Interface Focus最新文献_第7页

Electrifying insights into cardiac arrhythmias: from molecular mechanisms to therapeutic translations 心律失常的电光火石：从分子机制到治疗转化

IF 4.4 3区生物学

Interface Focus Pub Date : 2023-12-06 DOI: 10.1098/rsfs.2023.0062

M. Trew, Jichao Zhao

引用次数: 0

Artificial cells eavesdropping on HepG2 cells. 偷听HepG2细胞的人工细胞。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-08-11 eCollection Date: 2023-10-06 DOI: 10.1098/rsfs.2023.0007

Isabella Nymann Westensee, Brigitte Städler

引用次数: 0

Engineering DNA-based cytoskeletons for synthetic cells. 基于dna的合成细胞骨架工程。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-08-11 eCollection Date: 2023-10-06 DOI: 10.1098/rsfs.2023.0028

Kevin Jahnke, Kerstin Göpfrich

{"title":"Engineering DNA-based cytoskeletons for synthetic cells.","authors":"Kevin Jahnke, Kerstin Göpfrich","doi":"10.1098/rsfs.2023.0028","DOIUrl":"10.1098/rsfs.2023.0028","url":null,"abstract":"The development and bottom-up assembly of synthetic cells with a functional cytoskeleton sets a major milestone to understand cell mechanics and to develop man-made machines on the nano- and microscale. However, natural cytoskeletal components can be difficult to purify, deliberately engineer and reconstitute within synthetic cells which therefore limits the realization of multifaceted functions of modern cytoskeletons in synthetic cells. Here, we review recent progress in the development of synthetic cytoskeletons made from deoxyribonucleic acid (DNA) as a complementary strategy. In particular, we explore the capabilities and limitations of DNA cytoskeletons to mimic functions of natural cystoskeletons like reversible assembly, cargo transport, force generation, mechanical support and guided polymerization. With recent examples, we showcase the power of rationally designed DNA cytoskeletons for bottom-up assembled synthetic cells as fully engineerable entities. Nevertheless, the realization of dynamic instability, self-replication and genetic encoding as well as contractile force generating motors remains a fruitful challenge for the complete integration of multifunctional DNA-based cytoskeletons into synthetic cells.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 5","pages":"20230028"},"PeriodicalIF":3.6,"publicationDate":"2023-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10415745/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10002067","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

What it means to be alive: a synthetic cell perspective 活着意味着什么：合成细胞视角

IF 4.4 3区生物学

Interface Focus Pub Date : 2023-08-11 DOI: 10.1098/rsfs.2023.0036

Y. Elani, J. Seddon

{"title":"What it means to be alive: a synthetic cell perspective","authors":"Y. Elani, J. Seddon","doi":"10.1098/rsfs.2023.0036","DOIUrl":"https://doi.org/10.1098/rsfs.2023.0036","url":null,"abstract":"Advances in bottom-up synthetic biology offer the exciting—albeit contentious—prospect of transitioning bio-science researchers from passive observers of life to potential creators of it. Synthetic cells closely emulate the attributes of their biological counterparts. These rationally designed microsystems exhibit emergent properties and life-like functionalities. They can therefore be used as simplified cell models to decipher the rules of life, and as programmable biologically powered micromachines for application in healthcare and biotechnology more broadly. While there is a consensus that current synthetic cells are not yet ‘living’, the question of what defines ‘aliveness’ is gaining increasing relevance. Exploring this concept necessitates a multidisciplinary approach, where scientists from across domains in the physical, life, engineering and social sciences participate in community-level discussions, together with the acceptance of a set of criteria which defines a living system. Achieving a widely accepted definition of ‘living’ represents a possible mission-oriented endpoint to the synthetic cell endeavour, uniting the community towards a common goal. As the field evolves, researchers must address regulatory, ethical, societal and public perception implications, while fostering collaborative efforts to harness the transformative potential of synthetic cells.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":" ","pages":""},"PeriodicalIF":4.4,"publicationDate":"2023-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"42518326","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Cell mimicry: bottom-up engineering of life. 细胞拟态:自下而上的生命工程。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-08-11 eCollection Date: 2023-10-06 DOI: 10.1098/rsfs.2023.0034

Stephen Mann

引用次数: 0

Light-controlled growth of DNA organelles in synthetic cells. 光控制合成细胞中DNA细胞器的生长。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-08-11 eCollection Date: 2023-10-06 DOI: 10.1098/rsfs.2023.0017

Siddharth Agarwal, Mahdi Dizani, Dino Osmanovic, Elisa Franco

{"title":"Light-controlled growth of DNA organelles in synthetic cells.","authors":"Siddharth Agarwal, Mahdi Dizani, Dino Osmanovic, Elisa Franco","doi":"10.1098/rsfs.2023.0017","DOIUrl":"10.1098/rsfs.2023.0017","url":null,"abstract":"Living cells regulate many of their vital functions through dynamic, membraneless compartments that phase separate (condense) in response to different types of stimuli. In synthetic cells, responsive condensates could similarly play a crucial role in sustaining their operations. Here we use DNA nanotechnology to design and characterize artificial condensates that respond to light. These condensates form via the programmable interactions of star-shaped DNA subunits (nanostars), which are engineered to include photo-responsive protection domains. In the absence of UV irradiation, the nanostar interactions are not conducive to the formation of condensates. UV irradiation cleaves the protection domains, increases the nanostar valency and enables condensation. We demonstrate that this approach makes it possible to tune precisely the kinetics of condensate formation by dosing UV exposure time. Our experimental observations are complemented by a computational model that characterizes phase transitions of mixtures of particles of different valency, under changes in the mixture composition and bond interaction energy. In addition, we illustrate how UV activation is a useful tool to control the formation and size of DNA condensates in emulsion droplets, as a prototype organelle in a synthetic cell. This research expands our capacity to remotely control the dynamics of DNA-based components via physical stimuli and is particularly relevant to the development of minimal artificial cells and responsive biomaterials.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 5","pages":"20230017"},"PeriodicalIF":3.6,"publicationDate":"2023-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10415744/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"10002063","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Biomimetic construction of phospholipid membranes by direct aminolysis ligations. 通过直接氨解连接的磷脂膜的仿生构建。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-08-11 eCollection Date: 2023-10-06 DOI: 10.1098/rsfs.2023.0019

Federica A Souto-Trinei, Roberto J Brea, Neal K Devaraj

引用次数: 0

Multiscale models driving hypothesis and theory-based research in microbial ecology. 微生物生态学多尺度模型驱动假说与理论研究。

IF 4.4 3区生物学

Interface Focus Pub Date : 2023-08-06 DOI: 10.1098/rsfs.2023.0008

Eloi Martinez-Rabert, William T Sloan, Rebeca Gonzalez-Cabaleiro

{"title":"Multiscale models driving hypothesis and theory-based research in microbial ecology.","authors":"Eloi Martinez-Rabert, William T Sloan, Rebeca Gonzalez-Cabaleiro","doi":"10.1098/rsfs.2023.0008","DOIUrl":"https://doi.org/10.1098/rsfs.2023.0008","url":null,"abstract":"Hypothesis and theory-based studies in microbial ecology have been neglected in favour of those that are descriptive and aim for data-gathering of uncultured microbial species. This tendency limits our capacity to create new mechanistic explanations of microbial community dynamics, hampering the improvement of current environmental biotechnologies. We propose that a multiscale modelling bottom-up approach (piecing together sub-systems to give rise to more complex systems) can be used as a framework to generate mechanistic hypotheses and theories (in-silico bottom-up methodology). To accomplish this, formal comprehension of the mathematical model design is required together with a systematic procedure for the application of the in-silico bottom-up methodology. Ruling out the belief that experimentation before modelling is indispensable, we propose that mathematical modelling can be used as a tool to direct experimentation by validating theoretical principles of microbial ecology. Our goal is to develop methodologies that effectively integrate experimentation and modelling efforts to achieve superior levels of predictive capacity.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 4","pages":"20230008"},"PeriodicalIF":4.4,"publicationDate":"2023-08-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10251115/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9622767","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Engineering biology in the face of uncertainty. 面对不确定性的工程生物学。

IF 4.4 3区生物学

Interface Focus Pub Date : 2023-08-06 DOI: 10.1098/rsfs.2023.0001

William T Sloan, Tania L Gómez-Borraz

{"title":"Engineering biology in the face of uncertainty.","authors":"William T Sloan, Tania L Gómez-Borraz","doi":"10.1098/rsfs.2023.0001","DOIUrl":"https://doi.org/10.1098/rsfs.2023.0001","url":null,"abstract":"Combining engineering and biology surely must be a route to delivering solutions to the world's most pressing problems in depleting resources, energy and the environment. Engineers and biologists have long recognized the power in coupling their disciplines and have evolved a healthy variety of approaches to realizing technologies. Yet recently, there has been a movement to narrow the remit of engineering biology. Its definition as 'the application of engineering principles to the design of biological systems' ought to encompass a broad church. However, the emphasis is firmly on construction '…of novel biological devices and systems from standardized artificial parts' within cells. Thus, engineering biology has become synonymous with synthetic biology, despite the many longstanding technologies that use natural microbial communities. The focus on the nuts and bolts of synthetic organisms may be deflecting attention from the significant challenge of delivering solutions at scale, which cuts across all engineering biology, synthetic and natural. Understanding, let alone controlling, every component of an engineered system is an unrealistic goal. To realize workable solutions in a timely manner we must develop systematic ways of engineering biology in the face of the uncertainties that are inherent in biological systems and that arise through lack of knowledge.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 4","pages":"20230001"},"PeriodicalIF":4.4,"publicationDate":"2023-08-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10251114/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9622760","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Evaluation of different 16S rRNA gene hypervariable regions and reference databases for profiling engineered microbiota structure and functional guilds in a swine wastewater treatment plant. 评估不同的 16S rRNA 基因超变区和参考数据库，以分析猪废水处理厂中的工程微生物群结构和功能区。

IF 3.6 3区生物学

Interface Focus Pub Date : 2023-06-09 eCollection Date: 2023-08-06 DOI: 10.1098/rsfs.2023.0012

Limin Lin, Feng Ju

{"title":"Evaluation of different 16S rRNA gene hypervariable regions and reference databases for profiling engineered microbiota structure and functional guilds in a swine wastewater treatment plant.","authors":"Limin Lin, Feng Ju","doi":"10.1098/rsfs.2023.0012","DOIUrl":"10.1098/rsfs.2023.0012","url":null,"abstract":"High-throughput 16S rRNA gene amplicon sequencing technology is widely applied for environmental microbiota structure analysis to derive knowledge that informs microbiome-based surveillance and oriented bioengineering. However, it remains elusive how the selection of 16S rRNA gene hypervariable regions and reference databases affects microbiota diversity and structure profiling. This study systematically evaluated the fitness of different frequently used reference databases (i.e. SILVA 138 SSU, GTDB bact120_r207, Greengenes 13_5 and MiDAS 4.8) and primers of 16S rRNA gene in microbiota profiling of anaerobic digestion and activated sludge collected from a full-scale swine wastewater treatment plant (WWTP). The comparative results showed that MiDAS 4.8 achieved the highest levels of taxonomic diversity and species-level assignment rate. For whichever sample groups, microbiota richness captured by different primers decreased in the following order: V4 > V4-V5 > V3-V4 > V6-V8/V1-V3. Using primer-bias-free metagenomic data results as the judging standard, V4 region also best characterized microbiota structure and well represented typical functional guilds (e.g. methanogens, ammonium oxidizers and denitrifiers), while V6-V8 regions largely overestimated the archaeal methanogens (mainly Methanosarcina) by over 30 times. Therefore, MiDAS 4.8 database and V4 region are recommended for best simultaneous analysis of bacterial and archaeal community diversity and structure of the examined swine WWTP.","PeriodicalId":13795,"journal":{"name":"Interface Focus","volume":"13 4","pages":"20230012"},"PeriodicalIF":3.6,"publicationDate":"2023-06-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10251118/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9622761","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0