ChemSystemsChem最新文献_第2页

Slow Freeze-Thaw Cycles Enhanced Hybridization of Kilobase DNA with Long Complementary Sticky Ends 缓慢的冻融循环增强了千碱基 DNA 与长互补粘性末端的杂交

IF 3.1

ChemSystemsChem Pub Date : 2024-05-14 DOI: 10.1002/syst.202400025

Dr. Natsumi Noda, Kohei Nomura, Naho Takahashi, Dr. Fumitaka Hashiya, Prof. Dr. Hiroshi Abe, Prof. Dr. Tomoaki Matsuura

{"title":"Slow Freeze-Thaw Cycles Enhanced Hybridization of Kilobase DNA with Long Complementary Sticky Ends","authors":"Dr. Natsumi Noda, Kohei Nomura, Naho Takahashi, Dr. Fumitaka Hashiya, Prof. Dr. Hiroshi Abe, Prof. Dr. Tomoaki Matsuura","doi":"10.1002/syst.202400025","DOIUrl":"10.1002/syst.202400025","url":null,"abstract":"The creation of large information molecules may have played an essential role in the origins of life. In this study, we conducted slow freeze-thaw (F/T) experiments to test the possibility of enhanced hybridization between the complementary sticky ends attached to kilobase-sized DNA fragments at sub-nanomolar concentrations. DNA fragments of 2- and 3-kilobase pairs (kbp) with 50-base complementary sticky ends that can form 5 kbp-sized hybridization products were mixed. While simple incubation provided little hybridization product, significantly effective hybridization was observed after freezing and thawing at a controlled time rate (<0.3 K min−1), even with small DNA concentrations (<1 nM). Furthermore, slow thawing had a more effect on hybridization than slow freezing. The reaction efficiency was reduced by rapid thawing instead of slow thawing, suggesting that the eutectic phase concentration played an important role in hybridization. A slow F/T cycle was effective even for the hybridization reaction between two 10 kbp DNA fragments, which yielded a 20 kbp product at sub-nanomolar concentrations. Repeating the slow F/T cycle significantly improved the reaction efficiency. The possible role of the F/T cycles in early Earth environments is discussed here.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":3.1,"publicationDate":"2024-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/syst.202400025","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140979943","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: 0

Autonomous Development of Compositional Diversity in Self‐spreading Flat Protocells 自蔓延扁平原胞中成分多样性的自主发展

ChemSystemsChem Pub Date : 2024-05-12 DOI: 10.1002/syst.202400029

Irep Gözen, Stephen Mann, Aldo Jesorka

{"title":"Autonomous Development of Compositional Diversity in Self‐spreading Flat Protocells","authors":"Irep Gözen, Stephen Mann, Aldo Jesorka","doi":"10.1002/syst.202400029","DOIUrl":"https://doi.org/10.1002/syst.202400029","url":null,"abstract":"An experimental pathway to the spontaneous generation of compositionally diverse synthetic protocells is presented. The pathway is initiated by flat giant unilamellar vesicles (FGUVs) that originate from compositionally different multilamellar lipid reservoirs and undergo spontaneous spreading across solid surfaces. On contact, the spreading FGUVs merge to produce a concentration gradient in membrane lipids across the fusion interface. Subsequent reconstruction through a series of shape transformations produces a network of nanotube‐connected lipid vesicles that inherit different ratios of the membrane constituents derived from the bilayers of the parent FGUVs. The fusion process leads to the engulfment of small FGUVs by larger FGUVs, mimicking predator‐prey behavior in which the observable characteristics of the prey are lost but the constituents are carried by the predator FGUV to the next generation of lipid vesicles. We speculate that our results could provide a feasible pathway to autonomous protocell diversification in origin of life theories and highlight the possible role of solid surfaces in the development of diversity and rudimentary speciation of natural protocells on the early Earth.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2024-05-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140987127","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

Artificial Molecular Systems for Complex Functions Based on DNA Nanotechnology and Cell-Sized Lipid Vesicles 基于 DNA 纳米技术和细胞大小脂质囊泡的复杂功能人工分子系统

IF 3.1

ChemSystemsChem Pub Date : 2024-05-10 DOI: 10.1002/syst.202400021

Prof. Dr. Yusuke Sato

{"title":"Artificial Molecular Systems for Complex Functions Based on DNA Nanotechnology and Cell-Sized Lipid Vesicles","authors":"Prof. Dr. Yusuke Sato","doi":"10.1002/syst.202400021","DOIUrl":"10.1002/syst.202400021","url":null,"abstract":"Cells are highly functional and complex molecular systems. Artificially creating such systems remains a challenge, which has been extensively studied in various research fields, including synthetic biology and molecular robotics. DNA nanotechnology is a powerful tool for bottom-up engineering for constructing functional nanostructures or chemical reaction networks which can be utilized as components for artificial molecular systems. Encapsulation of these components into a giant unilamellar vesicle (GUV) composed of a lipid bilayer, the base structure of the cellular membrane, results in a functional cell-sized structure that partially mimics some cellular functions. This review discusses the studies contributing to the construction of GUV-based artificial molecular systems based on DNA nanotechnology. Molecular transport and signal transduction through lipid membranes are essential to uptake molecules from the environment and respond to stimuli. Membrane shaping relates to various functions, including motility and signaling. A chemical reaction network is required to autonomously regulate the system‘s functions. This review describes the functions realized using DNA nanostructures and DNA reaction networks. Given the designability and programmability of DNA nanotechnology, it may be possible that the functionality of artificial molecular systems could be comparable to or even surpass that of natural molecular systems.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":3.1,"publicationDate":"2024-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/syst.202400021","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140991172","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: 0

Covalent Linkages Used in Prebiotic Chemistry for RNA-Templated Amino Acid Transfer and Peptide Synthesis 用于 RNA 引发的氨基酸转移和多肽合成的前生物化学中的共价连接体

IF 3.1

ChemSystemsChem Pub Date : 2024-05-08 DOI: 10.1002/syst.202400030

Dr. Luis Escobar

{"title":"Covalent Linkages Used in Prebiotic Chemistry for RNA-Templated Amino Acid Transfer and Peptide Synthesis","authors":"Dr. Luis Escobar","doi":"10.1002/syst.202400030","DOIUrl":"10.1002/syst.202400030","url":null,"abstract":"Biological translation is a universal process taking place in the ribosome. It involves the synthesis of a protein with a particular sequence from the information encoded in a messenger RNA and the amino acids carried by transfer RNAs with the assistance of specific enzymes. However, the origin of translation in the prebiotic world and, thus, in the absence of enzymes is difficult to envisage. Past and recent studies proposed different prebiotic models, following top-down and bottom-up approaches, for the origin and evolution of a primitive ribosome. The bottom-up models made use of distinct covalent linkages to connect RNA strands with amino acids and peptides. In this review, I focus on the covalent linkages used in these prebiotic models: acyl phosphate mixed anhydrides, phosphoramidates and ureas. I describe their syntheses under prebiotically plausible reaction conditions, as well as include their main conventional preparation methods. I also comment on their properties and chemical stabilities in aqueous solution. Finally, I examine the functions of the described covalent linkages in prebiotic processes involving RNA-templated amino acid transfer and peptide synthesis.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":3.1,"publicationDate":"2024-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140998488","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

Effect of Temperature on Calcium-Based Chemical Garden Growth 温度对钙基化学花园生长的影响

IF 3.1

ChemSystemsChem Pub Date : 2024-04-29 DOI: 10.1002/syst.202400012

Dr. Pamela Knoll, Dr. Corentin C. Loron

引用次数: 0

Towards Autonomous Materials–Challenges in Chemical Communication 迈向自主材料--化学交流中的挑战

ChemSystemsChem Pub Date : 2024-04-29 DOI: 10.1002/syst.202400036

P. Jarne de Jong, Foteini Trigka, Dr. Michael M. Lerch

引用次数: 0

Unveiling the Liquid-Liquid Phase Separation of Benzene-1,3,5-Tricarboxamide in Water 揭示水中苯-1,3,5-三甲酰胺的液-液相分离过程

IF 3.1

ChemSystemsChem Pub Date : 2024-04-23 DOI: 10.1002/syst.202400013

Mohit Kumar, Job. N. S. Hanssen, Prof. Dr. Shikha Dhiman

{"title":"Unveiling the Liquid-Liquid Phase Separation of Benzene-1,3,5-Tricarboxamide in Water","authors":"Mohit Kumar, Job. N. S. Hanssen, Prof. Dr. Shikha Dhiman","doi":"10.1002/syst.202400013","DOIUrl":"10.1002/syst.202400013","url":null,"abstract":"The intricate interplay between self-assembly and phase separation orchestrates biomolecular organization inside cells, thereby dictating the formation of vital structures such as protein assemblies and membraneless organelles (MLOs). However, in the context of supramolecular polymerization, these fundamental processes have traditionally been studied separately. This study reevaluates the supramolecular polymerization process to unveil the presence of phase-separated droplet state. Utilizing the well-studied benzene-1,3,5-tricarboxamide (BTA) supramolecular motif, we explore its thermally driven liquid-liquid phase separation (LLPS). Thermodynamic and kinetic analysis, employing temperature-dependent spectroscopic and microscopic techniques, elucidates the distinct BTA states and their evolution towards the thermodynamic fiber state. This research sheds light on the existence of hidden phases of supramolecular monomers, emphasizing the delicate balance of non-covalent interactions among monomers and with solvents in governing self-assembly vs. phase separation. This is particularly important in comprehending phase separation in the biological realm such as in MLOs, and for applications such as condensate-modifying therapeutics.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":3.1,"publicationDate":"2024-04-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/syst.202400013","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140669487","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: 0

Front Cover: Towards Autonomous Materials–Challenges in Chemical Communication (ChemSystemsChem 3/2024) 封面：迈向自主材料--化学交流中的挑战（ChemSystemsChem 3/2024）

ChemSystemsChem Pub Date : 2024-04-22 DOI: 10.1002/syst.202400032

P. Jarne de Jong, Foteini Trigka, Dr. Michael M. Lerch

引用次数: 0

Membrane Transport, Molecular Machines, and Maxwell's Demon 膜传输、分子机器和麦克斯韦恶魔

ChemSystemsChem Pub Date : 2024-04-22 DOI: 10.1002/syst.202400033

Dr. Stefan Borsley

引用次数: 0

Biomolecular Condensates: From Bacterial Compartments to Incubator Spaces of Emergent Chemical Systems in Matter-to-Life Transitions 生物分子凝聚物：从细菌区室到物质到生命转变过程中新兴化学系统的孵化器空间

IF 3.1

ChemSystemsChem Pub Date : 2024-04-17 DOI: 10.1002/syst.202400011

Wade E. Schnorr, Prof. W. Seth Childers

{"title":"Biomolecular Condensates: From Bacterial Compartments to Incubator Spaces of Emergent Chemical Systems in Matter-to-Life Transitions","authors":"Wade E. Schnorr, Prof. W. Seth Childers","doi":"10.1002/syst.202400011","DOIUrl":"10.1002/syst.202400011","url":null,"abstract":"At the earliest development of prebiotic chemistry, bacterial cells were primarily viewed as “bags of molecules.” This longstanding viewpoint shaped and biased early research about life's origins, setting an initial target when considering the path from prebiotic chemistry to modern life. The two fields of systems chemistry and bacterial cell biology seem like oil and water, but each brings their own perspectives and methods to consider “what is life?”. Here, we review the most recent discoveries in bacterial cell biology, focusing on biomolecular condensates to consider how they may impact our thinking of matter-to-life transitions. The presence of condensate compartments in the bacterial domain of life strengthens the hypothesis that condensates play roles in coordinating chemical systems in life's origins. Bacterial condensates have been shown to enhance enzymatic reactions, tune substrate specificity, and be responsive to environmental conditions and metabolites. Systems chemistry studies have further illuminated the unique chemical environment within condensates and strategies for logically tying chemical processes to the formation and dissolution of condensates. We consider the potential of biomolecular condensates to provide “incubator spaces” where new chemistries can develop and examine future challenges regarding the capability of condensates to yield emergent chemical systems capable of selection.","PeriodicalId":72566,"journal":{"name":"ChemSystemsChem","volume":null,"pages":null},"PeriodicalIF":3.1,"publicationDate":"2024-04-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/syst.202400011","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140693095","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: 0