1
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Walton CR, Hao J, Schönbächler M, Shorttle O. Large closed-basin lakes sustainably supplied phosphate during the origins of life. SCIENCE ADVANCES 2025; 11:eadq0027. [PMID: 39970217 PMCID: PMC11837993 DOI: 10.1126/sciadv.adq0027] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/22/2024] [Accepted: 01/17/2025] [Indexed: 02/21/2025]
Abstract
The origin of life on Earth required a supply of phosphorus (P) for the synthesis of universal biomolecules. Closed lakes may have accumulated high P concentrations on early Earth. However, it is not clear whether prebiotic P uptake in such settings would then have been sustainable. We show that large closed-basin lakes can combine high P concentrations at steady state with extremely high rates of biological productivity. Our case study is Mono Lake in California, which has close to 1 millimolar dissolved P at steady state despite extremely high rates of biological productivity, in contrast to smaller closed basins where life is scarce. Hence, large closed-basin lakes offer an environment where high rates of prebiotic P productivity can plausibly coexist with high steady-state P concentrations. Such lakes should have readily formed on the heavily cratered and volcanically active surface of early Earth.
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Affiliation(s)
- Craig R. Walton
- Institute of Astronomy, University of Cambridge, Madingley Road, Cambridge CB3OHA, UK
- Department of Earth Sciences, Institute für Geochemie und Petrologie, ETH Zurich, NW D 81.2, Clausiusstrasse 25, Zurich 8092, Switzerland
| | - Jihua Hao
- Deep Space Exploration Lab/CAS Key Laboratory of CrustMantle Materials and Environments, University of Science and Technology of China, 96 Jinzhai Rd., Hefei 230026, China
- State Key Laboratory of Lithospheric and Environmental Coevolution, University of Science and Technology of China, 96 Jinzhai Rd., Hefei 230026, China
| | - Maria Schönbächler
- Department of Earth Sciences, Institute für Geochemie und Petrologie, ETH Zurich, NW D 81.2, Clausiusstrasse 25, Zurich 8092, Switzerland
| | - Oliver Shorttle
- Institute of Astronomy, University of Cambridge, Madingley Road, Cambridge CB3OHA, UK
- Department of Earth Sciences, University of Cambridge, Downing Street, Cambridge CB23EQ, UK
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2
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White S, Rimmer PB. Do-Nothing Prebiotic Chemistry: Chemical Kinetics as a Window into Prebiotic Plausibility. Acc Chem Res 2025; 58:1-10. [PMID: 39699111 PMCID: PMC11713876 DOI: 10.1021/acs.accounts.4c00247] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2024] [Revised: 11/14/2024] [Accepted: 11/25/2024] [Indexed: 12/20/2024]
Abstract
ConspectusOrigin of Life research is a fast growing field of study with each year bringing new breakthroughs. Recent discoveries include novel syntheses of life's building blocks, mechanisms of activation and interaction between molecules, and newly identified environments that provide promising conditions for these syntheses and mechanisms. Even with these new findings, firmly grounded in rigorous laboratory experiments, researchers often find themselves uncertain about how to apply them. How can a bridge be built between the laboratory and the geochemical environment? A critical question to ask when seeking to apply new results in origins is: how can this chemistry occur without direct intervention from a chemist? We believe the first step toward answering this question lies in the determination of rate constants and the construction of chemical networks to describe prebiotic chemistry in geochemical environments.So far, our group has measured several rate constants relevant to different prebiotic reaction networks, starting with the synthetic pathways of the cyanosulfidic network. The reactions we explore often involve ultraviolet light-driven photochemistry, facilitated by our StarLab setup that accurately simulates the spectrum of the young Sun and other stars. Our latest work investigates environments with active photochemistry in the absence of cyanide. In this study, we measure the effective rate constant for the production of formate from the reduction of carbon species using sulfite within the context of early Martian waters. The underlying goal of the work done in our group is to predict the likelihood that certain geological conditions will result in a specific set of chemical products. These predictions can be combined with those we have made for the necessary astrophysical conditions in certain origins of life scenarios on extrasolar planets.In the near future we expect that a sufficient number of rate constants will be measured, by our group and others, to allow for aspects of prebiotic chemistry to be predicted using chemical kinetics models. Once these models have been benchmarked against experimental data, our next step will be applying them to natural environments that better mimic the conditions thought to have been present at the onset of life. Following this, we can test these models by comparing their predictions to additional experiments. After refinement, these models will be able to provide guidance on the optimal conditions for conducting laboratory experiments, while helping to minimize and characterize any interference from a chemist.This approach can provide valuable insights into what is possible within geochemical environments, where all chemistry is by necessity do-nothing chemistry.
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Affiliation(s)
- Skyla
B. White
- Astrophysics Group, Cavendish
Laboratory, University of Cambridge, JJ Thomson Avenue, Cambridge CB3 0HE, United Kingdom
| | - Paul B. Rimmer
- Astrophysics Group, Cavendish
Laboratory, University of Cambridge, JJ Thomson Avenue, Cambridge CB3 0HE, United Kingdom
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3
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Edri R, Williams LD, Frenkel-Pinter M. From Catalysis of Evolution to Evolution of Catalysis. Acc Chem Res 2024; 57:3081-3092. [PMID: 39373892 PMCID: PMC11542150 DOI: 10.1021/acs.accounts.4c00196] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2024] [Revised: 08/22/2024] [Accepted: 09/03/2024] [Indexed: 10/08/2024]
Abstract
The mystery of the origins of life is one of the most difficult yet intriguing challenges to which humanity has grappled. How did biopolymers emerge in the absence of enzymes (evolved biocatalysts), and how did long-lasting chemical evolution find a path to the highly selective complex biology that we observe today? In this paper, we discuss a chemical framework that explores the very roots of catalysis, demonstrating how standard catalytic activity based on chemical and physical principles can evolve into complex machineries. We provide several examples of how prebiotic catalysis by small molecules can be exploited to facilitate polymerization, which in biology has transformed the nature of catalysis. Thus, catalysis evolved, and evolution was catalyzed, during the transformation of prebiotic chemistry to biochemistry. Traditionally, a catalyst is defined as a substance that (i) speeds up a chemical reaction by lowering activation energy through different chemical mechanisms and (ii) is not consumed during the course of the reaction. However, considering prebiotic chemistry, which involved a highly diverse chemical space (i.e., high number of potential reactants and products) and constantly changing environment that lacked highly sophisticated catalytic machinery, we stress here that a more primitive, broader definition should be considered. Here, we consider a catalyst as any chemical species that lowers activation energy. We further discuss various demonstrations of how simple prebiotic molecules such as hydroxy acids and mercaptoacids promote the formation of peptide bonds via energetically favored exchange reactions. Even though the small molecules are partially regenerated and partially retained within the resulting oligomers, these prebiotic catalysts fulfill their primary role. Catalysis by metal ions and in complex chemical mixtures is also highlighted. We underline how chemical evolution is primarily dictated by kinetics rather than thermodynamics and demonstrate a novel concept to support this notion. Moreover, we propose a new perspective on the role of water in prebiotic catalysis. The role of water as simply a "medium" obscures its importance as an active participant in the chemistry of life, specifically as a very efficient catalyst and as a participant in many chemical transformations. Here we highlight the unusual contribution of water to increasing complexification over the course of chemical evolution. We discuss possible pathways by which prebiotic catalysis promoted chemical selection and complexification. Taken together, this Account draws a connection line between prebiotic catalysis and contemporary biocatalysis and demonstrates that the fundamental elements of chemical catalysis are embedded within today's biocatalysts. This Account illustrates how the evolution of catalysis was intertwined with chemical evolution from the very beginning.
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Affiliation(s)
- Rotem Edri
- Institute
of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190401, Israel
| | - Loren Dean Williams
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30332-0400, United States
- Center
for the Origins of Life, Georgia Institute
of Technology, Atlanta, Georgia 30332-0400, United States
| | - Moran Frenkel-Pinter
- Institute
of Chemistry, The Hebrew University of Jerusalem, Jerusalem 9190401, Israel
- The
Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 9190401, Israel
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4
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Arriola JT, Poordian S, Valdivia EM, Le T, Leman LJ, Schellinger JG, Müller UF. Weak effects of prebiotically plausible peptides on self-triphosphorylation ribozyme function. RSC Chem Biol 2024:d4cb00129j. [PMID: 39279875 PMCID: PMC11391260 DOI: 10.1039/d4cb00129j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2024] [Accepted: 09/04/2024] [Indexed: 09/18/2024] Open
Abstract
Catalytic RNAs (ribozymes) were central to early stages of life on earth. The first ribozymes probably emerged in the presence of prebiotically generated peptides because amino acids can be generated under abiotic conditions, and amino acids can oligomerize into peptides under prebiotically plausible conditions. Here we tested whether the presence of prebiotically plausible peptides could have aided the emergence of ribozymes, by an in vitro selection of self-triphosphorylation ribozymes from random sequence in the presence of ten different octapeptides. These peptides were composed of ten different, prebiotically plausible amino acids, each as mixture of d- and l-stereoisomers. After five rounds of selection and high throughput sequencing analysis, ten ribozymes that appeared most promising for peptide benefits were tested biochemically for possible benefits from each of the ten peptides. The strongest peptide benefit enhanced ribozyme activity by 2.6-fold, similar to the effect from an increase in the pH by one-half unit. Four arbitrarily chosen ribozymes from a previous selection without peptides showed no significant change in their activity in the presence of the ten peptides. Therefore, the used prebiotically plausible peptides - peptides without evolutionarily optimized sequence, without cationic or aromatic side chains - did not provide a strong benefit for the emergence of ribozyme activity. This finding stands in contrast to previously identified polycationic peptides, conjugates between peptides and polyaromatic hydrocarbons, and modern mRNA encoded proteins, all of which can strongly increase ribozyme function. The results are discussed in the context of origins of life.
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Affiliation(s)
- Joshua T Arriola
- Department of Chemistry & Biochemistry, University of California, San Diego La Jolla CA 92093 USA
| | - Shayan Poordian
- Department of Chemistry & Biochemistry, University of California, San Diego La Jolla CA 92093 USA
| | | | - Tommy Le
- Department of Chemistry & Biochemistry, University of California, San Diego La Jolla CA 92093 USA
| | - Luke J Leman
- Department of Chemistry, The Scripps Research Institute La Jolla CA 92037 USA
| | - Joan G Schellinger
- Department of Chemistry & Biochemistry, University of San Diego San Diego CA 92110 USA
| | - Ulrich F Müller
- Department of Chemistry & Biochemistry, University of California, San Diego La Jolla CA 92093 USA
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5
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Bocková J, Jones NC, Hoffmann SV, Meinert C. The astrochemical evolutionary traits of phospholipid membrane homochirality. Nat Rev Chem 2024; 8:652-664. [PMID: 39025922 DOI: 10.1038/s41570-024-00627-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/05/2024] [Indexed: 07/20/2024]
Abstract
Compartmentalization is crucial for the evolution of life. Present-day phospholipid membranes exhibit a high level of complexity and species-dependent homochirality, the so-called lipid divide. It is possible that less stable, yet more dynamic systems, promoting out-of-equilibrium environments, facilitated the evolution of life at its early stages. The composition of the preceding primitive membranes and the evolutionary route towards complexity and homochirality remain unexplained. Organics-rich carbonaceous chondrites are evidence of the ample diversity of interstellar chemistry, which may have enriched the prebiotic milieu on early Earth. This Review evaluates the detections of simple amphiphiles - likely ancestors of membrane phospholipids - in extraterrestrial samples and analogues, along with potential pathways to form primitive compartments on primeval Earth. The chiroptical properties of the chiral backbones of phospholipids provide a guide for future investigations into the origins of phospholipid membrane homochirality. We highlight a plausible common pathway towards homochirality of lipids, amino acids, and sugars starting from enantioenriched monomers. Finally, given their high recalcitrance and resistance to degradation, lipids are among the best candidate biomarkers in exobiology.
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Affiliation(s)
- Jana Bocková
- Institut de Chimie de Nice, CNRS UMR 7272, Université Côte d'Azur, Nice, France
| | - Nykola C Jones
- ISA, Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark
| | - Søren V Hoffmann
- ISA, Department of Physics and Astronomy, Aarhus University, Aarhus, Denmark
| | - Cornelia Meinert
- Institut de Chimie de Nice, CNRS UMR 7272, Université Côte d'Azur, Nice, France.
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6
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Barat A, Powner MW. Spontaneous Peptide Ligation Mediated by Cysteamine. JACS AU 2024; 4:1752-1757. [PMID: 38818061 PMCID: PMC11134366 DOI: 10.1021/jacsau.4c00243] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 03/15/2024] [Revised: 04/23/2024] [Accepted: 04/24/2024] [Indexed: 06/01/2024]
Abstract
The fundamental and universal nature of life's exploitation of peptides suggests they must have played a vital role during the onset of life, but their spontaneous chemoselective synthesis in water remains unknown. Aminonitriles (1) are widely accepted as prebiotic precursors of both amino acids and peptides, but they do not spontaneously polymerize in water to yield peptides. Here, we demonstrate that the simple prebiotically plausible aminothiol, cysteamine (5), participates in Strecker chemistry to furnish β-mercaptoethyl-α-aminonitriles (8) and β-mercaptoethyl-amino acids (16), which are predisposed to spontaneously form peptides in water. Intramolecular thiol catalyzed ligation is faster, higher-yielding, and more α-selective than previously reported prebiotic peptide ligation chemistries, enabling, for example, the highly regioselective α-ligation of Asp- and Glu-dinitriles in quantitative yields. Our findings suggest that cysteamine (5), the thiol bearing moiety of the universal thiol cofactor coenzyme A, may have played an important role in the selective chemical synthesis of prebiotic α-peptides.
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Affiliation(s)
- Abid Barat
- Department
of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Matthew W. Powner
- Department
of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
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7
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Zhang L, Ying J. Amino acid analogues provide multiple plausible pathways to prebiotic peptides. J R Soc Interface 2024; 21:20240014. [PMID: 38715323 PMCID: PMC11077012 DOI: 10.1098/rsif.2024.0014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/08/2024] [Accepted: 04/18/2024] [Indexed: 05/12/2024] Open
Abstract
Prebiotic peptide synthesis has consistently been a prominent topic within the field of the origin of life. While research predominantly centres on the 20 classical amino acids, the synthesis process encounters significant thermodynamic barriers. Consequently, amino acid analogues are being explored as potential building blocks for prebiotic peptide synthesis. This review delves into the pathway of polypeptide formation, identifying specific amino acid analogues that might have existed on early Earth, potentially participating in peptide synthesis and chemical evolution. Moreover, considering the complexity and variability of the environment on early Earth, we propose the plausibility of coevolution between amino acids and their analogues.
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Affiliation(s)
- Li Zhang
- Institute of Drug Discovery Technology, Ningbo University, No. 818 Fenghua Road, Ningbo, Zhejiang 315211, People's Republic of China
| | - Jianxi Ying
- Institute of Drug Discovery Technology, Ningbo University, No. 818 Fenghua Road, Ningbo, Zhejiang 315211, People's Republic of China
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8
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Rimmer PB, Shorttle O. A Surface Hydrothermal Source of Nitriles and Isonitriles. Life (Basel) 2024; 14:498. [PMID: 38672768 PMCID: PMC11051382 DOI: 10.3390/life14040498] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2024] [Revised: 03/22/2024] [Accepted: 03/29/2024] [Indexed: 04/28/2024] Open
Abstract
Giant impacts can generate transient hydrogen-rich atmospheres, reducing atmospheric carbon. The reduced carbon will form hazes that rain out onto the surface and can become incorporated into the crust. Once heated, a large fraction of the carbon is converted into graphite. The result is that local regions of the Hadean crust were plausibly saturated with graphite. We explore the consequences of such a crust for a prebiotic surface hydrothermal vent scenario. We model a surface vent fed by nitrogen-rich volcanic gas from high-temperature magmas passing through graphite-saturated crust. We consider this occurring at pressures of 1-1000bar and temperatures of 1500-1700 ∘C. The equilibrium with graphite purifies the leftover gas, resulting in substantial quantities of nitriles (0.1% HCN and 1ppm HC3N) and isonitriles (0.01% HNC) relevant for prebiotic chemistry. We use these results to predict gas-phase concentrations of methyl isocyanide of ∼1 ppm. Methyl isocyanide can participate in the non-enzymatic activation and ligation of the monomeric building blocks of life, and surface or shallow hydrothermal environments provide its only known equilibrium geochemical source.
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Affiliation(s)
- Paul B. Rimmer
- Cavendish Laboratory, University of Cambridge, JJ Thomson Ave, Cambridge CB3 0HE, UK
| | - Oliver Shorttle
- Institute of Astronomy, University of Cambridge, Cambridge CB3 0HA, UK
- Department of Earth Sciences, University of Cambridge, Cambridge CB2 3EQ, UK
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9
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Matreux T, Aikkila P, Scheu B, Braun D, Mast CB. Heat flows enrich prebiotic building blocks and enhance their reactivity. Nature 2024; 628:110-116. [PMID: 38570715 PMCID: PMC10990939 DOI: 10.1038/s41586-024-07193-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2022] [Accepted: 02/09/2024] [Indexed: 04/05/2024]
Abstract
The emergence of biopolymer building blocks is a crucial step during the origins of life1-6. However, all known formation pathways rely on rare pure feedstocks and demand successive purification and mixing steps to suppress unwanted side reactions and enable high product yields. Here we show that heat flows through thin, crack-like geo-compartments could have provided a widely available yet selective mechanism that separates more than 50 prebiotically relevant building blocks from complex mixtures of amino acids, nucleobases, nucleotides, polyphosphates and 2-aminoazoles. Using measured thermophoretic properties7,8, we numerically model and experimentally prove the advantageous effect of geological networks of interconnected cracks9,10 that purify the previously mixed compounds, boosting their concentration ratios by up to three orders of magnitude. The importance for prebiotic chemistry is shown by the dimerization of glycine11,12, in which the selective purification of trimetaphosphate (TMP)13,14 increased reaction yields by five orders of magnitude. The observed effect is robust under various crack sizes, pH values, solvents and temperatures. Our results demonstrate how geologically driven non-equilibria could have explored highly parallelized reaction conditions to foster prebiotic chemistry.
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Affiliation(s)
- Thomas Matreux
- Systems Biophysics, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Paula Aikkila
- Systems Biophysics, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Bettina Scheu
- Department of Earth and Environmental Sciences, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Dieter Braun
- Systems Biophysics, Ludwig-Maximilians-Universität München, Munich, Germany
| | - Christof B Mast
- Systems Biophysics, Ludwig-Maximilians-Universität München, Munich, Germany.
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10
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Maguire OR, Smokers IBA, Oosterom BG, Zheliezniak A, Huck WTS. A Prebiotic Precursor to Life's Phosphate Transfer System with an ATP Analog and Histidyl Peptide Organocatalysts. J Am Chem Soc 2024; 146:7839-7849. [PMID: 38448161 PMCID: PMC10958518 DOI: 10.1021/jacs.4c01156] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2024] [Revised: 02/16/2024] [Accepted: 02/20/2024] [Indexed: 03/08/2024]
Abstract
Biochemistry is dependent upon enzyme catalysts accelerating key reactions. At the origin of life, prebiotic chemistry must have incorporated catalytic reactions. While this would have yielded much needed amplification of certain reaction products, it would come at the possible cost of rapidly depleting the high energy molecules that acted as chemical fuels. Biochemistry solves this problem by combining kinetically stable and thermodynamically activated molecules (e.g., ATP) with enzyme catalysts. Here, we demonstrate a prebiotic phosphate transfer system involving an ATP analog (imidazole phosphate) and histidyl peptides, which function as organocatalytic enzyme analogs. We demonstrate that histidyl peptides catalyze phosphorylations via a phosphorylated histidyl intermediate. We integrate these histidyl-catalyzed phosphorylations into a complete prebiotic scenario whereby inorganic phosphate is incorporated into organic compounds though physicochemical wet-dry cycles. Our work demonstrates a plausible system for the catalyzed production of phosphorylated compounds on the early Earth and how organocatalytic peptides, as enzyme precursors, could have played an important role in this.
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Affiliation(s)
- Oliver R. Maguire
- Institute for Molecules and
Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen AJ 6525, The Netherlands
| | - Iris B. A. Smokers
- Institute for Molecules and
Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen AJ 6525, The Netherlands
| | - Bob G. Oosterom
- Institute for Molecules and
Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen AJ 6525, The Netherlands
| | - Alla Zheliezniak
- Institute for Molecules and
Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen AJ 6525, The Netherlands
| | - Wilhelm T. S. Huck
- Institute for Molecules and
Materials, Radboud University Nijmegen, Heyendaalseweg 135, Nijmegen AJ 6525, The Netherlands
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11
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Fairchild J, Islam S, Singh J, Bučar DK, Powner MW. Prebiotically plausible chemoselective pantetheine synthesis in water. Science 2024; 383:911-918. [PMID: 38386754 DOI: 10.1126/science.adk4432] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2023] [Accepted: 01/23/2024] [Indexed: 02/24/2024]
Abstract
Coenzyme A (CoA) is essential to all life on Earth, and its functional subunit, pantetheine, is important in many origin-of-life scenarios, but how pantetheine emerged on the early Earth remains a mystery. Earlier attempts to selectively synthesize pantetheine failed, leading to suggestions that "simpler" thiols must have preceded pantetheine at the origin of life. In this work, we report high-yielding and selective prebiotic syntheses of pantetheine in water. Chemoselective multicomponent aldol, iminolactone, and aminonitrile reactions delivered spontaneous differentiation of pantoic acid and proteinogenic amino acid syntheses, as well as the dihydroxyl, gem-dimethyl, and β-alanine-amide moieties of pantetheine in dilute water. Our results are consistent with a role for canonical pantetheine at the outset of life on Earth.
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Affiliation(s)
- Jasper Fairchild
- Department of Chemistry, University College London, London WC1H 0AJ, UK
| | - Saidul Islam
- Department of Chemistry, University College London, London WC1H 0AJ, UK
- Department of Chemistry and Centre for the Physical Science of Life, King's College London, London SE1 1DB, UK
| | - Jyoti Singh
- Department of Chemistry, University College London, London WC1H 0AJ, UK
| | | | - Matthew W Powner
- Department of Chemistry, University College London, London WC1H 0AJ, UK
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12
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Chieffo C, Shvetsova A, Skorda F, Lopez A, Fiore M. The Origin and Early Evolution of Life: Homochirality Emergence in Prebiotic Environments. ASTROBIOLOGY 2023; 23:1368-1382. [PMID: 37862227 DOI: 10.1089/ast.2023.0007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/22/2023]
Abstract
Homochirality is one of the signatures of life. Numerous geological and prebiotic chemistry studies have proved that disordered soups containing small organic molecules, gases, liquids, and minerals (such as those containing phosphorous) yielded racemic mixtures of building blocks for biomolecule assembly. Polymers obtained from these bricks should have been enantiopure with functional properties similar to modern biomolecules or heterochiral with some functions such as catalyzing a chemical transformation unspecifically. Up until now, no clues have been found as to how symmetry breaking occurred. In this review, we highlight the principal achievements regarding the emergence of homochirality during the prebiotic synthesis of building blocks. Furthermore, we tried to focus on approaches based on prebiotic systems chemistry (bottom-up) and laboratory scales to simulate plausible prebiotic messy environments for the emergence of life. We aim with this review to assemble, even partially, the puzzle pieces of the origin of life regarding the relevant phenomenon of homochiral symmetry breaking.
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Affiliation(s)
- Carolina Chieffo
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (UMR 5246), Villeurbanne, France
- Laboratoire des biomolécules, LBM, Département de chimie, École normale supérieure, PSL University, Sorbonne Université, CNRS, Paris, France
| | - Anastasiia Shvetsova
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (UMR 5246), Villeurbanne, France
- Université de Lyon, Claude Bernard Lyon 1, Laboratoire de Géologie de Lyon: Terre, Planètes, Environnement, Villeurbanne, France
| | - Fryni Skorda
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (UMR 5246), Villeurbanne, France
- Ecole Centrale de Lyon, Ecully, France
| | - Augustin Lopez
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (UMR 5246), Villeurbanne, France
| | - Michele Fiore
- Université de Lyon, Université Claude Bernard Lyon 1, CNRS, Institut de Chimie et Biochimie Moléculaires et Supramoléculaires (UMR 5246), Villeurbanne, France
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13
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Nogal N, Sanz-Sánchez M, Vela-Gallego S, Ruiz-Mirazo K, de la Escosura A. The protometabolic nature of prebiotic chemistry. Chem Soc Rev 2023; 52:7359-7388. [PMID: 37855729 PMCID: PMC10614573 DOI: 10.1039/d3cs00594a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/28/2023] [Indexed: 10/20/2023]
Abstract
The field of prebiotic chemistry has been dedicated over decades to finding abiotic routes towards the molecular components of life. There is nowadays a handful of prebiotically plausible scenarios that enable the laboratory synthesis of most amino acids, fatty acids, simple sugars, nucleotides and core metabolites of extant living organisms. The major bottleneck then seems to be the self-organization of those building blocks into systems that can self-sustain. The purpose of this tutorial review is having a close look, guided by experimental research, into the main synthetic pathways of prebiotic chemistry, suggesting how they could be wired through common intermediates and catalytic cycles, as well as how recursively changing conditions could help them engage in self-organized and dissipative networks/assemblies (i.e., systems that consume chemical or physical energy from their environment to maintain their internal organization in a dynamic steady state out of equilibrium). In the article we also pay attention to the implications of this view for the emergence of homochirality. The revealed connectivity between those prebiotic routes should constitute the basis for a robust research program towards the bottom-up implementation of protometabolic systems, taken as a central part of the origins-of-life problem. In addition, this approach should foster further exploration of control mechanisms to tame the combinatorial explosion that typically occurs in mixtures of various reactive precursors, thus regulating the functional integration of their respective chemistries into self-sustaining protocellular assemblies.
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Affiliation(s)
- Noemí Nogal
- Department of Organic Chemistry, Universidad Autónoma de Madrid, Campus Cantoblanco, 28049, Madrid, Spain.
| | - Marcos Sanz-Sánchez
- Department of Organic Chemistry, Universidad Autónoma de Madrid, Campus Cantoblanco, 28049, Madrid, Spain.
| | - Sonia Vela-Gallego
- Department of Organic Chemistry, Universidad Autónoma de Madrid, Campus Cantoblanco, 28049, Madrid, Spain.
| | - Kepa Ruiz-Mirazo
- Biofisika Institute (CSIC, UPV/EHU), University of the Basque Country, Leioa, Spain
- Department of Philosophy, University of the Basque Country, Leioa, Spain
| | - Andrés de la Escosura
- Department of Organic Chemistry, Universidad Autónoma de Madrid, Campus Cantoblanco, 28049, Madrid, Spain.
- Institute for Advanced Research in Chemistry (IAdChem), Campus de Cantoblanco, 28049, Madrid, Spain
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14
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Harold SE, Warf SL, Shields GC. Prebiotic dimer and trimer peptide formation in gas-phase atmospheric nanoclusters of water. Phys Chem Chem Phys 2023; 25:28517-28532. [PMID: 37847315 DOI: 10.1039/d3cp02915h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2023]
Abstract
Insight into the origin of prebiotic molecules is key to our understanding of how living systems evolved into the complex network of biological processes on Earth. By modelling diglycine and triglycine peptide formation in the prebiotic atmosphere, we provide a plausible pathway for peptide growth. By examining different transition states (TSs), we conclude that the formation of diglycine and triglycine in atmospheric nanoclusters of water in the prebiotic atmosphere kinetically favors peptide growth by an N-to-C synthesis of glycines through a trans conformation. Addition of water stabilizes the TS structures and lowers the Gibbs free activation energies. At temperatures that model the prebiotic atmosphere, the free energies of activation with a six water nanocluster as part of the TS are predicted to be 16 kcal mol-1 relative to the prereactive complex. Examination of the trans vs. cis six water transition states reveals that a homodromic water network that maximizes the acceptor/donor nature of the six waters is responsible for enhanced kinetic favorability of the trans N-to-C pathway. Compared to the non-hydrated trans TS, the trans six-water TS accelerates the reaction of diglycine and glycine to form triglycine by 13 orders of magnitude at 217 K. Nature uses the trans N-to-C pathway to synthesize proteins in the ribosome, and we note the similarities in hydrogen bond stabilization between the transition state for peptide synthesis in the ribosome and the transition states formed in nanoclusters of water in the same pathway. These results support the hypothesis that small oligomers formed in the prebiotic atmosphere and rained onto earth's surface.
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Affiliation(s)
- Shannon E Harold
- Department of Chemistry, Furman University, Greenville, South Carolina 29613, USA.
| | - Skyler L Warf
- Department of Chemistry, Furman University, Greenville, South Carolina 29613, USA.
| | - George C Shields
- Department of Chemistry, Furman University, Greenville, South Carolina 29613, USA.
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15
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Sweeney KJ, Le T, Jorge MZ, Schellinger JG, Leman LJ, Müller UF. Peptide conjugates with polyaromatic hydrocarbons can benefit the activity of catalytic RNAs. Chem Sci 2023; 14:10318-10328. [PMID: 37772096 PMCID: PMC10529712 DOI: 10.1039/d3sc03540a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/10/2023] [Accepted: 09/08/2023] [Indexed: 09/30/2023] Open
Abstract
Early stages of life likely employed catalytic RNAs (ribozymes) in many functions that are today filled by proteins. However, the earliest life forms must have emerged from heterogenous chemical mixtures, which included amino acids, short peptides, and many other compounds. Here we explored whether the presence of short peptides can help the emergence of catalytic RNAs. To do this, we conducted an in vitro selection for catalytic RNAs from randomized sequence in the presence of ten different peptides with a prebiotically plausible length of eight amino acids. This in vitro selection generated dozens of ribozymes, one of them with ∼900-fold higher activity in the presence of one specific peptide. Unexpectedly, the beneficial peptide had retained its N-terminal Fmoc protection group, and this group was required to benefit ribozyme activity. The same, or higher benefit resulted from peptide conjugates with prebiotically plausible polyaromatic hydrocarbons (PAHs) such as fluorene and naphthalene. This shows that PAH-peptide conjugates can act as potent cofactors to enhance ribozyme activity. The results are discussed in the context of the origin of life.
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Affiliation(s)
- Kevin J Sweeney
- Department of Chemistry and Biochemistry, University of California San Diego La Jolla CA 92093 USA
| | - Tommy Le
- Department of Chemistry and Biochemistry, University of California San Diego La Jolla CA 92093 USA
| | - Micaella Z Jorge
- Department of Chemistry & Biochemistry, University of San Diego San Diego CA 92110 USA
| | - Joan G Schellinger
- Department of Chemistry & Biochemistry, University of San Diego San Diego CA 92110 USA
| | - Luke J Leman
- Department of Chemistry, The Scripps Research Institute La Jolla CA 92037 USA
| | - Ulrich F Müller
- Department of Chemistry and Biochemistry, University of California San Diego La Jolla CA 92093 USA
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16
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Yi R, Mojica M, Fahrenbach AC, James Cleaves H, Krishnamurthy R, Liotta CL. Carbonyl Migration in Uronates Affords a Potential Prebiotic Pathway for Pentose Production. JACS AU 2023; 3:2522-2535. [PMID: 37772180 PMCID: PMC10523364 DOI: 10.1021/jacsau.3c00299] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/08/2023] [Revised: 08/15/2023] [Accepted: 08/15/2023] [Indexed: 09/30/2023]
Abstract
Carbohydrate biosynthesis is fundamental to modern terrestrial biochemistry, but how this collection of metabolic pathways originated remains an open question. Prebiotic sugar synthesis has focused primarily on the formose reaction and Kiliani-Fischer homologation; however, how they can transition to extant biochemical pathways has not been studied. Herein, a nonenzymatic pathway for pentose production with similar chemical transformations as those of the pentose phosphate pathway is demonstrated. Starting from a C6 aldonate, namely, gluconate, nonselective chemical oxidation yields a mixture of 2-oxo-, 4-oxo-, 5-oxo-, and 6-oxo-uronate regioisomers. Regardless at which carbinol the oxidation takes place, carbonyl migration enables β-decarboxylation to yield pentoses. In comparison, the pentose phosphate pathway selectively oxidizes 6-phosphogluconate to afford the 3-oxo-uronate derivative, which undergoes facile subsequent β-decarboxylation and carbonyl migration to afford ribose 5-phosphate. The similarities between these two pathways and the potential implications for prebiotic chemistry and protometabolism are discussed.
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Affiliation(s)
- Ruiqin Yi
- Earth-Life
Science Institute, Tokyo Institute of Technology, 2-12-1-IE-1 Ookayama, Meguro-ku, Tokyo 152-8550, Japan
| | - Mike Mojica
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30332, United States
| | - Albert C. Fahrenbach
- School
of Chemistry, Australian Centre for Astrobiology and the UNSW RNA
Institute, University of New South Wales, Sydney, NSW 2052, Australia
| | - H. James Cleaves
- Blue
Marble Space Institute of Science, Seattle, Washington 98154, United States
| | | | - Charles L. Liotta
- School
of Chemistry and Biochemistry, Georgia Institute
of Technology, Atlanta, Georgia 30332, United States
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17
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Ozturk SF, Liu Z, Sutherland JD, Sasselov DD. Origin of biological homochirality by crystallization of an RNA precursor on a magnetic surface. SCIENCE ADVANCES 2023; 9:eadg8274. [PMID: 37285423 PMCID: PMC10246896 DOI: 10.1126/sciadv.adg8274] [Citation(s) in RCA: 25] [Impact Index Per Article: 12.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2023] [Accepted: 05/03/2023] [Indexed: 06/09/2023]
Abstract
Homochirality is a signature of life on Earth, yet its origins remain an unsolved puzzle. Achieving homochirality is essential for a high-yielding prebiotic network capable of producing functional polymers like RNA and peptides on a persistent basis. Because of the chiral-induced spin selectivity effect, which established a strong coupling between electron spin and molecular chirality, magnetic surfaces can act as chiral agents and be templates for the enantioselective crystallization of chiral molecules. Here, we studied the spin-selective crystallization of racemic ribo-aminooxazoline (RAO), an RNA precursor, on magnetite (Fe3O4) surfaces, achieving an unprecedented enantiomeric excess (ee) of about 60%. Following the initial enrichment, we then obtained homochiral (100% ee) crystals of RAO after a subsequent crystallization. Our results demonstrate a prebiotically plausible way of achieving system-level homochirality from completely racemic starting materials, in a shallow-lake environment on early Earth where sedimentary magnetite deposits are expected to be common.
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Affiliation(s)
- S. Furkan Ozturk
- Department of Physics, Harvard University, Cambridge, MA 02138, USA
| | - Ziwei Liu
- MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK
| | - John D. Sutherland
- MRC Laboratory of Molecular Biology, Cambridge Biomedical Campus, Cambridge CB2 0QH, UK
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18
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Roche TP, Fialho DM, Menor-Salván C, Krishnamurthy R, Schuster GB, Hud NV. A Plausible Prebiotic Path to Nucleosides: Ribosides and Related Aldosides Generated from Ribulose, Fructose, and Similar Abiotic Precursors. Chemistry 2023; 29:e202203036. [PMID: 36261321 DOI: 10.1002/chem.202203036] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2022] [Indexed: 12/12/2022]
Abstract
The prebiotic origins of ribose, nucleosides, and eventually RNA are enduring questions whose answers are central to the RNA world hypothesis. The abiotic synthesis of sugars was first demonstrated over a century ago, but no known prebiotic reaction produces ribose (an aldose sugar) selectively and in good yield. In contrast, ribulose, and fructose (ketose sugars) and other monosaccharides are formed in high yield by several robust abiotic reactions. It is reported here that ketose sugars - both ketopentoses and ketohexoes - serve as precursors for the formation of ribosides and other aldosides, as demonstrated by glycoside-forming reactions involving barbituric acid, a plausibly prebiotic nucleobase. Moreover, a one-pot reaction of glyceraldehyde and barbituric acid was discovered which under mild conditions, and without special minerals or other catalysts, results in the formation of glycosides. These results reveal that an exclusive or high-yielding generation of free ribose was not required for its incorporation into processes that provided the foundations for life.
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Affiliation(s)
- Tyler P Roche
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - David M Fialho
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Cesar Menor-Salván
- Departmento de Biología de Sistemas/IQAR, Universidad de Alcalá, Madrid, 28806, Spain
| | | | - Gary B Schuster
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, 30332, USA
| | - Nicholas V Hud
- School of Chemistry and Biochemistry, Georgia Institute of Technology, Atlanta, GA, 30332, USA
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19
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Thoma B, Powner MW. Selective Synthesis of Lysine Peptides and the Prebiotically Plausible Synthesis of Catalytically Active Diaminopropionic Acid Peptide Nitriles in Water. J Am Chem Soc 2023; 145:3121-3130. [PMID: 36700882 PMCID: PMC9912261 DOI: 10.1021/jacs.2c12497] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Abstract
Why life encodes specific proteinogenic amino acids remains an unsolved problem, but a non-enzymatic synthesis that recapitulates biology's universal strategy of stepwise N-to-C terminal peptide growth may hold the key to this selection. Lysine is an important proteinogenic amino acid that, despite its essential structural, catalytic, and functional roles in biochemistry, has widely been assumed to be a late addition to the genetic code. Here, we demonstrate that lysine thioacids undergo coupling with aminonitriles in neutral water to afford peptides in near-quantitative yield, whereas non-proteinogenic lysine homologues, ornithine, and diaminobutyric acid cannot form peptides due to rapid and quantitative cyclization that irreversibly blocks peptide synthesis. We demonstrate for the first time that ornithine lactamization provides an absolute differentiation of lysine and ornithine during (non-enzymatic) N-to-C-terminal peptide ligation. We additionally demonstrate that the shortest lysine homologue, diaminopropionic acid, undergoes effective peptide ligation. This prompted us to discover a high-yielding prebiotically plausible synthesis of the diaminopropionic acid residue, by peptide nitrile modification, through the addition of ammonia to a dehydroalanine nitrile. With this synthesis in hand, we then discovered that the low basicity of diaminopropionyl residues promotes effective, biomimetic, imine catalysis in neutral water. Our results suggest diaminopropionic acid, synthesized by peptide nitrile modification, can replace or augment lysine residues during early evolution but that lysine's electronically isolated sidechain amine likely provides an evolutionary advantage for coupling and coding as a preformed monomer in monomer-by-monomer peptide translation.
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20
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Li J, Shu Y, Li C, Jiang Z. Highly catalytic nanoenzyme of covalent organic framework loaded starch- surface-enhanced Raman scattering/absorption bi-mode peptide as biosensor for ultratrace determination of cadmium. Front Nutr 2023; 9:1075296. [PMID: 36698455 PMCID: PMC9870315 DOI: 10.3389/fnut.2022.1075296] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Accepted: 12/21/2022] [Indexed: 01/11/2023] Open
Abstract
High affinity peptides (PTs) have been used in nanoanalysis, but there are no reports which combine PTs with a liquid crystal (LC) covalent organic framework (COF) supported soluble starch (SS) catalytic amplification system as a biosensor recognition element. In this study, a new, highly sensitive and selective bi-mode molecular biosensor has been developed for the determination of cadmium ion (Cd2+). Specifically, a highly catalytic and stable COF supported SS nanosol catalyst was fabricated such that a nanocatalytic indicator reaction system for HAuCl4-sodium formate was established based on surface-enhanced Raman scattering (SERS). The Au nanoparticles produced exhibited a surface plasmon resonance (SPR) absorption peak at 535 nm and a SERS peak at 1,615 cm-1. Combining the nanocatalytic amplification indicator system with the specific PTs reaction permitted a sensitive and selective SERS/absorption bi-mode platform to be developed for the determination of cadmium in rice. The linear range for SERS determination was 0.025-0.95 nmol/L and the detection limit (DL) was 0.012 nmol/L.
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Affiliation(s)
- Jingjing Li
- School of Public Health, Guilin Medical University, Guilin, China
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China
| | - Yiyi Shu
- School of Public Health, Guilin Medical University, Guilin, China
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China
| | - Chongning Li
- School of Public Health, Guilin Medical University, Guilin, China
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China
| | - Zhiliang Jiang
- School of Public Health, Guilin Medical University, Guilin, China
- Guangxi Key Laboratory of Environmental Pollution Control Theory and Technology, Guilin, China
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21
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Vibhute MA, Mutschler H. A Primer on Building Life‐Like Systems. CHEMSYSTEMSCHEM 2022. [DOI: 10.1002/syst.202200033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Affiliation(s)
- Mahesh A. Vibhute
- TU Dortmund University Department of Chemistry and Chemical Biology Otto-Hahn-Str. 4a 44227 Dortmund Germany
| | - Hannes Mutschler
- TU Dortmund University Department of Chemistry and Chemical Biology Otto-Hahn-Str. 4a 44227 Dortmund Germany
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22
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Magalhães ÁF, Powner MW. Prebiotic triose glycolysis promoted by co-catalytic proline and phosphate in neutral water. Chem Commun (Camb) 2022; 58:13519-13522. [PMID: 36398592 DOI: 10.1039/d2cc05466c] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Abstract
Proline and phosphate promote a near-quantitative aldol reaction between glycolaldehyde phosphate and formaldehyde at neutral pH in water. Our results demonstrate the important role of general acid-base catalysis in water and underscore the essential role that amino acid catalysis may have played in early evolution of life's core metabolic pathways.
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Affiliation(s)
- Álvaro F Magalhães
- Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK.
| | - Matthew W Powner
- Department of Chemistry, University College London, 20 Gordon Street, London, WC1H 0AJ, UK.
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23
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Abstract
α-Amino acids are essential molecular constituents of life, twenty of which are privileged because they are encoded by the ribosomal machinery. The question remains open as to why this number and why this 20 in particular, an almost philosophical question that cannot be conclusively resolved. They are closely related to the evolution of the genetic code and whether nucleic acids, amino acids, and peptides appeared simultaneously and were available under prebiotic conditions when the first self-sufficient complex molecular system emerged on Earth. This report focuses on prebiotic and metabolic aspects of amino acids and proteins starting with meteorites, followed by their formation, including peptides, under plausible prebiotic conditions, and the major biosynthetic pathways in the various kingdoms of life. Coenzymes play a key role in the present analysis in that amino acid metabolism is linked to glycolysis and different variants of the tricarboxylic acid cycle (TCA, rTCA, and the incomplete horseshoe version) as well as the biosynthesis of the most important coenzymes. Thus, the report opens additional perspectives and facets on the molecular evolution of primary metabolism.
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Affiliation(s)
- Andreas Kirschning
- Institute of Organic ChemistryLeibniz University HannoverSchneiderberg 1B30167HannoverGermany
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24
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Fioroni M, DeYonker NJ. Nitrile regio-synthesis by Ni centers on a siliceous surface: implications in prebiotic chemistry. Chem Commun (Camb) 2022; 58:11579-11582. [PMID: 36168891 DOI: 10.1039/d2cc04361k] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
By means of quantum chemistry (PBE0/def2-TZVPP; DLPNO-CCSD(T)/cc-pVTZ) and small, but reliable models of Polyhedral Oligomeric Silsesquioxanes (POSS), an array of astrochemically-relevant catalysis products, related to prebiotic and origin of life chemistry, has been theoretically explored. In this work, the heterogeneous phase hydrocyanation reaction of an unsaturated CC bond (propene) catalyzed by a Ni center complexed to a silica surface is analyzed. Of the two possible regioisomers, the branched iso-propyl-cyanide is thermodynamically and kinetically preferred over the linear n-propyl-cyanide (T = 200 K). The formation of nitriles based on a regioselective process has profound implications on prebiotic and origin of life chemistry, as well as deep connections to terrestrial surface chemistry and geochemistry.
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Affiliation(s)
- Marco Fioroni
- Department of Chemistry, 213 Smith Chemistry Building, The University of Memphis, Memphis, TN, USA, 38152.
| | - Nathan J DeYonker
- Department of Chemistry, 213 Smith Chemistry Building, The University of Memphis, Memphis, TN, USA, 38152.
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25
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Vela-Gallego S, Pardo-Botero Z, Moya C, de la Escosura A. Collective adaptability in a replication network of minimal nucleobase sequences. Chem Sci 2022; 13:10715-10724. [PMID: 36320689 PMCID: PMC9491195 DOI: 10.1039/d2sc02419e] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2022] [Accepted: 08/05/2022] [Indexed: 12/05/2022] Open
Abstract
A major challenge for understanding the origins of life is to explore how replication networks can engage in an evolutionary process. Herein, we shed light on this problem by implementing a network constituted by two different types of extremely simple biological components: the amino acid cysteine and the canonical nucleobases adenine and thymine, connected through amide bonds to the cysteine amino group and oxidation of its thiol into three possible disulfides. Supramolecular and kinetic analyses revealed that both self- and mutual interactions between such dinucleobase compounds drive their assembly and replication pathways. Those pathways involving sequence complementarity led to enhanced replication rates, suggesting a potential bias for selection. The interplay of synergistic dynamics and competition between replicators was then simulated, under conditions that are not easily accessible with experiments, in an open reactor parametrized and constrained with the unprecedentedly complete experimental kinetic data obtained for our replicative network. Interestingly, the simulations show bistability, as a selective amplification of different species depending on the initial mixture composition. Overall, this network configuration can favor a collective adaptability to changes in the availability of feedstock molecules, with disulfide exchange reactions serving as 'wires' that connect the different individual auto- and cross-catalytic pathways.
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Affiliation(s)
- Sonia Vela-Gallego
- Department of Organic Chemistry, Universidad Autónoma de Madrid Campus de Cantoblanco 28049 Madrid Spain
| | | | - Cristian Moya
- Department of Organic Chemistry, Universidad Autónoma de Madrid Campus de Cantoblanco 28049 Madrid Spain
| | - Andrés de la Escosura
- Department of Organic Chemistry, Universidad Autónoma de Madrid Campus de Cantoblanco 28049 Madrid Spain
- Institute for Advanced Research in Chemistry (IAdChem) Cantoblanco 28049 Madrid Spain
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26
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Malaterre C, Jeancolas C, Nghe P. The Origin of Life: What Is the Question? ASTROBIOLOGY 2022; 22:851-862. [PMID: 35594335 PMCID: PMC9298494 DOI: 10.1089/ast.2021.0162] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/05/2021] [Accepted: 03/12/2022] [Indexed: 06/15/2023]
Abstract
The question of the origin of life is a tenacious question that challenges many branches of science but is also extremely multifaceted. While prebiotic chemistry and micropaleontology reformulate the question as that of explaining the appearance of life on Earth in the deep past, systems chemistry and synthetic biology typically understand the question as that of demonstrating the synthesis of novel living matter from nonliving matter independently of historical constraints. The objective of this contribution is to disentangle the different readings of the origin-of-life question found in science. We identify three main dimensions along which the question can be differently constrained depending on context: historical adequacy, natural spontaneity, and similarity to life-as-we-know-it. We argue that the epistemic status of what needs to be explained-the explanandum-varies from approximately true when the origin-of-life question is the most constrained to entirely speculative when the constraints are the most relaxed. This difference in epistemic status triggers a shift in the nature of the origin-of-life question from an explanation-seeking question in the most constrained case to a fact-establishing question in the lesser-constrained ones. We furthermore explore how answers to some interpretations of the origin-of-life questions matter for other interpretations.
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Affiliation(s)
- Christophe Malaterre
- Département de philosophie, Université du Québec à Montréal (UQAM), Montréal, Canada
- Centre interuniversitaire de recherche sur la science et la technologie (CIRST), Université du Québec à Montréal (UQAM), Montréal, Canada
| | - Cyrille Jeancolas
- Laboratoire Biophysique et Évolution, UMR Chimie Biologie Innovation 8231, ESPCI Paris, Université PSL, CNRS, Paris, France
- Laboratoire d'Anthropologie Sociale, Collège de France, Paris, France
| | - Philippe Nghe
- Laboratoire Biophysique et Évolution, UMR Chimie Biologie Innovation 8231, ESPCI Paris, Université PSL, CNRS, Paris, France
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27
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Whitaker D, Powner MW. Prebiotic synthesis and triphosphorylation of 3'-amino-TNA nucleosides. Nat Chem 2022; 14:766-774. [PMID: 35778563 DOI: 10.1038/s41557-022-00982-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2021] [Accepted: 05/23/2022] [Indexed: 12/22/2022]
Abstract
Nucleosides are essential to the emergence of life, and so their synthesis is a key challenge for prebiotic chemistry. Although amino-nucleosides have enhanced reactivity in water compared with ribonucleosides, they are assumed to be prebiotically irrelevant due to perceived difficulties with their selective formation. Here we demonstrate that 3'-amino-TNA nucleosides (TNA, threose nucleic acid) are formed diastereoselectively and regiospecifically from prebiotic feedstocks in four high-yielding steps. Phosphate provides an unexpected resolution, leading to spontaneous purification of the genetically relevant threo-isomer. Furthermore, 3'-amino-TNA nucleosides are shown to be phosphorylated directly in water, under mild conditions with cyclic trimetaphosphate, forming a nucleoside triphosphate (NTP) in a manner not feasible for canonical nucleosides. Our results suggest 3'-amino-TNA nucleosides may have been present on the early Earth, and the ease with which these NTPs form, alongside the inherent selectivity for the Watson-Crick base-pairing threo-monomer, warrants further study of the role they could play during the emergence of life.
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Affiliation(s)
- Daniel Whitaker
- Department of Chemistry, University College London, London, UK
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28
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Pagacz-Kostrzewa M, Bumażnik D, Coussan S, Sałdyka M. Structure, Spectra and Photochemistry of 2-Amino-4-Methylthiazole: FTIR Matrix Isolation and Theoretical Studies. MOLECULES (BASEL, SWITZERLAND) 2022; 27:molecules27123897. [PMID: 35745029 PMCID: PMC9227644 DOI: 10.3390/molecules27123897] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Revised: 06/14/2022] [Accepted: 06/15/2022] [Indexed: 11/19/2022]
Abstract
The structure, tautomerization pathways, vibrational spectra, and photochemistry of 2-amino-4-methylthiazole (AMT) molecule were studied by matrix isolation FTIR spectroscopy and DFT calculations undertaken at the B3LYP/6-311++G(3df,3pd) level of theory. The most stable tautomer with the five-membered ring stabilized by two double C=C and C=N bonds, was detected in argon matrices after deposition. When the AMT/Ar matrices were exposed to 265 nm selective irradiation, three main photoproducts, N-(1-sulfanylprop-1-en-2-yl)carbodiimide (fp1), N-(1-thioxopropan-2-yl)carbodiimide (fp2) and N-(2-methylthiiran-2-yl)carbodiimide (fp3), were photoproduced by a cleavage of the CS–CN bond together with hydrogen atom migration. The minor photoreaction caused by the cleavage of the CS–CC bond and followed by hydrogen migration formed 2-methyl-1H-azirene-1-carbimidothioic acid (fp15). We have also found that cleavage of the CS–CN bond followed by disruption of the N–C bond produced cyanamide (fp11) and the C(CH3)=CH–S biradical that transformed into 2-methylthiirene (fp12) and further photoreactions produced 1-propyne-1-thiole (fp13) or methylthioketene (fp14). Cleavage of the CS–CC bond followed by disruption of the N–C bond produced propyne (fp22) and the S–C(NH2)=N biradical that transformed into 3-aminethiazirene (fp23); further photoreactions produced N-sulfanylcarbodiimide (fp25). As a result of these transformations, several molecular complexes were identified as photoproducts besides new molecules in the AMT photolysis process.
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Affiliation(s)
- Magdalena Pagacz-Kostrzewa
- Faculty of Chemistry, University of Wroclaw, F. Joliot-Curie 14, 50-383 Wrocław, Poland; (M.P.-K.); (D.B.)
| | - Daria Bumażnik
- Faculty of Chemistry, University of Wroclaw, F. Joliot-Curie 14, 50-383 Wrocław, Poland; (M.P.-K.); (D.B.)
| | - Stéphane Coussan
- Aix-Marseille University, CNRS, PIIM, 13013 Marseille, France
- Correspondence: (S.C.); (M.S.); Tel.: +33-41-3946-419 (S.C.)
| | - Magdalena Sałdyka
- Faculty of Chemistry, University of Wroclaw, F. Joliot-Curie 14, 50-383 Wrocław, Poland; (M.P.-K.); (D.B.)
- Correspondence: (S.C.); (M.S.); Tel.: +33-41-3946-419 (S.C.)
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29
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Singh J, Whitaker D, Thoma B, Islam S, Foden CS, Aliev AE, Sheppard TD, Powner MW. Prebiotic Catalytic Peptide Ligation Yields Proteinogenic Peptides by Intramolecular Amide Catalyzed Hydrolysis Facilitating Regioselective Lysine Ligation in Neutral Water. J Am Chem Soc 2022; 144:10151-10155. [PMID: 35640067 PMCID: PMC9204760 DOI: 10.1021/jacs.2c03486] [Citation(s) in RCA: 14] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/18/2022]
Abstract
![]()
The prebiotic origin
of catalyst-controlled peptide synthesis is
fundamental to understanding the emergence of life. Building on our
recent discovery that thiols catalyze the ligation of amino acids,
amides, and peptides with amidonitriles in neutral water, we demonstrate
the outcome of ligation depends on pH and that high pKa primary thiols are the ideal catalysts. While the most
rapid thiol catalyzed peptide ligation occurs at pH 8.5–9,
the most selective peptide ligation, that tolerates all proteinogenic
side chains, occurs at pH 7. We have also identified the highly selective
mechanism by which the intermediate peptidyl amidines undergo hydrolysis
to α-peptides while demonstrating that the hydrolysis of amidines
with nonproteinogenic structures, such as β- and γ-peptides,
displays poor selectivity. Notably, this discovery enables the highly
α-selective protecting-group-free ligation of lysine peptides
at neutral pH while leaving the functional ε-amine side chain
intact.
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Affiliation(s)
- Jyoti Singh
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Daniel Whitaker
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Benjamin Thoma
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Saidul Islam
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom.,Department of Chemistry, King's College London, 7 Trinity Street, London SE1 1DB, United Kingdom
| | - Callum S Foden
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Abil E Aliev
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Tom D Sheppard
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
| | - Matthew W Powner
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, United Kingdom
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30
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Evolution of Realistic Organic Mixtures for the Origins of Life through Wet–Dry Cycling. SCI 2022. [DOI: 10.3390/sci4020022] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022] Open
Abstract
One of the challenges in understanding chemical evolution is the large number of starting organics and environments that were plausible on early Earth. Starting with realistic organic mixtures and using chemical analyses that are not biologically biased, understanding the interplay between organic composition and environment can be approached using statistical analysis. In this work, a mixture of 73 organics was cycled through dehydrating conditions five times, considering environmental parameters of pH, salinity, and rehydration solution. Products were analyzed by HPLC, amide and ester assays, and phosphatase and esterase assays. While all environmental factors were found to influence chemical evolution, salinity was found to play a large role in the evolution of these mixtures, with samples diverging at very high sea salt concentrations. This framework should be expanded and formalized to improve our understanding of abiogenesis.
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31
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Gözen I, Köksal ES, Põldsalu I, Xue L, Spustova K, Pedrueza-Villalmanzo E, Ryskulov R, Meng F, Jesorka A. Protocells: Milestones and Recent Advances. SMALL (WEINHEIM AN DER BERGSTRASSE, GERMANY) 2022; 18:e2106624. [PMID: 35322554 DOI: 10.1002/smll.202106624] [Citation(s) in RCA: 42] [Impact Index Per Article: 14.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2021] [Revised: 02/06/2022] [Indexed: 06/14/2023]
Abstract
The origin of life is still one of humankind's great mysteries. At the transition between nonliving and living matter, protocells, initially featureless aggregates of abiotic matter, gain the structure and functions necessary to fulfill the criteria of life. Research addressing protocells as a central element in this transition is diverse and increasingly interdisciplinary. The authors review current protocell concepts and research directions, address milestones, challenges and existing hypotheses in the context of conditions on the early Earth, and provide a concise overview of current protocell research methods.
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Affiliation(s)
- Irep Gözen
- Centre for Molecular Medicine Norway, Faculty of Medicine, University of Oslo, Oslo, 0318, Norway
| | - Elif Senem Köksal
- Centre for Molecular Medicine Norway, Faculty of Medicine, University of Oslo, Oslo, 0318, Norway
| | - Inga Põldsalu
- Centre for Molecular Medicine Norway, Faculty of Medicine, University of Oslo, Oslo, 0318, Norway
| | - Lin Xue
- Centre for Molecular Medicine Norway, Faculty of Medicine, University of Oslo, Oslo, 0318, Norway
| | - Karolina Spustova
- Centre for Molecular Medicine Norway, Faculty of Medicine, University of Oslo, Oslo, 0318, Norway
| | - Esteban Pedrueza-Villalmanzo
- Department of Chemistry and Chemical Engineering, Chalmers University of Technology, Göteborg, SE-412 96, Sweden
- Department of Physics, University of Gothenburg, Universitetsplatsen 1, Gothenburg, 40530, Sweden
| | - Ruslan Ryskulov
- Department of Chemistry and Chemical Engineering, Chalmers University of Technology, Göteborg, SE-412 96, Sweden
| | - Fanda Meng
- Department of Chemistry and Chemical Engineering, Chalmers University of Technology, Göteborg, SE-412 96, Sweden
- School of Basic Medicine, Shandong First Medical University & Shandong Academy of Medical Sciences, Jinan, 250000, China
| | - Aldo Jesorka
- Department of Chemistry and Chemical Engineering, Chalmers University of Technology, Göteborg, SE-412 96, Sweden
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32
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New Signatures of Bio-Molecular Complexity in the Hypervelocity Impact Ejecta of Icy Moon Analogues. Life (Basel) 2022; 12:life12040508. [PMID: 35454999 PMCID: PMC9026792 DOI: 10.3390/life12040508] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2022] [Revised: 03/07/2022] [Accepted: 03/11/2022] [Indexed: 01/05/2023] Open
Abstract
Impact delivery of prebiotic compounds to the early Earth from an impacting comet is considered to be one of the possible ways by which prebiotic molecules arrived on the Earth. Given the ubiquity of impact features observed on all planetary bodies, bolide impacts may be a common source of organics on other planetary bodies both in our own and other solar systems. Biomolecules such as amino acids have been detected on comets and are known to be synthesized due to impact-induced shock processing. Here we report the results of a set of hypervelocity impact experiments where we shocked icy mixtures of amino acids mimicking the icy surface of planetary bodies with high-speed projectiles using a two-stage light gas gun and analyzed the ejecta material after impact. Electron microscopic observations of the ejecta have shown the presence of macroscale structures with long polypeptide chains revealed from LCMS analysis. These results suggest a pathway in which impact on cometary ices containing building blocks of life can lead to the synthesis of material architectures that could have played a role in the emergence of life on the Earth and which may be applied to other planetary bodies as well.
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33
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Serrano-Molina D, Montoro-García C, Mayoral MJ, de Juan A, González-Rodríguez D. Self-Sorting Governed by Chelate Cooperativity. J Am Chem Soc 2022; 144:5450-5460. [PMID: 35311263 PMCID: PMC8972263 DOI: 10.1021/jacs.1c13295] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
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Self-sorting
phenomena are the basis of manifold relevant (bio)chemical
processes where a set of molecules is able to interact with no interference
from other sets and are ruled by a number of codes that are programmed
in molecular structures. In this work, we study, the relevance of
chelate cooperativity as a code for achieving high self-sorting fidelities.
In particular, we establish qualitative and quantitative relationships
between the cooperativity of a cyclic system and the self-sorting
fidelity when combined with other molecules that share identical geometry
and/or binding interactions. We demonstrate that only systems displaying
sufficiently strong chelate cooperativity can achieve quantitative
narcissistic self-sorting fidelities either by dictating the distribution
of cyclic species in complex mixtures or by ruling the competition
between the intra- and intermolecular versions of a noncovalent interaction.
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Affiliation(s)
- David Serrano-Molina
- Nanostructured Molecular Systems and Materials Group, Departamento de Química Orgánica, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - Carlos Montoro-García
- Nanostructured Molecular Systems and Materials Group, Departamento de Química Orgánica, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - María J. Mayoral
- Nanostructured Molecular Systems and Materials Group, Departamento de Química Orgánica, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Departamento de Química Inorgánica, Facultad de Ciencias Químicas, Universidad Complutense de Madrid, 28040 Madrid, Spain
| | - Alberto de Juan
- Nanostructured Molecular Systems and Materials Group, Departamento de Química Orgánica, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
| | - David González-Rodríguez
- Nanostructured Molecular Systems and Materials Group, Departamento de Química Orgánica, Facultad de Ciencias, Universidad Autónoma de Madrid, 28049 Madrid, Spain
- Institute for Advanced Research in Chemical Sciences (IAdChem), Universidad Autónoma de Madrid, 28049 Madrid, Spain
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34
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Closs AC, Bechtel M, Trapp O. Dynamic Exchange of Substituents in a Prebiotic Organocatalyst: Initial Steps towards an Evolutionary System. Angew Chem Int Ed Engl 2022; 61:e202112563. [PMID: 34705315 PMCID: PMC9298921 DOI: 10.1002/anie.202112563] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2021] [Indexed: 11/07/2022]
Abstract
All evolutionary biological processes lead to a change in heritable traits over successive generations. The responsible genetic information encoded in DNA is altered, selected, and inherited by mutation of the base sequence. While this is well known at the biological level, an evolutionary change at the molecular level of small organic molecules is unknown but represents an important prerequisite for the emergence of life. Here, we present a class of prebiotic imidazolidine-4-thione organocatalysts able to dynamically change their constitution and potentially capable to form an evolutionary system. These catalysts functionalize their building blocks and dynamically adapt to their (self-modified) environment by mutation of their own structure. Depending on the surrounding conditions, they show pronounced and opposing selectivity in their formation. Remarkably, the preferentially formed species can be associated with different catalytic properties, which enable multiple pathways for the transition from abiotic matter to functional biomolecules.
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Affiliation(s)
- Anna C. Closs
- Department of ChemistryLudwig-Maximilians-University MunichButenandtstr. 5–1381377MunichGermany
- Max-Planck-Institute for AstronomyKönigstuhl 1769117HeidelbergGermany
| | - Maximilian Bechtel
- Department of ChemistryLudwig-Maximilians-University MunichButenandtstr. 5–1381377MunichGermany
| | - Oliver Trapp
- Department of ChemistryLudwig-Maximilians-University MunichButenandtstr. 5–1381377MunichGermany
- Max-Planck-Institute for AstronomyKönigstuhl 1769117HeidelbergGermany
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35
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Closs AC, Bechtel M, Trapp O. Dynamischer Austausch von Substituenten in einem präbiotischen Organokatalysator: Erste Schritte auf dem Weg zu einem evolutionären System. Angew Chem Int Ed Engl 2022. [DOI: 10.1002/ange.202112563] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
Affiliation(s)
- Anna C. Closs
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
- Max-Planck-Institut für Astronomie Königstuhl 17 69117 Heidelberg Deutschland
| | - Maximilian Bechtel
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
| | - Oliver Trapp
- Department Chemie Ludwig-Maximilians-Universität München Butenandtstr. 5–13 81377 München Deutschland
- Max-Planck-Institut für Astronomie Königstuhl 17 69117 Heidelberg Deutschland
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36
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Sharma S, Arya A, Cruz R, Cleaves II HJ. Automated Exploration of Prebiotic Chemical Reaction Space: Progress and Perspectives. Life (Basel) 2021; 11:1140. [PMID: 34833016 PMCID: PMC8624352 DOI: 10.3390/life11111140] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/07/2021] [Revised: 10/15/2021] [Accepted: 10/18/2021] [Indexed: 12/12/2022] Open
Abstract
Prebiotic chemistry often involves the study of complex systems of chemical reactions that form large networks with a large number of diverse species. Such complex systems may have given rise to emergent phenomena that ultimately led to the origin of life on Earth. The environmental conditions and processes involved in this emergence may not be fully recapitulable, making it difficult for experimentalists to study prebiotic systems in laboratory simulations. Computational chemistry offers efficient ways to study such chemical systems and identify the ones most likely to display complex properties associated with life. Here, we review tools and techniques for modelling prebiotic chemical reaction networks and outline possible ways to identify self-replicating features that are central to many origin-of-life models.
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Affiliation(s)
- Siddhant Sharma
- Blue Marble Space Institute of Science, Seattle, WA 98154, USA; (S.S.); (A.A.); (R.C.)
- Department of Biochemistry, Deshbandhu College, University of Delhi, New Delhi 110019, India
- Department of Chemistry and Chemical Engineering, Chalmers University of Technology, SE-412 96 Gothenburg, Sweden
| | - Aayush Arya
- Blue Marble Space Institute of Science, Seattle, WA 98154, USA; (S.S.); (A.A.); (R.C.)
- Department of Physics, Lovely Professional University, Jalandhar-Delhi GT Road, Phagwara 144001, India
| | - Romulo Cruz
- Blue Marble Space Institute of Science, Seattle, WA 98154, USA; (S.S.); (A.A.); (R.C.)
- Big Data Laboratory, Information and Communications Technology Center (CTIC), National University of Engineering, Amaru 210, Lima 15333, Peru
| | - Henderson James Cleaves II
- Blue Marble Space Institute of Science, Seattle, WA 98154, USA; (S.S.); (A.A.); (R.C.)
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo 152-8550, Japan
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37
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Bernhardt HS, Tate WP. A New Perspective on the Maillard Reaction and the Origin of Life. J Mol Evol 2021; 89:594-597. [PMID: 34633476 DOI: 10.1007/s00239-021-10030-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/10/2021] [Accepted: 09/28/2021] [Indexed: 11/26/2022]
Abstract
The Maillard reaction, a spontaneous 'one pot' reaction between amino acids and reducing sugars that occurs at low reactant concentrations and low temperatures, is a good candidate for having played a role in the origin of life on the Earth. In view of the probability that RNA and DNA were preceded by an evolutionary forerunner with a more straightforward prebiotic synthesis, it is a testament to the prescience of Oró and colleagues that, in 1975, they drew attention to the Maillard reaction, in particular evidence that melanoidin polymers (the end-product of the reaction) contain '…heterocyclic nitrogen compounds similar to the nitrogenous bases' (Nissenbaum in J Mol Evol 6:253-270, 1975). Indeed, reports of the Maillard reaction product, 2-Acetyl-6-(Hydroxymethyl)-5,6-Dihydro-4H-Pyridinone (AHDP), with a structure reminiscent of the pyrimidine nucleobase uracil, suggest the Maillard reaction might have played a key role in the synthesis of components of a proto-RNA polymer, with AHDP and two structurally related products predicted to be similar to uracil in the latter's ability to form non-standard base pair interactions. It is possible that the primary function of these interactions was to allow molecules such as AHDP to separate out of the prebiotic chemical clutter. If this were the case, catalysis, and coding-made possible by the polymerization of proto-nucleoside monomers into linear sequence strings-would have been evolving properties.
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Affiliation(s)
- Harold S Bernhardt
- Department of Biochemistry, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand.
| | - Warren P Tate
- Emeritus Professor, Department of Biochemistry, School of Biomedical Sciences, University of Otago, Dunedin, New Zealand
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38
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Maguire OR, Smokers IBA, Huck WTS. A physicochemical orthophosphate cycle via a kinetically stable thermodynamically activated intermediate enables mild prebiotic phosphorylations. Nat Commun 2021; 12:5517. [PMID: 34535651 PMCID: PMC8448844 DOI: 10.1038/s41467-021-25555-x] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Accepted: 08/18/2021] [Indexed: 12/02/2022] Open
Abstract
The incorporation of orthophosphate from scarce geochemical sources into the organic compounds essential for life under mild conditions is a fundamental challenge for prebiotic chemistry. Here we report a prebiotic system capable of overcoming this challenge by taking inspiration from extant life's recycling of orthophosphate via its conversion into kinetically stable thermodynamically activated (KSTA) nucleotide triphosphates (e.g. ATP). We separate the activation of orthophosphate from its transfer to organic compounds by, crucially, first accumulating a KSTA phosphoramidate. We use cyanate to activate orthophosphate in aqueous solution under mild conditions and then react it with imidazole to accumulate the KSTA imidazole phosphate. In a paste, imidazole phosphate phosphorylates all the essential building blocks of life. Integration of this chemistry into a wet/dry cycle enables the continuous recycling of orthophosphate and the accretion of phosphorylated compounds. This system functions even at low reagent concentrations due to solutes concentrating during evaporation. Our system demonstrates a general strategy for how to maximise the usage of scarce resources based upon cycles which accumulate and then release activated intermediates.
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Affiliation(s)
- Oliver R Maguire
- Institute for Molecules and Materials, Radboud University Nijmegen, 6525, AJ, Nijmegen, The Netherlands
| | - Iris B A Smokers
- Institute for Molecules and Materials, Radboud University Nijmegen, 6525, AJ, Nijmegen, The Netherlands
| | - Wilhelm T S Huck
- Institute for Molecules and Materials, Radboud University Nijmegen, 6525, AJ, Nijmegen, The Netherlands.
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39
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Higgs PG. When Is a Reaction Network a Metabolism? Criteria for Simple Metabolisms That Support Growth and Division of Protocells. Life (Basel) 2021; 11:life11090966. [PMID: 34575115 PMCID: PMC8469938 DOI: 10.3390/life11090966] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 09/08/2021] [Accepted: 09/08/2021] [Indexed: 11/16/2022] Open
Abstract
With the aim of better understanding the nature of metabolism in the first cells and the relationship between the origin of life and the origin of metabolism, we propose three criteria that a chemical reaction system must satisfy in order to constitute a metabolism that would be capable of sustaining growth and division of a protocell. (1) Biomolecules produced by the reaction system must be maintained at high concentration inside the cell while they remain at low or zero concentration outside. (2) The total solute concentration inside the cell must be higher than outside, so there is a positive osmotic pressure that drives cell growth. (3) The metabolic rate (i.e., the rate of mass throughput) must be higher inside the cell than outside. We give examples of small-molecule reaction systems that satisfy these criteria, and others which do not, firstly considering fixed-volume compartments, and secondly, lipid vesicles that can grow and divide. If the criteria are satisfied, and if a supply of lipid is available outside the cell, then continued growth of membrane surface area occurs alongside the increase in volume of the cell. If the metabolism synthesizes more lipid inside the cell, then the membrane surface area can increase proportionately faster than the cell volume, in which case cell division is possible. The three criteria can be satisfied if the reaction system is bistable, because different concentrations can exist inside and out while the rate constants of all the reactions are the same. If the reaction system is monostable, the criteria can only be satisfied if there is a reason why the rate constants are different inside and out (for example, the decay rates of biomolecules are faster outside, or the formation rates of biomolecules are slower outside). If this difference between inside and outside does not exist, a monostable reaction system cannot sustain cell growth and division. We show that a reaction system for template-directed RNA polymerization can satisfy the requirements for a metabolism, even if the small-molecule reactions that make the single nucleotides do not.
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Affiliation(s)
- Paul G Higgs
- Department of Physics and Astronomy, Origins Institute, McMaster University, Hamilton, ON L8S 4M1, Canada
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40
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Ball R, Brindley J. Does Stochasticity Favour Complexity in a Prebiotic Peptide-Micelle System? ORIGINS LIFE EVOL B 2021; 51:259-271. [PMID: 34480252 DOI: 10.1007/s11084-021-09614-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/18/2021] [Accepted: 07/29/2021] [Indexed: 11/29/2022]
Abstract
A primordial environment that hosted complex pre- or proto-biochemical activity would have been subject to random fluctuations. A relevant question is then: What might be the optimum variance of such fluctuations, such that net progress could be made towards a living system? Since lipid-based membrane encapsulation was undoubtedly a key step in chemical evolution, we used a peptide-micelle system in simulated experiments where simple micelles and peptide-stabilized micelles compete for the same amphiphilic lipid substrate. As cyclic thermal driver and energy source we used a thermochemical redox oscillator, to which the micelle reactions are coupled thermally through the activation energies. The long-time series averages taken for increasing values of the fluctuation variance show two distinct minima for simple micelles, but are smoothly increasing for complex micelles. This result suggests that the fluctuation variance is an important parameter in developing and perpetuating complexity. We hypothesize that such an environment may be self-selecting for a complex, evolving chemical system to outcompete simple or parasitic molecular structures.
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Affiliation(s)
- Rowena Ball
- Mathematical Sciences Institute, Australian National University, Canberra, 2602, Australia.
| | - John Brindley
- School of Mathematics, University of Leeds, Leeds, LS2 9JT, UK
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41
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Micellar electrokinetic chromatography as a powerful analytical tool for research on prebiotic chemistry. Microchem J 2021. [DOI: 10.1016/j.microc.2021.106022] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
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42
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Villafañe-Barajas SA, Ruiz-Bermejo M, Rayo-Pizarroso P, Gálvez-Martínez S, Mateo-Martí E, Colín-García M. A Lizardite-HCN Interaction Leading the Increasing of Molecular Complexity in an Alkaline Hydrothermal Scenario: Implications for Origin of Life Studies. Life (Basel) 2021; 11:life11070661. [PMID: 34357033 PMCID: PMC8305185 DOI: 10.3390/life11070661] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2021] [Revised: 06/18/2021] [Accepted: 06/29/2021] [Indexed: 11/16/2022] Open
Abstract
Hydrogen cyanide, HCN, is considered a fundamental molecule in chemical evolution. The named HCN polymers have been suggested as precursors of important bioorganics. Some novel researches have focused on the role of mineral surfaces in the hydrolysis and/or polymerization of cyanide species, but until now, their role has been unclear. Understanding the role of minerals in chemical evolution processes is crucial because minerals undoubtedly interacted with the organic molecules formed on the early Earth by different process. Therefore, we simulated the probable interactions between HCN and a serpentinite-hosted alkaline hydrothermal system. We studied the effect of serpentinite during the thermolysis of HCN at basic conditions (i.e., HCN 0.15 M, 50 h, 100 °C, pH > 10). The HCN-derived thermal polymer and supernatant formed after treatment were analyzed by several complementary analytical techniques. The results obtained suggest that: (I) the mineral surfaces can act as mediators in the mechanisms of organic molecule production such as the polymerization of HCN; (II) the thermal and physicochemical properties of the HCN polymer produced are affected by the presence of the mineral surface; and (III) serpentinite seems to inhibit the formation of bioorganic molecules compared with the control (without mineral).
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Affiliation(s)
- Saúl A. Villafañe-Barajas
- Posgrado en Ciencias de la Tierra, Universidad Nacional Autónoma de México, Ciudad Universitaria, Mexico City 04510, Mexico;
| | - Marta Ruiz-Bermejo
- Departamento de Evolución Molecular, Centro de Astrobiología (CSIC-INTA), Ctra, Torrejón-Ajalvir, km 4, Torrejón de Ardoz, 28850 Madrid, Spain; (P.R.-P.); (S.G.-M.); (E.M.-M.)
- Correspondence: ; Tel.: +34-915206458; Fax: +34-915206410
| | - Pedro Rayo-Pizarroso
- Departamento de Evolución Molecular, Centro de Astrobiología (CSIC-INTA), Ctra, Torrejón-Ajalvir, km 4, Torrejón de Ardoz, 28850 Madrid, Spain; (P.R.-P.); (S.G.-M.); (E.M.-M.)
| | - Santos Gálvez-Martínez
- Departamento de Evolución Molecular, Centro de Astrobiología (CSIC-INTA), Ctra, Torrejón-Ajalvir, km 4, Torrejón de Ardoz, 28850 Madrid, Spain; (P.R.-P.); (S.G.-M.); (E.M.-M.)
| | - Eva Mateo-Martí
- Departamento de Evolución Molecular, Centro de Astrobiología (CSIC-INTA), Ctra, Torrejón-Ajalvir, km 4, Torrejón de Ardoz, 28850 Madrid, Spain; (P.R.-P.); (S.G.-M.); (E.M.-M.)
| | - María Colín-García
- Instituto de Geología, Universidad Nacional Autónoma de México, Ciudad Universitaria, Mexico City 04510, Mexico;
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Deal AM, Rapf RJ, Vaida V. Water-Air Interfaces as Environments to Address the Water Paradox in Prebiotic Chemistry: A Physical Chemistry Perspective. J Phys Chem A 2021; 125:4929-4942. [PMID: 33979519 DOI: 10.1021/acs.jpca.1c02864] [Citation(s) in RCA: 42] [Impact Index Per Article: 10.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
Abstract
The asymmetric water-air interface provides a dynamic aqueous environment with properties that are often very different than bulk aqueous or gaseous phases and promotes reactions that are thermodynamically, kinetically, or otherwise unfavorable in bulk water. Prebiotic chemistry faces a key challenge: water is necessary for life yet reduces the efficiency of many biomolecular synthesis reactions. This perspective considers water-air interfaces as auspicious reaction environments for abiotic synthesis. We discuss recent evidence that (1) water-air interfaces promote condensation reactions including peptide synthesis, phosphorylation, and oligomerization; (2) photochemistry at water-air interfaces may have been a significant source of prebiotic molecular complexity, given the lack of oxygen and increased availability of near-ultraviolet radiation on early Earth; and (3) water-air interfaces can promote spontaneous reduction and oxidation reactions, potentially providing protometabolic pathways. Life likely began within a relatively short time frame, and water-air interfaces offer promising environments for simultaneous and efficient biomolecule production.
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Affiliation(s)
- Alexandra M Deal
- Department of Chemistry and Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, Colorado 80309, United States
| | - Rebecca J Rapf
- Department of Chemistry, Trinity University, 1 Trinity Place, San Antonio, Texas 78212, United States
| | - Veronica Vaida
- Department of Chemistry and Cooperative Institute for Research in Environmental Sciences, University of Colorado Boulder, Boulder, Colorado 80309, United States
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Colville BWF, Powner MW. Selective Prebiotic Synthesis of α-Threofuranosyl Cytidine by Photochemical Anomerization. Angew Chem Int Ed Engl 2021; 60:10526-10530. [PMID: 33644959 PMCID: PMC8252090 DOI: 10.1002/anie.202101376] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2021] [Indexed: 11/23/2022]
Abstract
The structure of life's first genetic polymer is a question of intense ongoing debate. The "RNA world theory" suggests RNA was life's first nucleic acid. However, ribonucleotides are complex chemical structures, and simpler nucleic acids, such as threose nucleic acid (TNA), can carry genetic information. In principle, nucleic acids like TNA could have played a vital role in the origins of life. The advent of any genetic polymer in life requires synthesis of its monomers. Here we demonstrate a high-yielding, stereo-, regio- and furanosyl-selective prebiotic synthesis of threo-cytidine 3, an essential component of TNA. Our synthesis uses key intermediates and reactions previously exploited in the prebiotic synthesis of the canonical pyrimidine ribonucleoside cytidine 1. Furthermore, we demonstrate that erythro-specific 2',3'-cyclic phosphate synthesis provides a mechanism to photochemically select TNA cytidine. These results suggest that TNA may have coexisted with RNA during the emergence of life.
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Colville BWF, Powner MW. Selective Prebiotic Synthesis of α‐Threofuranosyl Cytidine by Photochemical Anomerization. Angew Chem Int Ed Engl 2021. [DOI: 10.1002/ange.202101376] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/26/2023]
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Abstract
The evolution of coenzymes, or their impact on the origin of life, is fundamental for understanding our own existence. Having established reasonable hypotheses about the emergence of prebiotic chemical building blocks, which were probably created under palaeogeochemical conditions, and surmising that these smaller compounds must have become integrated to afford complex macromolecules such as RNA, the question of coenzyme origin and its relation to the evolution of functional biochemistry should gain new impetus. Many coenzymes have a simple chemical structure and are often nucleotide-derived, which suggests that they may have coexisted with the emergence of RNA and may have played a pivotal role in early metabolism. Based on current theories of prebiotic evolution, which attempt to explain the emergence of privileged organic building blocks, this Review discusses plausible hypotheses on the prebiotic formation of key elements within selected extant coenzymes. In combination with prebiotic RNA, coenzymes may have dramatically broadened early protometabolic networks and the catalytic scope of RNA during the evolution of life.
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Affiliation(s)
- Andreas Kirschning
- Institut für Organische Chemie und Biomolekulares Wirkstoffzentrum (BMWZ)Leibniz Universität HannoverSchneiderberg 1B30167HannoverGermany
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Jankowska J, Góra RW. Ultrafast nonradiative deactivation of photoexcited 8-oxo-hypoxanthine: a nonadiabatic molecular dynamics study. Phys Chem Chem Phys 2021; 23:1234-1241. [PMID: 33355573 DOI: 10.1039/d0cp05271j] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/01/2023]
Abstract
In the scientific endeavor to understand the chemical origins of life, the photochemistry of the smallest life building blocks, nucleobases, has been a constant object of focus and intense research. Here, we report the results of the first theoretical study on the photo-properties of an 8-oxo-hypoxanthine molecule, the chromophore of 8-oxo-inosine, which is relevant to the recently proposed, prebiotically plausible synthetic routes to the formation of purine- and pyrimidine-nucleotides. With ab initio and semi-empirical OM2/MRCI quantum-chemistry calculations, we predict a strong photostability of the 8-oxo-hypoxanthine system and see the origin of this effect in ultrafast nonradiative relaxation through puckering of the 6-membered heterocyclic ring.
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Affiliation(s)
- Joanna Jankowska
- Faculty of Chemistry, University of Warsaw, 02-093 Warsaw, Poland.
| | - Robert W Góra
- Department of Physical and Quantum Chemistry, Wroclaw University of Science and Technology, Wybrzeże Wyspiańskiego 27, 50-370, Wrocław, Poland.
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Foden CS, Islam S, Fernández-García C, Maugeri L, Sheppard TD, Powner MW. Prebiotic synthesis of cysteine peptides that catalyze peptide ligation in neutral water. Science 2020; 370:865-869. [PMID: 33184216 DOI: 10.1126/science.abd5680] [Citation(s) in RCA: 91] [Impact Index Per Article: 18.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2020] [Accepted: 10/01/2020] [Indexed: 01/26/2023]
Abstract
Peptide biosynthesis is performed by ribosomes and several other classes of enzymes, but a simple chemical synthesis may have created the first peptides at the origins of life. α-Aminonitriles-prebiotic α-amino acid precursors-are generally produced by Strecker reactions. However, cysteine's aminothiol is incompatible with nitriles. Consequently, cysteine nitrile is not stable, and cysteine has been proposed to be a product of evolution, not prebiotic chemistry. We now report a high-yielding, prebiotic synthesis of cysteine peptides. Our biomimetic pathway converts serine to cysteine by nitrile-activated dehydroalanine synthesis. We also demonstrate that N-acylcysteines catalyze peptide ligation, directly coupling kinetically stable-but energy-rich-α-amidonitriles to proteinogenic amines. This rare example of selective and efficient organocatalysis in water implicates cysteine as both catalyst and precursor in prebiotic peptide synthesis.
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Affiliation(s)
- Callum S Foden
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | - Saidul Islam
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | | | - Leonardo Maugeri
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | - Tom D Sheppard
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK
| | - Matthew W Powner
- Department of Chemistry, University College London, 20 Gordon Street, London WC1H 0AJ, UK.
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Kirschning A. The coenzyme/protein pair and the molecular evolution of life. Nat Prod Rep 2020; 38:993-1010. [PMID: 33206101 DOI: 10.1039/d0np00037j] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]
Abstract
Covering: up to 2020What was first? Coenzymes or proteins? These questions are archetypal examples of causal circularity in living systems. Classically, this "chicken-and-egg" problem was discussed for the macromolecules RNA, DNA and proteins. This report focuses on coenzymes and cofactors and discusses the coenzyme/protein pair as another example of causal circularity in life. Reflections on the origin of life and hypotheses on possible prebiotic worlds led to the current notion that RNA was the first macromolecule, long before functional proteins and hence DNA. So these causal circularities of living systems were solved by a time travel into the past. To tackle the "chicken-and-egg" problem of the protein-coenzyme pair, this report addresses this problem by looking for clues (a) in the first hypothetical biotic life forms such as protoviroids and the last unified common ancestor (LUCA) and (b) in considerations and evidence of the possible prebiotic production of amino acids and coenzymes before life arose. According to these considerations, coenzymes and cofactors can be regarded as very old molecular players in the origin and evolution of life, and at least some of them developed independently of α-amino acids, which here are evolutionarily synonymous with proteins. Discussions on "chicken-and-egg" problems open further doors to the understanding of evolution.
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Affiliation(s)
- Andreas Kirschning
- Institut für Organische Chemie und Zentrum für Biomolekulare Wirkstoffchemie (BMWZ), Leibniz Universität Hannover, Schneiderberg 1B, D-30167 Hannover, Germany.
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Clark BC, Kolb VM. Macrobiont: Cradle for the Origin of Life and Creation of a Biosphere. Life (Basel) 2020; 10:life10110278. [PMID: 33198206 PMCID: PMC7697624 DOI: 10.3390/life10110278] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/04/2020] [Revised: 11/09/2020] [Accepted: 11/09/2020] [Indexed: 02/06/2023] Open
Abstract
Although the cellular microorganism is the fundamental unit of biology, the origin of life (OoL) itself is unlikely to have occurred in a microscale environment. The macrobiont (MB) is the macro-scale setting where life originated. Guided by the methodologies of Systems Analysis, we focus on subaerial ponds of scale 3 to 300 m diameter. Within such ponds, there can be substantial heterogeneity, on the vertical, horizontal, and temporal scales, which enable multi-pot prebiotic chemical evolution. Pond size-sensitivities for several figures of merit are mathematically formulated, leading to the expectation that the optimum pond size for the OoL is intermediate, but biased toward smaller sizes. Sensitivities include relative access to nutrients, energy sources, and catalysts, as sourced from geological, atmospheric, hydrospheric, and astronomical contributors. Foreshores, especially with mudcracks, are identified as a favorable component for the success of the macrobiont. To bridge the gap between inanimate matter and a planetary-scale biosphere, five stages of evolution within the macrobiont are hypothesized: prebiotic chemistry → molecular replicator → protocell → macrobiont cell → colonizer cell. Comparison of ponds with other macrobionts, including hydrothermal and meteorite settings, allows a conclusion that more than one possible macrobiont locale could enable an OoL.
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Affiliation(s)
- Benton C. Clark
- Space Science Institute, Boulder, CO 80301, USA
- Correspondence:
| | - Vera M. Kolb
- Department of Chemistry, University of Wisconsin—Parkside, Kenosha, WI 53141, USA;
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