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Technoeconomic analysis for near-term scale-up of bioprocesses 近期扩大生物工艺规模的技术经济分析。
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-01-20 DOI: 10.1016/j.copbio.2025.103258
Tuhin K Poddar , Corinne D Scown
Growing the bioeconomy requires products and pathways that are cost-competitive. Technoeconomic analyses (TEAs) aim to predict the long-term economic viability and often use what are known as nth plant cost and performance parameters. However, as TEA is more widely adopted to inform everything from early-stage research to company and investor decision-making, the nth plant approach is inadequate and risks being misused to inform the early stages of scale-up. Some methods exist for conducting first-of-a-kind/pioneer plant cost analyses, but these receive less attention and have not been critically evaluated. This article explores TEA methods for early-stage scale-up, critically evaluates their applicability to biofuels and bioproducts, and recommends strategies for producing TEA results better suited to guiding prioritization and successful scale-up of bioprocesses.
发展生物经济需要具有成本竞争力的产品和途径。技术经济分析(tea)旨在预测长期经济可行性,通常使用所谓的第n个工厂成本和性能参数。然而,随着TEA被更广泛地应用于从早期研究到公司和投资者决策的各个方面,第n家工厂的方法是不充分的,并且有被滥用于扩大规模的早期阶段的风险。现有一些方法可用于进行首次/先锋工厂成本分析,但这些方法受到的关注较少,也没有得到严格的评价。本文探讨了早期扩大规模的TEA方法,批判性地评估了它们对生物燃料和生物产品的适用性,并建议了产生更适合指导优先级和成功扩大生物过程的TEA结果的策略。
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引用次数: 0
Advances in designed bionanomolecular assemblies for biotechnological and biomedical applications 生物技术和生物医学应用中设计的生物异常分子组件的进展。
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-01-18 DOI: 10.1016/j.copbio.2024.103256
Jaka Snoj , Weijun Zhou , Ajasja Ljubetič , Roman Jerala
Recent advances in protein engineering have revolutionized the design of bionanomolecular assemblies for functional therapeutic and biotechnological applications. This review highlights the progress in creating complex protein architectures, encompassing both finite and extended assemblies. AI tools, including AlphaFold, RFDiffusion, and ProteinMPNN, have significantly enhanced the scalability and success of de novo designs. Finite assemblies, like nanocages and coiled-coil-based structures, enable precise molecular encapsulation or functional protein domain presentation. Extended assemblies, including filaments and 2D/3D lattices, offer unparalleled structural versatility for applications such as vaccine development, responsive biomaterials, and engineered cellular scaffolds. The convergence of artificial intelligence–driven design and experimental validation promises strong acceleration of the development of tailored protein assemblies, offering new opportunities in synthetic biology, materials science, biotechnology, and biomedicine.
蛋白质工程的最新进展彻底改变了生物异常分子组件的设计,用于功能治疗和生物技术应用。这篇综述强调了在创建复杂蛋白质结构方面的进展,包括有限和扩展的组装。人工智能工具,包括AlphaFold、RFDiffusion和ProteinMPNN,显著提高了从头设计的可扩展性和成功率。有限的组装,如纳米笼和基于线圈的结构,可以实现精确的分子封装或功能性蛋白质结构域的呈现。扩展组件,包括细丝和2D/3D晶格,为疫苗开发、反应性生物材料和工程细胞支架等应用提供了无与伦比的结构多功能性。人工智能驱动的设计和实验验证的融合有望大大加速定制蛋白质组装的发展,为合成生物学、材料科学、生物技术和生物医学提供新的机会。
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引用次数: 0
Next-generation metabolic models informed by biomolecular simulations 基于生物分子模拟的下一代代谢模型。
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-01-18 DOI: 10.1016/j.copbio.2025.103259
Mohammed S Noor , Sakib Ferdous , Rahil Salehi , Hannah Gates , Supantha Dey , Vaishnavey S Raghunath , Mohammad R Zargar , Ratul Chowdhury
Metabolic modeling is essential for understanding the mechanistic bases of cellular metabolism in various organisms, from microbes to humans, and the design of fitter microbial strains. Metabolic networks focus on the overall fluxes through biochemical reactions that implicitly rely on several biochemical processes, such as active or diffusive uptake (or export) of nutrients (or metabolites), enzymatic turnover of metabolites, and metal-cofactor enzyme interactions. Despite independent progress in biomolecular simulations, they have yet to be integrated to inform metabolic models. We explore the evolution of computational metabolic modeling approaches, starting with flux balance analysis, dynamic, kinetic delineations of metabolic shifts in single organisms within cells and across tissues, and mutually informing, community-level modeling frameworks and provide a narrative to tie in biomolecular simulations and machine learning predictions to usher the new phase of structure-guided synthetic biology applications. These additions and prospective novel ones are likely to open hitherto untapped paradigms for optimizing/understanding metabolic pathways toward improving bioproduction of protein and small molecule products with downstream applications in health, environment, energy, and sustainability.
代谢建模对于理解从微生物到人类的各种生物的细胞代谢机制基础以及设计更适合的微生物菌株至关重要。代谢网络关注的是通过生化反应的总体通量,这些生化反应隐含地依赖于几种生化过程,如营养物质(或代谢物)的活性或弥漫性摄取(或输出)、代谢物的酶代谢以及金属-辅因子酶的相互作用。尽管在生物分子模拟方面取得了独立的进展,但它们尚未被整合到代谢模型中。我们探索了计算代谢建模方法的演变,从通量平衡分析、细胞内和组织内单个生物体代谢变化的动态、动力学描述、相互通知的社区级建模框架开始,并提供了一种叙事方式,将生物分子模拟和机器学习预测联系起来,引领结构导向合成生物学应用的新阶段。这些新添加的和前瞻性的新内容可能会为优化/理解代谢途径开辟迄今尚未开发的范例,从而改善蛋白质和小分子产品的生物生产,并在健康、环境、能源和可持续性方面进行下游应用。
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引用次数: 0
Engineering organoids as cerebral disease models 工程类器官作为大脑疾病模型。
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-01-14 DOI: 10.1016/j.copbio.2024.103253
Alexander Geidies , Marija LJ Medar , Hannes M Beyer
Cerebral organoids pioneered in replicating complex brain tissue architectures in vitro, offering a vast potential for human disease modeling. They enable the in vitro study of human physiological and pathophysiological mechanisms of various neurological diseases and disorders. The trajectory of technological advancements in brain organoid generation and engineering over the past decade indicates that the technology might, in the future, mature into indispensable solutions at the horizon of personalized and regenerative medicine. In this review, we highlight recent advances in the engineering of brain organoids as disease models and discuss some of the challenges and opportunities for future research in this rapidly evolving field.
脑类器官率先在体外复制复杂的脑组织结构,为人类疾病建模提供了巨大的潜力。它们使各种神经疾病和失调的人体生理和病理生理机制的体外研究成为可能。过去十年来,脑类器官生成和工程技术的进步轨迹表明,这项技术可能在未来成熟,成为个性化和再生医学领域不可或缺的解决方案。在这篇综述中,我们重点介绍了脑类器官工程作为疾病模型的最新进展,并讨论了这一快速发展领域未来研究的一些挑战和机遇。
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引用次数: 0
Effects of sewage sludge ash as a recycled phosphorus source on the soil microbiome 污泥灰作为再生磷源对土壤微生物群的影响。
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2025-01-14 DOI: 10.1016/j.copbio.2024.103254
Persephone Ma , Zhe Du , Qian Zhang , Michael Sadowsky , Carl Rosen
Ash byproducts have been used as soil amendments to recycle nutrients and modify soil properties such as pH or density. Interest in these practices has continued with increasing emphasis on sustainability, particularly regarding phosphorus reuse from incinerated sewage sludge. Given recent advancements in microbial analyses, the impacts of these practices can now be studied from the soil microbiome perspective. Next-generation DNA sequencing technologies provide information about the taxonomic composition of bacterial, archaeal, and fungal communities in a complex environment like soil. In this review, we discuss the results of microbial analyses of soils amended with recycled ash products, including a pilot study of sewage sludge incinerator ash as a phosphorus source. These results indicated that changes in soil microbial community composition require high amounts of amendment for detectible effects. Future research efforts could include more focused investigations into phosphorus-related microorganisms, such as phosphorus-solubilizing bacteria or polyphosphate-accumulating organisms.
灰烬副产品已被用作土壤改良剂,以循环养分和改变土壤性质,如pH或密度。人们继续对这些做法感兴趣,并日益强调可持续性,特别是从焚烧的污水污泥中重新利用磷。鉴于微生物分析的最新进展,这些做法的影响现在可以从土壤微生物组的角度进行研究。下一代DNA测序技术提供了诸如土壤等复杂环境中细菌、古细菌和真菌群落的分类组成信息。在这篇综述中,我们讨论了用再生灰产品改性土壤的微生物分析结果,包括污水污泥焚烧炉灰作为磷源的中试研究。这些结果表明,土壤微生物群落组成的变化需要大量的修正才能检测到效果。未来的研究工作可能包括对与磷有关的微生物进行更集中的研究,如溶磷细菌或聚磷生物。
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引用次数: 0
The role of wetland restoration in mediating phosphorus ecosystem services in agricultural landscapes 湿地恢复在农业景观磷生态系统服务中的中介作用
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-12-03 DOI: 10.1016/j.copbio.2024.103227
Julie R. Deslippe, Shannon B. Bentley
Phosphorus (P) is an essential plant nutrient that often limits agricultural productivity. Human activities, especially fertiliser use, have significantly altered the P cycle, causing eutrophication of aquatic systems. Restoring wetlands to agricultural landscapes can retain P, improving water quality and other ecosystem services. The effectiveness of P retention in restored wetlands varies with hydrology, soil properties, vegetation, and other factors. Challenges such as wetland P saturation, legacy P release, and plant invasions can limit P retention capacity. Furthermore, climate-related changes in temperature and hydrology have the potential to undermine long-term P retention. New methods such as Integrated Constructed Wetlands and new technologies that provide high-resolution temporal and spatial data enable managers to optimise multifunctionality in agricultural landscapes.
磷(P)是一种重要的植物养分,经常限制农业生产力。人类活动,特别是化肥的使用,极大地改变了磷循环,导致水生系统富营养化。将湿地恢复为农业景观可以保留磷,改善水质和其他生态系统服务。恢复湿地的保磷效果因水文、土壤性质、植被等因素而异。湿地磷饱和度、遗留磷释放和植物入侵等挑战会限制土壤的磷保留能力。此外,与气候相关的温度和水文变化有可能破坏磷的长期保留。综合人工湿地等新方法和提供高分辨率时空数据的新技术使管理人员能够优化农业景观的多功能。
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引用次数: 0
Path to zero emission of nitrous oxide in sewage treatment: is nitrification controllable or avoidable? 污水处理中氧化亚氮零排放之路:硝化是可控的还是可避免的?
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-12-03 DOI: 10.1016/j.copbio.2024.103230
Min Zheng , James Lloyd , Peter Wardrop , Haoran Duan , Tao Liu , Liu Ye , Bing-Jie Ni
Amid growing concerns over climate change, the need to reduce nitrous oxide (N2O) emissions from sewage treatment is more urgent than ever. Sewage treatment plants are significant sources of N2O due to its production as an intermediate in nitrification and its release into the air during aeration. Effective management of the nitrification process is therefore vital for controlling or eliminating these emissions. Despite substantial efforts to quantify and understand N2O emissions from sewage treatment, success in reducing them has been limited. This review discusses and proposes promising solutions for reducing N2O emissions in sewage treatment, evaluates the potential of various strategies, and identifies ways to accelerate their development and implementation.
随着人们对气候变化的担忧日益加剧,减少污水处理过程中氧化亚氮(N2O)排放的需求比以往任何时候都更加迫切。污水处理厂是N2O的重要来源,因为它在硝化过程中作为一种中间体产生,并在曝气过程中释放到空气中。因此,有效管理硝化过程对于控制或消除这些排放至关重要。尽管在量化和了解污水处理产生的一氧化二氮排放方面做出了大量努力,但在减少一氧化二氮排放方面取得的成功仍然有限。本综述讨论并提出了减少污水处理中N2O排放的有希望的解决方案,评估了各种战略的潜力,并确定了加速其开发和实施的方法。
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引用次数: 0
Multifunctionality of alkaline phosphatase in ecology and biotechnology 碱性磷酸酶在生态与生物技术中的多功能性研究
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-11-30 DOI: 10.1016/j.copbio.2024.103229
Daniel E M Saavedra , Federico Baltar
Multifunctional enzymes can significantly impact biotechnological applications by performing activities beyond their primary functions. This review explores the role of the multifunctionality of alkaline phosphatase, a key enzyme in the phosphorus cycle, focusing on the molecular mechanisms influencing its activity and its biotechnological potential. We argue that understanding these aspects can enhance the utility of alkaline phosphatase in research and industry, fostering innovations in enzyme engineering, environmental biotechnology, and metabolic engineering. By exploring enzyme promiscuity, we highlight alkaline phosphatase’s versatility, paving the way for advancements in sustainable agriculture, environmental remediation, and clinical diagnostics. Further research will unlock new applications and catalytic efficiencies, driving forward ecological and biotechnological progress.
多功能酶可以通过执行其主要功能之外的活动来显著影响生物技术应用。本文综述了磷循环中的关键酶碱性磷酸酶的多功能性作用,重点介绍了影响其活性的分子机制及其生物技术潜力。我们认为,了解这些方面可以提高碱性磷酸酶在研究和工业中的应用,促进酶工程、环境生物技术和代谢工程的创新。通过探索酶的混杂性,我们强调了碱性磷酸酶的多功能性,为可持续农业、环境修复和临床诊断的进步铺平了道路。进一步的研究将开启新的应用和催化效率,推动生态和生物技术的进步。
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引用次数: 0
Toward a circular nitrogen bioeconomy: integrating nitrogen bioconcentration, separations, and high-value products for nitrogen recovery 实现循环氮生物经济:整合氮生物富集、分离和高价值产品以实现氮回收
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-11-27 DOI: 10.1016/j.copbio.2024.103225
Edward Apraku , McKenna Farmer , Chayse Lavallais , Danna A Soriano , Justin Notestein , Keith Tyo , Jennifer Dunn , William A Tarpeh , George F Wells
Recovering nitrogen (N) from wastewater is a potential avenue to reduce reliance on energy-intensive synthetic nitrogen fixation via Haber-Bosch and subsequent treatment of N-laden wastewaters through nitrification–denitrification. However, many technical and economic factors hinder widespread application of N recovery, particularly low N concentrations in municipal wastewater, paucity of high-efficiency separations technologies compatible with biological treatment, and suitable products and markets for recovered N. In this perspective, we contextualize the challenges of N recovery today, propose integrated biological and physicochemical technologies to improve selective and tunable N recovery, and propose an expanded product portfolio for recovered N products beyond fertilizers. We highlight cyanophycin, an N-rich biopolymer produced by a diverse range of bacteria, as a potential target for N bioconcentration and downstream recovery from municipal wastewater. This perspective emphasizes the equal importance of integrated biological systems, physicochemical separations, and market assessment in advancing nitrogen recovery from wastewater.
从废水中回收氮(N)是减少对通过哈伯-博施(Haber-Bosch)进行高能耗合成固氮以及随后通过硝化-反硝化处理含氮废水的依赖的一个潜在途径。然而,许多技术和经济因素阻碍了氮回收的广泛应用,特别是城市污水中氮浓度低、缺乏与生物处理兼容的高效分离技术以及氮回收的合适产品和市场。在本视角中,我们介绍了当前氮回收所面临的挑战,提出了改进选择性和可调谐氮回收的综合生物和物理化学技术,并提出了除肥料之外的氮回收产品的扩展产品组合。我们强调,由多种细菌产生的富含氮的生物聚合物叶绿素是氮的生物富集和从城市污水中进行下游回收的潜在目标。这一观点强调了综合生物系统、理化分离和市场评估在推进废水氮回收方面的同等重要性。
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引用次数: 0
Tissue engineering in the agri-food industry: current status, socio-economic overview and regulatory compliance 农业食品工业中的组织工程:现状、社会经济概况和合规性
IF 7.1 2区 工程技术 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-11-26 DOI: 10.1016/j.copbio.2024.103228
Brian Senyange , Joshua Wesana , Guido Van Huylenbroeck , Xavier Gellynck , Hans De Steur
The growing global demand for sustainable and safe food is a major challenge that increases the need for advanced alternatives such as tissue engineering (TE). TE offers promising solutions by improving yields, nutritional value and resilience of crops while also producing cultivated meat that reduces the environmental impact of livestock farming. The market potential for TE in meat production is considerable, and significant growth is expected. However, the regulatory framework for these innovations is developing slowly, and approval procedures vary across regions. This overview critically assesses the current applications of TE in the agri-food sector, their socio-economic potential and the regulatory challenges. It emphasises the need for harmonised, flexible and adaptive policies to effectively integrate engineered foods into the market.
全球对可持续安全食品日益增长的需求是一项重大挑战,这也增加了对组织工程(TE)等先进替代品的需求。组织工程技术通过提高农作物的产量、营养价值和抗逆性,同时生产可减少畜牧业对环境影响的栽培肉类,提供了前景广阔的解决方案。组织工程技术在肉类生产中的市场潜力巨大,预计将出现大幅增长。然而,这些创新技术的监管框架发展缓慢,各地区的审批程序也不尽相同。本综述批判性地评估了 TE 目前在农业食品领域的应用、其社会经济潜力和监管挑战。它强调需要制定统一、灵活和适应性强的政策,以便将工程食品有效地融入市场。
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引用次数: 0
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Current opinion in biotechnology
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