{"id":3439,"date":"2019-05-03T14:53:33","date_gmt":"2019-05-03T05:53:33","guid":{"rendered":"http:\/\/163.180.4.222\/lab\/?p=3439"},"modified":"2019-05-03T14:53:33","modified_gmt":"2019-05-03T05:53:33","slug":"a-possible-non-biological-reaction-framework-for-metabolic-processes-on-early-earth","status":"publish","type":"post","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=3439","title":{"rendered":"A possible non-biological reaction framework for metabolic processes on early Earth"},"content":{"rendered":"<p>&nbsp;<\/p>\n<h5><\/h5>\n<h5>Early life forms established a network of reactions for converting carbon dioxide into organic compounds. A non-biological system of reactions that could have formed the network\u2019s core on ancient Earth has been reported.<\/h5>\n<p>&nbsp;<\/p>\n<div class=\"article__aside align-right hide-print\">\n<div class=\"pdf__download shrink--aside\"><\/div>\n<\/div>\n<div class=\"align-left\">\n<div class=\"article__body serif cleared\">\n<p>All biological molecules used by living organisms are themselves synthesized by living organisms. The development of routes for making organic matter was therefore an essential early step in the emergence of life on Earth. A complex network of reactions must have arisen to make organic molecules from carbon dio xide, or possibly from other inorganic sources of carbon such as carbon monoxide or cyanides, but the process involved remains largely unknown. In\u00a0<a href=\"https:\/\/www.nature.com\/articles\/s41586-019-1151-1\" data-track=\"click\" data-label=\"https:\/\/www.nature.com\/articles\/s41586-019-1151-1\" data-track-category=\"body text link\">a paper in\u00a0<i>Nature<\/i><\/a>, Muchowska\u00a0<i>et al<\/i>.<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR1\">1<\/a><\/sup>\u00a0demonstrate experimentally that a suitable complex reaction network can develop from just two simple organic constituents, namely, glyoxylate (HCOCO<sub>2<\/sub><sup>\u2212<\/sup>) and pyruvate (CH<sub>3<\/sub>COCO<sub>2<\/sub><sup>\u2212<\/sup>), in the presence of ferrous iron (Fe<sup>2+<\/sup>).<\/p>\n<p>The identified network produces nine of the eleven main components of the tricarboxylic acid (TCA) cycle \u2014 the series of reactions by which present-day organisms metabolize organic matter to convert it into energy (Fig. 1), producing the nucleotide ATP as an energy carrier and CO<sub>2<\/sub>\u00a0as a by-product. The TCA cycle can also work in reverse, in which case it is known as the reductive tricarboxylic acid (rTCA) cycle. The rTCA cycle could have been an early route by which CO<sub>2<\/sub>\u00a0was converted (fixed) into the organic molecules that are used as the basic components of living organisms. Muchowska and colleagues\u2019 work suggests that the rTCA cycle, as well as other processes that are associated with the metabolism of carbon, could have emerged from a network of abiotic reactions that, at least partly, matched the pattern of the biological reaction network that is now catalysed by enzymes.<\/p>\n<p>&nbsp;<\/p>\n<figure class=\"figure\">\n<div class=\"embed intensity--high\">\n<div class=\"embed intensity--high\"><img decoding=\"async\" class=\"figure__image\" src=\"https:\/\/media.nature.com\/w800\/magazine-assets\/d41586-019-01322-3\/d41586-019-01322-3_16683844.jpg\" alt=\"\" data-src=\"\/\/media.nature.com\/w800\/magazine-assets\/d41586-019-01322-3\/d41586-019-01322-3_16683844.jpg\" \/><\/div>\n<\/div><figcaption>\n<p class=\"figure__caption sans-serif\"><span class=\"mr10\"><b>Figure 1 | The tricarboxylic acid (TCA) cycle.<\/b>\u00a0The TCA cycle is one of the core metabolic pathways in many present-day organisms. Muchowska\u00a0<i>et al.<\/i><sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR1\">1<\/a><\/sup>\u00a0report that nine (red) of the eleven intermediates in the TCA cycle are also formed in a complex network of reactions that is established when glyoxylate and pyruvate are combined in water with ferrous iron (Fe<sup>2+<\/sup>). The authors propose that their network might have formed a non-biological framework for metabolic pathways when life emerged on early Earth. (Adapted from ref. 1.)<\/span><\/p>\n<\/figcaption><\/figure>\n<p>The authors also show that, in the presence of hydroxylamine (NH<sub>2<\/sub>OH) and metallic iron, their chemical network can be extended to include the formation of four kinds of amino acid, the building blocks of proteins. Both hydroxylamine and metallic iron could have been available on early Earth: hydroxylamine would probably have formed as a result of the rich, abiotic nitrogen chemistry that is known to have occurred early in the planet\u2019s existence<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR2\">2<\/a><\/sup>, whereas metallic iron is abundant in certain meteorites that peppered our planet.<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>Muchowska\u00a0<i>et al.<\/i>\u00a0suggest that their pathway could have developed further to facilitate the subsequent emergence of functional polymers, including peptides and nucleic acids. This would require that abiotic processes that fix CO<sub>2<\/sub>\u00a0fed the system with glyoxylate and pyruvate. The authors identify evidence from the scientific literature that supports the existence of such processes, but it is unclear whether these processes could have produced sufficient concentrations of glyoxylate and pyruvate to sustain emergent living organisms. This does not invalidate the authors\u2019 reaction network as a potential key player in the origins of life, however.<\/p>\n<p>&nbsp;<\/p>\n<aside class=\"recommended pull pull--left sans-serif\" data-label=\"Related\"><a href=\"https:\/\/www.nature.com\/articles\/s41586-019-1151-1\" data-track=\"click\" data-track-label=\"recommended article\"><img decoding=\"async\" class=\"recommended__image\" src=\"https:\/\/media.nature.com\/w400\/magazine-assets\/d41586-019-01322-3\/d41586-019-01322-3_16678956.jpg\" \/><\/a><\/p>\n<p class=\"recommended__title serif\">Read the paper: Synthesis and breakdown of universal metabolic precursors promoted by iron<\/p>\n<\/aside>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>We are unlikely ever to know for certain whether present-day processes for metabolizing compounds that contain carbon are a purely biochemical innovation, or are instead derived from a prebiotic chemical network. This is because no remnant of the evolutionary processes involved could have persisted for billions of years. Nevertheless, Muchowska and co-workers\u2019 results strongly support the latter possibility. It seems realistic for a rudimentary biological system to have harnessed a pre-existing network by sharing intermediates, and then for it to have gradually become more efficient by evolving genetically encoded catalysts (such as enzymes that directly facilitate the necessary reactions).<\/p>\n<p>The other possibility is that a full set of enzymes that catalyse the essential metabolic steps emerged from scratch. However, this seems highly improbable, because there would have been no selective evolutionary pressure for this to happen in the absence of a pre-existing, analogous system.<\/p>\n<p>Other general themes have been debated by those working in this field. For example, most researchers reject the idea that life began as the result of a sharp transition in complexity from a mixture of organic compounds to a highly organized, self-reproducing entity that looked like a living cell<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR3\">3<\/a><\/sup><sup>,<\/sup><sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR4\">4<\/a><\/sup>. Instead, life is thought to have originated as the result of gradual improvements to an evolving system that were introduced at separate times<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR5\">5<\/a><\/sup>. In this scenario, the distinction between life and non-life is fuzzy, rather than clear-cut<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR6\">6<\/a><\/sup>.<\/p>\n<p>Another model builds on the concept of systems chemistry. It suggests that primordial, chemical equivalents of metabolic systems and self-replicating systems could initially have coexisted, but then combined into more-complex systems, perhaps as the result of some kind of compartmentalization process, thereby giving rise to the essential features of life<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR7\">7<\/a><\/sup>. But it is unknown whether all three components \u2014 metabolism, self-replication and compartmentalization \u2014 needed to have coexisted before life emerged. Chemists can contribute to these debates by uncovering a wide range of abiotic processes that might feasibly have occurred on early Earth, as Muchowska and colleagues have done. The authors\u2019 reaction network could have integrated into the process of life\u2019s emergence after the appearance of functional polymers, or contributed to the metabolic component in the systems-chemistry model.<\/p>\n<p>The mystery of the origins of life is not simply a question of how the molecular components of biological systems were formed. If that had been the case, then the puzzle would have been solved soon after 1953, when amino acids were identified as the product of an experiment in which electric sparks were fired into a mixture of simple molecules, to simulate the effects of lightning flashes on early Earth<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR8\">8<\/a><\/sup>.<\/p>\n<p>In fact, the most important aspect of life\u2019s emergence was the first implementation of a \u2018physical principle\u2019 for natural selection<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR9\">9<\/a><\/sup>\u00a0\u2014 a process by which inheritable improvements can be selected from a population of variants. This, in turn, required molecules or molecular assemblies that can reproduce under certain kinetic constraints, and resulted in the development of a specific kind of stability (known as dynamic kinetic stability<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR10\">10<\/a><\/sup>) that is associated with the dynamics of reproduction. This stability has characterized the living state on Earth for billions of years. Nevertheless, life\u2019s requirement for self-replicating molecules does not mean that the contribution of other molecular subsystems (such as reaction networks) was unimportant, if only because such systems might have needed to reach certain concentrations so that self-replicating systems could emerge.<\/p>\n<p>If research on the origins of life is to reach the next level<sup><a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29#ref-CR5\">5<\/a><\/sup>, several approaches will be needed to provide insight into the process by which life emerged. Identifying abiotic pathways that could have contributed to the overall process is highly valuable, regardless of the stage in life\u2019s evolution at which they were incorporated. Combining systems-chemistry and evolutionary views might be the most productive way forward.<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<\/div>\n<p><span class=\"emphasis\">Nature<\/span>\u00a0<strong>569<\/strong>, 47-49 (2019)<\/p>\n<p>&nbsp;<\/p>\n<div class=\"emphasis\">doi: 10.1038\/d41586-019-01322-3<\/div>\n<\/div>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>(\uc6d0\ubb38: <a href=\"https:\/\/www.nature.com\/articles\/d41586-019-01322-3?utm_source=feedburner&amp;utm_medium=feed&amp;utm_campaign=Feed%3A+nature%2Frss%2Fcurrent+%28Nature+-+Issue%29\">\uc5ec\uae30<\/a>\ub97c \ud074\ub9ad\ud558\uc138\uc694~)<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n<p>&nbsp;<\/p>\n","protected":false},"excerpt":{"rendered":"<p>&nbsp; Early life forms established a network of reactions for converting carbon dioxide into organic compounds. A non-biological system of reactions that could have formed<a href=\"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=3439\" class=\"more-link\">(more&#8230;)<\/a><\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"footnotes":"","jetpack_publicize_message":"","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","default_image_id":0,"font":"","enabled":false},"version":2},"jetpack_post_was_ever_published":false},"categories":[33,34,29,30],"tags":[],"class_list":["post-3439","post","type-post","status-publish","format-standard","hentry","category-do-biology","category-lets-do-chemistry","category-lets-do-science","category-recent-science-news"],"aioseo_notices":[],"jetpack_publicize_connections":[],"jetpack_featured_media_url":"","jetpack-related-posts":[{"id":1324,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=1324","url_meta":{"origin":3439,"position":0},"title":"Reaction combination opens up 3D molecular diversity for drug discovery","author":"biochemistry","date":"August 9, 2018","format":false,"excerpt":"\u00a0 \u00a0 (\uc6d0\ubb38) \u00a0 \u00a0 Cycloaddition reactions are powerful tools for synthesizing three-dimensional molecules, but their scope has been limited. A creative solution to this problem opens up opportunities for drug discovery. \u00a0 \u00a0 Reactions known as cycloadditions are unparalleled in their ability to construct ring-containing molecules in a way\u2026","rel":"","context":"In &quot;Let's Do Chemistry!&quot;","block_context":{"text":"Let's Do Chemistry!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=34"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":4189,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=4189","url_meta":{"origin":3439,"position":1},"title":"Double-click enables synthesis of chemical libraries for drug discovery","author":"biochemistry","date":"October 6, 2019","format":false,"excerpt":"\u00a0 \u00a0 Operationally simple chemical reactions, termed click reactions, are widely used in many scientific fields. A streamlined synthesis of compounds called azides looks set to expand the role of click chemistry still further. \u00a0 \u00a0 Generating molecules and materials that have desirable functional properties is arguably the central goal\u2026","rel":"","context":"In &quot;Let's Do Chemistry!&quot;","block_context":{"text":"Let's Do Chemistry!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=34"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":3581,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=3581","url_meta":{"origin":3439,"position":2},"title":"Catalytic machinery of enzymes expanded","author":"biochemistry","date":"May 29, 2019","format":false,"excerpt":"\u00a0 \u00a0 Only a few types of natural amino-acid residue are used directly by enzymes to catalyse reactions. The incorporation of an unnatural residue into an enzyme shows how the catalytic repertoire of enzymes can be enlarged. \u00a0 \u00a0 Enzymes are exceptionally powerful catalysts that recognize molecular substrates and process\u2026","rel":"","context":"In &quot;Let's Do Chemistry!&quot;","block_context":{"text":"Let's Do Chemistry!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=34"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":1975,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=1975","url_meta":{"origin":3439,"position":3},"title":"Intracellular gold nanoclusters boost energy conversion","author":"biochemistry","date":"October 2, 2018","format":false,"excerpt":"\u00a0 \u00a0 \uc0c8\ub85c\uc6b4 \ud615\ud0dc\uc758 '\ubc15\ud14c\ub9ac\uc544 \uc138\ud3ec \ub0b4\ubd80\ub85c \ub3c4\uc785\ub41c \uae08 \ub098\ub178\ubb3c\uc9c8 \uae30\ubc18 \uc5d0\ub108\uc9c0 \uc804\ud658 \uc2dc\uc2a4\ud15c'\uc5d0 \uad00\ud55c \ub0b4\uc6a9\uc785\ub2c8\ub2e4. (\uc6d0\ubb38: \uc5ec\uae30\ub97c \ud074\ub9ad\ud558\uc138\uc694~) \u00a0 Intracellular gold nanoclusters act as photosensitizers, enabling non-photosynthetic bacteria to produce acetic acid from carbon dioxide in a more efficient and durable fashion. \u00a0 \u00a0 Driven by ever-growing consumption, humankind\u2026","rel":"","context":"In &quot;Let's Do Biology!&quot;","block_context":{"text":"Let's Do Biology!","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=33"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":2940,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=2940","url_meta":{"origin":3439,"position":4},"title":"Charting a course for chemistry","author":"biochemistry","date":"March 23, 2019","format":false,"excerpt":"\u00a0 \u00a0 To mark the occasion of\u00a0Nature Chemistry\u00a0turning 10 years old, we asked scientists working in different areas of chemistry to tell us what they thought the most exciting, interesting or challenging aspects related to the development of their main field of research will be \u2014 here is what they\u2026","rel":"","context":"In &quot;Essays on Science&quot;","block_context":{"text":"Essays on Science","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=32"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":3811,"url":"https:\/\/biochemistry.khu.ac.kr\/lab\/?p=3811","url_meta":{"origin":3439,"position":5},"title":"Radiocarbon revolution: the story of an isotope","author":"biochemistry","date":"June 19, 2019","format":false,"excerpt":"\u00a0 \u00a0 Chris Turney applauds a book on carbon-14 and its key applications in archaeology, climatology and oceanography. \u00a0 \u00a0 A human femur, thought to be from medieval times, being sampled for carbon dating.Credit: James King-Holmes\/Science Photo Library Hot Carbon: Carbon-14 and a Revolution in Science\u00a0John F. Marra Columbia University\u2026","rel":"","context":"In &quot;Essays on Science&quot;","block_context":{"text":"Essays on Science","link":"https:\/\/biochemistry.khu.ac.kr\/lab\/?cat=32"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]}],"jetpack_sharing_enabled":false,"jetpack_shortlink":"https:\/\/wp.me\/p9Xo1j-Tt","_links":{"self":[{"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/posts\/3439","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/posts"}],"about":[{"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/types\/post"}],"author":[{"embeddable":true,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=3439"}],"version-history":[{"count":1,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/posts\/3439\/revisions"}],"predecessor-version":[{"id":3440,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=\/wp\/v2\/posts\/3439\/revisions\/3440"}],"wp:attachment":[{"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=3439"}],"wp:term":[{"taxonomy":"category","embeddable":true,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=%2Fwp%2Fv2%2Fcategories&post=3439"},{"taxonomy":"post_tag","embeddable":true,"href":"https:\/\/biochemistry.khu.ac.kr\/lab\/index.php?rest_route=%2Fwp%2Fv2%2Ftags&post=3439"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}