The origin of life. If there is a more controversial (or complex) scientific problem I have yet to encounter it. Will we ever have a deep understanding of the transition from non-life to life?
Thanks to b_b for the discussion on this original paper via hubski. And thanks to swearitwasntme for posting this paper originally to hubski and bringing it to my attention.
The idea of a full continuity between chemistry and biology is so tantalizing and beautifully simple. Great synopsis on that article!
"a study by chemists Addy Pross and Robert Pascal" I thought for a moment I had missed something. But no, it is the same sweeping ideas that are so often promoted in this area. I can understand that they are alluring. But they are based on some fundamental misunderstandings of biology. From my viewpoint of studying astrobiology, here they are: - The idea that we need new mechanisms for chemical evolution. First, we observe that chemical evolution works throughout time and space in the universe. Second, the speed with which life was established on Earth speaks for an easy and/or often enough attempted process transitioning to biological evolution. - The idea that evolution isn't falsifiable. Evolution gives phylogenies, which by construction are enormously constrained combinatorial networks, a handful of potential pathways (species lineages) in a truly vast space of networks. We don't need,nor ask for, the exact pathways as local resolution can be too low, yet the precision of the entire network staggering. (Many orders of magnitude certainty.) They are tested by adding species. Famously "a precambrian rabbit" falsifies the standard phylogeny. Here it would be "pre-Earth genes", say. Eminently testable, all gene or protein fold phylogenies converge on ~ 4 billion years as the earliest "rabbit". - The idea that biology is an equilibrium and/or stability regime. The thermodynamics of the planet (biosphere driven by the Sun, radiating to space) rejects that. The evolutionary biological process is as such very little coupled to thermodynamics
and there is no inherent ecological (population) stability. Instead, where is astrobiology today? - Lane & Martin has shown that classical bottleneck constraints (chicken-or-egg problems) makes alkaline hydrothermal vent chemistry preceding earliest autotroph metabolism. As expected, these mechanisms were as they note in the paper homologous chemical networks. - Thermodynamics shows that a) RNA is the only pre-protein nucleotide that fulfill the thermodynamic bound for replicators, b) a random strand 'gas' population of RNA _will_ crystallize to a replicator within ~ 30 000 years in the phosphate activating environment of alkaline hydrothermal vents. The pathways from replicator strands to genomes are legion, but the simplest goes through a simplest possible brwonian ratchet making RNA strand replication one way and unchained from vent thermal environment. Coincidentally, the minimum ratchet is a 3 basepair codon polypeptide, the initially random sequencing (no function except ratcheting) consistent with early fold properties (random peptides outside of fold function). These two bottleneck systems marry well, the first genomes would support local organics producing metabolic cellular compartments and vice versa.
Could you link to any papers or discussions about this point? The work to establish this seems like it would be really interesting.Thermodynamics shows that a) RNA is the only pre-protein nucleotide that fulfill the thermodynamic bound for replicators, b) a random strand 'gas' population of RNA _will_ crystallize to a replicator within ~ 30 000 years in the phosphate activating environment of alkaline hydrothermal vents.
Seems the links were cut. It's England Lab publications. Main one Statistical physics of self-replication
Jeremy L. England
Citation: J. Chem. Phys. 139, 121923 (2013); doi: 10.1063/1.4818538 but also his seminar.
Found mail in old archive. Maybe your interest remains. a)
also b) Thermodynamic Basis for the Emergence of Genomes during Prebiotic Evolution
Hyung-June Woo, Ravi Vijaya Satya, Jaques Reifman mail
Published: May 31, 2012DOI: 10.1371/journal.pcbi.1002534
I agree with im_an_optimist, Great synopsis on that article!
Before reading this, I often thought about the leap from inanimate (a rock) to a unicellular life form. It seemed to be a much greater leap than the one from single-celled life to human. The single-cell can split or become more complex and multi-celled because it is dynamic. But to get to ONE living cell from dust seemed incomprehensible. The leap seemed so great that when I would meet someone who seemed extremely unself-reflecting, I'd say (unkindly) that (metaphorically) the person had not got to one yet.
Now it seems that through a naturally occurring physicochemical process, matter can go from a rock to a cell. Awesome.
By the way, Cadell, I also very much liked your explanations of why we have not found life (yet) on other planets.
Thanks lil! It seems to me that one of the biggest problems with understanding the origin of life is because people erected dichotomies and barriers that may not have any underlying reality (i.e., inorganic/organic). If there are underlying evolutionary mechanisms that operate at physical and chemical levels, it seems to me that a transition from non-life to life would occur in much the same as speciation occurs (that is gradually as a system-wide process). I think in the future I will dedicate more research to this topic. Thanks again for your comment!
Really nice article. I can't say that I already thought that this was a popular perspective, but from the biochemistry that I have taken, I always assumed that 'dynamic equilibrium' was a cornerstone of biological sciences, and such, I would have guessed that it would have more deeply pervaded theories of biogenesis. I come from a physics background, and for me, life has always been a question of thermodynamics. Life is a process, not a state, and as such, the replicative nature of biological processes are what increase the exergy they can draw upon, putting them into a supra-chemical realm. Or perhaps more simply, these are chemical reactions that can draw upon another well of energy which is not available to abiotic reactions. I suppose that is Darwinian chemistry. I recall b_b mentioning some physicists that posited that life is an avenue of thermodynamic equilibrium that can't be avoided under certain conditions. To me, that seems a reasonable way of looking at things. It would also suggest that life must be fairly common, or at least proportional to the number of conditions that exist that would allow for it. I guess what I am saying, is that I think physicists and biologists need to have lunch together more often. :) At any rate, I completely agree that this perspective can be applied to other areas. IMO there are strong parallels between the abiotic-to-biotic 'transition', and the 'animate-to-conscious' transition.
Thanks! I'm glad you liked the article. After readings their paper I felt really intellectually stimulated. In the past I have just been left disappointed with discussions on the origins of life, but they approached it from such a sensical perspective. I actually also read a few chapters from Andy Pross's book What Is Life which is where I got his perspective on replicating chemistry. It seems like a really promising area of future research for chemists and evolutionary thinkers in general. Also, if you want to watch a documentary about biology from a physicists perspective Wonders of Life by Brian Cox aired on the BBC recently!