Biotechnology advances最新文献

{"title":"Mapping the architecture of animal toxin systems by mass spectrometry imaging","authors":"Maik Damm ,&nbsp;Andreas Vilcinskas ,&nbsp;Tim Lüddecke","doi":"10.1016/j.biotechadv.2025.108548","DOIUrl":"10.1016/j.biotechadv.2025.108548","url":null,"abstract":"<div><div>Animal toxins are proteins, peptides or metabolites that cause negative effects against predators, prey or competitors following contact or injection. They work by interacting with enzymes, receptors and other targets causing pain, debilitation or leading even to death. Their biological significance and pharmacological effects in humans make them interesting to researchers, but much remains to be learned about their mechanisms of action, storage, tissue-specific distribution and maturation. Mass spectrometry imaging (MSI), a technique that determines the spatial distribution of molecules based on their molecular mass, is uniquely positioned to answer these key questions and pioneering studies have already confirmed its potential impact on the field of zootoxinology. We provide the first comprehensive review of MSI as a means to study animal toxins, the lessons learned thus far, and potential future applications. This fills an important gap in the literature and will facilitate future work on the structure, function, evolutionary history and medical uses of animal toxins.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"81 ","pages":"Article 108548"},"PeriodicalIF":12.1,"publicationDate":"2025-03-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143563442","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Bioinformatics assisted construction of the link between biosynthetic gene clusters and secondary metabolites in fungi","authors":"Hua-Wei Lv ,&nbsp;Jia-Gui Tang ,&nbsp;Bin Wei ,&nbsp;Meng-Di Zhu ,&nbsp;Hua-Wei Zhang ,&nbsp;Zhong-Bo Zhou ,&nbsp;Bo-Yi Fan ,&nbsp;Hong Wang ,&nbsp;Xing-Nuo Li","doi":"10.1016/j.biotechadv.2025.108547","DOIUrl":"10.1016/j.biotechadv.2025.108547","url":null,"abstract":"<div><div>Fungal secondary metabolites are considered as important resources for drug discovery. Despite various methods being employed to facilitate the discovery of new fungal secondary metabolites, the trend of identifying novel secondary metabolites from fungi is inevitably slowing down. Under laboratory conditions, the majority of biosynthetic gene clusters, which store information for secondary metabolites, remain inactive. Therefore, establishing the link between biosynthetic gene clusters and secondary metabolites would contribute to understanding the genetic logic underlying secondary metabolite biosynthesis and alleviating the current challenges in discovering novel natural products. Bioinformatics methods have garnered significant attention due to their powerful capabilities in data mining and analysis, playing a crucial role in various aspects. Thus, we have summarized successful cases since 2016 in which bioinformatics methods were utilized to establish the link between fungal biosynthetic gene clusters and secondary metabolites, focusing on their biosynthetic gene clusters and associated secondary metabolites, with the goal of aiding the field of natural product discovery.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"81 ","pages":"Article 108547"},"PeriodicalIF":12.1,"publicationDate":"2025-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143536403","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Exploring biotechnology for plastic recycling, degradation and upcycling for a sustainable future.","authors":"Xu Liu, Helen Park, Yannic Sebastian Ackermann, Luc Avérous, Hendrik Ballerstedt, Werner Besenmatter, Blas Blázquez, Uwe T Bornscheuer, Yannick Branson, William Casey, Víctor de Lorenzo, Weiliang Dong, Tilman Floehr, Manuel S Godoy, Yu Ji, Andreas Jupke, Jürgen Klankermayer, David San León, Luo Liu, Xianrui Liu, Yizhi Liu, Maria T Manoli, Esteban Martínez-García, Tanja Narancic, Juan Nogales, Kevin O'Connor, Ole Osterthun, Rémi Perrin, M Auxiliadora Prieto, Eric Pollet, Alexandru Sarbu, Ulrich Schwaneberg, Haijia Su, Zequn Tang, Till Tiso, Zishuai Wang, Ren Wei, Gina Welsing, Nick Wierckx, Birger Wolter, Gang Xiao, Jianmin Xing, Yilin Zhao, Jie Zhou, Tianwei Tan, Lars M Blank, Min Jiang, Guo-Qiang Chen","doi":"10.1016/j.biotechadv.2025.108544","DOIUrl":"https://doi.org/10.1016/j.biotechadv.2025.108544","url":null,"abstract":"<p><p>The persistent demand for plastic commodities, inadequate recycling infrastructure, and pervasive environmental contamination due to plastic waste present a formidable global challenge. Recycling, degradation and upcycling are the three most important ways to solve the problem of plastic pollution. Sequential enzymatic and microbial degradation of mechanically and chemically pre-treated plastic waste can be orchestrated, followed by microbial conversion into value-added chemicals and polymers through mixed culture systems. Furthermore, plastics-degrading enzymes can be optimized through protein engineering to enhance their specific binding capacities, stability, and catalytic efficiency across a broad spectrum of polymer substrates under challenging high salinity and temperature conditions. Also, the production and formulation of enzyme mixtures can be fine-tuned to suit specific waste compositions, facilitating their effective deployment both in vitro, in vivo and in combination with chemical technologies. Here, we emphasized the comprehensive strategy leveraging microbial processes to transform mixed plastics of fossil-derived polymers such as PP, PE, PU, PET, and PS, most notably polyesters, in conjunction with potential biodegradable alternatives such as PLA and PHA. Any residual material resistant to enzymatic degradation can be reintroduced into the process loop following appropriate physicochemical treatment.</p>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":" ","pages":"108544"},"PeriodicalIF":12.1,"publicationDate":"2025-02-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143536408","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Expanding the cryoprotectant toolbox in biomedicine by multifunctional antifreeze peptides","authors":"Shiva Hemmati","doi":"10.1016/j.biotechadv.2025.108545","DOIUrl":"10.1016/j.biotechadv.2025.108545","url":null,"abstract":"<div><div>The global cryopreservation market size rises exponentially due to increased demand for cell therapy-based products, assisted reproductive technology, and organ transplantation. Cryoprotectants (CPAs) are required to reduce ice-related damage, osmotic cell injury, and protein denaturation. Antioxidants are needed to hamper membrane lipid peroxidation under freezing stress, and antibiotics are added to the cryo-solutions to prevent contamination. The vitrification process for sized organs requires a high concentration of CPA, which is hardly achievable using conventional penetrating toxic CPAs like DMSO. Antifreeze peptides (AFpeps) are biocompatible CPAs leveraging inspiration from nature, such as freeze-tolerant and freeze-avoidant organisms, to circumvent logistic limitations in cryogenic conditions. This study aims to introduce the advances of AFpeps with cell-penetrating, antioxidant, and antimicrobial characteristics. We herein revisit the placement of AFpeps in the biobanking of cancer cells, immune cells, stem cells, blood cells, germ cells (sperms and oocytes), and probiotics. Implementing low-immunogenic AFpeps for allograft cryopreservation minimizes HLA mismatching risk after organ transplantation. Applying AFpeps to formulate bioinks with optimal rheology in extrusion-based 3D cryobiopriners expedites the bench-to-beside transition of bioprinted scaffolds. This study advocates that the fine-tuned synthetic or insect-derived AFpeps, forming round blunt-shape crystals, are biomedically broad-spectrum, and cell-permeable AFpeps from marine and plant sources, which result in sharp ice crystals, are appropriate for cryosurgery. Perspectives of the available room for developing peptide mimetics in favor of higher activity and stability and peptide-functionalized nanoparticles for enhanced delivery are delineated. Finally, antitumor immune activation by cryoimmunotherapy as an autologous in-vivo tumor lysate vaccine has been illustrated.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"81 ","pages":"Article 108545"},"PeriodicalIF":12.1,"publicationDate":"2025-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143536406","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Targeted delivery systems of siRNA based on ionizable lipid nanoparticles and cationic polymer vectors","authors":"Ziying Yao ,&nbsp;Taiqing Liu ,&nbsp;Jingwen Wang ,&nbsp;Yunhai Fu ,&nbsp;Jinhua Zhao ,&nbsp;Xiaoyu Wang ,&nbsp;Yinqi Li ,&nbsp;Xiaodong Yang ,&nbsp;Zhiyao He","doi":"10.1016/j.biotechadv.2025.108546","DOIUrl":"10.1016/j.biotechadv.2025.108546","url":null,"abstract":"<div><div>As an emerging therapeutic tool, small interfering RNA (siRNA) had the capability to down-regulate nearly all human mRNAs via sequence-specific gene silencing. Numerous studies have demonstrated the substantial potential of siRNA in the treatment of broad classes of diseases. With the discovery and development of various delivery systems and chemical modifications, six siRNA-based drugs have been approved by 2024. The utilization of siRNA-based therapeutics has significantly propelled efforts to combat a wide array of previously incurable diseases and advanced at a rapid pace, particularly with the help of potent targeted delivery systems. Despite encountering several extracellular and intracellular challenges, the efficiency of siRNA delivery has been gradually enhanced. Currently, targeted strategies aimed at improving potency and reducing toxicity played a crucial role in the druggability of siRNA. This review focused on recent advancements on ionizable lipid nanoparticles (LNPs) and cationic polymer (CP) vectors applied for targeted siRNA delivery. Based on various types of targeted modifications, we primarily described delivery systems modified with receptor ligands, peptides, antibodies, aptamers and amino acids. Finally, we discussed the challenges and opportunities associated with siRNA delivery systems based on ionizable LNPs and CPs vectors.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"81 ","pages":"Article 108546"},"PeriodicalIF":12.1,"publicationDate":"2025-02-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143522534","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Biosynthesis and bioactivities of triterpenoids from Centella asiatica: Challenges and opportunities","authors":"Weizhu Zeng ,&nbsp;Hongbiao Li ,&nbsp;Shike Liu ,&nbsp;Zhengshan Luo ,&nbsp;Jian Chen ,&nbsp;Jingwen Zhou","doi":"10.1016/j.biotechadv.2025.108541","DOIUrl":"10.1016/j.biotechadv.2025.108541","url":null,"abstract":"<div><div><em>Centella asiatica</em> (L.) Urban is an herbaceous perennial plant that has long been widely used in traditional medicine, due to its diverse wound-healing, neuroprotection, antioxidant and anti-inflammatory properties. The major functional bioactive secondary metabolites are the triterpenoids asiatic acid, madecassic acid, asiaticoside and madecassoside, collectively known as centellosides. Current extraction methods for <em>C. asiatica</em> are unable to meet market demand for extracts and pure functional components. Biotechnological approaches based on synthetic biology and microbial cell factories are a promising alternative. This review summarises the major secondary metabolites and their biological activities, and the biosynthetic pathway of functional triterpenoids in <em>C. asiatica.</em> Biotechnological production of centellosides is also described, including <em>in vitro</em> plant cultures and construction of microbial cell factories. Finally, current challenges and future perspectives for sustainable production of centellosides are discussed, and guidelines for future engineering are proposed.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"80 ","pages":"Article 108541"},"PeriodicalIF":12.1,"publicationDate":"2025-02-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143454927","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Alpha ketoacid decarboxylases: Diversity, structures, reaction mechanisms, and applications for biomanufacturing of platform chemicals and fuels.","authors":"Khanh Ha, Seunghyun Ryu, Cong T Trinh","doi":"10.1016/j.biotechadv.2025.108531","DOIUrl":"https://doi.org/10.1016/j.biotechadv.2025.108531","url":null,"abstract":"<p><p>In living cells, alpha ketoacid decarboxylases (KDCs, EC 4.1.1.-) are a class of enzymes that convert alpha ketoacids into aldehydes through decarboxylation. These aldehydes serve as either drop-in chemicals or precursors for the biosynthesis of alcohols, carboxylic acids, esters, and alkanes. These compounds play crucial roles in cellular metabolism and fitness and the bioeconomy, facilitating the sustainable and renewable biomanufacturing of platform chemicals and fuels. This review explores the diversity and classification of KDCs, detailing their structures, mechanisms, and functions. We highlight recent advancements in repurposing KDCs to enhance their efficiency and robustness for biomanufacturing. Additionally, we present modular KDC-dependent metabolic pathways for the microbial biosynthesis of aldehydes, alcohols, carboxylic acids, esters, and alkanes. Finally, we discuss recent development in the modular cell engineering technology that can be potentially applied to harness the diversity of KDC-dependent pathways for biomanufacturing platform chemicals and fuels.</p>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":" ","pages":"108531"},"PeriodicalIF":12.1,"publicationDate":"2025-02-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143424944","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Chimeric enzymes in the pulp and paper making industry: Current developments","authors":"Abdullah Arsalan ,&nbsp;Yuvaraj Ravikumar ,&nbsp;Xinrui Tang ,&nbsp;Zijing Cao ,&nbsp;Mei Zhao ,&nbsp;Wenjing Sun ,&nbsp;Xianghui Qi","doi":"10.1016/j.biotechadv.2025.108530","DOIUrl":"10.1016/j.biotechadv.2025.108530","url":null,"abstract":"<div><div>The pulp and paper (P&amp;P) industry plays a vital role in supporting the social and economic progress of a country by supplying essential commodities. Conventional P&amp;P processing often consumes significant energy and use chemical agents to produce hazardous intermediates. The use of enzymes in the P&amp;P industry has significantly reduced both the chemical and energy demands during processing. A variety of enzyme combination cocktails are used to perform multiple functions in a single step, but often fail to operate synergistically because of significant differences in operational conditions. This lack of synergy under various operating conditions highlights the need for engineered chimeric enzymes. Moreover, enzyme engineering approaches enable enzymes to perform catalysis in sub-optimal environment. Enzymes have been engineered to improve their catalytic properties and enhance operational stability. Designing multifunctional or chimeric enzymes can function simultaneously across diverse operational conditions. Chimeric enzymes enable effective synergistic action of multiple enzymes in the P&amp;P industry. This review aims to provide clear insights into the selective development of chimeric enzymes using enzyme engineering approaches for their effective use in the P&amp;P industry.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"79 ","pages":"Article 108530"},"PeriodicalIF":12.1,"publicationDate":"2025-02-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143395144","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Post-translational assembly of multi-functional antibody","authors":"Baizhen Gao ,&nbsp;Qing Sun","doi":"10.1016/j.biotechadv.2025.108533","DOIUrl":"10.1016/j.biotechadv.2025.108533","url":null,"abstract":"<div><div>The advent of multi-specific antibodies has introduced a significant advantage over traditional monoclonal antibody therapeutics by engaging multiple targets and pathways. This review delves into the post-translational assembly techniques for multi-specific antibodies, highlighting the innovations and challenges associated with approaches of chemical conjugation, oligonucleotide-mediated assembly, and protein-protein interactions. Chemical conjugation methods have evolved to enhance the assembly process's specificity and flexibility, enabling transient engagement and versatile antibody formats. Meanwhile, oligonucleotide-mediated assembly leverages the precision of Watson–Crick base pairing, granting unmatched control over the antibody's structure and functional orientation. Additionally, protein-protein interaction strategies, notably through SpyTag/SpyCatcher systems, present a direct assembly approach without necessitating ancillary modifications, streamlining the production process. This review summarizes the significance of these methodologies in generating antibodies with diverse structures and multi-target engagement capabilities, underscoring their potential in improving therapeutic efficacy and reducing production complexity.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"80 ","pages":"Article 108533"},"PeriodicalIF":12.1,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143390059","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Computational advances in biosynthetic gene cluster discovery and prediction","authors":"Sisi Zhu ,&nbsp;Hongquan Xu ,&nbsp;Yuhong Liu ,&nbsp;Yanfeng Hong ,&nbsp;Haowen Yang ,&nbsp;Changli Zhou ,&nbsp;Lin Tao","doi":"10.1016/j.biotechadv.2025.108532","DOIUrl":"10.1016/j.biotechadv.2025.108532","url":null,"abstract":"<div><div>Biosynthetic gene clusters (BGCs) are groups of clustered genes found in bacteria, fungi, and some plants and animals that are crucial for synthesizing secondary metabolites. In recent years, genome mining of BGCs has emerged as a prominent research focus, particularly in natural product discovery and drug development. Compared to traditional experimental methods, applying computational techniques has significantly enhanced the efficiency of BGC identification and annotation, thereby facilitating the discovery of novel metabolites. The advent of artificial intelligence, particularly machine learning models and more advanced deep learning algorithms, has significantly enhanced both the speed and precision of BGC mining. This review offers a comprehensive introduction to currently developed BGC databases and prediction tools, highlighting the potential of machine learning technologies in BGC mining. Additionally, it summarizes the challenges computational methods face in this area and discusses future research directions.</div></div>","PeriodicalId":8946,"journal":{"name":"Biotechnology advances","volume":"79 ","pages":"Article 108532"},"PeriodicalIF":12.1,"publicationDate":"2025-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143381662","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"工程技术","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}