The origins of life: Old problems, new chemistries

Angewandte Chemie - International Edition

Volumn 52, Issue 1, 2013, Pages 155-162

  Mann, Stephen ^a  

^a UNIVERSITY OF BRISTOL   (United Kingdom)

Author keywords

Origins of life; Protocells; Soft matter; Synthetic life; Systems chemistry

Indexed keywords

ARTIFICIAL LIVING SYSTEMS; EARLY EARTH; INTEGRATIVE FRAMEWORK; ORIGIN OF LIFE; ORIGINS OF LIFE; PROTOCELLS; SOFT MATTER; SYNTHETIC LIFE;

CATALYSIS;

CHEMISTRY;

BIOGENESIS; METHODOLOGY; REVIEW; SYNTHETIC BIOLOGY;

BIOGENESIS; SYNTHETIC BIOLOGY;

EID: 84871941875     PISSN: 14337851     EISSN: 15213773     Source Type: Journal    
DOI: 10.1002/anie.201204968     Document Type: Review

References (106)

1. "The origin of modern terrestrial life": P. Forterre, S. Gribaldo, HFSP J. 2007, 1, 156 - 168.
2. "The systems approach to evolution": R. J. P. Williams, J. J. R. Frausto da Silva, Biochem. Biophys. Res. Commun. 2002, 297, 689 - 699.
3. "Energy flows, metabolism and translation": R. Pascal, L. Boiteau, Philos. Trans. R. Soc. London Ser. B 2011, 366, 2949 - 2958.
4. "Systems of Creation: the emergence of life from non-living matter": S. Mann, Acc. Chem. Res. 2012, DOI: 10.1021/ar200281t.
5. "Ribosome history reveals origin of modern protein synthesis": A. Harish, G. Caetano-Anolies, PLoS One 2012, 7(3), e32776.
6. "Computer simulation on the cooperation of functional molecules during the early stages of evolution": W. Ma, J. Hu, PLoS One 2012, 7(4), e35454.
7. "The stochastic evolution of a protocell: The Gillespie algorithm in a dynamically varying volume": T. Carletti, A. Filisetti, Comput. Math. Methods Med. 2012, DOI: 10.1155/2012/423627.
8. P. L. Luisi, The Emergence of Life, Cambridge University Press, 2006.
9. "The origins of cellular life": J. P. Schrum, T. F. Zhu, J. W. Szostak, Cold Spring Harbor Perspect. Biol. 2010, 2, a002212.
10. "Toward a general theory of evolution: extending Darwinian theory to inanimate matter": A. Pross, J. Syst. Chem. 2011, 2, 1- 14.
11. An Introduction to Astrobiology (Eds.: I. Gilmour, M. A. Sephton), The Open University, Cambridge University Press, 2003.
12. "Genesis-In the beginning: precursors of life, chemical models and early biological evolution": J. Seckbach, Cellular Origin, Life in Extreme Habitats and Astrobiology, Vol. 22, Springer, Heidelberg, 2012.
13. "One or more bound planets per Milky Way star from microlensing observations": A. Cassan et al., Nature 2012, 481, 167 - 169.
14. "A giant step towards artificial life?": D. Deamer, Trends Biotechnol. 2005, 23, 336 - 338.
15. "Approaches to semi-synthetic minimal cells: a review": P. L. Luisi, F. Ferri, P. Stano, Naturwissenschaften 2006, 93, 1 - 13.
16. "Synthetic protocell biology: from reproduction to computation": R. V. Sole, A. Munteanu, C. Rodriguez-Caso, J. Macia, Philos. Trans. R. Soc. London Ser. B 2007, 362, 1727 - 1739.
17. "Development of an artificial cell, from self-organization to computation and self-reproduction": V. Noireaux, Y. T. Maeda, A. Libchaber, Proc. Natl. Acad. Sci. USA 2011, 108, 3473 - 3480.
18. "Synthesis of activated pyrimidine ribonucleotides in prebiotically plausible conditions": M.W. Powner, B. Gerland, J. D. Sutherland, Nature 2009, 459, 239 - 242.
19. "Prebiotic chemistry: a new modus operandi": M.W. Powner, J. D. Sutherland, Philos. Trans. R. Soc. London Ser. B 2011, 366, 2870 - 2877.
20. "Synthetic genetic polymers capable of heredity and evolution": V. B. Pinheiro,A. I. Taylor, C. Cozens,M. Abramov,M. Renders, S. Zhang, J. C. Chaput, J. Wengel, S. Y. Peak-Chew, S. H. McLaughlin, P. Herdewijn, P. Holliger, Science 2012, 336, 341 - 344.
21. "Expanded genetic alphabets in the polymerase chain reaction": Z. Yang, F. Chen, S. G. Chamberlin, S. A. Benner, Angew. Chem. 2010, 122, 181 - 184
22. Angew. Chem. Int. Ed. 2010, 49, 177 - 180.
23. "Toward a designed genetic system with biochemical function: polymerase synthesis of single and multiple size-expanded DNA base pairs": H. Lu, A. T. Kreuger, J. Gao, H. Liu, E. T. Kool, Org. Biomol. Chem. 2010, 8, 2704 - 2710.
24. "Incorporation of thymine nucleotides by DNA polymerases through T-HgII -T base pairing": H. Urata, E. Yamaguchi, T. Funai,Y. Matsumara, S.-i.Wada, Angew. Chem. 2010, 122, 6666 - 6669
25. Angew. Chem. Int. Ed. 2010, 49, 6516 - 6519.
26. "Pyrimidine - pyrimidine base pairs stabilized by silver(I) ions": H. Urata, E. Yamaguchi, Y. Nakamara, S.-i. Wada, Chem. Commun. 2011, 47, 941 - 943.
27. "Reversible bond formation enables the replication and amplification of a crosslinking salen complex as an orthogonal base pair": C. Kaul, M. Muller, M. Wagner, S. Schneider, T. Carell, Nat. Chem. 2011, 3, 794 - 800.
28. "Etiology of potentially primordial biomolecular structures: from vitamin B12 to the nucleic acids and an inquiry into the chemistry of life's origin: a retrospective": A. Eschenmoser, Angew. Chem. 2011, 123, 12618 - 12681
29. Angew. Chem. Int. Ed. 2011, 50, 12412 - 12472.
30. "The search for the chemistry of life's origin": A. Eschenmoser, Tetrahedron 2007, 63, 12821 - 12844.
31. "The structure of a TNA-TNA complex in solution: NMR study of the octamer duplex derived from α-(l)-threofuranosyl- (3′,2′)- CGAATTCG": M.-O. Ebert, C. Mang, R. Krishnamurthy, A. Eschenmoser, B. Jaun, J. Am. Chem. Soc. 2008, 130, 15105 - 15115.
32. "SELEX with modified nucleotides": A. D. Keefe, S. T. Cload, Curr. Opin. Chem. Biol. 2008, 12, 448 - 456.
33. "Illusionary polymerase activity triggered by metal ions: use for molecular logic gate operations": K. S. Park, C. Jung, H. G. Park, Angew. Chem. 2010, 122, 9951 - 9954
34. Angew. Chem. Int. Ed. 2010, 49, 9757 - 9760.
35. "Molecular computing: DNA as a logic operator": T. Carell, Nature 2011, 469, 45 - 46.
36. "Functional DNA nanotechnology: emerging applications of DNAzymes and aptamers": Y. Lu, J. Liu, Curr. Opin. Biotechnol. 2006, 17, 580 - 588.
37. "Semi-synthetic DNA-protein conjugates for biosensing and nanofabrication": C. M. Niemeyer, Angew. Chem. 2010, 122, 1220 - 1238
38. Angew. Chem. Int. Ed. 2010, 49, 1200 - 1216.
39. "Selection of an improved RNA polymerase ribozyme with superior extension and fidelity": H. S. Zaher, P. J. Unrau, RNA 2007, 13, 1017 - 1026.
40. "Ribozyme-catalysed transcription of an active ribozyme": A. Wochner, A. Attwater, J. Coulson, P. Holliger, Science 2011, 332, 209 - 212.
41. "The eightfold path to non-enzymatic RNA replication": J. Szostak, J. Syst. Chem. 2012, 3, 2.
42. "Prebiotic chemistry and the origin of the RNA world": L. E. Orgel, Crit. Rev. Biochem. Mol. Biol. 2004, 39, 99 - 123.
43. "Non-enzymatic transcription of an oligodeoxynucleotide 14 residues long": O. L. Acevedo, L. E. Orgel, J. Mol. Biol. 1987, 197, 187 - 193.
44. "Efficient enzyme-free copying of all four nucleobases templated by immobilized RNA": C. Deck, M. Jauker, C. Richert, Nat. Chem. 2011, 3, 603 - 608.
45. "Molecular replication": L. E. Orgel, Nature 1992, 358, 203 - 209.
46. "Accelerating chemical replication steps of RNA involving activated ribonucleotides and downstream-binding elements": S. R. Vogel, C. Deck, C. Richert, Chem. Commun. 2005, 4922 - 4924.
47. "Efficient and rapid template-directed nucleic acid copying using 2′-amino-2′,3′-dideoxyribonucloside-5′- phosphorimadazolide monomers": J. P. Schrum, A. Ricardo, M. Krishnamurthy, J. C. Blain, J.W. Sostak, J. Am. Chem. Soc. 2009, 131, 14560 - 14570.
48. "Darwinian chemistry: towards the synthesis of a simple cell":D. Loakes, P. Holliger, Mol. Biosyst. 2009, 5, 686 - 694.
49. "A route to enantiopure RNA precursors from nearly racemic starting materials": J. E. Hein, E. Tse, D. G. Blackmond, Nat. Chem. 2011, 3, 704 - 706.
50. "Systems chemistry": R. F. Ludlow, S. Otto, Chem. Soc. Rev. 2008, 37, 101 - 108.
51. "Welcome home, systems chemists": G. von Kiedrowski, S. Otto, P. Herdewijn, J. Syst. Chem. 2010, 1, 1.
52. "Directed evolution of nucleic acid enzymes": G. F. Joyce, Annu. Rev. Biochem. 2004, 73, 791 - 836.
53. "Niche partitioning in the coevolution of two distinct RNAs": S. B. Voytek, G. F. Joyce, Proc. Natl. Acad. Sci. USA 2009, 106, 7780 - 7785.
54. "Emergence of symbiosis in peptide self-replication through a hypercyclic network": D. H. Lee, K. Severin, Y. Yokobayashi, M. R. Ghadiri, Nature 1997, 390, 591 - 594.
55. "Selective amplification by auto- and cross-catalysis in a replicating peptide system": S. Yao, I. Ghosh, R. Zutshi, J. Chmielewski, Nature 1998, 396, 447 - 450.
56. "Self-sustained replication of an RNA enzyme": T. A. Lincoln, G. F. Joyce, Science 2009, 323, 1229 - 1232.
57. "Synthesizing life": J. W. Szostak, D. P. Bartel, P. L. Luisi, Nature 2001, 409, 387 - 390.
58. "Designs for life: protocell models in the laboratory": A. J. Dzieciol, S. Mann, Chem. Soc. Rev. 2012, 41, 79 - 85.
59. "Life, but not as we know it": H. Birch, Chem.World 2012, 9, 44- 47.
60. "From self-assembled vesicles to protocells": I. Chen, P. Walde, Cold Spring Harbor Perspect. Biol. 2010, 2, a002170.
61. "Template-directed synthesis of a genetic polymer in a model protocell": S. S. Mansy, J. P. Schrum, M. Krishnamurthy, S. Tobe, D. A. Treco, J.W. Szostak, Nature 2008, 454, 122 - 125.
62. "Gene expression within cell-sized lipid vesicles": S. M. Nomura, K. Tsumoto, T. Hamada, K. Akiyoshi, Y. Nakatani, K. Yoshikawa, ChemBioChem 2003, 4, 1172 - 1175.
63. "Cell-like systems with riboswitch controlled gene expression": L. Martini, S. S. Mansy, Chem. Commun. 2011, 47, 10734 - 10736.
64. "Enzymes inside lipid vesicles: preparation, reactivity and applications": P. Walde, S. Ichikawa, Biomol. Eng. 2001, 18, 143 - 177.
65. "Polymerase chain reaction in liposomes": T. Oberholzer, M. Albrizio, P. L. Luisi, Chem. Biol. 1995, 2, 677 - 682.
66. "Oparin's reactions revisited: enzymic synthesis of poly(adenylic acid) in micelles and self-reproducing vesicles": P. Walde, A. Goto, P. A. Monnard, M. Wessicken, P. L. Luisi, J. Am. Chem. Soc. 1994, 116, 7541 - 7547.
67. "Enzymatic RNA replication in self-reproducing vesicles: an approach to a minimal cell": T. Oberholzer, R. Wick, P. L. Luisi, C. K. Biebricher, Biochem. Biophys. Res. Commun. 1995, 207, 250 - 257.
68. "Achievements and open questions in the self-reproduction of vesicles and synthetic minimal cells": P. Stano, P. L. Luisi, Chem. Commun. 2010, 46, 3639 - 3653.
69. "Avesicle bioreactor as a step toward an artificial cell assembly": V. Noireaux, A. Libchaber, Proc. Natl. Acad. Sci. USA 2004, 101, 17669 - 17674.
70. "A synthetic biology approach to the construction of membrane proteins in semi-synthetic minimal cells": Y. Kuruma, P. Stano, T. Ueda, P. L. Luisi, Biochim. Biophys. Acta Biomembr. 2009, 1788, 567 - 574.
71. "Self-reproduction of supramolecular giant vesicles combined with the amplification of encapsulated DNA": K. Kurihara, M. Tamura, K. Shohda, T. Toyota, K. Suzuki, T. Sugawara, Nat. Chem. 2011, 3, 775 - 781.
72. "Physical effects underlying the transition from primitive to modern cell membranes": I. Budin, J. W. Szostak, Proc. Natl. Acad. Sci. USA 2011, 108, 5249 - 5254.
73. "Metabolism and motility in prebiotic structures": M. M. Hanczyc, Philos. Trans. R. Soc. London Ser. B 2011, 366, 2885 - 2893.
74. "Cytoskeletal-like supramolecular assembly and nanoparticlebased motors in a model protocell": R. Krishna Kumar, X. Yu, A. J. Patil, M. Li, S. Mann, Angew. Chem. 2011, 123, 9515 - 9519
75. Angew. Chem. Int. Ed. 2011, 50, 9343 - 9347.
76. "Dynamic microcompartmentation within synthetic cells": M. S. Long, C. Jones, M. R. Helfrich, L. K. Mangeney-Slavin, C. D. Keating, Proc. Natl. Acad. Sci. USA 2005, 102, 5920 - 5925.
77. "Macromoleular crowding and confinement: biochemical, biophysical, and potential physiological consequences": H.-X. Zhou, G. Rivas, A. P. Minton, Annu. Rev. Biophys. 2008, 37, 375 - 397.
78. "Microcompartmentation in artificial cells: pH induced conformational changes alter protein localization": L. M. Dominak, E. L. Gundermann, C. D. Keating, Langmuir 2010, 26, 5695 - 5705.
79. "Budding and symmetric protein micro-compartmentation in giant vesicles containing two aqueous phases": M. S. Long, A.-S. Cans, C. D. Keating, J. Am. Chem. Soc. 2008, 130, 756 - 762.
80. "Complete budding and asymmetric division of primitive model cells to produce daughter cells with different interior and membrane compositions": M. Andes-Koback, C. D. Keating, J. Am. Chem. Soc. 2011, 133, 9545 - 9555.
81. "From polymeric nanoreactors to artificial organelles": R. J. R.W. Peters, I. Louzao, J. C. M. van Hest, Chem. Sci. 2012, 3, 335 - 342.
82. "Polymer hydrogel capsules: en route toward synthetic cellular systems": B. Städler, A. D. Price, R. Chandrawati, L. Hosta-Rigau, A. N. Zelikin, F. Caruso, Nanoscale 2009, 1, 68 - 73.
83. "In vitro gene expression and enzyme catalysis in bio-inorganic protocells": M. Li, D. C. Green, J. L. R. Anderson, B. P. Binks, S. Mann, Chem. Sci. 2011, 2, 1739 - 1745.
84. "Peptide/nucleotide micro-droplets as a step towards a membrane-free protocell model": S. Koga, D. S. Williams, A.W. Perriman, S. Mann, Nat. Chem. 2011, 3, 720 - 724.
85. "Artificial organelle: ATP synthesis from cellular mimetic polymersomes": H.-J. Choi, C. D. Montemagno, Nano Lett. 2005, 5, 2538 - 2542.
86. "Positional assembly of enzymes in polymersome nanoreactors for cascade reactions": D. M. Vriezema, P. M. L. Garcia, N. Sancho Oltra, N. S. Hatzakis, S. M. Kuiper, R. J. M. Nolte, A. E. Rowan, J. C. M. van Hest, Angew. Chem. 2007, 119, 7522 - 7526
87. Angew. Chem. Int. Ed. 2007, 46, 7378 - 7382.
88. "Polymeric microcapsules for synthetic applications": D. Lensen, D. M. Vriezema, J. C. M. van Hest, Macromol. Biosci. 2008, 8, 991 - 1005.
89. "A three-enzyme cascade reaction through positional assembly of enzymes in a polymersome nanoreactor": S. F. M. van Dongen, M. Nallani, J. J. L. M. Cornelissen, R. J. M. Nolte, J. C. M. van Hest, Chem. Eur. J. 2009, 15, 1107 - 1114.
90. "Multicompartment polymersomes from double emulsions": H. C. Shum, Y.-J. Zhao, S.-H. Kim, D. A. Weitz, Angew. Chem. 2011, 123, 1686 - 1689
91. Angew. Chem. Int. Ed. 2011, 50, 1648 - 1651.
92. "Nanoparticle cages for enzyme catalysis in organic media": C. Wu, S. Bai, M. B. Ansorge-Schumacher, D. Wang, Adv. Mater. 2011, 23, 5694 - 5699.
93. "Modular redox-active inorganic chemical cells iCHELLs": G. J. T. Cooper, P. J. Kitson, R. Winter, M. Zagnoni, D.-L. Long, L. Cronin, Angew. Chem. 2011, 123, 10557
94. Angew. Chem. Int. Ed. 2011, 50, 10373.
95. "Polymer/nucleotide droplets as bio-inspired functional microcompartments": D. S. Williams, S. Koga, C. R. C. Hak, A. Majrekar, A. J. Patil, A.W. Perriman, S. Mann, Soft Matter 2012, 8, 6004 - 6014.
96. "Basic autonomy as a fundamental step in the synthesis of life": K. Ruiz-Mirazo, A. Moreno, Artif. Life 2004, 10, 235 - 259.
97. "Autopoiesis: a review and a reappraisal": P. L. Luisi, Naturwissenschaften 2003, 90, 49 - 59.
98. "Life, chemistry and cognition": L. Kováč, EMBO Rep. 2006, 7, 562 - 566.
99. "On the chemical nature of teleonomy": A. Pross, Origins Life Evol. Biosphere 2005, 35, 383 - 394.
100. "Miniaturizing chemistry and biology in microdroplets": B. T. Kelly, J.-C. Baret, V. Taly, A. D. Griffiths, Chem. Commun. 2007, 1773 - 1788.
101. "Compartmentalized reactions as a case of soft-matter biotechnology: Synthesis of proteins and nucleic acids inside lipid vesicles": P. Stano, P. Carrara, Y. Kuruma, T. Souza, P. L. Luisi, J. Mater. Chem. 2011, 21, 18887 - 18902.
102. "Functional bionetworks from nanoliter water droplets": M. A. Holden, D. Needham, H. Bayley, J. Am. Chem. Soc. 2007, 129, 8650 - 8655.
103. "Droplet interface bilayers": H. Bayley, B. Cronin, A. Heron, M. A. Holden, W. L. Hwang, R. Syeda, J. Thompson, M. Wallace, Mol. Biosyst. 2008, 4, 1191.
104. "Synthetic protocells to mimic and test cell function": J. Xu, F. J. Sigworth, D. A. LaVan, Adv. Mater. 2010, 22, 120 - 127.
105. "Artificial cells: prospects for biotechnology": A. Pohorille, D. Deamer, Trends Biotechnol. 2002, 20, 123 - 128.
106. "On the origins of cells: a hypothesis for the evolutionary transitions from abiotic geochemistry to chemoautotrophic prokaryotes, and from prokaryotyes to nucleated cells": W. Martin, M. J. Russell, Philos. Trans. R. Soc. London Ser. B 2003, 358, 59 - 85.