Literature DB >> 29560725

Physical Principles and Extant Biology Reveal Roles for RNA-Containing Membraneless Compartments in Origins of Life Chemistry.

Raghav R Poudyal1,2, Fatma Pir Cakmak1, Christine D Keating1, Philip C Bevilacqua1,2,3.   

Abstract

This Perspective focuses on RNA in biological and nonbiological compartments resulting from liquid-liquid phase separation (LLPS), with an emphasis on origins of life. In extant cells, intracellular liquid condensates, many of which are rich in RNAs and intrinsically disordered proteins, provide spatial regulation of biomolecular interactions that can result in altered gene expression. Given the diversity of biogenic and abiogenic molecules that undergo LLPS, such membraneless compartments may have also played key roles in prebiotic chemistries relevant to the origins of life. The RNA World hypothesis posits that RNA may have served as both a genetic information carrier and a catalyst during the origin of life. Because of its polyanionic backbone, RNA can undergo LLPS by complex coacervation in the presence of polycations. Phase separation could provide a mechanism for concentrating monomers for RNA synthesis and selectively partition longer RNAs with enzymatic functions, thus driving prebiotic evolution. We introduce several types of LLPS that could lead to compartmentalization and discuss potential roles in template-mediated non-enzymatic polymerization of RNA and other related biomolecules, functions of ribozymes and aptamers, and benefits or penalties imparted by liquid demixing. We conclude that tiny liquid droplets may have concentrated precious biomolecules and acted as bioreactors in the RNA World.

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Year:  2018        PMID: 29560725      PMCID: PMC7276092          DOI: 10.1021/acs.biochem.8b00081

Source DB:  PubMed          Journal:  Biochemistry        ISSN: 0006-2960            Impact factor:   3.162


  80 in total

Review 1.  The antiquity of RNA-based evolution.

Authors:  Gerald F Joyce
Journal:  Nature       Date:  2002-07-11       Impact factor: 49.962

2.  On the molecular mechanisms of elastin coacervation and coacervate calcification.

Authors:  D W Urry
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3.  Oligonucleotide-Peptide Complexes: Phase Control by Hybridization.

Authors:  Jeffrey R Vieregg; Michael Lueckheide; Amanda B Marciel; Lorraine Leon; Alex J Bologna; Josean Reyes Rivera; Matthew V Tirrell
Journal:  J Am Chem Soc       Date:  2018-01-26       Impact factor: 15.419

4.  Active liquid-like behavior of nucleoli determines their size and shape in Xenopus laevis oocytes.

Authors:  Clifford P Brangwynne; Timothy J Mitchison; Anthony A Hyman
Journal:  Proc Natl Acad Sci U S A       Date:  2011-02-28       Impact factor: 11.205

5.  A viscous solvent enables information transfer from gene-length nucleic acids in a model prebiotic replication cycle.

Authors:  Christine He; Isaac Gállego; Brandon Laughlin; Martha A Grover; Nicholas V Hud
Journal:  Nat Chem       Date:  2016-10-10       Impact factor: 24.427

6.  Bridging the gap between in vitro and in vivo RNA folding.

Authors:  Kathleen A Leamy; Sarah M Assmann; David H Mathews; Philip C Bevilacqua
Journal:  Q Rev Biophys       Date:  2016-06-24       Impact factor: 5.318

7.  Biocatalyzed mineralization in an aqueous two-phase system: effect of background polymers and enzyme partitioning.

Authors:  David N Cacace; Christine D Keating
Journal:  J Mater Chem B       Date:  2013-02-08       Impact factor: 6.331

8.  Nucleophosmin integrates within the nucleolus via multi-modal interactions with proteins displaying R-rich linear motifs and rRNA.

Authors:  Diana M Mitrea; Jaclyn A Cika; Clifford S Guy; David Ban; Priya R Banerjee; Christopher B Stanley; Amanda Nourse; Ashok A Deniz; Richard W Kriwacki
Journal:  Elife       Date:  2016-02-02       Impact factor: 8.140

Review 9.  Phase separation in biology; functional organization of a higher order.

Authors:  Diana M Mitrea; Richard W Kriwacki
Journal:  Cell Commun Signal       Date:  2016-01-05       Impact factor: 5.712

10.  Montmorillonite protection of an UV-irradiated hairpin ribozyme: evolution of the RNA world in a mineral environment.

Authors:  Elisa Biondi; Sergio Branciamore; Marie-Christine Maurel; Enzo Gallori
Journal:  BMC Evol Biol       Date:  2007-08-16       Impact factor: 3.260

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  32 in total

1.  Determination of Aqueous Two-Phase System Binodals and Tie-Lines by Electrowetting-on-Dielectric Droplet Manipulation.

Authors:  Taisuke Kojima; Chu-Chi Lin; Shuichi Takayama; Shih-Kang Fan
Journal:  Chembiochem       Date:  2018-12-13       Impact factor: 3.164

Review 2.  Formation of biological condensates via phase separation: Characteristics, analytical methods, and physiological implications.

Authors:  Zhe Feng; Xudong Chen; Xiandeng Wu; Mingjie Zhang
Journal:  J Biol Chem       Date:  2019-08-23       Impact factor: 5.157

3.  Liquid-liquid phase separation in artificial cells.

Authors:  Charles D Crowe; Christine D Keating
Journal:  Interface Focus       Date:  2018-08-17       Impact factor: 3.906

Review 4.  Blank spots on the map: some current questions on nuclear organization and genome architecture.

Authors:  Carmen Adriaens; Leonid A Serebryannyy; Marina Feric; Andria Schibler; Karen J Meaburn; Nard Kubben; Pawel Trzaskoma; Sigal Shachar; Sandra Vidak; Elizabeth H Finn; Varun Sood; Gianluca Pegoraro; Tom Misteli
Journal:  Histochem Cell Biol       Date:  2018-09-20       Impact factor: 4.304

5.  Lipid Vesicle-Coated Complex Coacervates.

Authors:  Fatma Pir Cakmak; Alex T Grigas; Christine D Keating
Journal:  Langmuir       Date:  2019-05-24       Impact factor: 3.882

Review 6.  Nonspecific characteristics of macromolecules create specific effects in living cells.

Authors:  Kanta Tsumoto; Hiroki Sakuta; Kingo Takiguchi; Kenichi Yoshikawa
Journal:  Biophys Rev       Date:  2020-03-06

7.  Polyanion-Assisted Ribozyme Catalysis Inside Complex Coacervates.

Authors:  Raghav R Poudyal; Christine D Keating; Philip C Bevilacqua
Journal:  ACS Chem Biol       Date:  2019-06-07       Impact factor: 5.100

Review 8.  Multiple Modes of Protein-Protein Interactions Promote RNP Granule Assembly.

Authors:  Tanja Mittag; Roy Parker
Journal:  J Mol Biol       Date:  2018-08-09       Impact factor: 5.469

Review 9.  The role of liquid-liquid phase separation in regulating enzyme activity.

Authors:  Brian G O'Flynn; Tanja Mittag
Journal:  Curr Opin Cell Biol       Date:  2021-01-24       Impact factor: 8.382

Review 10.  FUS and TDP-43 Phases in Health and Disease.

Authors:  Bede Portz; Bo Lim Lee; James Shorter
Journal:  Trends Biochem Sci       Date:  2021-01-11       Impact factor: 13.807

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