Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life最新文献

Biological Homochirality and the Search for Extraterrestrial Biosignatures. 生物同手性和寻找地外生物特征。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-08-15 DOI: 10.1007/s11084-022-09623-w

Marcelo Gleiser

{"title":"Biological Homochirality and the Search for Extraterrestrial Biosignatures.","authors":"Marcelo Gleiser","doi":"10.1007/s11084-022-09623-w","DOIUrl":"https://doi.org/10.1007/s11084-022-09623-w","url":null,"abstract":"Most amino acids and sugar molecules occur in mirror, or chiral, images of each other, knowns as enantiomers. However, life on Earth is mostly homochiral: proteins contain almost exclusively L-amino acids, while only D-sugars appear in RNA and DNA. The mechanism behind this fundamental asymmetry of life remains unknown, despite much progress in the theoretical and experimental understanding of homochirality in the past decades. We review three potential mechanisms for the emergence of biological homochirality on primal Earth and explore their implications for astrobiology: the first, that biological homochirality is a stochastic process driven by local environmental fluctuations; the second, that it is driven by circularly-polarized ultraviolet radiation in star-forming regions; and the third, that it is driven by parity violation at the elementary particle level. We argue that each of these mechanisms leads to different observational consequences for the existence of enantiomeric excesses in our solar system and in exoplanets, pointing to the possibility that the search for life elsewhere will help elucidate the origins of homochirality on Earth.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"93-104"},"PeriodicalIF":2.0,"publicationDate":"2022-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40699979","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

A Cofactor-Based Mechanism for the Origin of the Genetic Code. 基于协因子的遗传密码起源机制。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-09-08 DOI: 10.1007/s11084-022-09628-5

Juan A Martínez Giménez, Rafael Tabares Seisdedos

{"title":"A Cofactor-Based Mechanism for the Origin of the Genetic Code.","authors":"Juan A Martínez Giménez, Rafael Tabares Seisdedos","doi":"10.1007/s11084-022-09628-5","DOIUrl":"https://doi.org/10.1007/s11084-022-09628-5","url":null,"abstract":"The origin of the genetic code is probably the central problem of the studies on the origin of life. The key question to answer is the molecular mechanism that allows the association of the amino acids with their triplet codons. We proposed that the codon-anticodon duplex located in the acceptor stem of primitive tRNAs would facilitate the chemical reactions required to synthesize cognate amino acids from simple amino acids (glycine, valine, and aspartic acid) linked to the 3' acceptor end. In our view, various nucleotide-A-derived cofactors (with reactive chemical groups) may be attached to the codon-anticodon duplex, which allows group-transferring reactions from cofactors to simple amino acids, thereby producing the final amino acid. The nucleotide-A-derived cofactors could be incorporated into the RNA duplex (helix) by docking Adenosine (cofactor) into the minor groove via an interaction similar to the A-minor motif, forming a base triple between Adenosine and one complementary base pair of the duplex. Furthermore, we propose that this codon-anticodon duplex could initially catalyze a self-aminoacylation reaction with a simple amino acid. Therefore, the sequence of bases in the codon-anticodon duplex would determine the reactions that occurred during the formation of new amino acids for selective binding of nucleotide-A-derived cofactors.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"149-163"},"PeriodicalIF":2.0,"publicationDate":"2022-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"33447361","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

Asymmetric Autocatalysis as an Efficient Link Between the Origin of Homochirality and Highly Enantioenriched Compounds. 不对称自催化是同手性和高对映体富集化合物的有效联系。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-08-12 DOI: 10.1007/s11084-022-09626-7

Kenso Soai, Tsuneomi Kawasaki, Arimasa Matsumoto

引用次数: 0

Competitive interaction of Mn(II) and Fe(II) cations with the high-affinity Mn-binding site of the photosystem II: evolutionary aspect. Mn(II)和Fe(II)阳离子与光系统II高亲和力Mn结合位点的竞争相互作用:进化方面的研究。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-07-07 DOI: 10.1007/s11084-022-09625-8

E R Lovyagina, B К Semin

{"title":"Competitive interaction of Mn(II) and Fe(II) cations with the high-affinity Mn-binding site of the photosystem II: evolutionary aspect.","authors":"E R Lovyagina, B К Semin","doi":"10.1007/s11084-022-09625-8","DOIUrl":"https://doi.org/10.1007/s11084-022-09625-8","url":null,"abstract":"The evolutionary origin of the oxygen-evolving complex (OEC) in the photosystem II (PSII) is still unclear, as is the nature of electron source for the photosystem before the OEC had appeared. Johnson et al. (in PNAS 110:11238, 2013) speculated that Mn(II) cations were the source of electrons for transitional photosystems. However, Archean oceans also contained Fe(II) cations at concentrations comparable or higher than that of Mn(II). Fe(II) cations can bind to the high-affinity (НА) Mn-binding site in the OEC (Semin et al. in Biochemistry 41:5854, 2002). Now we have investigated the competitive interaction of Mn(II) and Fe(II) cations with the HA site in the Mn-depleted PSII membranes (PSII[-Mn]). Fe cations, oxidized under illumination, bind strongly to the HA site and, thus, prevent the interaction of Mn(II) with this site. If the Mn(II) and Fe(II) cations, at relatively equal concentration, are simultaneously present in the buffer, together with PSII(-Mn) membranes, there is competition between these two cations for the binding site, which manifests itself in partial inhibition of the Mn(II) oxidation and the blocking of the HA site by Fe(II) cations. If the concentration of Fe(II) cations is several times higher than the concentration of Mn(II), the HA site is completely blocked and the oxidation of Mn(II) cations is inhibited; under saturating light, the effectiveness of this inhibitory effect increases. This may be due to the generation of H2O2 on the acceptor side of the photosystem, which significantly accelerates the rate of the turnover reaction of Mn(II) on the HA site.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"113-128"},"PeriodicalIF":2.0,"publicationDate":"2022-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40567042","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Frontiers in Prebiotic Chemistry and Early Earth Environments. 生命前化学与早期地球环境的前沿。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-07-07 DOI: 10.1007/s11084-022-09622-x

Ulrich F Müller, Jamie Elsila, Dustin Trail, Saurja DasGupta, Claudia-Corina Giese, Craig R Walton, Zachary R Cohen, Tomislav Stolar, Ramanarayanan Krishnamurthy, Timothy W Lyons, Karyn L Rogers, Loren Dean Williams

{"title":"Frontiers in Prebiotic Chemistry and Early Earth Environments.","authors":"Ulrich F Müller, Jamie Elsila, Dustin Trail, Saurja DasGupta, Claudia-Corina Giese, Craig R Walton, Zachary R Cohen, Tomislav Stolar, Ramanarayanan Krishnamurthy, Timothy W Lyons, Karyn L Rogers, Loren Dean Williams","doi":"10.1007/s11084-022-09622-x","DOIUrl":"https://doi.org/10.1007/s11084-022-09622-x","url":null,"abstract":"The Prebiotic Chemistry and Early Earth Environments (PCE3) Consortium is a community of researchers seeking to understand the origins of life on Earth and in the universe. PCE3 is one of five Research Coordination Networks (RCNs) within NASA's Astrobiology Program. Here we report on the inaugural PCE3 workshop, intended to cross-pollinate, transfer information, promote cooperation, break down disciplinary barriers, identify new directions, and foster collaborations. This workshop, entitled, \"Building a New Foundation\", was designed to propagate current knowledge, identify possibilities for multidisciplinary collaboration, and ultimately define paths for future collaborations. Presentations addressed the likely conditions on early Earth in ways that could be incorporated into prebiotic chemistry experiments and conceptual models to improve their plausibility and accuracy. Additionally, the discussions that followed among workshop participants helped to identify within each subdiscipline particularly impactful new research directions. At its core, the foundational knowledge base presented in this workshop should underpin future workshops and enable collaborations that bridge the many disciplines that are part of PCE3.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"165-181"},"PeriodicalIF":2.0,"publicationDate":"2022-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9261198/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40567043","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

On the Origin of Sugar Handedness: Facts, Hypotheses and Missing Links-A Review. 论糖手的起源：事实、假设和缺失的环节——综述。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2022-09-01 Epub Date: 2022-07-07 DOI: 10.1007/s11084-022-09624-9

R Fernando Martínez, Louis A Cuccia, Cristóbal Viedma, Pedro Cintas

{"title":"On the Origin of Sugar Handedness: Facts, Hypotheses and Missing Links-A Review.","authors":"R Fernando Martínez, Louis A Cuccia, Cristóbal Viedma, Pedro Cintas","doi":"10.1007/s11084-022-09624-9","DOIUrl":"https://doi.org/10.1007/s11084-022-09624-9","url":null,"abstract":"By paraphrasing one of Kipling's most amazing short stories (How the Leopard Got His Spots), this article could be entitled \"How Sugars Became Homochiral\". Obviously, we have no answer to this still unsolved mystery, and this perspective simply brings recent models, experiments and hypotheses into the homochiral homogeneity of sugars on earth. We shall revisit the past and current understanding of sugar chirality in the context of prebiotic chemistry, with attention to recent developments and insights. Different scenarios and pathways will be discussed, from the widely known formose-type processes to less familiar ones, often viewed as unorthodox chemical routes. In particular, problems associated with the spontaneous generation of enantiomeric imbalances and the transfer of chirality will be tackled. As carbohydrates are essential components of all cellular systems, astrochemical and terrestrial observations suggest that saccharides originated from environmentally available feedstocks. Such substances would have been capable of sustaining autotrophic and heterotrophic mechanisms integrating nutrients, metabolism and the genome after compartmentalization. Recent findings likewise indicate that sugars' enantiomeric bias may have emerged by a transfer of chirality mechanisms, rather than by deracemization of sugar backbones, yet providing an evolutionary advantage that fueled the cellular machinery.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"21-56"},"PeriodicalIF":2.0,"publicationDate":"2022-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40569061","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 4

Potassium ions are more effective than sodium ions in salt induced peptide formation. 钾离子在盐诱导的肽形成中比钠离子更有效。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2013-04-01 Epub Date: 2013-03-28 DOI: 10.1007/s11084-013-9326-5

Michael V Dubina, Sergey Yu Vyazmin, Vitali M Boitsov, Eugene N Nikolaev, Igor A Popov, Alexey S Kononikhin, Igor E Eliseev, Yuri V Natochin

引用次数: 32

Degradation of glycine and alanine on irradiated quartz. 辐照石英上甘氨酸和丙氨酸的降解。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2013-04-01 Epub Date: 2013-03-28 DOI: 10.1007/s11084-013-9328-3

Maciej Pawlikowski, Aleksandra Benko, Tomasz P Wróbel

{"title":"Degradation of glycine and alanine on irradiated quartz.","authors":"Maciej Pawlikowski, Aleksandra Benko, Tomasz P Wróbel","doi":"10.1007/s11084-013-9328-3","DOIUrl":"https://doi.org/10.1007/s11084-013-9328-3","url":null,"abstract":"Recent researches suggest participation of minerals in the formation of life under primordial conditions. Among all of the minerals, quartz seems to be one of the most probable to take part in such processes. However, an external source of energy is needed, e.g. electric discharge. A device simulating the proposed conditions was designed and was used to simulate prebiotic conditions. Investigation of processes occurring during the stimulation of quartz with electric discharge was studied by means of Ultraviolet-visible (UV-VIS) spectroscopy, in order to monitor the generation kinetics of free radicals. Additionally, infrared spectroscopy was applied to identify chemical reaction products created in a solution of alanine or glycine, in the presence of quartz treated with electric discharge. Formation of increased amounts of free radicals, compared to experiments performed without quartz and/or amino acid, is reported, along with identification of possible degradation products of alanine. No synthetic reactions were observed.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"119-27"},"PeriodicalIF":2.0,"publicationDate":"2013-04-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s11084-013-9328-3","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40231833","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 1

A model for the origin of protein synthesis as coreplicational scanning of nascent RNA. 蛋白质合成起源的模型，作为新生RNA的共复制扫描。

IF 2

Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life Pub Date : 2007-12-01 Epub Date: 2007-09-20 DOI: 10.1007/s11084-007-9108-z

Alexander V Yakhnin

{"title":"A model for the origin of protein synthesis as coreplicational scanning of nascent RNA.","authors":"Alexander V Yakhnin","doi":"10.1007/s11084-007-9108-z","DOIUrl":"https://doi.org/10.1007/s11084-007-9108-z","url":null,"abstract":"The origin of protein synthesis is one of the major riddles of molecular biology. It was proposed a decade ago that the ribosomal RNA evolved from an earlier RNA-replisome (a ribozyme fulfilling RNA replication) while transfer RNA (tRNA) evolved from a genomic replication origin. Applying these hypotheses, I suggest that protein synthesis arose for the purpose of segregating copy and template RNA during replication through the conventional formation of a complementary strand. Nascent RNA was scanned in 5' to 3' direction following the progress of replication. The base pairing of several tRNA-like molecules with nascent RNA released the replication intermediates trapped in duplex. Synthesis of random peptides evolved to fuel the turnover of tRNAs. Then the combination of replication-coupled peptide formation and the independent development of amino acid-specific tRNA aminoacylation resulted in template-based protein synthesis. Therefore, the positioning of tRNAs adjacent to each other developed for the purpose of replication rather than peptide synthesis. This hypothesis does not include either selection for useful peptides or specific recognition of amino acids at the initial evolution of translation. It does, however, explain a number of features of modern translation apparatus, such as the relative flexibility of genetic code, the number of proteins shared by the transcription and translation machines, the universal participation of an RNA subunit in co-translational protein secretion, 'unscheduled translation', and factor-independent translocation. Assistance of original ribosomes in keeping apart the nascent transcript from its template is still widely explored by modern bacteria and perhaps by other domains of life.","PeriodicalId":520735,"journal":{"name":"Origins of life and evolution of the biosphere : the journal of the International Society for the Study of the Origin of Life","volume":" ","pages":"523-36"},"PeriodicalIF":2.0,"publicationDate":"2007-12-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1007/s11084-007-9108-z","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"40983658","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 7