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Bizzarri BM, Fanelli A, Ciprini S, Giorgi A, De Angelis M, Fioravanti R, Nencioni L, Saladino R. Multicomponent Synthesis of Diaminopurine and Guanine PNA's Analogues Active against Influenza A Virus from Prebiotic Compounds. ACS OMEGA 2022; 7:45253-45264. [PMID: 36530301 PMCID: PMC9753540 DOI: 10.1021/acsomega.2c05754] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/05/2022] [Accepted: 10/24/2022] [Indexed: 06/17/2023]
Abstract
Peptide nucleic acids (PNAs) play a key role in prebiotic chemistry as a chimera between RNA and proteins. We developed an alternative synthesis of bioactive PNA's diaminopurine and guanine analogues from prebiotic compounds, such as aminomalononitrile (AMN), urea, and guanidine, using a two-step multicomponent microwave-assisted and solvent-free approach in the presence of selected amino acids. The novel derivatives showed selective inhibitory activity against influenza virus A/Puerto Rico/8/34 H1N1 encompassing the range of nanomolar activity. Derivatives decorated with the tyrosine residue showed the highest inhibitory activity against the virus.
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Affiliation(s)
- Bruno Mattia Bizzarri
- Department
of Biological and Ecological Sciences, University
of Tuscia, Viterbo 01100, Italy
| | - Angelica Fanelli
- Department
of Biological and Ecological Sciences, University
of Tuscia, Viterbo 01100, Italy
| | - Stefania Ciprini
- Department
of Biological and Ecological Sciences, University
of Tuscia, Viterbo 01100, Italy
| | - Alessandra Giorgi
- Department
of Biological and Ecological Sciences, University
of Tuscia, Viterbo 01100, Italy
| | - Marta De Angelis
- Department
of Public Health and Infectious Diseases, Laboratory Affiliated to
Istituto Pasteur Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome 00185, Italy
| | - Raoul Fioravanti
- Department
of Public Health and Infectious Diseases, Laboratory Affiliated to
Istituto Pasteur Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome 00185, Italy
| | - Lucia Nencioni
- Department
of Public Health and Infectious Diseases, Laboratory Affiliated to
Istituto Pasteur Italia-Fondazione Cenci Bolognetti, Sapienza University of Rome, Rome 00185, Italy
| | - Raffaele Saladino
- Department
of Biological and Ecological Sciences, University
of Tuscia, Viterbo 01100, Italy
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2
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Fiore M, Chieffo C, Lopez A, Fayolle D, Ruiz J, Soulère L, Oger P, Altamura E, Popowycz F, Buchet R. Synthesis of Phospholipids Under Plausible Prebiotic Conditions and Analogies with Phospholipid Biochemistry for Origin of Life Studies. ASTROBIOLOGY 2022; 22:598-627. [PMID: 35196460 DOI: 10.1089/ast.2021.0059] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/14/2023]
Abstract
Phospholipids are essential components of biological membranes and are involved in cell signalization, in several enzymatic reactions, and in energy metabolism. In addition, phospholipids represent an evolutionary and non-negligible step in life emergence. Progress in the past decades has led to a deeper understanding of these unique hydrophobic molecules and their most pertinent functions in cell biology. Today, a growing interest in "prebiotic lipidomics" calls for a new assessment of these relevant biomolecules.
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Affiliation(s)
- Michele Fiore
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
| | - Carolina Chieffo
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
| | - Augustin Lopez
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
| | - Dimitri Fayolle
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
| | - Johal Ruiz
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
- Institut National Des Sciences Appliquées, INSA Lyon, Villeurbanne, France
| | - Laurent Soulère
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
- Institut National Des Sciences Appliquées, INSA Lyon, Villeurbanne, France
| | - Philippe Oger
- Microbiologie, Adaptation et Pathogénie, UMR 5240, Université de Lyon, Claude Bernard Lyon 1, Villeurbanne, France
| | - Emiliano Altamura
- Chemistry Department, Università degli studi di Bari "Aldo Moro," Bari, Italy
| | - Florence Popowycz
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
- Institut National Des Sciences Appliquées, INSA Lyon, Villeurbanne, France
| | - René Buchet
- Université de Lyon, Université Claude Bernard Lyon 1, Institut de Chimie et de Biochimie Moléculaires et Supramoléculaires, UMR 5246, CNRS, CPE, Villeurbanne, France
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3
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Yue L, Wang S, Zhou Z, Willner I. Nucleic Acid Based Constitutional Dynamic Networks: From Basic Principles to Applications. J Am Chem Soc 2020; 142:21577-21594. [DOI: 10.1021/jacs.0c09891] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022]
Affiliation(s)
- Liang Yue
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Shan Wang
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Zhixin Zhou
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Itamar Willner
- Institute of Chemistry, The Center for Nanoscience and Nanotechnology, The Hebrew University of Jerusalem, Jerusalem 91904, Israel
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4
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Yue L, Wang S, Willner I. Functional Constitutional Dynamic Networks Revealing Evolutionary Reproduction/Variation/Selection Principles. J Am Chem Soc 2020; 142:14437-14442. [PMID: 32787246 PMCID: PMC7498142 DOI: 10.1021/jacs.0c05669] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2020] [Indexed: 12/27/2022]
Abstract
Within the broad research efforts to engineer chemical pathways to yield high-throughput evolutionary synthesis of genes and their screening for dictated functionalities, we introduce the evolution of nucleic-acid-based constitutional dynamic networks (CDNs) that follow reproduction/variation/selection principles. These fundamental principles are demonstrated by assembling a library of nucleic-acid strands and hairpins as functional modules for evolving networks. Primary T1-initiated selection of components from the library assembles a parent CDN X, where the evolved constituents exhibit catalytic properties to cleave the hairpins in the library. Cleavage of the hairpins yields fragments, which reproduces T1 to replicate CDN X, whereas the other fragments T2 and T3 select other components to evolve two other CDNs, Y and Z (variation). By applying appropriate counter triggers, we demonstrate the guided selection of networks from the evolved CDNs. By integrating additional hairpin substrates into the system, CDN-dictated emergent catalytic transformations are accomplished. The study provides pathways to construct evolutionary dynamic networks revealing enhanced gated and cascaded functions.
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Affiliation(s)
- Liang Yue
- Institute of Chemistry, The Center
for Nanoscience and Nanotechnology, The
Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Shan Wang
- Institute of Chemistry, The Center
for Nanoscience and Nanotechnology, The
Hebrew University of Jerusalem, Jerusalem 91904, Israel
| | - Itamar Willner
- Institute of Chemistry, The Center
for Nanoscience and Nanotechnology, The
Hebrew University of Jerusalem, Jerusalem 91904, Israel
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5
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Danger G, d’Hendecourt LLS, Pascal R. On the conditions for mimicking natural selection in chemical systems. Nat Rev Chem 2020; 4:102-109. [PMID: 37128049 DOI: 10.1038/s41570-019-0155-6] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 12/05/2019] [Indexed: 11/09/2022]
Abstract
The emergence of natural selection, requiring that reproducing entities present variations that may be inherited and passed on, was arguably the most important breakthrough in the self-organization of life. In this Perspective, the assumptions governing biological reproduction are confronted with physico-chemical principles that control the evolution of material systems. In biology, the reproduction of living organisms is never considered to be reversible, whereas microscopic reversibility is an essential principle in the physical description of matter. Here, we show that this discrepancy places constraints on the possibility of finding kinetic processes in the chemical world that are equivalent to natural selection in the biological one. Chemical replicators can behave in a similar fashion to living entities, provided that the reproduction cycle proceeds in a unidirectional way. For this to be the case, kinetic barriers must hinder the reverse process. The system must, thus, be held far from equilibrium and fed with a non-degraded (low-entropy) form of energy. The ensuing constraints must be factored in when proposing scenarios that account for the origin of life at the molecular level.
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Saladino R. From chemical complexity to origin of life: Comment on "A never-ending story in the sky: The secrets of chemical evolution" by C. Puzzarini and V. Barone. Phys Life Rev 2019; 32:111-113. [PMID: 31451434 DOI: 10.1016/j.plrev.2019.08.014] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Accepted: 08/19/2019] [Indexed: 10/26/2022]
Affiliation(s)
- Raffaele Saladino
- Department of Ecological and Biological Sciences, Via S. Camillo de Lellis, University of Tuscia, 01100, Viterbo, Italy.
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7
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Lopez A, Fiore M. Investigating Prebiotic Protocells for A Comprehensive Understanding of the Origins of Life: A Prebiotic Systems Chemistry Perspective. Life (Basel) 2019; 9:E49. [PMID: 31181679 PMCID: PMC6616946 DOI: 10.3390/life9020049] [Citation(s) in RCA: 39] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2019] [Revised: 05/21/2019] [Accepted: 06/06/2019] [Indexed: 01/06/2023] Open
Abstract
Protocells are supramolecular systems commonly used for numerous applications, such as the formation of self-evolvable systems, in systems chemistry and synthetic biology. Certain types of protocells imitate plausible prebiotic compartments, such as giant vesicles, that are formed with the hydration of thin films of amphiphiles. These constructs can be studied to address the emergence of life from a non-living chemical network. They are useful tools since they offer the possibility to understand the mechanisms underlying any living cellular system: Its formation, its metabolism, its replication and its evolution. Protocells allow the investigation of the synergies occurring in a web of chemical compounds. This cooperation can explain the transition between chemical (inanimate) and biological systems (living) due to the discoveries of emerging properties. The aim of this review is to provide an overview of relevant concept in prebiotic protocell research.
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Affiliation(s)
- Augustin Lopez
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 1 Rue Victor Grignard, Bâtiment Lederer, 69622 Villeurbanne CEDEX, France.
- Master de Biologie, École Normale Supérieure de Lyon, Université Claude Bernard Lyon I, Université de Lyon, 69342 Lyon CEDEX 07, France.
| | - Michele Fiore
- Institut de Chimie et Biochimie Moléculaires et Supramoléculaires, Université de Lyon, Claude Bernard Lyon 1, 1 Rue Victor Grignard, Bâtiment Lederer, 69622 Villeurbanne CEDEX, France.
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