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Design of Coiled-Coil Protein Nanostructures for Therapeutics and Drug Delivery 设计用于治疗和给药的盘绕线圈蛋白质纳米结构
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-04-10 DOI: 10.1146/annurev-chembioeng-100722-122348
Dustin Britton, Jonathan W. Sun, P. Douglas Renfrew, Jin Kim Montclare
Coiled-coil protein motifs have become widely employed in the design of biomaterials. Some of these designs have been studied for use in drug delivery due to the unique ability of coiled-coils to impart stability, oligomerization, and supramolecular assembly. To leverage these properties and improve drug delivery, release, and targeting, a variety of nano- to mesoscale architectures have been adopted. Coiled-coil drug delivery and therapeutics have been developed by using the coiled-coil alone, designing for higher-order assemblies such as fibers and hydrogels, and combining coiled-coil proteins with other biocompatible structures such as lipids and polymers. We review the recent development of these structures and the design criteria used to generate functional proteins of varying sizes and morphologies.
在生物材料的设计中,已广泛采用了盘绕线圈蛋白质图案。由于盘卷蛋白具有独特的稳定性、低聚作用和超分子组装能力,其中一些设计已被研究用于药物输送。为了充分利用这些特性,改善药物的输送、释放和靶向性,人们采用了各种纳米到中尺度的结构。通过单独使用盘绕线圈、设计高阶组装(如纤维和水凝胶)以及将盘绕线圈蛋白质与其他生物相容性结构(如脂质和聚合物)相结合,开发出了盘绕线圈给药和治疗方法。我们回顾了这些结构的最新发展,以及用于生成不同大小和形态的功能性蛋白质的设计标准。
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引用次数: 0
Accelerating Diverse Cell-Based Therapies Through Scalable Design 通过可扩展设计加速多样化的细胞疗法
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-04-10 DOI: 10.1146/annurev-chembioeng-100722-121610
Emma L. Peterman, Deon Ploessl, Kate E. Galloway
Augmenting cells with novel, genetically encoded functions will support therapies that expand beyond natural capacity for immune surveillance and tissue regeneration. However, engineering cells at scale with transgenic cargoes remains a challenge in realizing the potential of cell-based therapies. In this review, we introduce a range of applications for engineering primary cells and stem cells for cell-based therapies. We highlight tools and advances that have launched mammalian cell engineering from bioproduction to precision editing of therapeutically relevant cells. Additionally, we examine how transgenesis methods and genetic cargo designs can be tailored for performance. Altogether, we offer a vision for accelerating the translation of innovative cell-based therapies by harnessing diverse cell types, integrating the expanding array of synthetic biology tools, and building cellular tools through advanced genome writing techniques.
增强细胞的新型基因编码功能将支持超越天然免疫监视和组织再生能力的疗法。然而,利用转基因载体进行大规模细胞工程仍是实现细胞疗法潜力的一项挑战。在本综述中,我们将介绍一系列用于细胞疗法的原代细胞和干细胞工程应用。我们重点介绍了哺乳动物细胞工程从生物生产到精准编辑治疗相关细胞的工具和进展。此外,我们还探讨了如何调整转基因方法和基因载体设计以提高性能。总之,我们通过利用不同的细胞类型、整合不断扩大的合成生物学工具阵列,以及通过先进的基因组编写技术构建细胞工具,为加快基于细胞的创新疗法的转化提供了一个愿景。
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引用次数: 0
Deductive Machine Learning Challenges and Opportunities in Chemical Applications 演绎式机器学习在化学应用中的挑战与机遇
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-04-10 DOI: 10.1146/annurev-chembioeng-100722-111917
Tianfan Jin, Brett M. Savoie
Contemporary machine learning algorithms have largely succeeded in automating the development of mathematical models from data. Although this is a striking accomplishment, it leaves unaddressed the multitude of scenarios, especially across the chemical sciences and engineering, where deductive, rather than inductive, reasoning is required and still depends on manual intervention by an expert. This review describes the characteristics of deductive reasoning that are helpful for understanding the role played by expert intervention in problem-solving and explains why such interventions are often relatively resistant to disruption by typical machine learning strategies. The article then discusses the factors that contribute to creating a deductive bottleneck, how deductive bottlenecks are currently addressed in several application areas, and how machine learning models capable of deduction can be designed. The review concludes with a tutorial case study that illustrates the challenges of deduction problems and a notebook for readers to experiment with on their own.
当代机器学习算法已在很大程度上成功实现了从数据中自动建立数学模型。尽管这是一项令人瞩目的成就,但仍有许多情况没有得到解决,特别是在化学科学和工程领域,需要进行演绎推理而不是归纳推理,而且仍然依赖于专家的人工干预。这篇综述描述了演绎推理的特点,这些特点有助于理解专家干预在解决问题中发挥的作用,并解释了为什么这种干预通常相对不易被典型的机器学习策略所破坏。文章随后讨论了造成演绎瓶颈的因素、目前在几个应用领域中如何解决演绎瓶颈,以及如何设计能够进行演绎的机器学习模型。综述最后通过一个案例研究说明了演绎问题所面临的挑战,并提供了一个笔记本供读者自行实验。
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引用次数: 0
Periodic Open Cellular Structures in Chemical Engineering: Application in Catalysis and Separation Processes 化学工程中的周期性开放细胞结构:催化和分离过程中的应用
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-04-10 DOI: 10.1146/annurev-chembioeng-101121-085630
Lisa Eckendörfer, Dominik Rudolf, Andreas Brix, Marion Börnhorst, Hannsjörg Freund
Periodic open cellular structures (POCS) represent a promising new class of structured internals as next-generation catalyst supports in reactors or structured packing elements in separation columns. POCS feature a well-defined morphology and can be fabricated with high reproducibility even for complex geometries by means of additive manufacturing. This results in a uniform and easily controllable flow field, which allows for adjusting the heat and mass transport processes to realize optimal process conditions. We review the fundamentals of POCS, including design and manufacturing as well as transport phenomena for single- and multiphase systems. Moreover, we review recent POCS applications in reaction and separation processes and consider promising future application fields. The exceptional transport characteristics of POCS facilitate the design of highly efficient, flexible, resilient, and safe processes, which is key for achieving process intensification toward a sustainable future.
周期性开放式蜂窝结构(POCS)是一类前景广阔的新型结构内构件,可用作反应器中的下一代催化剂载体或分离柱中的结构填料元件。POCS 具有明确的形态特征,即使是复杂的几何形状,也能通过增材制造技术以较高的可重复性制造出来。这使得流场均匀且易于控制,从而可以调整热量和质量传输过程,实现最佳工艺条件。我们回顾了 POCS 的基本原理,包括设计、制造以及单相和多相系统的传输现象。此外,我们还回顾了 POCS 在反应和分离过程中的最新应用,并探讨了前景广阔的未来应用领域。POCS 的优异传输特性有助于设计出高效、灵活、弹性和安全的工艺,这是实现工艺集约化、迈向可持续未来的关键所在。
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引用次数: 0
Three-Dimensional Morphology of Polymeric Membranes from Electron Tomography. 从电子断层扫描看聚合物膜的三维形态。
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-02-29 DOI: 10.1146/annurev-chembioeng-100722-104623
Masoud Ghasemi, Michael Geitner, Agatha O'Connell, Enrique D Gomez

Recent advances in the water-energy landscape hinge upon our improved understanding of the complex morphology of materials involved in water treatment and energy production. Due to their versatility and tunability for applications ranging from drug delivery to fuel cells, polymeric systems will play a crucial role in shaping the future of water-energy nexus applications. Electron tomography (ET) stands as a transformative approach for elucidating the intricate structures inherent to polymers, offering unparalleled insights into their nanoscale architectures and functional properties in three dimensions. In particular, the various morphological and chemical characteristics of polymer membranes provide opportunities for perturbations to standard ET for the study of these systems. We discuss the applications of transmission electron microscopy in establishing structure-function relationships in polymeric membranes with an emphasis on traditional ET and cryogenic ET (cryo-ET). The synergy between ET and cryo-ET to unravel structural complexities and dynamic behaviors of polymer membranes holds immense potential in driving progress and innovation across frontiers related to water-energy nexus applications. Expected final online publication date for the Annual Review of Chemical and Biomolecular Engineering , Volume 15 is June 2024. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

水-能源领域的最新进展取决于我们对参与水处理和能源生产的材料的复杂形态的进一步了解。由于聚合物系统在药物输送和燃料电池等应用领域具有多功能性和可调性,它们将在塑造水-能源关系应用的未来方面发挥至关重要的作用。电子断层扫描(ET)是阐明聚合物内在复杂结构的一种变革性方法,可提供对其纳米级结构和三维功能特性的无与伦比的深入了解。特别是,聚合物膜的各种形态和化学特性为研究这些系统提供了对标准 ET 进行扰动的机会。我们讨论了透射电子显微镜在建立聚合物膜结构-功能关系方面的应用,重点是传统 ET 和低温 ET(冷冻 ET)。透射电子显微镜和低温透射电子显微镜在揭示聚合物膜的结构复杂性和动态行为方面的协同作用,在推动与水-能源关系应用相关的前沿领域的进步和创新方面具有巨大潜力。化学与生物分子工程年度综述》第 15 卷的最终在线出版日期预计为 2024 年 6 月。修订后的预计日期请参见 http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
Biofilms for Production of Chemicals and Energy 用于生产化学品和能源的生物膜
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-02-21 DOI: 10.1146/annurev-chembioeng-100522-110939
Janek Weiler, Miriam Edel, Johannes Gescher
The twenty-first century will be the century of biology. This is not only because of breakthrough advances in molecular biology tools but also because we need to reinvent our economy based on the biological principles of energy efficiency and sustainability. Consequently, new tools for production routines must be developed to help produce platform chemicals and energy sources based on sustainable resources. In this context, biofilm-based processes have the potential to impact future production processes, because they can be carried out continuously and with robust stationary biocatalysts embedded in an extracellular matrix with different properties. We review productive biofilm systems used for heterotrophic and lithoautotrophic production and attempt to identify fundamental reasons why they may be particularly suitable as future production systems.Expected final online publication date for the Annual Review of Chemical and Biomolecular Engineering , Volume 15 is June 2024. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
二十一世纪将是生物学的世纪。这不仅是因为分子生物学工具取得了突破性进展,还因为我们需要根据能源效率和可持续性的生物学原理重塑我们的经济。因此,必须开发新的生产工艺工具,以帮助生产基于可持续资源的平台化学品和能源。在这种情况下,基于生物膜的工艺有可能对未来的生产工艺产生影响,因为这些工艺可以连续进行,并在具有不同特性的细胞外基质中嵌入稳健的固定生物催化剂。我们回顾了用于异养和锂自养生产的生产性生物膜系统,并试图找出它们特别适合作为未来生产系统的根本原因。《化学与生物分子工程年度综述》第 15 卷的最终在线出版日期预计为 2024 年 6 月。修订后的预计日期请参见 http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
Mechanism-Driven Design of Multispecific Antibodies for Targeted Disease Treatment. 针对疾病靶向治疗的多特异性抗体的机制驱动设计。
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2024-01-26 DOI: 10.1146/annurev-chembioeng-100522-102155
Justyn Fine, Bunyarit Meksiriporn, Jiacheng Tan, Jamie B Spangler

Antibody-based therapeutics constitute a rapidly growing class of pharmaceutical compounds. However, monoclonal antibodies, which specifically engage only one target, often lack the mechanistic intricacy to treat complex diseases. To expand the utility of antibody therapies, significant efforts have been invested in designing multispecific antibodies, which engage multiple targets using a single molecule. These efforts have culminated in remarkable translational progress, including nine US Food and Drug Administration-approved multispecific antibodies, with countless others in various stages of preclinical or clinical development. In this review, we discuss several categories of multispecific antibodies that have achieved clinical approval or shown promise in earlier stages of development. We focus on the molecular mechanisms used by multispecific antibodies and how these mechanisms inform their customized design and formulation. In particular, we discuss multispecific antibodies that target multiple disease markers, multiparatopic antibodies, and immune-interfacing antibodies. Overall, these innovative multispecific antibody designs are fueling exciting advances across the immunotherapeutic landscape. Expected final online publication date for the Annual Review of Chemical and Biomolecular Engineering , Volume 15 is June 2024. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.

以抗体为基础的疗法是一类发展迅速的药物化合物。然而,单克隆抗体只能特异性地作用于一个靶点,往往缺乏治疗复杂疾病的复杂机理。为了扩大抗体疗法的用途,人们在设计多特异性抗体方面投入了大量精力,这种抗体使用单个分子作用于多个靶点。这些努力最终取得了显著的转化进展,包括九种获得美国食品药品管理局批准的多特异性抗体,以及无数处于不同临床前或临床开发阶段的其他抗体。在这篇综述中,我们将讨论几类已获得临床批准或在早期开发阶段显示出前景的多特异性抗体。我们的重点是多特异性抗体的分子机制,以及这些机制如何为其定制设计和配方提供依据。我们特别讨论了针对多种疾病标志物的多特异性抗体、多异位抗体和免疫干扰抗体。总之,这些创新的多特异性抗体设计正在推动整个免疫治疗领域取得令人振奋的进展。化学与生物分子工程年度综述》第 15 卷的最终在线出版日期预计为 2024 年 6 月。修订后的预计日期请参见 http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
Designing Multivalent and Multispecific Biologics 设计多价和多特异性生物制剂
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2023-12-08 DOI: 10.1146/annurev-chembioeng-100722-112440
Jennifer J. Kang, Ayako Ohoka, Casim A. Sarkar
In the era of precision medicine, multivalent and multispecific therapeutics present a promising approach for targeted disease intervention. These therapeutics are designed to interact with multiple targets simultaneously, promising enhanced efficacy, reduced side effects, and resilience against drug resistance. We dissect the principles guiding the design of multivalent biologics, highlighting challenges and strategies that must be considered to maximize therapeutic effect. Engineerable elements in multivalent and multispecific biologic design—domain affinities, valency, and spatial presentation—must be considered in the context of the molecular targets as well as the balance of important properties such as target avidity and specificity. We illuminate recent applications of these principles in designing protein and cell therapies and identify exciting future directions in this field, underscored by advances in biomolecular and cellular engineering and computational approaches.Expected final online publication date for the Annual Review of Chemical and Biomolecular Engineering , Volume 15 is June 2024. Please see http://www.annualreviews.org/page/journal/pubdates for revised estimates.
在精准医疗时代,多价和多特异性疗法为靶向疾病干预提供了一种前景广阔的方法。这些疗法旨在同时与多个靶点相互作用,有望提高疗效、减少副作用并抵御耐药性。我们剖析了指导多价生物制剂设计的原则,强调了为实现最大疗效而必须考虑的挑战和策略。多价和多特异性生物制剂设计中的可设计元素--域亲和性、效价和空间展示--必须结合分子靶点以及靶点热敏性和特异性等重要特性的平衡来考虑。我们阐明了这些原则在设计蛋白质和细胞疗法中的最新应用,并指出了这一领域令人兴奋的未来发展方向,生物分子和细胞工程以及计算方法的进步对此尤为突出。《化学与生物分子工程年度综述》第 15 卷的最终在线出版日期预计为 2024 年 6 月。修订后的预计日期请参见 http://www.annualreviews.org/page/journal/pubdates。
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引用次数: 0
Engineering Innovations, Challenges, and Opportunities for Lignocellulosic Biorefineries: Leveraging Biobased Polymer Production. 木质纤维素生物炼油厂的工程创新、挑战和机遇:利用生物基聚合物生产。
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2023-06-08 Epub Date: 2023-04-11 DOI: 10.1146/annurev-chembioeng-101121-084152
Alison J Shapiro, Robert M O'Dea, Sonia C Li, Jamael C Ajah, Garrett F Bass, Thomas H Epps

Alternative polymer feedstocks are highly desirable to address environmental, social, and security concerns associated with petrochemical-based materials. Lignocellulosic biomass (LCB) has emerged as one critical feedstock in this regard because it is an abundant and ubiquitous renewable resource. LCB can be deconstructed to generate valuable fuels, chemicals, and small molecules/oligomers that are amenable to modification and polymerization. However, the diversity of LCB complicates the evaluation of biorefinery concepts in areas including process scale-up, production outputs, plant economics, and life-cycle management. We discuss aspects of current LCB biorefinery research with a focus on the major process stages, including feedstock selection, fractionation/deconstruction, and characterization, along with product purification, functionalization, and polymerization to manufacture valuable macromolecular materials. We highlight opportunities to valorize underutilized and complex feedstocks, leverage advanced characterization techniques to predict and manage biorefinery outputs, and increase the fraction of biomass converted into valuable products.

要解决与石化材料相关的环境、社会和安全问题,替代聚合物原料是非常理想的选择。在这方面,木质纤维素生物质(LCB)已成为一种重要的原料,因为它是一种丰富且无处不在的可再生资源。木质纤维素生物质可通过分解产生有价值的燃料、化学品以及易于改性和聚合的小分子/低聚物。然而,枸杞多糖的多样性使生物精炼概念的评估变得复杂,包括工艺放大、产量、工厂经济性和生命周期管理。我们讨论了当前低浓生物炼制研究的各个方面,重点是主要工艺阶段,包括原料选择、分馏/解构和表征,以及产品纯化、功能化和聚合,以生产有价值的大分子材料。我们强调利用未充分利用的复杂原料的机会,利用先进的表征技术来预测和管理生物炼制的产出,并提高生物质转化为有价值产品的比例。
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引用次数: 0
Everything You Wanted to Know about Deep Eutectic Solvents but Were Afraid to Be Told. 关于深共晶溶剂,你想知道却又害怕被告知的一切。
IF 8.4 2区 工程技术 Q1 CHEMISTRY, APPLIED Pub Date : 2023-06-08 Epub Date: 2023-03-08 DOI: 10.1146/annurev-chembioeng-101121-085323
Dinis O Abranches, João A P Coutinho

Are deep eutectic solvents (DESs) a promising alternative to conventional solvents? Perhaps, but their development is hindered by a plethora of misconceptions. These are carefully analyzed here, beginning with the very meaning of DESs, which has strayed far beyond its original scope of eutectic mixtures of Lewis or Brønsted acids and bases. Instead, a definition that is grounded on thermodynamic principles and distinguishes between eutectic and deep eutectic is encouraged, and the types of precursors that can be used to prepare DESs are reviewed. Landmark works surrounding the sustainability, stability, toxicity, and biodegradability of these solvents are also discussed, revealing piling evidence that numerous DESs reported thus far, particularly those that are choline based, lack sufficient sustainability-related traits to be considered green solvents. Finally, emerging DES applications are reviewed, emphasizing their most remarkable feature: the ability to liquefy a solid compound with a target property, allowing its use as a liquid solvent.

深共晶溶剂 (DES) 是传统溶剂的理想替代品吗?也许是的,但它们的发展受到了大量误解的阻碍。本文将对这些误解进行仔细分析,首先是 DES 的含义,它已经远远超出了路易斯酸或布伦斯泰德酸和碱的共晶混合物的最初范围。相反,我们鼓励采用基于热力学原理、区分共晶和深共晶的定义,并回顾了可用于制备 DES 的前驱体类型。此外,还讨论了与这些溶剂的可持续性、稳定性、毒性和生物降解性有关的里程碑式研究成果,其中大量证据表明,迄今为止报道的众多 DES(尤其是以胆碱为基础的 DES)缺乏足够的可持续性相关特征,因此不能被视为绿色溶剂。最后,回顾了 DES 的新兴应用,强调了其最显著的特点:能够液化具有目标特性的固体化合物,使其能够用作液体溶剂。
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引用次数: 0
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