Journal of Biological Engineering最新文献

{"title":"Comparison of different decellularization protocols for porcine centrum tendineum diaphragmatis and diaphragmatic muscle - a base for effective recellularization.","authors":"Bruno F Gaag, Peter Tang, Oliver Klein, Simon Moosburner, Agnes K Böhm, Theresa Lohmann, Jonas K Wieland, Victoria Contes, Yijun Zhou, Eriselda Keshi, Luna Haderer, Eric Metzler, Verena Schöwel-Wolf, Simone Spuler, Jens-Carsten Rückert, Johann Pratschke, Igor M Sauer, Marco N Andreas, Karl H Hillebrandt","doi":"10.1186/s13036-025-00602-z","DOIUrl":"10.1186/s13036-025-00602-z","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"16"},"PeriodicalIF":6.5,"publicationDate":"2026-01-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145917731","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":"An innovative cholesteric liquid crystal biosensor enabling high-contrast colorimetric detection and haze-based quantitation.","authors":"Tien-Hung Peng, Chia-Tung Chang, Mon-Juan Lee, Wei Lee","doi":"10.1186/s13036-025-00603-y","DOIUrl":"10.1186/s13036-025-00603-y","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"26"},"PeriodicalIF":6.5,"publicationDate":"2026-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12870449/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145911505","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}

{"title":"Unveiling the mechanism of abdominal and transcranial ultrasound stimulation against DSS-induced colitis based on proteomic analysis.","authors":"Feng-Yi Yang, Meng-Ting Wu, Yi-Ju Pan, Wei-Shen Su, Zih-Yun Pan, Yi-Tang Lin, Chung-Fu Sun, Yu-Chen Lin","doi":"10.1186/s13036-025-00619-4","DOIUrl":"10.1186/s13036-025-00619-4","url":null,"abstract":"<p><p>Inflammatory bowel disease (IBD), particularly ulcerative colitis (UC), is increasingly recognized for its systemic effects, including neuroinflammation and cognitive deficits mediated through the gut-brain axis. This study investigates the potential mechanisms for treating UC with low-intensity pulsed ultrasound (LIPUS). A murine model of UC was established using 3% dextran sulfate sodium (DSS) in C57BL/6J mice. Disease progression was monitored via the Disease Activity Index (DAI). Histopathological evaluations were conducted using Hematoxylin and Eosin (H&E) staining. To elucidate molecular alterations, hippocampal tissues underwent quantitative proteomic analysis employing high-throughput liquid chromatography-tandem mass spectrometry (LC-MS/MS). Differentially expressed proteins (DEPs) were identified and analyzed to understand the impact of both abdominal and transcranial LIPUS treatments. Both abdominal and transcranial LIPUS treatments were found to alleviate symptoms of colitis. Proteomic analysis of hippocampal tissues identified five DEPs-REPS1, MYG1, KRT13, SRSF10, and CDC42BPG-whose expression levels were modulated by LIPUS interventions. Notably, REPS1 and MYG1, which were downregulated in UC conditions, showed increased expression following LIPUS treatment. KEGG pathway enrichment analysis revealed that these DEPs are primarily involved in the Ras/MAPK signaling pathways. The modulation of these pathways by LIPUS suggests a mechanism by which it exerts anti-inflammatory effects, potentially restoring metabolic balance and reducing inflammation in both the gut and brain. These findings highlight the role of the gut-brain axis in mediating the beneficial effects of LIPUS and suggest its potential as a non-invasive therapeutic strategy for UC and associated neuroinflammatory conditions.</p>","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"25"},"PeriodicalIF":6.5,"publicationDate":"2026-01-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12866342/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145896614","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}

{"title":"Thiol release improvement in Saccharomyces cerevisiae oenological strains by CRISPR/Cas9-based IRC7 molecular cisgenesis.","authors":"Sara Granuzzo, Matteo Bosaro, Paolo Antoniali, Raffaele Lopreiato","doi":"10.1186/s13036-025-00613-w","DOIUrl":"10.1186/s13036-025-00613-w","url":null,"abstract":"<p><strong>Background: </strong>Polyfunctional thiols are essential contributors to the aromatic profile of varietal white wines like Sauvignon Blanc. These compounds are released during fermentation by Saccharomyces cerevisiae cells from grape-derived precursors, with the carbon-sulfur β-lyase encoded by the IRC7 gene playing a crucial role. However, most oenological yeast strains lack the fully functional IRC7 allele, limiting their thiol-releasing ability.</p><p><strong>Results: </strong>In this study, we used CRISPR/Cas9-based cisgenesis to replace the native allele with the fully active IRC7^{L, A553} variant into four oenological S. cerevisiae strains, commonly used to produce different white and red wines. Interestingly, all cisgenic strains showed enhanced thiols release, confirming the direct role of IRC7 in their biosynthesis. Fermentation performance, including the production of ethanol and multiple metabolites, remained however unchanged. GC-MS analyses then confirmed that strain-specific profiles of aromatic molecules were also preserved, indicating that genome editing did not affect other relevant oenological traits. Importantly, the cisgenic strains released thiols even when fermenting musts with low precursors content, without the need for additional supplements.</p><p><strong>Conclusions: </strong>This work demonstrates that targeted IRC7 gene editing via CRISPR/Cas9 is a precise and efficient strategy to enhance thiol production in oenological yeasts, without compromising fermentative behavior or aromatic identity. Importantly, although the strains are formally GMOs, the modification mimics natural allelic variation. Our findings provide a foundation for developing next-generation wine yeasts optimized for high-aroma varietal wines and support the broader application of genome editing in fermentation biotechnology.</p>","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"23"},"PeriodicalIF":6.5,"publicationDate":"2026-01-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12866068/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145896624","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}

{"title":"Development of predictable and high-yield CHO cell line by site-specific integration.","authors":"Wanjun Lan, Xiaoli Yang, Juanjuan Yao, Lung-Jr Lin, Wenzheng Li, Weihai Chen, Jiangping Li, Qi Shen, Kang Li, Huiling Li, Yujia Chen, Liang Chen, Kingsley Leung","doi":"10.1186/s13036-025-00610-z","DOIUrl":"10.1186/s13036-025-00610-z","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"22"},"PeriodicalIF":6.5,"publicationDate":"2025-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12860097/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145855865","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}

{"title":"Lactate-related biomarkers in severe acute pancreatitis: insights from machine learning, molecular dynamics, and experimental validation.","authors":"Jifeng Liu, Shuyuan Liu, Jingyuan Ma, Yunshu Zhang, Junchen Li, He Xu, Xing Wan, Qingkai Zhang","doi":"10.1186/s13036-025-00605-w","DOIUrl":"10.1186/s13036-025-00605-w","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":"19 1","pages":"113"},"PeriodicalIF":6.5,"publicationDate":"2025-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12755000/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145863084","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}

{"title":"Combined drugs-loaded nano-lipodisk carrier for pH-responsive delivery for improved therapeutic potential on lung cancer model.","authors":"Zhiping Zhao, Yanyan Hao, Jiande Cheng","doi":"10.1186/s13036-025-00583-z","DOIUrl":"10.1186/s13036-025-00583-z","url":null,"abstract":"<p><p>Recently, combination therapy has gotten more attention for some progressive therapeutic cancers. In in vivo studies, combination therapy requires better delivery, even though, in vitro studies, effective inhibition of various tumor cells has been identified due to uncontrolled ratiometric delivery. To target tumors with lipodisk nanoparticle formulations, this study established ratiometric loading and transport of cancer drugs such as paclitaxel (PTX) and salinomycin (SAL) on a single platform. Furthermore, including slightly pH-responsive peptides (PRPs) to lipodisks significantly improved cell and tumor-specific integration. The resulting lipodisks had a pH-sensitive characteristic of approximately 40 nm and were co-loaded. The ratiometric administration of two drugs through lipodisks was established in vitro in A549 and H1299 cells. Co-loaded lipodisks' synergistic drug ratio enhanced their cytotoxicity to tumor cells. Apoptosis in lung cancer A549 and H1299 cells is embedded in nanoparticles in biochemical models like nuclear DAPI staining and acridine orange/ethidium bromide (AO/EB). Cytotoxicity data on coloaded lipodisks in vitro can be used to predict their inhibitory activity and improve the clinical outcome of the synergistic treatment. Moreover, co-loaded lipodisks exhibit a high tumor inhibition after intravenous administration, which results in significant anticancer effects in H1299tumor-bearing mice with minimum damage to normal organs. Finally, this work presents a simple pH-responsive lipodisk nanoparticle platform for co-loaded drug delivery to improve therapeutic potential against lung cancer cells.</p>","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":"19 1","pages":"111"},"PeriodicalIF":6.5,"publicationDate":"2025-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12751260/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145854810","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}

{"title":"Loss-of-function mutation of two phenylpropanoid pathway genes PAL1 and PAL2, coupled with MYB46 upregulation, increases fermentable sugar yield and ethanol production.","authors":"Kihwan Kim, Han-Eol Jeong, Kyung-Hwan Han, Won-Chan Kim","doi":"10.1186/s13036-025-00615-8","DOIUrl":"10.1186/s13036-025-00615-8","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"20"},"PeriodicalIF":6.5,"publicationDate":"2025-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12859861/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145855997","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}

{"title":"Reprogramme the E. coli metabolism by engineering a functional carbon-fixation pathway.","authors":"Yu Chen, Adam Burke, Vincent Chriscoli, Mengru Yang, Ping Chang, Tianpei Li, Buke Zhang, Royston Goodacre, Lu-Ning Liu","doi":"10.1186/s13036-025-00612-x","DOIUrl":"10.1186/s13036-025-00612-x","url":null,"abstract":"","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"21"},"PeriodicalIF":6.5,"publicationDate":"2025-12-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12859837/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145856041","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}

{"title":"Harnessing plant chloroplasts for oral delivery of a multi-epitope HPV vaccine: toward cost-effective systemic and mucosal immunization.","authors":"Maryam Ehsasatvatan, Bahram Baghban Kohnehrouz","doi":"10.1186/s13036-025-00618-5","DOIUrl":"10.1186/s13036-025-00618-5","url":null,"abstract":"<p><p>Human papillomavirus (HPV) is a major causative agent of cervical and other mucosal cancers. However, the distribution and accessibility of current prophylactic vaccines remain limited, especially in low- and middle-income countries (LMICs), due to high production costs, cold-chain dependency, and limited induction of mucosal immune responses. To addressing these challenges, we designed a rationally constructed multi-epitope HPV vaccine (HPV_MEV) incorporating conserved cytotoxic T lymphocyte (CTL), helper T lymphocyte (HTL), and B-cell epitopes from diverse high- and low-risk HPV genotypes. The construct includes the Toll-like receptor 4 (TLR4) agonist RS09 to enhance innate immune activation and cholera toxin B subunit (CTB) as a mucosal adjuvant to facilitate uptake and presentation at mucosal surfaces. The codon-optimized gene was stably integrated into the chloroplast genome of Nicotiana tabacum via biolistic transformation. Molecular analyses confirmed site-specific integration, homoplasmy, and high-level antigen accumulation (~3.6 mg/g fresh weight; ~20.8% of total soluble protein). Immunogenicity was evaluated in BALB/c mice following intraperitoneal administration of purified antigen or oral gavage of lyophilized transplastomic leaf tissue. Oral administration induced antigen-specific systemic IgG and mucosal IgA responses, with higher levels of vaginal IgA observed compared with parenteral delivery, reflecting enhanced mucosal antibody induction. The chloroplast-produced HPV_MEV exhibited immunogenicity comparable to its E. coli-expressed counterpart, supporting its structural and functional integrity. Overall, this study demonstrates the feasibility of plastid biotechnology as a platform for producing a thermostable, orally deliverable HPV vaccine candidate and provides preliminary immunogenicity data supporting its application as a promising vaccine candidate for accessible vaccination strategies against HPV and other mucosally transmitted pathogens in resource-limited settings.</p>","PeriodicalId":15053,"journal":{"name":"Journal of Biological Engineering","volume":" ","pages":"19"},"PeriodicalIF":6.5,"publicationDate":"2025-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12860094/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145846606","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}