Bioprocess and Biosystems Engineering最新文献

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Performance evaluation of a polydopamine-modified carbon cloth bioanode for concurrent bioelectricity generation and ciprofloxacin transformation within a microbial fuel cell. 聚多巴胺修饰碳布生物阳极在微生物燃料电池内同步生物发电和环丙沙星转化的性能评价。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-09 DOI: 10.1007/s00449-026-03422-7
Jiacang Fei, Xi Zheng
{"title":"Performance evaluation of a polydopamine-modified carbon cloth bioanode for concurrent bioelectricity generation and ciprofloxacin transformation within a microbial fuel cell.","authors":"Jiacang Fei, Xi Zheng","doi":"10.1007/s00449-026-03422-7","DOIUrl":"10.1007/s00449-026-03422-7","url":null,"abstract":"<p><p>Ciprofloxacin (CIP) residues are difficult to eliminate using conventional biological treatment, whereas advanced oxidation processes commonly require substantial chemical or energy input. In this study, a dual-chamber microbial fuel cell equipped with a polydopamine-modified carbon cloth bioanode was evaluated for concurrent bioelectricity generation and ciprofloxacin removal. Polydopamine was deposited on carbon cloth by cyclic voltammetry electropolymerization. Scanning electron microscopy confirmed the formation of a conformal nanostructured coating on the carbon fibers. The microbial fuel cell was inoculated with anaerobic granular sludge and operated in fed-batch mode using acetate as the primary electron donor and ferricyanide as the cathodic electron acceptor. Acetate supplementation increased the peak voltage to between 580 and 620 mV, compared with between 320 and 420 mV without acetate. CIP concentration decay followed pseudo-first-order kinetics at initial concentrations of 10, 50, and 100 mg/L, and the corresponding apparent rate constants were approximately 0.088, 0.051, and 0.018 d<sup>- 1</sup>, respectively. Increasing ciprofloxacin concentrations were also associated with reduced voltage recovery, increased apparent interfacial resistance, and weaker electrochemical responses. High-performance liquid chromatography-mass spectrometry analysis detected 9 transformation-related products that were tentatively associated with piperazine-moiety transformation, hydroxylation, loss of the fluorine-containing functionality, and decarboxylation. This study provides a laboratory-scale basis for evaluating surface-engineered bioanodes for antibiotic-containing wastewater while identifying pollutant loading and transformation-product toxicity as important constraints.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2947-2959"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148918320","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
Sequential autohydrolysis-organosolv pretreatment for cellulose derivative production. 序贯自水解-有机溶剂预处理纤维素衍生物生产。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-19 DOI: 10.1007/s00449-026-03425-4
Fabrícia Vieira, Hortência E P Santana, Osiris Ashton Vital Brazil, Isabelly Pereira Silva, Daniel Pereira Silva, Denise Santos Ruzene
{"title":"Sequential autohydrolysis-organosolv pretreatment for cellulose derivative production.","authors":"Fabrícia Vieira, Hortência E P Santana, Osiris Ashton Vital Brazil, Isabelly Pereira Silva, Daniel Pereira Silva, Denise Santos Ruzene","doi":"10.1007/s00449-026-03425-4","DOIUrl":"10.1007/s00449-026-03425-4","url":null,"abstract":"<p><p>Pretreatment is a crucial stage in obtaining cellulose pulp from coconut residue. It helps in extracting lignin and hemicellulose, increasing the efficiency of the further process. This study proposed and developed a sequential pretreatment combining autohydrolysis, organosolv, and chemical bleaching to maximize the efficiency of extractive, hemicelluloses, and lignin removal. The aim was to explore and enhance the extraction of high-quality cellulose pulp derived from coconut residues for the production of carboxymethyl cellulose (CMC). Chemical and structural analysis was performed to confirm the efficiency of the proposed process. Chemical analysis confirmed the removal of lignin and hemicellulose, resulting in an enhancement of cellulose content from 40.01% to 78.92% FT-IR analyses confirmed modifications in the chemical structure of cellulose, while TGA revealed a significant mass loss in the cellulose-specific temperature range, demonstrating the efficient removal of other components. SEM images, in turn, provided microscopic visualizations that proved the successful preparation of CMC. The process resulted in a CMC yield of 30.75%, demonstrating its effectiveness in preparing cellulosic pulp suitable for CMC production, which stands out as a promising method for using coconut fibers in industry.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2975-2989"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13661642/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149007795","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
Metabolic engineering of Escherichia coli for methanol-assisted resveratrol biosynthesis. 甲醇辅助白藜芦醇生物合成的大肠杆菌代谢工程研究。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-07 DOI: 10.1007/s00449-026-03419-2
Huy Quang Nguyen, Hoa An Thi Nguyen, Dung Thi Vu, Luan Luong Chu
{"title":"Metabolic engineering of Escherichia coli for methanol-assisted resveratrol biosynthesis.","authors":"Huy Quang Nguyen, Hoa An Thi Nguyen, Dung Thi Vu, Luan Luong Chu","doi":"10.1007/s00449-026-03419-2","DOIUrl":"10.1007/s00449-026-03419-2","url":null,"abstract":"<p><p>Resveratrol is a high-value stilbenoid with diverse pharmaceutical and nutraceutical applications. However, its microbial production remains limited by insufficient precursor availability and inefficient carbon utilization. In this study, Escherichia coli was sequentially engineered to establish a methanol-assisted platform for resveratrol biosynthesis. The heterologous pathway was reconstructed by co-expressing Populus tomentosa 4-coumarate: CoA ligase (Pt4CL) and Arachis hypogaea stilbene synthase (AhSTS), followed by introduction of the matBC operon from Streptomyces coelicolor to enhance intracellular malonyl-CoA supply. A synthetic methylotrophic pathway comprising methanol dehydrogenase (mdh2) from Bacillus methanolicus together with 3-hexulose-6-phosphate synthase (hxlA) and 6-phospho-3-hexuloisomerase (hxlB) from Bacillus subtilis was subsequently introduced, and CRISPR interference (CRISPRi) targeting frmA was implemented to modulate formaldehyde metabolism and facilitate methanol utilization. Optimization of heterologous protein expression increased resveratrol production from 7.3 ± 0.2 to 14.1 ± 0.3 mg/L, while matBC-mediated precursor engineering further increased the titer to 20.2 ± 0.4 mg/L. Under glucose-methanol co-feeding conditions, the engineered strain produced approximately 23 ± 0.28 mg/L resveratrol in shake-flask cultivation. Scale-up in a 5-L bioreactor yielded 26.42 ± 0.31 mg/L (132.1 ± 2.4 mg/L total resveratrol) with a PCA conversion efficiency exceeding 95%, complete glucose consumption, and approximately 40.3% methanol utilization after 36 h of cultivation. To our knowledge, this is the first report of methanol-assisted resveratrol biosynthesis in engineered E. coli. These results demonstrate the potential of integrating synthetic methylotrophy, precursor engineering, and CRISPRi-mediated carbon redistribution to establish a methanol-assisted platform for microbial resveratrol production. This work provides a proof-of-concept framework for future development of microbial production systems utilizing renewable C<sub>1</sub> feedstocks.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2901-2914"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148904543","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
Transcriptome analysis reveals the promoting mechanism of corn steep liquor protein hydrolysate on cordycepin biosynthesis of Cordyceps militaris. 转录组分析揭示了玉米浆蛋白水解物对蛹虫草合成虫草素的促进机制。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-18 DOI: 10.1007/s00449-026-03410-x
Ying Chang, Xiaolan Liu, Yan Jiao, Lihong Zhao
{"title":"Transcriptome analysis reveals the promoting mechanism of corn steep liquor protein hydrolysate on cordycepin biosynthesis of Cordyceps militaris.","authors":"Ying Chang, Xiaolan Liu, Yan Jiao, Lihong Zhao","doi":"10.1007/s00449-026-03410-x","DOIUrl":"10.1007/s00449-026-03410-x","url":null,"abstract":"<p><p>Cordycepin is an important nucleoside analogue and the principal active compound found in Cordyceps militaris. It exhibits anticancer, antiviral, immunomodulatory, and various other biological activities. However, the low cordycepin yields and high manufacturing costs limit its large-scale application. To develop a low-cost nutrient regulator to improve cordycepin production, we investigated the effect of corn steep liquor protein hydrolysate (CSLPH) on cordycepin biosynthesis during submerged fermentation of C. militaris, and the response mechanism of C. militaris to CSLPH utilization was revealed by comparative analysis of cell growth, cordycepin production, and transcriptomes. The results showed that a low CSLPH level in the medium stimulated the biosynthesis of cordycepin, and the addition of 1.0-3.5 g/L CSLPH in the medium increased the cordycepin production by 192.46% to 405.32%, which achieved the maximum cordycepin yield at a concentration of 1.5 g/L, and significantly promoted the growth of C. militaris after 14 days of fermentation. Transcriptomic analysis revealed that a set of significantly up-regulated genes in the pathway of cordycepin biosynthesis were enriched under CSL and CSLPH treatments, and some key up-regulated genes in the metabolic pathway of cordycepin biosynthesis were validated by quantitative real-time PCR. Moreover, transcriptomic analysis confirmed that the energy metabolism, amino acid metabolism, and the nucleotide pathway of Cordyceps militaris were improved by CSLPH, which facilitates cordycepin biosynthesis. Additionally, a cooperative mechanism by which CSLPH regulates cordycepin biosynthesis was elucidated for the first time in the current study. These results suggest that enzymatically hydrolyzed corn steep liquor is a more suitable alternative nitrogen source than corn steep liquor for efficient cordycepin production at low cost.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2859-2871"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148988052","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
Experimental investigation of anaerobic digestion under an external static magnetic field. 外静磁场作用下厌氧消化的实验研究。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-16 DOI: 10.1007/s00449-026-03424-5
Zakiya Rahmat-Ullah, Mohamed Abdallah, Mariam Hosny, Abdallah Shanableh, Sourjya Bhattacharjee, Majid Sartaj
{"title":"Experimental investigation of anaerobic digestion under an external static magnetic field.","authors":"Zakiya Rahmat-Ullah, Mohamed Abdallah, Mariam Hosny, Abdallah Shanableh, Sourjya Bhattacharjee, Majid Sartaj","doi":"10.1007/s00449-026-03424-5","DOIUrl":"10.1007/s00449-026-03424-5","url":null,"abstract":"<p><p>Despite the numerous advantages of anaerobic digestion (AD) for biofuel production and waste reduction, its performance is often constrained by operational limitations, including slow kinetics and process instability. Magnetic induction of AD has emerged as an enhancement technique by influencing microbial activity. This study evaluated the effect of mid-range static magnetic field intensities ranging between 86 and 215 mT on AD. The experimental results were used for further analytical computations, including chemical oxygen demand (COD) balance, kinetic modeling, and energy-efficiency analysis. The results showed that the 215 mT assay achieved the greatest energy efficiency and the highest methane yield of 217.6 mL CH₄/g VS, which is 12.7% higher than the control, whereas the 118 mT assay resulted in the highest COD (55.1%) and soluble COD (66.1%) removal. COD balance confirmed that magnetic exposure promoted higher COD conversion to methane and microbial biomass. The greatest VS removal efficiency of 47.7% was achieved through applying an intensity of 86 mT. The findings indicated that static magnetic fields within the medium-intensity range can enhance AD performance without excessive energy demand or microbial inhibition. The kinetic simulation revealed that the Stannard model, which incorporates the shape factor, had the lowest error and highest R-squared value, at 1.2% and 0.994, respectively. This study bridges the research gap between low- and high-intensity magnetic applications, providing valuable insights for optimizing magnetically assisted AD systems.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2961-2974"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148982160","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
Current challenges and future directions in the green synthesis of nanoparticles using fungi. 利用真菌绿色合成纳米颗粒的当前挑战和未来方向。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-23 DOI: 10.1007/s00449-026-03430-7
Angélica Ribeiro Soares, Giovani Pavoski, Denise Crocce Romano Espinosa, WenBing Yin, Marcela Dos Passos Galluzzi Baltazar
{"title":"Current challenges and future directions in the green synthesis of nanoparticles using fungi.","authors":"Angélica Ribeiro Soares, Giovani Pavoski, Denise Crocce Romano Espinosa, WenBing Yin, Marcela Dos Passos Galluzzi Baltazar","doi":"10.1007/s00449-026-03430-7","DOIUrl":"10.1007/s00449-026-03430-7","url":null,"abstract":"<p><p>Fungi have historically played a significant role in advancing biotechnology and are now increasingly recognized as flexible platforms for eco-friendly nanoparticle production. Nonetheless, progress has been hindered by inconsistent methodologies, limited mechanistic understanding, and reproducibility issues. Unlike earlier reviews, this study comprehensively analyzes a decade of research (2015-2025) to link fungal species diversity, biosynthesis pathways, and experimental setups to nanoparticle formation. It highlights the crucial roles of enzymatic activity and secreted metabolites in determining nanoparticle shape and stability. The study demonstrates that variables such as culture medium, pH, incubation period, and downstream processes are not minor technical details but key factors influencing nanoparticle size, morphology, and stability. Additionally, there is a strong taxonomic bias toward a narrow set of filamentous fungi and a material bias toward silver, gold, and zinc, despite the broader biosynthetic potential of the fungal kingdom and the growing relevance of unexplored metals, including critical metals (e.g., Nb, Zr, and V). By combining mechanistic insights with advanced transcriptomic, proteomic, metabolomic, and genomic data, myconanotechnology can move toward a predictive framework based on metal stress responses, secreted biomolecules, and redox metabolism. Achieving this shift is critical to improving reproducibility, scaling up production, and developing rational approaches to the creation of fungal nanomaterials for biomedical, environmental, and industrial applications.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"3059-3084"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13661679/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149029730","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
Cellulose nanocrystals formation leveraging synergy between lytic polysaccharide monooxygenase and endoglucanase. 利用水解多糖单加氧酶和内切葡聚糖酶之间的协同作用形成纤维素纳米晶体。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-18 DOI: 10.1007/s00449-026-03420-9
Lauren E Lynn, William Hart-Cooper, William Orts, Tina Jeoh
{"title":"Cellulose nanocrystals formation leveraging synergy between lytic polysaccharide monooxygenase and endoglucanase.","authors":"Lauren E Lynn, William Hart-Cooper, William Orts, Tina Jeoh","doi":"10.1007/s00449-026-03420-9","DOIUrl":"10.1007/s00449-026-03420-9","url":null,"abstract":"<p><p>Cellulose nanocrystals (CNCs) are crystalline fragments released from cellulose via selective disruption of the fibrillar structure. This study investigated CNC formation by leveraging synergy between a C1/C4-active lytic polysaccharide monooxygenase (LPMO) TaAA9A and glycoside hydrolase family 45 endoglucanase (EG) NsGH45. The LPMO TaAA9A alone could not liberate CNCs from the cellulose substrate, and the endoglucanase NsGH45 alone yielded limited CNC release; their co-incubation, however, exhibited strong synergy, increasing CNC yields by up to 81% relative to additive enzyme action. Varying enzyme ratios in the reaction revealed distinct LPMO: EG ratios to achieve maxima for CNC formation versus soluble sugar release, indicating that the reaction can be tuned to favor CNC production over sugar solubilization. Further, LPMO activity was shown to increase productive cellobiohydrolase binding capacity of residual cellulose, supporting a mechanism whereby LPMO activity increases endoglucanase access to previously inaccessible regions of the cellulose fibrils. Our findings demonstrate that LPMO-endoglucanase synergy can be harnessed and tuned in cellulose deconstruction pathways towards CNC production.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2915-2927"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13661758/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149001236","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
Oligogalacturonic acids from citrus pectin: structural characterization and mechanistic insights into hydrophobic-antibacterial effect. 柑橘果胶中的低聚半乳糖醛酸:结构表征和疏水抗菌作用的机理。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-01 DOI: 10.1007/s00449-026-03417-4
Yanqiong Li, Peiyang Xu, Xinran Li, Yanyan Zhao, Ting Wang, Yanling Shi, Jike Lu, Jiaqing Zhu
{"title":"Oligogalacturonic acids from citrus pectin: structural characterization and mechanistic insights into hydrophobic-antibacterial effect.","authors":"Yanqiong Li, Peiyang Xu, Xinran Li, Yanyan Zhao, Ting Wang, Yanling Shi, Jike Lu, Jiaqing Zhu","doi":"10.1007/s00449-026-03417-4","DOIUrl":"10.1007/s00449-026-03417-4","url":null,"abstract":"<p><p>Oligogalacturonic acid demonstrated potent antibacterial efficacy against foodborne pathogens. To obtain oligogalacturonic acids with favorable antibacterial activity, this study established a controlled enzymatic hydrolysis process for citrus peel pectin based on the characterization of three commercial pectinases. Different fractions of the pectin hydrolysates were then obtained via ethanol fractional precipitation. Results showed that the supernatant from 90% ethanol fractionation (F90%-s) exhibited the best antibacterial effects. ESI-MS analysis revealed that pectin hydrolysates with higher degradation degrees displayed better antibacterial activity. Interestingly, oligogalacturonic acid standards (DP ≤ 4) unexpectedly showed no antibacterial activity. FT-IR analysis suggested that hydrophobic groups might contribute to the antibacterial properties of the hydrolysates. It could disrupt cell membranes, leading to leakage of cellular contents and ultimately to bacterial death. These findings established theoretical foundation for developing citrus peel pectin-derived oligosaccharides as next-generation food preservatives, while guiding the value-added utilization and sustainable development of pectin-rich agro-industrial waste.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2885-2899"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148872736","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
Image-based high-dimensional deep learning framework for spatiotemporal modeling, prediction and transfer learning of microbial cultivation processes. 基于图像的高维深度学习框架,用于微生物培养过程的时空建模、预测和迁移学习。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-16 DOI: 10.1007/s00449-026-03426-3
Bum Jun Jang, Hwa Sung Shin
{"title":"Image-based high-dimensional deep learning framework for spatiotemporal modeling, prediction and transfer learning of microbial cultivation processes.","authors":"Bum Jun Jang, Hwa Sung Shin","doi":"10.1007/s00449-026-03426-3","DOIUrl":"10.1007/s00449-026-03426-3","url":null,"abstract":"<p><p>Microbial culture processes exhibit complex and nonlinear dynamics, and accurate monitoring and prediction are essential for effective process optimization. Conventional monitoring methods primarily rely on low-dimensional sensor measurements, such as optical density (OD), dissolved oxygen (DO), and pH, which provide useful quantitative information but do not fully capture the physicochemical characteristics of the culture system. In this study, an image-based analytical framework was developed for high-dimensional analysis and time-series prediction during the cultivation of Bacillus subtilis. A controlled imaging system was established to acquire reproducible time-series images, and deep learning models based on convolutional neural networks (CNN) and convolutional long short-term memory (ConvLSTM) networks were constructed. The CNN provided superior pixel-level prediction performance under the original fermentor condition, while transfer learning (TL) enabled adaptation of the pretrained CNN to independent flask cultivation conditions with strong pixel-level reconstruction. Correlation analysis further showed that several image-derived features retained strong associations with OD600 in CNN-predicted images, whereas relationships with Abs450 were less consistent. These findings demonstrate that controlled image-based modeling can complement conventional process monitoring by providing high-dimensional visual information and a transferable framework for microbial cultivation analysis.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"2991-3004"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148982175","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
Chemotactic study of Escherichia coli towards alanine using a microfluidics platform. 利用微流体平台研究大肠杆菌对丙氨酸的趋化作用。
IF 4.3 3区 生物学
Bioprocess and Biosystems Engineering Pub Date : 2026-11-01 Epub Date: 2026-09-19 DOI: 10.1007/s00449-026-03429-0
Snehlata Yadav, Pooja Kumari, Vibhuti Yadav, Sushmitha Paulraj, Amitesh Kumar, Sanjeev Kumar Mahto
{"title":"Chemotactic study of Escherichia coli towards alanine using a microfluidics platform.","authors":"Snehlata Yadav, Pooja Kumari, Vibhuti Yadav, Sushmitha Paulraj, Amitesh Kumar, Sanjeev Kumar Mahto","doi":"10.1007/s00449-026-03429-0","DOIUrl":"10.1007/s00449-026-03429-0","url":null,"abstract":"<p><p>Chemotaxis, the capacity of cells and microorganisms to detect and respond to chemical gradients, is integral to various biological processes, including biofilm formation, environmental decontamination, pathogen identification, and targeted drug delivery. This study involved the fabrication of a Y-shaped microfluidic device to examine the chemotactic migration of Escherichia coli K12 DH5α toward gradient concentrations of alanine, an amino acid that serves as a potent chemoattractant for E. coli. The microfluidic device was designed and fabricated using standard photolithography and soft lithography techniques, and computational fluid dynamics (CFD) simulations were conducted using ANSYS Fluent to analyze the laminar flow behavior within the device. CFD simulations of phosphate-buffered saline (PBS) co-flow with 2 μm bacterial-sized particles predicted creeping, low-Reynolds-number laminar flow characterized by parallel, non-mixing streams, stable velocity profiles, and a smooth pressure drop of approximately 1.45 Pa toward the outlet. These results confirm the formation of a sharp interfacial boundary suitable for gradient-based chemotaxis assays. The chemotactic response of green fluorescent protein (GFP)-tagged E. coli was quantified by measuring fluorescence intensity in the central channel of the device. The results demonstrated that bacterial migration was dependent on alanine concentration, with maximum cell migration observed at 10 mM alanine. The bacteria exhibited motility perpendicular to the direction of streamlined laminar flow, migrating toward regions of higher alanine concentration. This study introduces a gradient-based Y-shaped microfluidic platform, validated through computational fluid dynamics (CFD), which integrates fluorescence-based quantification of GFP-tagged E. coli K12 DH5α chemotaxis. This platform facilitates real-time, reproducible, and concentration-dependent analysis of bacterial migration towards alanine under controlled laminar flow conditions. In contrast to traditional chemotaxis assays, it allows for precise chemical gradient generation, direct visualization of bacterial movement, and quantitative assessment of chemotactic responses within a single microfluidic system. The study provides both qualitative and quantitative insights into bacterial chemotaxis and highlights the potential of microfluidic platforms for real-time analysis of cellular behavior. The findings contribute to the advancement of rapid biosensing technologies and enhance the understanding of bacterial responses to chemical stimuli, with promising applications in biotechnology, microbiology, and environmental science.</p>","PeriodicalId":9024,"journal":{"name":"Bioprocess and Biosystems Engineering","volume":" ","pages":"3043-3057"},"PeriodicalIF":4.3,"publicationDate":"2026-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"149007793","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
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