Biochemical Engineering Journal最新文献_第3页

New strategy for the design and cloning of novel humanized biparatopic anti-CD52 nanobodies: Tools for targeted drug delivery and therapeutic approaches 设计和克隆新型人源双异位抗cd52纳米体的新策略：靶向药物传递和治疗方法的工具

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-29 DOI: 10.1016/j.bej.2025.109736

Mohammad Mehdi Heidari , Mehri Khatami , Amir Soltanzade , Soroor Rezaei , Elham Mirhashemi

{"title":"New strategy for the design and cloning of novel humanized biparatopic anti-CD52 nanobodies: Tools for targeted drug delivery and therapeutic approaches","authors":"Mohammad Mehdi Heidari , Mehri Khatami , Amir Soltanzade , Soroor Rezaei , Elham Mirhashemi","doi":"10.1016/j.bej.2025.109736","DOIUrl":"10.1016/j.bej.2025.109736","url":null,"abstract":"<div><div>Immunotherapy has been developed to enhance the effectiveness of targeted cancer treatments. CD52 as the appropriate cell surface marker is a glycoprotein anchored to the cell membrane. It is found in large quantities in cancerous lymphoid cells, particularly in B and T cells, making it a suitable target for such therapies. Anti-CD52 antibodies can induce cell lysis through complement activation and direct cell-mediated cytotoxicity. However, the immunogenicity of antibodies limits their application in human disease. In contrast, the distinct properties of nanobodies make them ideal tools for targeted therapy. Here, we developed a novel humanized biparatopic nanobody targeting CD52, referred to as huCD52. We grafted the amino acid sequences of the CDRs from Alemtuzumab (1ce1) and Gatralimab (6obd) into a general humanized nanobody scaffold (Caplacizumab). We also conducted molecular docking analysis and molecular dynamics simulations. The nanobody gene fragment was cloned into the pET-21b(+) vector, expressed in <em>E. coli</em>, and subsequently purified. We evaluated the binding activity of the nanobody using the ELISA test. Human biparatopic huCD52 nanobody showed a strong binding affinity to CD52 protein. Our approach is a versatile alternative to traditional protocols, which usually require immobilization or complex selection methods. We have developed a platform for constructing high-affinity, biparatopic nanobody-based constructs, which has the potential to accelerate the development of therapeutic interventions targeting CD52 in antigen-presenting leukemia.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109736"},"PeriodicalIF":3.7,"publicationDate":"2025-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143768526","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

Optimal dosage and recycle of cellulases for efficient biomass saccharification of cardoon and giant reed 纤维素酶的用量及循环利用对甜菜和芦苇高效生物质糖化的影响

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-29 DOI: 10.1016/j.bej.2025.109735

Adriana Posilipo , Maria Elena Russo , Piero Salatino , Antonio Marzocchella

{"title":"Optimal dosage and recycle of cellulases for efficient biomass saccharification of cardoon and giant reed","authors":"Adriana Posilipo , Maria Elena Russo , Piero Salatino , Antonio Marzocchella","doi":"10.1016/j.bej.2025.109735","DOIUrl":"10.1016/j.bej.2025.109735","url":null,"abstract":"<div><div>The deployment of sugar-based biorefineries is limited by the availability of feedstocks and by the cost of enzymes. <em>Cynara cardunculus</em> and <em>Arundo donax</em> are relevant non-food crops for the development of sugar-based biorefineries. Enzymatic hydrolysis of <em>C. cardunculus</em> and <em>A. donax</em> stalks have been optimized in terms of biocatalyst dosage and reuse. Optimal utilization of a commercial biocatalyst cocktail was achieved assessing the enzyme adsorption on the biomass slurry prior to the hydrolysis stage. The partitioning of cellulases between the liquid the substrate has been characterized for raw and pretreated biomasses. Enzyme uptakes up to 18 mg/g were recorded with 5 % biomass slurries and 0.2–3 g/L initial enzyme concentrations for both <em>C. cardunculus</em> and <em>A. donax</em>. The nearly irreversible nature of the enzyme adsorption allowed a partial recovery of the unbound biocatalyst and the polysaccharides hydrolysis by adsorbed biocatalysts. In the best condition, 89 % glucans conversion was obtained in pretreated cardoon with 4 mg/g loading of adsorbed cellulases (lower than the saturation level) and in giant reed with 13 mg/g. Notably, the residual activity of the unbound biocatalyst was sufficient to hydrolyse more than 65 and 75 % of glucans in pretreated cardoon and giant reed, respectively. The proposed method can be applied routinely to any biorefinery feedstock and both commercial and <em>in-situ</em> produced cocktails to minimize the enzyme dosage.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109735"},"PeriodicalIF":3.7,"publicationDate":"2025-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143746419","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

One-pot synthesis of arginine decarboxylase@ZIF-8 using intrinsic pyridoxal 5′-phosphate cofactor for agmatine production 用内在吡哆醛5′-磷酸辅助因子一锅法合成精氨酸decarboxylase@ZIF-8

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-28 DOI: 10.1016/j.bej.2025.109730

Yan Wang, Bo Ding, Qingqing Bao, Yunying Zhao, Guohui Li, Yu Deng

{"title":"One-pot synthesis of arginine decarboxylase@ZIF-8 using intrinsic pyridoxal 5′-phosphate cofactor for agmatine production","authors":"Yan Wang, Bo Ding, Qingqing Bao, Yunying Zhao, Guohui Li, Yu Deng","doi":"10.1016/j.bej.2025.109730","DOIUrl":"10.1016/j.bej.2025.109730","url":null,"abstract":"<div><div>Agmatine is an important basic drug and nutritional supplements, which exhibits significant physiological activities. Traditional methods, such as whole-cell catalysis, require substantial pyridoxal 5′-phosphate (PLP) addition, which accounts for 15 % of production costs. In this study, we utilized purified arginine decarboxylase (AdiA-M2) that leverages the intrinsic PLP cofactor, without the need for additional PLP supplementation, and ZIF-8 was employed to enhance the pH tolerance. The successful incorporation of AdiA-M2 into the ZIF-8 structure was confirmed through scanning electron microscopy (SEM) and confocal laser scanning microscopy (CLSM). The immobilized arginine decarboxylase demonstrated markedly enhanced performance under alkaline conditions, along with improved thermal stability and storage activity compared to its free enzyme counterpart. Specifically, the immobilized AdiA@ZIF-8 system achieved an initial conversion rate of 95.16 %, after five recycles the titer attained 266.69 g/L without the extra PLP addition, which is 1.67 times higher than the best current production approach. The adopted enzyme-catalysis system eliminated the need for additional cofactors, thereby lowering costs and providing valuable insights for the industrial production of agmatine.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109730"},"PeriodicalIF":3.7,"publicationDate":"2025-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143739448","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

Efficient degradation of sulfamonomethoxine in wastewater using a novel intimately coupled photocatalysis and biodegradation system prepared with the calcium alginate hydrogel 海藻酸钙水凝胶制备的新型光催化与生物降解密切耦合系统高效降解废水中的磺胺甲氧苄

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-27 DOI: 10.1016/j.bej.2025.109731

Lai Peng , Qianyu Long , Chuanzhou Liang , Linchuan Fang , Yifeng Xu

{"title":"Efficient degradation of sulfamonomethoxine in wastewater using a novel intimately coupled photocatalysis and biodegradation system prepared with the calcium alginate hydrogel","authors":"Lai Peng , Qianyu Long , Chuanzhou Liang , Linchuan Fang , Yifeng Xu","doi":"10.1016/j.bej.2025.109731","DOIUrl":"10.1016/j.bej.2025.109731","url":null,"abstract":"<div><div>The insecure fixation of photocatalysts and their susceptibility to being covered by microorganisms existed in the traditional intimately coupled photocatalysis and biodegradation (ICPB) system. In this work, an ICPB system was developed by coupling g-C<sub>3</sub>N<sub>4</sub> and biofilm carriers through introducing calcium alginate (CA) hydrogel. The ICPB-CA system showed superior removal efficiencies of sulfamonomethoxine (SMM) (99.3 %) compared to corresponding photocatalysis and biodegradation systems. Relatively higher stability was also achieved with SMM removal efficiencies higher than 92.5 % after three consecutive cycles, as CA hydrogel markedly improved the adhesion strength between the photocatalysts and biofilm carriers. Furthermore, SMM degradation pathways in the ICPB-CA system were proposed, with smaller-molecular products produced. Biotoxicity evaluation tests also indicated that the degradation products were less toxic than the parent SMM, suggesting that ICPB-CA system could significantly mitigate the antimicrobial activities of SMM. This study will provide a promising alternative to construct the ICPB system, realizing higher removal efficiency of antibiotics while decreasing their toxicity.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109731"},"PeriodicalIF":3.7,"publicationDate":"2025-03-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143739449","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

Implicit large eddy simulations for hydrodynamic stress characterization in 125 mL shake flasks for stem cell cultures 隐式大涡流模拟流体动力应力表征在125 mL摇瓶干细胞培养

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-27 DOI: 10.1016/j.bej.2025.109734

Ramon D. van Valderen , Brenda E. Juarez-Garza , Marieke E. Klijn , Marcel Ottens, Cees Haringa

{"title":"Implicit large eddy simulations for hydrodynamic stress characterization in 125 mL shake flasks for stem cell cultures","authors":"Ramon D. van Valderen , Brenda E. Juarez-Garza , Marieke E. Klijn , Marcel Ottens, Cees Haringa","doi":"10.1016/j.bej.2025.109734","DOIUrl":"10.1016/j.bej.2025.109734","url":null,"abstract":"<div><div>Cell therapies based on inducible pluripotent stem cells offer promising new treatments for a variety of different illnesses. However, the sensitivity of stem cells to hydrodynamic stress makes developing reliable stem cell production processes challenging. Understanding hydrodynamic stress conditions experienced by stem cells during early-stage process development is important to guide scale-up and design scale-down experiments. We characterize the hydrodynamic stresses in a 125 mL shake flask using Lattice-Boltzmann implicit large eddy simulations (LB-ILES). First, we validated the LB-ILES shake flask simulations using volumetric power input measurements and experimental liquid distribution data showing good overall agreement, while also numerical challenges of the LB-ILES method regarding grid and time step dependencies are discussed. The mean shear stress in the shake flask increases from 0.01 to 0.24 Pa when increasing the shaking frequency from 55 to 250 rpm, and the mean Kolmogorov length scale decreases from 185 to 51 <em>μm</em>. Furthermore, time-averaged distributions of the shear stress and Kolmogorov length scales were evaluated and compared to reported stress thresholds for stem cells. Based on the shear stress and Kolmogorov length scale distributions, our developed shake flask CFD model can help to design small-scale experiments to characterize stem cell cultures in terms of their hydrodynamic stress tolerance, and ultimately guide scale-up stem cell cultures to larger cultivation systems.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109734"},"PeriodicalIF":3.7,"publicationDate":"2025-03-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143768527","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

Research progress and application prospects of microbial mineralization for repairing cracks in recycled concrete 微生物矿化修复再生混凝土裂缝的研究进展及应用前景

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-27 DOI: 10.1016/j.bej.2025.109733

Yingjie Chen , Yuping Chen , Shuyong Wang , Zhenbin Chen , Jianbo Guo , Guoxin Chen

{"title":"Research progress and application prospects of microbial mineralization for repairing cracks in recycled concrete","authors":"Yingjie Chen , Yuping Chen , Shuyong Wang , Zhenbin Chen , Jianbo Guo , Guoxin Chen","doi":"10.1016/j.bej.2025.109733","DOIUrl":"10.1016/j.bej.2025.109733","url":null,"abstract":"<div><div>The accumulation of construction waste imposes a significant burden on the environment. Recycling construction waste into concrete using recycled aggregate has emerged as an effective solution. However, the poor mechanical properties of recycled concrete limit its widespread application. Microbial mineralization-induced calcium carbonate precipitation (MICP) has been proposed as an environmentally friendly repair method to enhance the performance of recycled concrete. Although this technology demonstrates considerable potential, practical applications face several challenges. This paper systematically reviews the key issues in this field and evaluates existing solutions, highlighting their advantages and limitations. The primary challenge is bacterial survival, which has been addressed through two main strategies: (1) enhancing bacterial adaptability via domestication and (2) modifying the external environment by reducing pH and applying protective shells. This dual-protection approach improves bacterial viability and mitigates external environmental interference. The integration of microbial mineralization with recycled concrete is not only environmentally sustainable but also economically advantageous, reducing initial capital investment by 50 % compared to conventional remediation methods while significantly lowering maintenance costs. Additionally, incorporating artificial intelligence into microbial concrete enables real-time monitoring and process optimization, offering an innovative pathway for sustainable construction.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109733"},"PeriodicalIF":3.7,"publicationDate":"2025-03-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143735263","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

Responses of nitrogen removal, microbial community and antibiotic resistance genes to biodegradable microplastics during biological wastewater treatment 废水生物处理过程中氮去除、微生物群落和抗生素耐药基因对生物降解微塑料的响应

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-25 DOI: 10.1016/j.bej.2025.109732

Yiwei Zhou , Shaochen Bian , Hua Wang , Yixuan Chu , Lei Zheng , Yali Song , Chengran Fang

{"title":"Responses of nitrogen removal, microbial community and antibiotic resistance genes to biodegradable microplastics during biological wastewater treatment","authors":"Yiwei Zhou , Shaochen Bian , Hua Wang , Yixuan Chu , Lei Zheng , Yali Song , Chengran Fang","doi":"10.1016/j.bej.2025.109732","DOIUrl":"10.1016/j.bej.2025.109732","url":null,"abstract":"<div><div>Biodegradable plastics decompose more easily into microplastics (MPs) as alternatives to traditional plastics. However, the effects of biodegradable microplastics (BMPs) on the aerobic biological treatment process in activated sludge need further investigation. This study compared the effects of three BMPs (Polylactic acid (PLA), Polyhydroxyalkanoate (PHA) and Polybutylene succinate (PBS)) with 1, 10 and 50 mg/L on nitrogen removal, microbial community and antibiotic resistance genes (ARGs) in activated sludge. The results demonstrated that 10 and 50 mg/L PHA and 50 mg/L PLA enhanced specific nitrate and specific nitrite reduction rates, promoting total nitrogen removal. The positive effects on denitrification-related functional genes (such as <em>napA, nirK, nirS</em>) were also identified. Additionally, 10 mg/L PLA and PHA stimulated the production of loosely bound extracellular polymeric substances (EPS). However, 50 mg/L PLA and PHA decreased the tightly and loosely bound EPS contents. The response of nitrogen removal and EPS were attributed to the shifts of dominant bacteria abundance including <em>Bacteroidota, Chloroflexi</em> and <em>Acidobacteriota.</em> Moreover, PHA and PLA promoted the abundance of ARGs and <em>intI1</em> in activated sludge, particularly at high concentrations. However, PBS did not affect the nitrogen removal, EPS and microbial communities. The results might shed light on the influence of BMPs on activated sludge.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109732"},"PeriodicalIF":3.7,"publicationDate":"2025-03-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143746418","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

Enhancing anaerobic digestion performance of food-waste solid residue through alkali-thermal pretreatment 碱热预处理提高餐厨垃圾固体残渣厌氧消化性能

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-23 DOI: 10.1016/j.bej.2025.109726

Tianru Wang , Jing He , Junwei He , Tisen Xiao , Qing Liu

{"title":"Enhancing anaerobic digestion performance of food-waste solid residue through alkali-thermal pretreatment","authors":"Tianru Wang , Jing He , Junwei He , Tisen Xiao , Qing Liu","doi":"10.1016/j.bej.2025.109726","DOIUrl":"10.1016/j.bej.2025.109726","url":null,"abstract":"<div><div>The resource utilization of food-waste solid residue has received much attention, but the high organic content has resulted in poor hydrolysis performance during anaerobic digestion. In this study, pretreated food-waste solid residues through alkali, thermal and alkali-thermal were mixed with excess sludge for anaerobic digestion. Results indicated that pretreatments significantly alleviated the inhibitory effect of NH<sub>4</sub><sup>+</sup>-N and stabilized the pH of the digestive environment. Under the condition of alkali-thermal group, the concentrations of soluble chemical oxygen demand (SCOD), soluble protein, soluble polysaccharide and Volatile fatty acids (VFAs) were degraded by 81.00 %, 53.02 %, 42.87 % and 99.99 %, respectively, compared to the condition of control group. The absolute abundance advantage of <em>Dojkabacteria</em> significantly reduced the risk of ammonia inhibition and the relative abundance of <em>Methanobacterium</em> archaea was nearly 90 % under the condition of alkali-thermal group. It was observed that substrate was fragmented and enriched with bacilli and cocci in the crevices after the reaction under the condition of alkali-thermal group. The pretreatment was effective in utilizing more DOM, thereby increasing the efficiency of methane production. The condition of alkali-thermal group had the highest methanogenic potential, which was 16.78 % and 34.04 % more than alkali group and thermal group, respectively, and the maximum methane production rate was at its highest (<em>R</em><sub><em>max</em></sub> =522.70 mL/d). Compared to the condition of control group, the cumulative methane productions increased by 685.90 %, 593.71 % and 847.07 % under the conditions of alkali group, thermal group and alkali-thermal group, respectively. This founding provided an effective way for resource utilization of food-waste solid residue.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109726"},"PeriodicalIF":3.7,"publicationDate":"2025-03-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143697989","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

Improvement of alka(e)ne production in Escherichia coli by the 3′-UTR engineering of acyl-ACP reductase 酰基acp还原酶3 ' -UTR工程提高大肠杆菌碱(e)ne产量

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-20 DOI: 10.1016/j.bej.2025.109725

Jiahu Han, Takuya Matsumoto, Ryosuke Yamada, Hiroyasu Ogino

{"title":"Improvement of alka(e)ne production in Escherichia coli by the 3′-UTR engineering of acyl-ACP reductase","authors":"Jiahu Han, Takuya Matsumoto, Ryosuke Yamada, Hiroyasu Ogino","doi":"10.1016/j.bej.2025.109725","DOIUrl":"10.1016/j.bej.2025.109725","url":null,"abstract":"<div><div>The sustainable and efficient production of biofuels has generated considerable interest in the microbial synthesis of alka(e)nes, which are promising alternatives to fossil fuels. Acyl-ACP reductase (AAR) is a critical enzyme in the alka(e)ne biosynthetic pathway, and its poor solubility in <em>Escherichia coli</em> is a major bottleneck during the optimization of production yields. The approaches for enhancing protein solubility typically include the fusion of solubility tags at the N- or C-termini of target proteins, which can sometimes interfere with protein function or stability. The present study developed a novel strategy that leverages the regulatory potential of 3′-untranslated regions (3′-UTRs) by integrating the sequence coding thioredoxin (Trx), small ubiquitin-like modifier (SUMO), maltose-binding protein (MBP), or N-utilization substance protein A (NusA), into the 3′-UTR of the <em>AAR</em> gene. The strategy aimed to enhance the stability of AAR mRNA for improving the solubility and expression of AAR without altering its primary structure. The findings revealed that this strategy significantly enhanced the solubility and expression levels of AAR in <em>Escherichia coli</em>, which markedly increased alka(e)ne production. This method has potential widespread applications in metabolic engineering and synthetic biology. The study paves the way for the development of more efficient strategies aimed at producing biofuels, and highlights the untapped potential of the 3′-UTR engineering strategy.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109725"},"PeriodicalIF":3.7,"publicationDate":"2025-03-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143697988","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

Automated regression of bioreactor models using a Bayesian approach for parallel cultivations in robotic platforms 在机器人平台上使用贝叶斯方法进行并行培养的生物反应器模型的自动回归

IF 3.7 3区生物学

Biochemical Engineering Journal Pub Date : 2025-03-19 DOI: 10.1016/j.bej.2025.109729

Martin F. Luna , Federico M. Mione , Lucas Kaspersetz , Peter Neubauer , Ernesto C. Martinez , M. Nicolas Cruz Bournazou

{"title":"Automated regression of bioreactor models using a Bayesian approach for parallel cultivations in robotic platforms","authors":"Martin F. Luna , Federico M. Mione , Lucas Kaspersetz , Peter Neubauer , Ernesto C. Martinez , M. Nicolas Cruz Bournazou","doi":"10.1016/j.bej.2025.109729","DOIUrl":"10.1016/j.bej.2025.109729","url":null,"abstract":"<div><div>Mathematical models of bioreactors are powerful tools that aid in the analysis and prediction of process operation. However, the complex behavior of microorganisms makes modelling of biological processes a particularly challenging task, especially in the early developmental stages when data and knowledge are scarce. As a result, bioreactor models may perform poorly due to structural errors or high uncertainty in their parameterization. Here, we present a method for automated dynamic model regression based on a Bayesian approach that can be applied in the operation of laboratory robotic platforms to perform both parameter estimation and state predictions for a given experimental design. Starting with wide distributions over parameters (prior knowledge), the model is updated as new data is generated and is then used to predict the evolution of the experiment. The proposed method is tested with data from several parallel cultivations from a 24 mini-bioreactors platform containing an <em>Escherichia coli</em> strain operating in fed-batch mode. The results highlight both the versatility of the approach to estimate parameter distribution as well as to predict the state evolution.</div></div>","PeriodicalId":8766,"journal":{"name":"Biochemical Engineering Journal","volume":"219 ","pages":"Article 109729"},"PeriodicalIF":3.7,"publicationDate":"2025-03-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143739447","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