Primitive Earth Environments Research Articles

A Fusion-Growth Protocell Model Based on Vesicle Interactions with Pyrite Particles.

Protocell models play a pivotal role in the exploration of the origin of life. Vesicles are one type of protocell model that have attracted much attention. Simple single-chain amphiphiles (SACs) and organic small molecules (OSMs) possess primitive relevance and were most likely the building blocks of protocells on the early Earth. OSM@SAC vesicles have been considered to be plausible protocell models. Pyrite (FeS2), a mineral with primitive relevance, is ubiquitous in nature and plays a crucial role in the exploration of the origin of life in the mineral-water interface scenario. "How do protocell models based on OSM@SAC vesicles interact with a mineral-water interface scenario that simulates a primitive Earth environment" remains an unresolved question. Hence, we select primitive relevant sodium monododecyl phosphate (SDP), isopentenol (IPN) and pyrite (FeS2) mineral particles to build a protocell model. The model investigates the basic physical and chemical properties of FeS2 particles and reveals the effects of the size, content and duration of interaction of FeS2 particles on IPN@SDP vesicles. This deepens the understanding of protocell growth mechanisms in scenarios of mineral-water interfaces in primitive Earth environments and provides new information for the exploration of the origin of life.

Interface Binding Mechanism of Nanoclay Hybridized Coacervate Microdroplets for the Controllable Construction of Protocells.

Coacervate microdroplets, a protocell model in exploring the origin of life, have gained significant attention. Clay minerals, catalysts during the origin of life, are crucial in the chemical evolution of small molecules into biopolymers. However, our understanding of the relationship between clay minerals and the formation and evolution of protocells on early Earth remains limited. In this work, the nanoclay montmorillonite nanosheet (MMT-Na) was employed to investigate its interaction with coacervate microdroplets formed by oligolysine (K10) and adenine nucleoside triphosphate (ATP). As an anionic component, MMT-Na was noted to promote the formation of coacervate microdroplets. Furthermore, the efficiency of ssDNA enrichment and the degree of ssDNA hybridization within these microdroplets were significantly improved. By combining inorganic nanoclay with organic biopolymers, our work provides an efficient way to enrich genetic biomolecules in the primitive Earth environment and builds a nanoclay-based coacervate microdroplets, shedding new light on life's origin and protocell evolution.

The GUAPOS project

Context. Peptide-like bond molecules, which can take part in the formation of proteins in a primitive Earth environment, have been detected only towards a few hot cores and hot corinos up to now. Aims. We present a study of HNCO, HC(O)NH2, CH3NCO, CH3C(O)NH2, CH3NHCHO, CH3CH2NCO, NH2C(O)NH2, NH2C(O)CN, and HOCH2C(O)NH2 towards the hot core G31.41+0.31. The aim of this work is to study these species together to allow a consistent study among them. Methods. We have used the spectrum obtained from the ALMA 3 mm spectral survey GUAPOS, with a spectral resolution of ~0.488 MHz (~1.3–1.7 km s−1) and an angular resolution of 1.′′2 × 1.′′2 (~4500 au), to derive column densities of all the molecular species presented in this work, together with 0.′′2 × 0.′′2 (~750 au) ALMA observations from another project to study the morphology of HNCO, HC(O)NH2, and CH3C(O)NH2. Results. We have detected HNCO, HC(O)NH2, CH3NCO, CH3C(O)NH2, and CH3NHCHO, but no CH3CH2NCO, NH2C(O)NH2, NH2C(O)CN, or HOCH2C(O)NH2. This is the first time that these molecules have been detected all together outside the Galactic centre. We have obtained molecular fractional abundances with respect to H2 from 10−7 down to a few 10−9 and abundances with respect to CH3OH from 10−3 to ~4 × 10−2, and their emission is found to be compact (~2′′, i.e. ~7500 au). From the comparison with other sources, we find that regions in an earlier stage of evolution, such as pre-stellar cores, show abundances at least two orders of magnitude lower than those in hot cores, hot corinos, or shocked regions. Moreover, molecular abundance ratios towards different sources are found to be consistent between them within ~1 order of magnitude, regardless of the physical properties (e.g. different masses and luminosities), or the source position throughout the Galaxy. Correlations have also been found between HNCO and HC(O)NH2 as well as CH3NCO and HNCO abundances, and for the first time between CH3NCO and HC(O)NH2, CH3C(O)NH2 and HNCO, and CH3C(O)NH2 and HC(O)NH2 abundances. These results suggest that all these species are formed on grain surfaces in early evolutionary stages of molecular clouds, and that they are subsequently released back to the gas phase through thermal desorption or shock-triggered desorption.

Assumption and Criticism on RNA World Hypothesis from Ribozymes to Functional Cells

The origin of life has long baffled scientists, trying to shed some light on the universe of the unknown we live in. The RNA world hypothesis is merely an idea that tries to grasp the root of life by going beyond phylogenetic trees, and the ‘Drawinian threshold'. The birth of this hypothesis came with the discovery of ribozymes and certain relic molecules left behind by an RNA ruled world about -3.8 billion years ago. These primitive cells were the most minimal forms of life and experiments are trying to show this by mimicking primitive earth environments. Nucleotides have been shown to polymerize into random chains easily on clay or in ice and the chemical synthesis of RNA is possible although extremely challenging without the modern cellular machinery. The RNA world is untraceable because of horizontal gene transfer, which is highly criticized by researches, and still remains a widely researched and studied topic as it could be the heart of life on other earth like planets in the universe. The state of the model needs improvements in analytical techniques and experiments for the rate of Horizontal Gene Transfer on loosely bound components, and continued comparison of the different types of phylogenetic trees to widen the evolution of the genetic core. Furthermore the development of analytical techniques used for the monitoring of the Donan effect may show more insight into the division and growth of primitive cellular membranes and the continued research and exploration in the fields of Ribozymes, with a goal to reach a higher catalytic range with high fidelity and rate.

Incorporation of Basic α-Hydroxy Acid Residues into Primitive Polyester Microdroplets for RNA Segregation.

Nucleic acid segregation and compartmentalization were likely essential functions that primitive compartment systems resolved during evolution. Recently, polyester microdroplets generated from dehydration synthesis of various α-hydroxy acids (αHA) were suggested as potential primitive compartments. Some of these droplets can differentially segregate and compartmentalize organic dyes, proteins, and nucleic acids. However, the previously studied polyester microdroplets included limited αHA chemical diversity, which may not reflect the chemical diversity available in the primitive Earth environment. Here, we increased the chemical diversity of polyester microdroplet systems by combinatorially adding an αHA monomer with a basic side chain, 4-amino-2-hydroxybutyric acid (4a2h), which was incorporated with different ratios of other αHAs containing uncharged side chains to form combinatorial heteropolyesters via dehydration synthesis. Incorporation of 4a2h in the polymers resulted in the assembly of some polyester microdroplets able to segregate fluorescent RNA or potentially acquire intrinsic fluorescent character, suggesting that minor modifications of polyester composition can significantly impact the functional properties of primitive compartments. This study suggests one process by which primitive chemical systems can increase diversity of compartment "phenotype" through simple modifications in their chemical composition.

Origin of the Reductive Tricarboxylic Acid (rTCA) Cycle-Type CO2 Fixation: A Perspective

The reductive tricarboxylic acid (rTCA) cycle is among the most plausible candidates for the first autotrophic metabolism in the earliest life. Extant enzymes fixing CO2 in this cycle contain cofactors at the catalytic centers, but it is unlikely that the protein/cofactor system emerged at once in a prebiotic process. Here, we discuss the feasibility of non-enzymatic cofactor-assisted drive of the rTCA reactions in the primitive Earth environments, particularly focusing on the acetyl-CoA conversion to pyruvate. Based on the energetic and mechanistic aspects of this reaction, we propose that the deep-sea hydrothermal vent environments with active electricity generation in the presence of various sulfide catalysts are a promising setting for it to progress. Our view supports the theory of an autotrophic origin of life from primordial carbon assimilation within a sulfide-rich hydrothermal vent.

Hydrothermal Microflow Technology as a Research Tool for Origin-of-Life Studies in Extreme Earth Environments.

Although studies about the origin of life are a frontier in science and a number of effective approaches have been developed, drawbacks still exist. Examples include: (1) simulation of chemical evolution experiments (which were demonstrated for the first time by Stanley Miller); (2) approaches tracing back the most primitive life-like systems (on the basis of investigations of present organisms); and (3) constructive approaches for making life-like systems (on the basis of molecular biology), such as in vitro construction of the RNA world. Naturally, simulation experiments of chemical evolution under plausible ancient Earth environments have been recognized as a potentially fruitful approach. Nevertheless, simulation experiments seem not to be sufficient for identifying the scenario from molecules to life. This is because primitive Earth environments are still not clearly defined and a number of possibilities should be taken into account. In addition, such environments frequently comprise extreme conditions when compared to the environments of present organisms. Therefore, we need to realize the importance of accurate and convenient experimental approaches that use practical research tools, which are resistant to high temperature and pressure, to facilitate chemical evolution studies. This review summarizes improvements made in such experimental approaches over the last two decades, focusing primarily on our hydrothermal microflow reactor technology. Microflow reactor systems are a powerful tool for performing simulation experiments in diverse simulated hydrothermal Earth conditions in order to measure the kinetics of formation and degradation and the interactions of biopolymers.

A Hypothesis: Life Initiated from Two Genes, as Deduced from the RNA World Hypothesis and the Characteristics of Life-Like Systems.

RNA played a central role in the emergence of the first life-like system on primitive Earth since RNA molecules contain both genetic information and catalytic activity. However, there are several drawbacks regarding the RNA world hypothesis. Here, I briefly discuss the feasibility of the RNA world hypothesis to deduce the RNA functions that are essential for forming a life-like system. At the same time, I have conducted a conceptual analysis of the characteristics of biosystems as a useful approach to deduce a realistic life-like system in relation to the definition of life. For instance, an RNA-based life-like system should possess enough stability to resist environmental perturbations, by developing a cell-like compartment, for instance. Here, a conceptual viewpoint is summarized to provide a realistic life-like system that is compatible with the primitive Earth environment and the capabilities of RNA molecules. According to the empirical and conceptual analysis, I propose the hypothesis that the first life-like system could have initiated from only two genes.

Mineral-Enhanced Hydrothermal Oligopeptide Formation at the Second Time Scale

Accumulation of biopolymers should have been an essential step for the emergence of life on primitive Earth. However, experimental simulations for submarine hydrothermal vent systems in which high-temperature water spouts through minerals within a short time scale have not been attempted. Here, we show that enhancement of hydrothermal oligopeptide elongation by naturally occurring minerals was successfully verified for the first time by using a mineral-mediated hydrothermal flow reactor system (MMHF). MMHF consists of a narrow tubular reactor packed with mineral particles, and the enhancement or inhibitory activities of 10 types of naturally occurring minerals were successfully evaluated for an elongation reaction from (Ala)(4) to (Ala)(5) and higher oligopeptides in the absence of condensation reagents. It was unexpected that calcite and dolomite facilitated the elongation from (Ala)(4) to (Ala)(5) and higher oligopeptides with 28% yield at pH 7, while tourmaline, galena, apatite, mica, sphalerite, quartz, chalcopyrite, and pyrite did not show enhancement activities. These facts suggest the importance of carbonate minerals for the accumulation of peptide in primitive Earth environments.

A new approach for the cooperative chemical evolution of nucleic acids and proteins under the primitive earth environment.

In order to evaluate cooperative chemical evolution of nucleic acids and proteins, we have examined possible activity of thermal copolymers of amino acids (TCAA) for prebiotic formation and degradation of RNA. Several types of TCAA involving aromatic amino acids were prepared and the influence on the template-directed formation of oligoguanylate and prebiotic ribonuclease activity were kinetically studied.

Abiotic synthesis of amino acids by x-ray irradiation of simple inorganic gases

1–2 keV x-ray irradiation was carried out using a synchrotron radiation source on simulated primitive earth environment: a gas mixture of carbon monoxide, nitrogen, and water at atmospheric pressure. High-speed liquid chromatography of the hydrolyzed product solution detected amino acids. The amount of amino acids increased with the total energy absorbed by the gas molecules, and the antipodal optical isomers were generated in almost equal quantities. These imply that the precursors for amino acids were produced through x-ray-induced photolysis of inorganic molecules followed by recombination and polymerization into bio-organic compounds. These results suggest that prebiotic formation of amino acids is possible in primitive earth atmosphere by x ray as well as cosmic ray.

Evaporation cycle experiments — A simulation of salt-induced peptide synthesis under possible prebiotic conditions

Evaporation cycles applied to dilute solutions of amino acids, Cu(II) and NaCl lead to peptides within 1-3 days. This simulation of possible coastal or laguna processes in a primitive earth environment gives further indications towards the relevance of the salt-induced peptide formation reaction in chemical evolution. The experiments were successfully applied to glycine, alanine, aspartic and glutamic acid. Besides isolated amino acids, also their mixtures with glycine as reaction partner were studied, leading to peptides for all of the aforementioned substances, as well as for valine and proline, which do not dimerize alone. Sequence preferences and some conservation of optical purity were observed.

The origin and early evolution of life on Earth.

We do not have a detailed knowledge of the processes that led to the appearance of life on Earth. In this review we bring together some of the most important results that have provided insights into the cosmic and primitive Earth environments, particularly those environments in which life is thought to have originated. To do so, we first discuss the evidence bearing on the antiquity of life on our planet and the prebiotic significance of organic compounds found in interstellar clouds and in primitive solar system bodies such as comets, dark asteroids, and carbonaceous chondrites. This is followed by a discussion on the environmental models of the Hadean and early Archean Earth, as well as on the prebiotic formation of organic monomers and polymers essential to life. We then consider the processes that may have led to the appearance in the Archean of the first cells, and how these processes may have affected the early steps of biological evolution. Finally, the significance of these results to the study of the distribution of life in the Universe is discussed.

Primitive Earth environments: organic syntheses and the origin and early evolution of life

Abstract The Precambrian is the longest and least understood period in the history of our planet. There is no direct evidence which bears on the primitive Earth environment, the synthesis of organic compounds and the origin of life on our planet, since the geological record only goes back to 3.8 Ga ago. To overcome this deficiency it is necessary to extrapolate backwards from 3.8 Ga ago to the time when the Earth was formed, ∼ 4.6 Ga ago, and also make use of additional scientific approaches. These include models of the solar nebula and planet formation, comparative observations with other cosmic environments, and experimental simulation studies under plausible primitive Earth conditions, particularly in regard to the prebiological synthesis of organic compounds. A large number of interstellar organic molecules have been detected by radioastronomy in the interstellar medium, particularly in places where other solar systems may be in the process of formation. It is remarkable that ∼ 10 of these molecules are known to be the precursors of the most important biochemical monomers. Furthermore, some of these monomers, e.g., amino acids, purines and pyrimidines, have also been detected in carbonaceous chondrites, which were presumably synthesized on the parent bodies of the meteorites or possibly in the solar nebula. Comparative studies on the terrestrial planets indicate that their primitive atmospheres resulted primarily from outgassing of CO2 and other partially oxidized (CO, N2) and reduced (H2, CH4, NH3, H2S) volatiles. Furthermore, comets and meteorites are thought to have made a significant contribution to the reduced carbon precursors for the prebiological synthesis of biochemical compounds. A brief review of the experiments carried out in the laboratory under possible primitive Earth conditions shows that amino acids, purines, pyrimidines, monosaccharides, fatty acids and other compounds are readily obtained using different energy sources. However, the formation of oligopeptides, oligonucleotides and phospholipids requires more restrictive conditions. They have been synthesized by means of condensing agents, such as cyanamide, as well as by heating under relatively dry conditions of less than 100°C. Experiments have been carried out on the formation of liposomes from prebiotically synthesized phospholipids. Also, using 2-methylimidazolide derivatives of nucleotides, the template directed synthesis of polynucleotides has been demonstrated. In the latter experiments a high fidelity of complementary base pairing has been observed, which if further improved would approach that of enzyme catalyzed replication. However, it is not known how the prebiologically synthesized polymers became organized into a self-replicating system. At any rate the first living systems were probably very rudimentary heterotrophic micro-organisms which used organic compounds from the environment for both cell components and energy. They were probably followed by fermenters and eventually by autotrophic CO2 reducing micro-organisms similar to the methanogenic and photosynthetic bacteria.