal structure of an all-RNA hammerhead ribozyme: a proposed mechanism for RNA catalytic cleavage.

Authors:  W G Scott; J T Finch; A Klug
Journal:  Cell       Date:  1995-06-30       Impact factor: 41.582

9.  Specificity of hammerhead ribozyme cleavage.

Authors:  K J Hertel; D Herschlag; O C Uhlenbeck
Journal:  EMBO J       Date:  1996-07-15       Impact factor: 11.598

10.  Principles of microRNA-target recognition.

Authors:  Julius Brennecke; Alexander Stark; Robert B Russell; Stephen M Cohen
Journal:  PLoS Biol       Date:  2005-03       Impact factor: 8.029

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  82 in total

1.  Effect of Co-solutes on Template-Directed Nonenzymatic Replication of Nucleic Acids.

Authors:  Niraja V Bapat; Sudha Rajamani
Journal:  J Mol Evol       Date:  2015-10-06       Impact factor: 2.395

2.  Phosphorylation-mediated RNA/peptide complex coacervation as a model for intracellular liquid organelles.

Authors:  William M Aumiller; Christine D Keating
Journal:  Nat Chem       Date:  2015-12-21       Impact factor: 24.427

3.  Increased ribozyme activity in crowded solutions.

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Journal:  J Biol Chem       Date:  2013-12-11       Impact factor: 5.157

4.  Engineered Ribonucleoprotein Granules Inhibit Translation in Protocells.

Authors:  Joseph R Simon; Seyed Ali Eghtesadi; Michael Dzuricky; Lingchong You; Ashutosh Chilkoti
Journal:  Mol Cell       Date:  2019-06-04       Impact factor: 17.970

Review 5.  The RNA World: molecular cooperation at the origins of life.

Authors:  Paul G Higgs; Niles Lehman
Journal:  Nat Rev Genet       Date:  2014-11-11       Impact factor: 53.242

6.  Molecular crowding and early evolution.

Authors:  Ranajay Saha; Andrew Pohorille; Irene A Chen
Journal:  Orig Life Evol Biosph       Date:  2015-01-14       Impact factor: 1.950

Review 7.  New Insights into the Functions of Nucleic Acids Controlled by Cellular Microenvironments.

Authors:  Saki Matsumoto; Naoki Sugimoto
Journal:  Top Curr Chem (Cham)       Date:  2021-03-30

8.  Liposome membrane can induce self-cleavage of RNA that models the core fragments of hammerhead ribozyme.

Authors:  Keishi Suga; Seishiro Tanaka; Hiroshi Umakoshi
Journal:  Eur Biophys J       Date:  2015-09-18       Impact factor: 1.733

Review 9.  The Role of RNA in Biological Phase Separations.

Authors:  Marta M Fay; Paul J Anderson
Journal:  J Mol Biol       Date:  2018-05-10       Impact factor: 5.469

10.  Enhanced deoxyribozyme-catalyzed RNA ligation in the presence of organic cosolvents.

Authors:  Anit K Behera; Kelsey J Schlund; Allen J Mason; Kennedy O Alila; Mengyu Han; Rebecca L Grout; Dana A Baum
Journal:  Biopolymers       Date:  2013-06       Impact factor: 2.505

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