Adnan Taan Al khafaji, Ali Mohammed Barakat, Akram jooda Al Zaidy, Ali Adnan Taan, Raed Fanoukh Aboqader Al-Aouadi
{"title":"Recent Advances in Cardiac Tissue Engineering: Innovations and Future Directions","authors":"Adnan Taan Al khafaji, Ali Mohammed Barakat, Akram jooda Al Zaidy, Ali Adnan Taan, Raed Fanoukh Aboqader Al-Aouadi","doi":"10.1002/biot.70116","DOIUrl":"10.1002/biot.70116","url":null,"abstract":"<div>\u0000 \u0000 <section>\u0000 \u0000 <p>Cardiac tissue engineering (CTE) is a rapidly evolving field that combines cells, scaffolds, and biofabrication methods to repair damaged heart tissue. New technologies have made it possible to utilize AI in designing cardiac patches and 4D bioprinting to create biomaterials that respond to time. These procedures are a big step forward from traditional ones since they offer more accuracy, flexibility, and the possibility of therapies that are tailored to each patient. This review talks about the latest developments in cellular sources, biomaterials, and bioprinting platforms, as well as immunological, regulatory, and translational issues. We show a realistic way forward for using CTE in clinical settings by looking at both its strengths and weaknesses.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Summary</h3>\u0000 \u0000 <div>\u0000 <ul>\u0000 \u0000 <li>Innovative biomaterials enhance cardiac tissue regeneration.</li>\u0000 \u0000 <li>3D bioprinting revolutionizes cardiac tissue fabrication.</li>\u0000 \u0000 <li>Patient-specific stem cell therapies offer personalized solutions.</li>\u0000 \u0000 <li>AI and 4D printing advance tissue design and clinical applications.</li>\u0000 </ul>\u0000 </div>\u0000 </section>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144990756","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}
{"title":"Organoid-Based Skin and Lung Biofilm Models, a Cutting-Edge Approach for Anti-Biofilm Research: A Mini Review","authors":"Nidhi Verma, Vishnu Agarwal","doi":"10.1002/biot.70109","DOIUrl":"10.1002/biot.70109","url":null,"abstract":"<div>\u0000 \u0000 <p>Bacterial biofilms contribute to 60%–80% of human infections, exhibiting resistance to traditional antibiotic treatment and contributing to chronic, relapsing diseases, particularly in healthcare settings. Traditional in-vitro and in-vivo models often fail to accurately replicate the human microenvironment. This mini review highlights the emerging use of organoid-based models that are three-dimensional, self-organizing structures derived from stem cells. These biomimetic systems closely resemble native organs, providing a physiologically appropriate platform for anti-biofilm efficacy assessment, especially skin and lung, offering a more accurate environment for assessing microbial colonization, persistence, and therapeutic response. This paper summarizes recent advances in the development of effective antimicrobial testing methods for biofilm organoid models, focusing on human-derived proteins and biopolymers. We have discussed how these organoid models, specifically skin and lung organoids, provide insights into host-pathogen dynamics and antimicrobial responses. By bridging the gap between the clinical phase and classical experimental modeling, the organoid model is a powerful tool for transforming and accelerating translational antimicrobial research.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144935296","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}
Chamika Harshani Algama, Tracy A. Bruce-Tagoe, Joy Adetunji, Tongye Shen, Michael K. Danquah, Soma Dhakal
{"title":"Integrating FRET and Molecular Dynamics Simulation for Single-Molecule Aptameric Detection of Staphylococcus aureus IsdA Surface Protein","authors":"Chamika Harshani Algama, Tracy A. Bruce-Tagoe, Joy Adetunji, Tongye Shen, Michael K. Danquah, Soma Dhakal","doi":"10.1002/biot.70101","DOIUrl":"10.1002/biot.70101","url":null,"abstract":"<p><i>Staphylococcus aureus</i> is ranked among the top five most common foodborne pathogens affecting public health and the economy worldwide. To improve detection and reduce diagnostic burdens, several detection methods from traditional culture-based techniques to biosensing platforms have evolved. Among several markers, surface proteins are considered to be the most important markers due to the specific roles they play in the survival and colonization of the bacterium on hosts. Here, we have developed a detection platform for a key surface protein, iron-regulated surface determinant protein A (IsdA), using a combination of computationally developed aptamer and single-molecule fluorescence resonance energy transfer (smFRET). Computationally generated RNA aptamer incorporated into the FRET-based sensor show high specificity detection of IsdA with a detection limit down to 0.6 pM and dynamic range extending to ∼10 nM. Molecular dynamics (MD) simulations show distinct conformational flexibility of the unbound aptamer and a reduced flexibility for the aptamer-IsdA complex, corresponding to the experimentally observed higher FRET efficiencies. The FRET-based single-molecule aptasensor that we developed has great potential for rapid monitoring <i>S. aureus</i>. Further, the developed approach has the potential to be broadly applicable across diverse fields of biotechnology including environmental monitoring, forensic analysis, and clinical diagnostics.</p>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/biot.70101","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144935295","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}
Pedro Vicente, Ana Meliciano, Cláudia Diniz, Artemis Charalambidou, Ana Paula Terrasso, Catarina Freitas, Andrea Ducci, Paula M. Alves, Martina Micheletti, António Roldão, Margarida Serra
{"title":"Engineering Characterization of Small-Scale Bioreactors for Large-Scale hiPSC Production","authors":"Pedro Vicente, Ana Meliciano, Cláudia Diniz, Artemis Charalambidou, Ana Paula Terrasso, Catarina Freitas, Andrea Ducci, Paula M. Alves, Martina Micheletti, António Roldão, Margarida Serra","doi":"10.1002/biot.70106","DOIUrl":"10.1002/biot.70106","url":null,"abstract":"<p>Human induced pluripotent stem cells (hiPSC) have great potential for cell therapy applications. To meet the global demand for hiPSC-derived cell therapies, the implementation of scalable technologies, such as stirred-tank bioreactors (STB), is essential. However, the addition of physical cues, including shear stress, can impact cell viability and proliferation and requires precise tuning. In this work, we used an engineering characterization approach to estimate the impeller power number (0.5) and investigate the mixing and suspension dynamics in the first generation of small-scale (0.2 L) DASGIP bioreactors (DASGIP-STB). By keeping constant power input per volume (<i>P/V</i> = 4.6 W/m<sup>3</sup>) as a scale-up criteria, we successfully transferred a hiPSC expansion process to a 0.2 L single-use STB (BioBLU-STB) and scaled it up to a single-use 2 L STB (Univessel-STB) without compromising cell expansion, viability, and metabolism, as well as hiPSC quality attributes, including their pluripotent phenotype and differentiation potential.</p>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://analyticalsciencejournals.onlinelibrary.wiley.com/doi/epdf/10.1002/biot.70106","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144930065","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}
Mina Ying Min Wu, Frances Rocamora, Caressa M. Robinson, Seunghyeon Shin, Svetlana Maurya, Eric A. Toth, Thomas R. Fuerst, Nathan E. Lewis
{"title":"Enhanced Production of HCV E1E2 Subunit Vaccine Candidates via Protein-Protein Interaction Identification in Glycoengineered CHO Cells","authors":"Mina Ying Min Wu, Frances Rocamora, Caressa M. Robinson, Seunghyeon Shin, Svetlana Maurya, Eric A. Toth, Thomas R. Fuerst, Nathan E. Lewis","doi":"10.1002/biot.70112","DOIUrl":"10.1002/biot.70112","url":null,"abstract":"<div>\u0000 \u0000 <p>Hepatitis C Virus (HCV) is a pervasive bloodborne virus and the leading cause of chronic liver disease and cancer. Thus, the development of an HCV vaccine is of great importance. Prior work has developed candidate vaccines, including more potent glycoengineered viral proteins and secreted forms of the E1E2 envelope heterodimer (sE1E2). However, efforts to express them recombinantly in Chinese hamster ovary (CHO) cells have resulted in very low titers. To address this challenge, here we employed a multi-omics approach to identify protein interactors that may enhance the secretion of an sE1E2 vaccine candidate. We detected protein-protein interactions (PPIs) using the Biotinylation by Antibody Recognition (BAR) assay and integrated these data with RNA-Seq. Through this, we identified and overexpressed proteins that interact with sE1E2 in CHO cells. Among these, CUL4A and YWHAH enhanced sE1E2 secretion in our glycoengineered CHO cells. The integration of omics techniques and genetic engineering in this study provides valuable insights into the host cell proteins that interact with the HCV E1E2 heterodimer, and how they may be harnessed to improve protein secretion in CHO cells to enable more affordable and accessible biotherapeutics.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144930066","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}
{"title":"Microbial Production of Purine Nucleotides, Nucleosides, and Nucleobases: Advances and Perspectives","authors":"Zhilin Ouyang, Kailin You, Mengjiao Mi, Ying Lin, Suiping Zheng","doi":"10.1002/biot.70115","DOIUrl":"10.1002/biot.70115","url":null,"abstract":"<div>\u0000 \u0000 <p>Nucleotides are indispensable biomolecules, playing vital roles in genetic information transfer, energy metabolism, cofactor biosynthesis, and cellular communication. These compounds (including purine nucleotides, nucleosides, and nucleobases) have become increasingly valuable as foodstuff additives and pharmaceutical intermediates. Although microbial production offers an eco-friendly alternative, its efficiency remains constrained by complex metabolic networks and growth-production tradeoffs. Systems metabolic engineering has emerged as a powerful approach to optimize purine biosynthesis in microorganisms. This review provides a systematic synthesis of recent advances in microbial purine biosynthesis. First, a comprehensive analysis of purine biosynthetic pathways and their regulatory networks in industrial microorganisms are presented, along with a comparative evaluation of current metabolic engineering approaches. Second, systems metabolic engineering strategies for production enhancement are examined, focusing on multi-omics integration, metabolic flux analysis, genome-scale metabolic models, dynamic regulation, and high-throughput screening platforms. Finally, the major challenges confronting efficient microbial production of purine compounds are identified, with proposed strategies to overcome these limitations.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144930067","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}
{"title":"Characterization, Modification, and Preliminary Application of a Novel Pectate Lyase from Paenibacillus tarimensis in Ramie Degumming","authors":"Yukun Chen, Ying Huo, Shiming Tang, Ying Lin, Xinying Zhang, Suiping Zheng","doi":"10.1002/biot.70110","DOIUrl":"10.1002/biot.70110","url":null,"abstract":"<div>\u0000 \u0000 <p>Ramie fiber, an exceptional natural textile material, requires degumming treatment to obtain spinnable mature fibers. Pectate lyase stands as the most effective enzyme for degumming by specifically removing pectin that binds multiple gummy components. However, commercial enzyme cocktails often contain cellulase activities causing significant fiber damage. Furthermore, the high-temperature and strongly alkaline conditions inherent to ramie processing render conventional pectate lyases incompatible with this specialized industrial environment. Consequently, developing thermostable and alkali-tolerant pectate lyases tailored for ramie degumming holds critical importance. This study identified a novel alkali-thermostable pectate lyase (pel114) from <i>Paenibacillus tarimensis</i> and achieved its heterologous expression in <i>Pichia pastoris</i>. Biochemical characterization revealed that pel114 exhibits optimal activity(910 U·mg<sup>−1</sup>) at 60°C and pH 10.0, while maintaining remarkable stability across a broad pH range (6.0–12.0). Through integrated strategies combining FireProt-predicted stability hotspots, molecular dynamics simulations of flexible regions, and consensus mutation design, we engineered the V467P/A566P double mutant, demonstrating superior thermostability, with a specific activity of 891 U·mg<sup>−1</sup> against polygalacturonic acid. The mutant displayed a 65°C half-life of 429.9 min—a 10-fold enhancement over the wild type (WT) (42.9 min). These findings present a promising biocatalyst with substantial potential for advancing enzymatic degumming technologies in ramie processing.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144927522","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}
{"title":"CO2 Sequestration Potential and Soil Improvement Effects by Carbon-Fixing Bacteria Isolated From Degraded Soils in Shendong Coal Mining Area Located in Northwest China","authors":"Yuxin Han, Yichi Ma, Chenhao Wu, Bing Xiao, Jiahui Hu, Nengxiang Shu, Mingyu Cheng, Jianli Jia","doi":"10.1002/biot.70108","DOIUrl":"10.1002/biot.70108","url":null,"abstract":"<div>\u0000 \u0000 <p>Efficient carbon-sequestering microorganisms are crucial for enhancing soil quality and reducing carbon emissions, particularly in semiarid coal mining areas. In this study, we analyzed the soil carbon-fixing microbial taxa and pathways in the Shendong mining area via high-throughput sequencing, and concluded that their main carbon sequestering pathway is the reduced citrate cycle (rTCA cycle), which has the potential for microbial carbon sequestration. Bacterial strains with high CO<sub>2</sub> sequestration efficiency were isolated and identified, and their potential for improving soil carbon storage and quality was assessed. Through a systematic process of isolation, identification, and functional assessment, three dominant strains, <i>Streptomyces marokkonensis</i> FC1, <i>Streptomyces viridochromogenes</i> FC2, <i>and Dyadobacter endophyticus</i> FC3 with significant CO<sub>2</sub> sequestration capacity were obtained. Their adaptability and carbon fixation efficiency were confirmed through physiological, biochemical, and genetic analyses. The results from indoor <sup>13</sup>C isotope labeling experiments and 42-day soil improvement experiments demonstrated that CO<sub>2</sub> sequestration and soil improvement effects were achieved in coal mine soils under semiarid conditions. Among the strains, FC2 presented the highest carbon fixation potential and soil improvement efficiency at approximately 8% soil water content. This highlights the potential application of carbon-fixing bacteria in microbial-based strategies for the ecological restoration of degraded mining soils.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144923691","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}
Jing Wen, Lingling Huang, Danping Wang, Guoqiang Fan, Xiaojing Yang
{"title":"UV Mutagenesis Enhances DHA Biosynthesis in Schizochytrium sp. via Metabolic Reprogramming","authors":"Jing Wen, Lingling Huang, Danping Wang, Guoqiang Fan, Xiaojing Yang","doi":"10.1002/biot.70107","DOIUrl":"10.1002/biot.70107","url":null,"abstract":"<div>\u0000 \u0000 <p><i>Schizochytrium</i> sp., a marine alga prized for docosahexaenoic acid (DHA), was subjected to UV mutagenesis to boost industrial yields. The stable mutant UV1-3 achieved 5.01 g/L DHA—40.34% higher than wild-type S31. Transcriptomic and metabolomic analyses demonstrated that UV1-3 promotes docosahexaenoic acid (DHA) biosynthesis through coordinated metabolic regulation. Downregulation of key fatty acid synthase (FAS) pathway genes (<i>ACSL</i>, <i>SLC27A2</i>, <i>FabI</i>) reduced substrate competition for DHA precursors. Concurrently, RT-qPCR confirmed the upregulation of core polyketide synthase (PKS) pathway genes (<i>orfA</i>, <i>orfB</i>, <i>orfC</i>), directly enhancing DHA production. Furthermore, suppressed oxidative phosphorylation (evidenced by <i>COX</i> downregulation) and redirected carbon/nitrogen flux—achieved through diminished tricarboxylic acid (TCA) cycle activity (via downregulation of <i>HAL</i> and <i>proC</i>)—collectively favored DHA accumulation. These findings establish UV1-3 as a high-yielding industrial strain for DHA production and provide fundamental insights into metabolic flux regulation in <i>Schizochytrium</i> sp. These insights advance scalable, cost-effective microbial DHA production and deepen understanding of algal biosynthesis mechanisms, supporting sustainable omega-3 sourcing strategies.</p>\u0000 </div>","PeriodicalId":134,"journal":{"name":"Biotechnology Journal","volume":"20 9","pages":""},"PeriodicalIF":3.1,"publicationDate":"2025-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144927513","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}