1
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Noriega L, Gonzalez-Ortiz LA, Ortíz-Chi F, Merino G. Astrochemical Significance of C 2H 7NO Isomers: A Computational Perspective on Their Stability and Detectability. J Phys Chem A 2025. [PMID: 40372245 DOI: 10.1021/acs.jpca.5c01086] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 05/16/2025]
Abstract
Nitrogen- and oxygen-containing molecules play a key role in interstellar chemistry, particularly as precursors to biologically relevant species such as amino acids. Among the C2H7NO isomers, 2-aminoethanol is the only one detected in the ISM. This study systematically explores the C2H7NO chemical space, identifying eight structural isomers, with 1-aminoethanol as the global minimum and methylaminomethanol, 11.5 kcal/mol higher in energy, as a viable higher-energy species. To assess their astrochemical relevance, we conducted a comprehensive conformational analysis and computed rotational constants to guide future spectroscopic searches. These findings provide critical insights into C2H7NO isomers, identifying new candidates for ISM detection and expanding our understanding of nitrogen- and oxygen-containing organic species in space.
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Affiliation(s)
- Lisset Noriega
- Departamento de Física Aplicada, Centro de Investigación y de Estudios Avanzados, Unidad Mérida, km 6 Antigua Carretera a Progreso, Apdo. Postal 73, Cordemex 97310 Mérida, Yucatán, Mexico
| | - Luis Armando Gonzalez-Ortiz
- Departamento de Física Aplicada, Centro de Investigación y de Estudios Avanzados, Unidad Mérida, km 6 Antigua Carretera a Progreso, Apdo. Postal 73, Cordemex 97310 Mérida, Yucatán, Mexico
| | - Filiberto Ortíz-Chi
- Secihti-Departamento de Física Aplicada, Centro de Investigación y de Estudios Avanzados, Unidad Mérida, km 6 Antigua Carretera a Progreso, Apdo. Postal 73, Cordemex 97310 Mérida, Yucatán, Mexico
| | - Gabriel Merino
- Departamento de Física Aplicada, Centro de Investigación y de Estudios Avanzados, Unidad Mérida, km 6 Antigua Carretera a Progreso, Apdo. Postal 73, Cordemex 97310 Mérida, Yucatán, Mexico
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2
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Londoño-Restrepo J, Gómez S, Quitián-Lara HM, Fantuzzi F, Restrepo A. More π, please: What drives the formation of unsaturated molecules in the interstellar medium? Chem Sci 2025; 16:3051-3065. [PMID: 39802688 PMCID: PMC11718301 DOI: 10.1039/d4sc07986h] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/25/2024] [Accepted: 12/30/2024] [Indexed: 01/16/2025] Open
Abstract
We present a computational investigation into the fragmentation pathways of ethanolamine (C2H7NO, EtA), propanol (C3H8O, PrO), butanenitrile (C4H7N, BuN), and glycolamide (C2H5NO2, GlA)-saturated organic molecules detected in the interstellar medium (ISM), particularly in the molecular cloud complex Sagittarius B2 (Sgr B2) and its molecular cloud G+0.693-0.027. Using electron-impact ionization data and Born-Oppenheimer molecular dynamics simulations, we investigate how cosmic rays, cosmic-ray-induced UV fields, and shock-induced heating can induce the fragmentation of these molecules, resulting in the formation of unsaturated species with extended π-bond networks. Despite the attenuation of external UV radiation in G+0.693-0.027, these energetic processes are capable of driving partial transformations of saturated into unsaturated molecules, supporting the coexistence of species like EtA and GlA alongside unsaturated nitriles such as cyanoacetylene (HC3N), cyanopropyne (CH3C3N), and cyanoallene (CH2CCHCN). Our findings underscore the significance of high-energy mechanisms in enhancing chemical complexity within molecular clouds and offer insights into the pathways that govern the evolution of organic molecules in the ISM.
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Affiliation(s)
| | - Santiago Gómez
- Instituto de Química, Universidad de Antioquia Calle 70 No. 52-21 Medellín 050010 Colombia
- Department of Physics, Chemistry and Biology (IFM), Linköping University Linköping SE-581 83 Sweden
| | - Heidy M Quitián-Lara
- Max Planck Institute for Extraterrestrial Physics Gießenbachstraße 1 85748 Garching Germany
- Physics and Astronomy, School of Engineering, Mathematics and Physics, University of Kent Park Wood Rd Canterbury CT2 7NH UK
| | - Felipe Fantuzzi
- Chemistry and Forensic Science, School of Natural Sciences, University of Kent Park Wood Rd Canterbury CT2 7NH UK
| | - Albeiro Restrepo
- Instituto de Química, Universidad de Antioquia Calle 70 No. 52-21 Medellín 050010 Colombia
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3
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Kechoindi S, Ben Yaghlane S, Mogren Al Mogren M, Bodi A, Hochlaf M. Photoelectron spectrum and breakdown diagram of ethanolamine: conformers, excited states, and thermochemistry. Phys Chem Chem Phys 2024; 26:24656-24666. [PMID: 39279722 DOI: 10.1039/d4cp03015j] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/18/2024]
Abstract
Advanced theoretical methodologies and photoelectron photoion coincidence spectroscopy were used to investigate the photoionization of ethanolamine in the 8-18 eV energy range. We identified the low-lying cation conformers and the excited cation electronic states after vertical excitation from the most stable neutral conformer computationally. The TPES is composed of broad, structureless bands because of unfavorable Franck-Condon factors for origin transitions upon ionization, populating the D0-D7 cationic states from the most stable neutral conformer, g'Gg'. The adiabatic ionization energy of ethanolamine is calculated at 8.940 ± 0.010 eV, and the 0 K appearance energies of aminomethylium, NH2CH2+ (+CH2OH), and methyleneammonium, NH3CH2+ (+H2CO), are determined experimentally to be 9.708 ± 0.010 eV and 9.73 ± 0.03 eV, respectively. The former is used to re-evaluate the ethanolamine enthalpy of formation in the gas and liquid phases as ΔfH⊖298K[NH2(CH2)2OH, g] = -208.2 ± 1.2 kJ mol-1 and ΔfH⊖298K[NH2(CH2)2OH, l] = -267.8 ± 1.2 kJ mol-1. This represents a substantial correction of the previous experimental determination and is supported by ab initio calculations.
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Affiliation(s)
- S Kechoindi
- Université Gustave Eiffel, COSYS/IMSE, 5 Bd Descartes 77454, Champs-sur-Marne, France.
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications - LSAMA, Université de Tunis El Manar, Tunis, Tunisia
| | - S Ben Yaghlane
- Laboratoire de Spectroscopie Atomique, Moléculaire et Applications - LSAMA, Université de Tunis El Manar, Tunis, Tunisia
| | - M Mogren Al Mogren
- Department of Chemistry, College of Sciences, King Saud University, P.O. Box 2455, Riyadh 11451, Saudi Arabia
| | - A Bodi
- Laboratory for Synchrotron Radiation and Femtochemistry, Paul Scherrer Institute, PSI, 5232, Villigen, Switzerland.
| | - M Hochlaf
- Université Gustave Eiffel, COSYS/IMSE, 5 Bd Descartes 77454, Champs-sur-Marne, France.
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4
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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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5
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Xiong X, Hu Y. Infrared Spectroscopy of Neutral and Cationic Benzonitrile-Methanol Binary Clusters in Supersonic Jets. Molecules 2024; 29:2744. [PMID: 38930810 PMCID: PMC11206090 DOI: 10.3390/molecules29122744] [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: 05/10/2024] [Revised: 06/01/2024] [Accepted: 06/05/2024] [Indexed: 06/28/2024] Open
Abstract
The formation of nitrogen-containing organic interstellar molecules is of great importance to reveal chemical processes and the origin of life on Earth. Benzonitrile (BN) is one of the simplest nitrogen-containing aromatic molecules in the interstellar medium (ISM) that has been detected in recent years. Methanol (CH3OH) exists widely in interstellar space with high reactivity. Herein, we measured the infrared (IR) spectra of neutral and cationic BN-CH3OH clusters by vacuum ultraviolet (VUV) photoionization combined with time-of-flight mass spectrometry. Combining IR spectra with the density functional theory calculations, we reveal that the BN-CH3OH intends to form a cyclic H-bonded structure in neutral clusters. However, after the ionization of BN-CH3OH clusters, proton-shared N···H···O and N···H···C structures are confirmed to form between BN and CH3OH, with the minor coexistence of H-bond and O-π structures. The formation of the proton-shared structure expands our knowledge of the evolution of the life-related nitrogen-containing molecules in the universe and provides a possible pathway to the further study of biorelevant aromatic organic macromolecules.
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Affiliation(s)
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
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6
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Bocková J, Garcia AD, Jones NC, Hoffmann SV, Meinert C. Chiroptical properties of membrane glycerophospholipids and their chiral backbones. Chirality 2024; 36:e23654. [PMID: 38419414 DOI: 10.1002/chir.23654] [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: 01/13/2024] [Revised: 01/30/2024] [Accepted: 02/01/2024] [Indexed: 03/02/2024]
Abstract
Glycerophospholipid membranes are one of the key cellular components. Still, their species-dependent composition and homochirality remain an elusive subject. In the context of the astrophysical circularly polarized light scenario likely involved in the generation of a chiral bias in meteoritic amino and sugar acids in space, and consequently in the origin of life's homochirality on Earth, this study reports the first measurements of circular dichroism and anisotropy spectra of a selection of glycerophospholipids, their chiral backbones and their analogs. The rather low asymmetry in the interaction of UV/VUV circularly polarized light with sn-glycerol-1/3-phosphate indicates that chiral photons would have been unlikely to directly induce symmetry breaking to membrane lipids. In contrast, the anisotropy spectra of d-3-phosphoglyceric acid and d-glyceraldehyde-3-phosphate unveil up to 20 and 100 times higher maximum anisotropy factor values, respectively. This first experimental report, targeted on investigating the origins of phospholipid symmetry breaking, opens up new avenues of research to explore alternative mechanisms leading to membrane lipid homochirality, while providing important clues for the search for chiral biosignatures of extant and/or extinct life in space, in particular for the ExoMars 2028 mission.
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Affiliation(s)
- Jana Bocková
- Institut de Chimie de Nice, CNRS UMR 7272, Université Côte d'Azur, Nice, France
| | - Adrien D Garcia
- 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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7
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Chen X, Wei C, Xie M, Hu Y. Single-Photon Ionization Induced New Covalent Bond Formation in Acrylonitrile(AN)-Pyrrole(Py) Clusters. J Phys Chem A 2023; 127:8272-8279. [PMID: 37769120 DOI: 10.1021/acs.jpca.3c02481] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/30/2023]
Abstract
The formation of nitrogen-containing organic compounds is crucial for understanding chemical evolution and the origin of life in the interstellar medium (ISM). In this study, we explore whether acrylonitrile (AN) and pyrrole (Py) can form new nitrogen-containing compounds after single-photon ionization in their gaseous clusters by vacuum ultraviolet (VUV)-infrared (IR) spectroscopy and theoretical calculations. The results show that a strong linear H-bond is formed in neutral AN-Py, while cyclic or bicyclic H-bonded networks are formed in the neutral AN-Py2 cluster. It is found that the structure containing a new C-C covalent bond between two moieties in (AN-Py)+ is formed besides the formation of H-bonded structures after AN-Py is ionized by VUV light. In (AN-Py2)+ cluster cations, new C-C or C-N covalent bonds tend to be formed between two Py, with (Py)2+ as the core in the cluster. The results reveal that new covalent bonds are more likely to be formed between two Py species when AN and Py are present in the cationic clusters. These results provide spectroscopic evidence of the formation of new nitrogen-containing organic compounds from AN and Py induced by VUV, which are helpful for our understanding of the formation of diverse prebiotic molecules in interstellar space.
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Affiliation(s)
- Xujian Chen
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Chengcheng Wei
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Min Xie
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
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8
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Garrod RT, Herbst E. Preferential destruction of NH 2-bearing complex interstellar molecules via gas-phase proton-transfer reactions. Faraday Discuss 2023; 245:541-568. [PMID: 37306320 DOI: 10.1039/d3fd00014a] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/21/2023]
Abstract
Complex, nitrogen-bearing interstellar molecules, especially amines, are targets of particular interest for detection in star- and planet-forming regions, due to their possible relevance to prebiotic chemistry. However, these NH2-bearing molecules are not universally detected in sources where other, oxygen-bearing complex organic molecules (COMs) are often plentiful. Nevertheless, recent astrochemical models have often predicted large abundances for NH2-bearing complex organics, based on their putative production on dust grains. Here we investigate a range of new gas-phase proton-transfer reactions and their influence on the destruction of COMs. As in past studies, reactions between protonated COMs and ammonia (NH3) are found to be important in prolonging gas-phase COM lifetimes. However, for molecules with proton affinities (PA) greater than that of ammonia, proton-transfer reactions result in drastic reductions in abundances and lifetimes. Ammonia acts as a sink for proton transfer from low-PA COMs, while passing on protons to high-PA species; dissociative recombination with electrons then destroys the resulting ions. Species strongly affected include methylamine (CH3NH2), urea (NH2C(O)NH2) and others bearing the NH2 group. The abundances of these species show a sharp time dependence, indicating that their detectability may rest on the precise chemical age of the source. Rapid gas-phase destruction of glycine (NH2CH2COOH) in the models suggests that its future detection may be yet more challenging than previously hoped.
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Affiliation(s)
- Robin T Garrod
- Depts. of Chemistry & Astronomy, University of Virginia, Charlottesville, VA 22904, USA.
| | - Eric Herbst
- Depts. of Chemistry & Astronomy, University of Virginia, Charlottesville, VA 22904, USA.
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9
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Puzzarini C, Alessandrini S, Bizzocchi L, Melosso M. Hunting for interstellar molecules: rotational spectra of reactive species. Faraday Discuss 2023; 245:309-326. [PMID: 37318358 DOI: 10.1039/d3fd00052d] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 09/21/2023]
Abstract
Interstellar molecules are often highly reactive species, which are unstable under terrestrial conditions, such as radicals, ions and unsaturated carbon chains. Their detection in space is usually based on the astronomical observation of their rotational fingerprints. However, laboratory investigations have to face the issue of efficiently producing these molecules and preserving them during rotational spectroscopy measurements. A general approach for producing and investigating unstable/reactive species is presented by means of selected case-study molecules. The overall strategy starts from quantum-chemical calculations that aim at obtaining accurate predictions of the missing spectroscopic information required to guide spectral analysis and assignment. Rotational spectra of these species are then recorded by exploiting the approach mentioned above, and their subsequent analysis leads to accurate spectroscopic parameters. These are then used for setting up accurate line catalogs for astronomical searches.
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Affiliation(s)
- Cristina Puzzarini
- ROT&Comp Lab, Department of Chemistry "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, I-40126 Bologna, Italy.
| | - Silvia Alessandrini
- ROT&Comp Lab, Department of Chemistry "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, I-40126 Bologna, Italy.
| | - Luca Bizzocchi
- ROT&Comp Lab, Department of Chemistry "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, I-40126 Bologna, Italy.
| | - Mattia Melosso
- ROT&Comp Lab, Department of Chemistry "Giacomo Ciamician", University of Bologna, Via F. Selmi 2, I-40126 Bologna, Italy.
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10
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Prasad M, Hazra B, Mandal R, Das S, Tarafdar PK. ATP-Assisted Protocellular Membrane Formation with Ethanolamine-Based Amphiphiles. LANGMUIR : THE ACS JOURNAL OF SURFACES AND COLLOIDS 2023. [PMID: 37421360 DOI: 10.1021/acs.langmuir.3c00600] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/10/2023]
Abstract
Prebiotic membranes are one of the essential elements of the origin of life because they build compartments to keep genetic materials and metabolic machinery safe. Since modern cell membranes are made up of ethanolamine-based phospholipids, prebiotic membrane formation with ethanolamine-based amphiphiles and phosphates might act as a bridge between the prebiotic and contemporary eras. Here, we report the prebiotic synthesis of O-lauroyl ethanolamine (OLEA), O-lauroyl methyl ethanolamine (OLMEA), and O-lauroyl dimethylethanolamine (OLDMEA) under wet-dry cycles. Turbidimetric, NMR, DLS, fluorescence, microscopy, and glucose encapsulation studies highlighted that OLEA-ATP and OLMEA-ATP form protocellular membranes in a 3:1 ratio, where ATP acts as a template. OLDMEA with a dimethyl group did not form any membrane in the presence of ATP. ADP can also template OLEA to form vesicles in a 2:1 ratio, but the ADP-templated vesicles were smaller. This suggests the critical role of the phosphate backbone in controlling the curvature of supramolecular assembly. The mechanisms of hierarchical assembly and transient dissipative assembly are discussed based on templated-complex formation via electrostatic, hydrophobic, and H-bonding interactions. Our results suggest that N-methylethanolamine-based amphiphiles could be used to form prebiotic vesicles, but the superior H-bonding ability of the ethanolamine moiety likely provides an evolutionary advantage for stable protocell formation during the fluctuating environments of early earth.
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Affiliation(s)
- Mahesh Prasad
- Indian Institute of Science Education and Research Kolkata, Mohanpur, Nadia 741246, West Bengal, India
| | - Bibhas Hazra
- Indian Institute of Science Education and Research Kolkata, Mohanpur, Nadia 741246, West Bengal, India
| | - Raki Mandal
- Indian Institute of Science Education and Research Kolkata, Mohanpur, Nadia 741246, West Bengal, India
| | - Subrata Das
- Indian Institute of Science Education and Research Kolkata, Mohanpur, Nadia 741246, West Bengal, India
| | - Pradip K Tarafdar
- Indian Institute of Science Education and Research Kolkata, Mohanpur, Nadia 741246, West Bengal, India
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11
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Dilena G, Pistillo S, Bodo E. About the Formation of NH2OH+ from Gas Phase Reactions under Astrochemical Conditions. Molecules 2023; 28:molecules28072932. [PMID: 37049694 PMCID: PMC10096285 DOI: 10.3390/molecules28072932] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/01/2023] [Revised: 03/21/2023] [Accepted: 03/22/2023] [Indexed: 03/29/2023] Open
Abstract
We present here an analysis of several possible reactive pathways toward the formation of hydroxylamine under astrochemical conditions. The analysis is based on ab initio quantum chemistry calculations. Twenty-one bimolecular ion–molecule reactions have been studied and their thermodynamics presented. Only one of these reactions is a viable direct route to hydroxylamine. We conclude that the contribution of gas-phase chemistry to hydroxylamine formation is probably negligible when compared to its formation via surface grain chemistry. However, we have found several plausible gas-phase reactions whose outcome is the hydroxylamine cation.
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12
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Jiang N, Melosso M, Alessandrini S, Bizzocchi L, Martin-Drumel MA, Pirali O, Puzzarini C. Insights into the molecular structure and infrared spectrum of the prebiotic species aminoacetonitrile. Phys Chem Chem Phys 2023; 25:4754-4763. [PMID: 36691972 DOI: 10.1039/d2cp05179f] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Aminoacetonitrile is an interstellar molecule with a prominent prebiotic role, already detected in the chemically-rich molecular cloud Sagittarius B2(N) and postulated to be present in the atmosphere of the largest Saturn's moon, Titan. To further support its observation in such remote environments and laboratory experiments aimed at improving our understanding of interstellar chemistry, we report a thorough spectroscopic and structural characterization of aminoacetonitrile. Equilibrium geometry, fundamental bands as well as spectroscopic and molecular parameters have been accurately computed by exploiting a composite scheme rooted in the coupled-cluster theory that accounts for the extrapolation to the complete basis set limit and core-correlation effects. In addition, a semi-experimental approach that combines ground-state rotational constants for different isotopic species and calculated vibrational corrections has been employed for the structure determination. From the experimental side, we report the analysis of the three strongest fundamental bands of aminoacetonitrile observed between 500 and 1000 cm-1 in high-resolution infrared spectra. More generally, all computed band positions are in excellent agreement with the present and previous experiments. The only exception is the ν15 band, for which we provide a revision of the experimental assignment, now in good agreement with theory.
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Affiliation(s)
- Ningjing Jiang
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy.
| | - Mattia Melosso
- Scuola Superiore Meridionale, Largo San Marcellino 10, 80138 Naples, Italy.
| | - Silvia Alessandrini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Luca Bizzocchi
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy.
| | | | - Olivier Pirali
- Université Paris-Saclay, CNRS, Institut des Sciences Moléculaires d'Orsay, 91405 Orsay, France.,SOLEIL Synchrotron, AILES beamline, l'Orme des Merisiers, 91190 Saint-Aubin, Gif-sur-Yvette, France
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy.
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13
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Xie M, Sun X, Li W, Guan J, Liang Z, Hu Y. A Facile Route for the Formation of Complex Nitrogen-Containing Prebiotic Molecules in the Interstellar Medium. J Phys Chem Lett 2022; 13:8207-8213. [PMID: 36006401 DOI: 10.1021/acs.jpclett.2c01857] [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: 06/15/2023]
Abstract
Prebiotic molecules have often been identified in the interstellar medium and meteorite samples. However, we still have only a fragmentary knowledge of the mechanism of the evolutionary process of these prebiotic molecules. With the aid of state-of-the-art vacuum ultraviolet (VUV)-infrared (IR) spectroscopy and ab initio calculations, we reveal a new pathway leading to the formation of the biorelevant molecules carrying amine groups or peptide bonds via the single-photon ionization induced Michael/cyclization reaction of acrylonitrile (AN)-alcohol heterodimer complexes in the gas phase. In the reactions, not only N-H nitrilium cations with H+-N≡C-R Lewis structure but also cyclic amine cations with a peptide bond can be formed when the AN reacts with alcohols of increasing molecular size (such as ethanol, propanol, or butanol). This study suggests the possibility of unsaturated nitriles being reduced by ionized alcohols in space, which can further drive sequential Michael addition/cyclization reactions to form more complex biorelevant molecules.
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Affiliation(s)
- Min Xie
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Xiaonan Sun
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Weixing Li
- Department of Chemistry, Fudan University, Songhu Rd. 2005, 200438 Shanghai, China
| | - Jiwen Guan
- National Synchrotron Radiation Laboratory, University of Science and Technology of China, Hefei, Anhui 230029, P. R. China
| | - Zhenhao Liang
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
| | - Yongjun Hu
- MOE Key Laboratory of Laser Life Science & Guangdong Provincial Key Laboratory of Laser Life Science, Guangzhou Key Laboratory of Spectral Analysis and Functional Probes, College of Biophotonics, South China Normal University, Guangzhou 510631, China
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14
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The emergence of interstellar molecular complexity explained by interacting networks. Proc Natl Acad Sci U S A 2022; 119:e2119734119. [PMID: 35867830 PMCID: PMC9335321 DOI: 10.1073/pnas.2119734119] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/24/2023] Open
Abstract
Recent years have witnessed the detection of an increasing number of complex organic molecules in interstellar space, some of them being of prebiotic interest. Disentangling the origin of interstellar prebiotic chemistry and its connection to biochemistry and ultimately, to biology is an enormously challenging scientific goal where the application of complexity theory and network science has not been fully exploited. Encouraged by this idea, we present a theoretical and computational framework to model the evolution of simple networked structures toward complexity. In our environment, complex networks represent simplified chemical compounds and interact optimizing the dynamical importance of their nodes. We describe the emergence of a transition from simple networks toward complexity when the parameter representing the environment reaches a critical value. Notably, although our system does not attempt to model the rules of real chemistry nor is dependent on external input data, the results describe the emergence of complexity in the evolution of chemical diversity in the interstellar medium. Furthermore, they reveal an as yet unknown relationship between the abundances of molecules in dark clouds and the potential number of chemical reactions that yield them as products, supporting the ability of the conceptual framework presented here to shed light on real scenarios. Our work reinforces the notion that some of the properties that condition the extremely complex journey from the chemistry in space to prebiotic chemistry and finally, to life could show relatively simple and universal patterns.
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15
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Amante G, Sponer JE, Sponer J, Saija F, Cassone G. A Computational Quantum-Based Perspective on the Molecular Origins of Life's Building Blocks. ENTROPY (BASEL, SWITZERLAND) 2022; 24:1012. [PMID: 35892991 PMCID: PMC9394336 DOI: 10.3390/e24081012] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/04/2022] [Revised: 06/25/2022] [Accepted: 07/18/2022] [Indexed: 12/04/2022]
Abstract
The search for the chemical origins of life represents a long-standing and continuously debated enigma. Despite its exceptional complexity, in the last decades the field has experienced a revival, also owing to the exponential growth of the computing power allowing for efficiently simulating the behavior of matter-including its quantum nature-under disparate conditions found, e.g., on the primordial Earth and on Earth-like planetary systems (i.e., exoplanets). In this minireview, we focus on some advanced computational methods capable of efficiently solving the Schro¨dinger equation at different levels of approximation (i.e., density functional theory)-such as ab initio molecular dynamics-and which are capable to realistically simulate the behavior of matter under the action of energy sources available in prebiotic contexts. In addition, recently developed metadynamics methods coupled with first-principles simulations are here reviewed and exploited to answer to old enigmas and to propose novel scenarios in the exponentially growing research field embedding the study of the chemical origins of life.
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Affiliation(s)
- Gabriele Amante
- Department of Mathematical and Computer Science, Physical Sciences and Earth Sciences, Università degli Studi di Messina, V. le F. Stagno d’Alcontres 31, 98166 Messina, Italy;
| | - Judit E. Sponer
- Institute of Biophysics of the Czech Academy of Sciences (IBP-CAS), Kràlovopolskà 135, 61265 Brno, Czech Republic; (J.E.S.); (J.S.)
| | - Jiri Sponer
- Institute of Biophysics of the Czech Academy of Sciences (IBP-CAS), Kràlovopolskà 135, 61265 Brno, Czech Republic; (J.E.S.); (J.S.)
| | - Franz Saija
- Institute for Physical-Chemical Processes, National Research Council of Italy (IPCF-CNR), V. le F. Stagno d’Alcontres 37, 98158 Messina, Italy
| | - Giuseppe Cassone
- Institute for Physical-Chemical Processes, National Research Council of Italy (IPCF-CNR), V. le F. Stagno d’Alcontres 37, 98158 Messina, Italy
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16
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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: 1.3] [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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17
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Ding Y, Liu X, Huang PJJ, Liu J. Homogeneous assays for aptamer-based ethanolamine sensing: no indication of target binding. Analyst 2022; 147:1348-1356. [PMID: 35244657 DOI: 10.1039/d2an00145d] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
Abstract
Ethanolamine is an important analyte for environmental chemistry and biological sciences. A few DNA aptamers were previously reported for binding ethanolamine with a dissociation constant (Kd) as low as 9.6 nM. However, most of the previous binding assays and sensing work used either immobilized ethanolamine or immobilized aptamers. In this work, we studied three previously reported DNA sequences, two of which were supposed to bind ethanolamine while the other could not bind. Isothermal titration calorimetry revealed no binding for any of these sequences. In addition, due to their guanine-rich sequences, thioflavin T was used as a probe. Little fluorescence change was observed with up to 1 μM ethanolamine. Responses within the millimolar range of ethanolamine were attributed to the general fluorescence quenching effect of ethanolamine instead of aptamer binding. Finally, after studying the adsorption of ethanolamine to gold nanoparticles (AuNPs), we confirmed the feasibility of using AuNPs as a probe when the concentration of ethanolamine was below 0.1 mM. However, no indication of specific aptamer binding was observed by comparing the three DNA sequences for their color changing trends. This work articulates the importance of careful homogeneous binding assays using free target molecules.
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Affiliation(s)
- Yuzhe Ding
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario, N2L 3G1, Canada.
| | - Xun Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario, N2L 3G1, Canada.
| | - Po-Jung Jimmy Huang
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario, N2L 3G1, Canada.
| | - Juewen Liu
- Department of Chemistry, Waterloo Institute for Nanotechnology, University of Waterloo, Waterloo, Ontario, N2L 3G1, Canada.
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18
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Sithamparam M, Satthiyasilan N, Chen C, Jia TZ, Chandru K. A material-based panspermia hypothesis: The potential of polymer gels and membraneless droplets. Biopolymers 2022; 113:e23486. [PMID: 35148427 DOI: 10.1002/bip.23486] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/08/2021] [Revised: 01/27/2022] [Accepted: 01/28/2022] [Indexed: 01/08/2023]
Abstract
The Panspermia hypothesis posits that either life's building blocks (molecular Panspermia) or life itself (organism-based Panspermia) may have been interplanetarily transferred to facilitate the origins of life (OoL) on a given planet, complementing several current OoL frameworks. Although many spaceflight experiments were performed in the past to test for potential terrestrial organisms as Panspermia seeds, it is uncertain whether such organisms will likely "seed" a new planet even if they are able to survive spaceflight. Therefore, rather than using organisms, using abiotic chemicals as seeds has been proposed as part of the molecular Panspermia hypothesis. Here, as an extension of this hypothesis, we introduce and review the plausibility of a polymeric material-based Panspermia seed (M-BPS) as a theoretical concept, where the type of polymeric material that can function as a M-BPS must be able to: (1) survive spaceflight and (2) "function", i.e., contingently drive chemical evolution toward some form of abiogenesis once arriving on a foreign planet. We use polymeric gels as a model example of a potential M-BPS. Polymeric gels that can be prebiotically synthesized on one planet (such as polyester gels) could be transferred to another planet via meteoritic transfer, where upon landing on a liquid bearing planet, can assemble into structures containing cellular-like characteristics and functionalities. Such features presupposed that these gels can assemble into compartments through phase separation to accomplish relevant functions such as encapsulation of primitive metabolic, genetic and catalytic materials, exchange of these materials, motion, coalescence, and evolution. All of these functions can result in the gels' capability to alter local geochemical niches on other planets, thereby allowing chemical evolution to lead to OoL events.
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Affiliation(s)
- Mahendran Sithamparam
- Space Science Center (ANGKASA), Institute of Climate Change, National University of Malaysia (UKM), Bangi, Selangor, Malaysia
| | - Nirmell Satthiyasilan
- Space Science Center (ANGKASA), Institute of Climate Change, National University of Malaysia (UKM), Bangi, Selangor, Malaysia
| | - Chen Chen
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan
| | - Tony Z Jia
- Earth-Life Science Institute, Tokyo Institute of Technology, Tokyo, Japan.,Blue Marble Space Institute of Science, Seattle, Washington, USA
| | - Kuhan Chandru
- Space Science Center (ANGKASA), Institute of Climate Change, National University of Malaysia (UKM), Bangi, Selangor, Malaysia
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19
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Melosso M, Bizzocchi L, Gazzeh H, Tonolo F, Guillemin JC, Alessandrini S, Rivilla VM, Dore L, Barone V, Puzzarini C. Gas-phase identification of ( Z)-1,2-ethenediol, a key prebiotic intermediate in the formose reaction. Chem Commun (Camb) 2022; 58:2750-2753. [PMID: 35119446 DOI: 10.1039/d1cc06919e] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022]
Abstract
Prebiotic sugars are thought to be formed on primitive Earth by the formose reaction. However, their formation is not fully understood and it is plausible that key intermediates could have formed in extraterrestrial environments and subsequently delivered on early Earth by cometary bodies. 1,2-Ethenediol, the enol form of glycolaldehyde, represents a highly reactive intermediate of the formose reaction and is likely detectable in the interstellar medium. Here, we report the identification and first characterization of (Z)-1,2-ethenediol by means of rotational spectroscopy. The title compound has been produced in the gas phase by flash vacuum pyrolysis of bis-exo-5-norbornene-2,3-diol at 750 °C, through a retro-Diels-Alder reaction. The spectral analysis was guided by high-level quantum-chemical calculations, which predicted spectroscopic parameters in very good agreement with the experiment. Our study provides accurate spectral data to be used for searches of (Z)-1,2-ethenediol in the interstellar space.
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Affiliation(s)
- Mattia Melosso
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Superiore Meridionale, Università di Napoli Federico II, Largo San Marcellino 10, 80138 Naples, Italy
| | - Luca Bizzocchi
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Houda Gazzeh
- Univ Rennes, Ecole Nationale Supérieure de Chimie de Rennes, CNRS, ISCR - UMR6226, F-35000 Rennes, France.,Université de Monastir, Avenue Taher Hadded B. P 56, Monastir 5000, Tunisia
| | - Francesca Tonolo
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Jean-Claude Guillemin
- Univ Rennes, Ecole Nationale Supérieure de Chimie de Rennes, CNRS, ISCR - UMR6226, F-35000 Rennes, France
| | - Silvia Alessandrini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy. .,Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Víctor M Rivilla
- Centro de Astrobiología (CSIC-INTA), Ctra. de Ajalvir Km. 4, Torrejón de Ardoz, 28850 Madrid, Spain.,INAF - Osservatorio Astrofisico di Arcetri, Largo E. Fermi 5, 50125 Florence, Italy
| | - Luca Dore
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy.
| | - Vincenzo Barone
- Scuola Normale Superiore, Piazza dei Cavalieri 7, 56126 Pisa, Italy
| | - Cristina Puzzarini
- Dipartimento di Chimica "Giacomo Ciamician", Università di Bologna, Via F. Selmi 2, 40126 Bologna, Italy.
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20
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Synthesis of methanediol [CH 2(OH) 2]: The simplest geminal diol. Proc Natl Acad Sci U S A 2022; 119:2111938119. [PMID: 34969838 PMCID: PMC8740743 DOI: 10.1073/pnas.2111938119] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/18/2021] [Indexed: 11/25/2022] Open
Abstract
Methanediol [CH2(OH)2] represents a pivotal atmospheric volatile organic compound and plays a fundamental role in aerosol growth. Although sought for decades, methanediol has never been identified due to the inherent dehydration tendency of two adjacent hydroxyl groups (OH) at the same carbon atom. Here, we prepare and identify methanediol via processing of low-temperature ices followed by sublimation into the gas phase. These findings open up a concept to synthesize and characterize unstable geminal diols—critical organic transients in Earth’s atmosphere. The excited state dynamics of oxygen may also lead to methanediol in methanol-rich interstellar ices in cold molecular clouds, followed by sublimation in star-forming regions and prospective detection of these reactive intermediates in the gas phase by radiotelescopes. Geminal diols—organic molecules carrying two hydroxyl groups at the same carbon atom—have been recognized as key reactive intermediates by the physical (organic) chemistry and atmospheric science communities as fundamental transients in the aerosol cycle and in the atmospheric ozonolysis reaction sequence. Anticipating short lifetimes and their tendency to fragment to water plus the aldehyde or ketone, free geminal diols represent one of the most elusive classes of organic reactive intermediates. Here, we afford an exceptional glance into the preparation of the previously elusive methanediol [CH2(OH)2] transient—the simplest geminal diol—via energetic processing of low-temperature methanol–oxygen ices. Methanediol was identified in the gas phase upon sublimation via isomer-selective photoionization reflectron time-of-flight mass spectrometry combined with isotopic substitution studies. Electronic structure calculations reveal that methanediol is formed via excited state dynamics through insertion of electronically excited atomic oxygen into a carbon–hydrogen bond of the methyl group of methanol followed by stabilization in the icy matrix. The first preparation and detection of methanediol demonstrates its gas-phase stability as supported by a significant barrier hindering unimolecular decomposition to formaldehyde and water. These findings advance our perception of the fundamental chemistry and chemical bonding of geminal diols and signify their role as an efficient sink of aldehydes and ketones in atmospheric environments eventually coupling the atmospheric chemistry of geminal diols and Criegee intermediates.
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