A Computational Quantum-Based Perspective on the Molecular Origins of Life's Building Blocks.
ab initio molecular dynamics
astrobiology
density functional theory
metadynamics
origins of life
prebiotic chemistry
Journal
Entropy (Basel, Switzerland)
ISSN: 1099-4300
Titre abrégé: Entropy (Basel)
Pays: Switzerland
ID NLM: 101243874
Informations de publication
Date de publication:
22 Jul 2022
22 Jul 2022
Historique:
received:
04
05
2022
revised:
25
06
2022
accepted:
18
07
2022
entrez:
27
7
2022
pubmed:
28
7
2022
medline:
28
7
2022
Statut:
epublish
Résumé
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.
Identifiants
pubmed: 35892991
pii: e24081012
doi: 10.3390/e24081012
pmc: PMC9394336
pii:
doi:
Types de publication
Journal Article
Review
Langues
eng
Subventions
Organisme : NINR NIH HHS
ID : R01 NR016964
Pays : United States
Références
Nat Chem. 2016 Nov 22;8(12):1091-1098
pubmed: 27874869
Proc Natl Acad Sci U S A. 2015 Jan 27;112(4):E343-4
pubmed: 25572967
Proc Natl Acad Sci U S A. 2015 Jan 27;112(4):965-70
pubmed: 25583475
Struct Dyn. 2017 Apr 20;4(4):044018
pubmed: 28470026
Nat Chem. 2010 Nov;2(11):949-54
pubmed: 20966951
Phys Rev Lett. 1996 Oct 28;77(18):3865-3868
pubmed: 10062328
Phys Rev Lett. 1994 Aug 1;73(5):712-715
pubmed: 10057518
Biochim Biophys Acta. 1957 Mar;23(3):480-9
pubmed: 13426157
Nat Commun. 2018 Dec 12;9(1):5175
pubmed: 30538231
Chem Soc Rev. 2012 Aug 21;41(16):5526-65
pubmed: 22684046
Orig Life Evol Biosph. 2004 Jun;34(3):277-306
pubmed: 15068036
Science. 2008 Oct 17;322(5900):404
pubmed: 18927386
Orig Life Evol Biosph. 2016 Nov;46(4):515-521
pubmed: 27052010
Nature. 1993 Oct 7;365(6446):566-8
pubmed: 7692304
Life (Basel). 2022 Mar 30;12(4):
pubmed: 35454999
Chemistry. 2020 Sep 16;26(52):12075-12080
pubmed: 32293757
Science. 2016 Apr 8;352(6282):208-12
pubmed: 27124456
Nature. 2016 Mar 3;531(7592):88-91
pubmed: 26935697
Nature. 1971 Mar 12;230(5289):105-6
pubmed: 4927006
Arch Biochem Biophys. 1961 Aug;94:217-27
pubmed: 13731263
Orig Life. 1976 Dec;7(4):399-412
pubmed: 1023139
Proc Natl Acad Sci U S A. 2015 Dec 8;112(49):15030-5
pubmed: 26598679
J Chem Phys. 2007 Feb 7;126(5):054103
pubmed: 17302470
J Phys Chem A. 2013 Jun 20;117(24):5124-31
pubmed: 23639050
Astrobiology. 2020 Dec;20(12):1476-1488
pubmed: 32955922
Phys Rev B Condens Matter. 1988 Jan 15;37(2):785-789
pubmed: 9944570
Nat Chem. 2014 Dec;6(12):1044-8
pubmed: 25411881
Astrobiology. 2020 Sep;20(9):1121-1149
pubmed: 32876492
Biochemistry. 2016 May 17;55(19):2806-11
pubmed: 27115539
Phys Rev B Condens Matter. 1993 Jan 15;47(3):1651-1654
pubmed: 10006189
Orig Life Evol Biosph. 2008 Apr;38(2):105-15
pubmed: 18204914
Angew Chem Int Ed Engl. 2016 Jan 4;55(1):104-21
pubmed: 26510485
Chem Sci. 2017 Mar 1;8(3):2329-2336
pubmed: 28451337
Nat Chem. 2015 Apr;7(4):301-7
pubmed: 25803468
J Am Chem Soc. 2020 Feb 26;142(8):3836-3850
pubmed: 31994390
J Am Chem Soc. 2019 Sep 11;141(36):14230-14238
pubmed: 31429556
Phys Chem Chem Phys. 2017 Jan 18;19(3):1817-1825
pubmed: 28000820
Orig Life Evol Biosph. 2003 Jun;33(3):235-42
pubmed: 14515862
J Chem Phys. 2010 Apr 21;132(15):154104
pubmed: 20423165
Sci Rep. 2017 Jul 31;7(1):6901
pubmed: 28761109
Phys Chem Chem Phys. 2018 May 9;20(18):13038-13046
pubmed: 29713710
Nat Chem. 2012 Jan 10;4(3):183-7
pubmed: 22354431
J Comput Chem. 2011 May;32(7):1456-65
pubmed: 21370243
Chem Commun (Camb). 2018 Mar 27;54(26):3211-3214
pubmed: 29411836
Proc Natl Acad Sci U S A. 2011 Apr 5;108(14):5526-31
pubmed: 21422282
J Am Chem Soc. 2012 Dec 26;134(51):20788-96
pubmed: 23193998
Orig Life Evol Biosph. 1988;18(1-2):71-85
pubmed: 2453009
Phys Rev Lett. 2002 Oct 7;89(15):157602
pubmed: 12366023
Proc Natl Acad Sci U S A. 2015 May 26;112(21):E2746-55
pubmed: 25870268
Proc Natl Acad Sci U S A. 2015 Jan 20;112(3):657-62
pubmed: 25489115
Phys Rev Lett. 1985 Nov 25;55(22):2471-2474
pubmed: 10032153
Proc Natl Acad Sci U S A. 2002 Oct 1;99(20):12562-6
pubmed: 12271136
Proc Natl Acad Sci U S A. 2021 Jun 1;118(22):
pubmed: 34031247
J Phys Chem A. 2012 Jan 12;116(1):720-6
pubmed: 22129168
Phys Rev A Gen Phys. 1988 Sep 15;38(6):3098-3100
pubmed: 9900728
Nature. 1992 Jan 9;355:125-32
pubmed: 11538392
Science. 1953 May 15;117(3046):528-9
pubmed: 13056598
Science. 1959 Jul 31;130(3370):245-51
pubmed: 13668555
Nature. 1961 Sep 16;191:1193-4
pubmed: 13731264
Phys Chem Chem Phys. 2016 Jul 27;18(30):20047-66
pubmed: 27136968
J Phys Chem Lett. 2020 Nov 5;11(21):8983-8988
pubmed: 33035059
Phys Rev Lett. 1995 May 15;74(20):4035-4038
pubmed: 10058396
Cell. 1996 Jun 14;85(6):793-8
pubmed: 8681375
J Phys Chem A. 2013 Nov 7;117(44):11293-6
pubmed: 24102334
Phys Rev Lett. 2003 Jun 13;90(23):235503
pubmed: 12857271
Phys Rev Lett. 2012 May 18;108(20):207801
pubmed: 23003187
Astrobiology. 2007 Jun;7(3):433-42
pubmed: 17630839
Angew Chem Int Ed Engl. 2014 Jul 28;53(31):8132-6
pubmed: 24966137
Nature. 1953 Apr 25;171(4356):737-8
pubmed: 13054692
Acc Chem Res. 2015 Apr 21;48(4):998-1006
pubmed: 25799082
Proc Natl Acad Sci U S A. 2014 Sep 23;111(38):13768-73
pubmed: 25201948
Science. 2004 Jan 9;303(5655):196
pubmed: 14716004
Chem Soc Rev. 2018 Jul 17;47(14):5125-5145
pubmed: 29979456
J Chem Phys. 2020 May 21;152(19):194103
pubmed: 33687235
Chemistry. 2016 Mar 7;22(11):3572-86
pubmed: 26807661
J Phys Condens Matter. 2009 Sep 30;21(39):395502
pubmed: 21832390
J Chem Phys. 2007 Jan 7;126(1):014101
pubmed: 17212484
Nat Chem. 2020 Aug;12(8):683-690
pubmed: 32690899
J Phys Chem B. 2014 Nov 6;118(44):12717-24
pubmed: 25265517
Proc Natl Acad Sci U S A. 2017 Apr 25;114(17):4306-4311
pubmed: 28396441
Sci Rep. 2021 Oct 25;11(1):21009
pubmed: 34697338