Biotechnology and applied biochemistry最新文献

{"title":"ZINC-592 Ameliorates IgE-Mediated Chronic Inflammatory Responses of Viral Infections via Keap1/Nrf2 Signaling.","authors":"Ashish Kumar","doi":"10.1002/bab.70037","DOIUrl":"https://doi.org/10.1002/bab.70037","url":null,"abstract":"<p><p>Chronic inflammation triggered by viral infections poses significant challenges to human health. This study aims to evaluate the potential of ZINC-592, a novel Keap1 inhibitor, in mitigating chronic inflammation associated with viral infections mediated by IgE. High-throughput screening, molecular docking studies, and molecular dynamics simulations were employed. RBL-2H3 cells and human whole blood basophils were used to evaluate the IgE-mediated anti-inflammatory effects. Molecular docking analysis revealed favorable binding interactions between the lead compound ZINC-592 and Keap1, suggesting its potential as a Keap1 inhibitor. Molecular dynamics simulations confirmed the stability of the ZINC-592-Keap1 complex over time. In vitro assays demonstrated that ZINC-592 effectively suppressed IgE-sensitized RBL-2H3 degranulation and proinflammatory cytokine production in these cells. The compound dose-dependently inhibited CD63 in IgE-FcεRI-stimulated basophils. Keap1 and Nrf2-positive populations were decreased upon ZINC-592 treatment in IgE-stimulated RBL-2H3 cells. The findings of this study highlight the promising therapeutic potential of ZINC-592 as a Keap1 inhibitor for mitigating chronic inflammation associated with viral infections, including those exacerbated by IgE-mediated immune responses. Further preclinical and clinical investigations are warranted to develop ZINC-592 as a novel therapeutic agent for viral infection-induced inflammation, particularly in the context of IgE-mediated immune responses.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144834089","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Computational Drug Repositioning for Targeting PfEMP1: Potential Therapeutics for Cerebral Malaria in Plasmodium falciparum.","authors":"Kanika Verma, Kavita Patel, Ankit Yadav, Mohanraj Gopikrishnan, Rishu Sharma, Mradul Mohan, Ashutosh Mani, Praveen Kumar Bharti","doi":"10.1002/bab.70040","DOIUrl":"https://doi.org/10.1002/bab.70040","url":null,"abstract":"<p><p>Cerebral malaria, a severe complication form of Plasmodium falciparum infection, remains a major global health challenge with limited treatment options. The National Programme currently recommends quinine- and artemisinin-based combination therapy (ACT) for the treatment of severe malaria. However, the growing resistance to these treatments highlights the urgent need for alternative therapeutic strategies. A key factor in cerebral malaria pathophysiology is P. falciparum erythrocyte membrane protein 1 (PfEMP1), which facilitates the sequestration of infected red blood cells in the microvasculature. Targeting PfEMP1 represents a promising approach for therapeutic interventions. This study uses a multi-modal computational approach to identify FDA-approved drugs that could be repurposed to target PfEMP1. Among the top candidate molecules are Lumacaftor, Vilazodone, Tucatinib, Lenvatinib, and Hydrocortisone Cypionate, which exhibit favorable docking energies (-9.1 to -8.3 kcal/mol) and potential oral bioavailability, as determined by receptor-based screening and absorbed, distributed, metabolized, and eliminated (ADME) analysis. Molecular dynamics simulations confirm stable interactions between these drug molecules and PfEMP1, supported by favorable potential energy profiles and structural stability. Additionally, protein-ligand interaction analysis identifies key residues involved in drug binding, providing insights into their molecular effectiveness. Gibbs's free energy landscape analysis further reinforces the stability of these drug-protein complexes, underscoring their potential as therapeutic agents. These findings highlight the significant role of computational approaches in drug discovery and offer valuable insights into repurposing FDA-approved drugs for cerebral malaria treatment.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-08-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144844506","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification of Potential Biomarkers Related to the Progression and Prognosis of Parkinson's Disease and Melanoma via Combined System Biology Approaches.","authors":"Ankita Murmu, Riddhi Upadhyay, Murugan Sevanan, Muthu Kumar Thirunavukkarasu","doi":"10.1002/bab.70036","DOIUrl":"https://doi.org/10.1002/bab.70036","url":null,"abstract":"<p><p>Parkinson's disease (PD) and melanoma are considered high risk in affecting an individual's health. The association between PD and melanoma has been reported with consistent results by various epidemiological studies. The identification of differentially expressed genes (DEGs) and pathways between the two diseases can support the findings of the epidemiological studies. Transcriptomics studies play a vital role in investigating DEGs with better specificity and sensitivity. Hence, we have performed transcriptomic data analysis to discover the gene expression profiles and significant pathways and provide insights into the relationship between PD and melanoma. The DEG analysis revealed that genes, such as CLU, glial fibrillary acidic protein (GFAP), and bone morphogenetic protein 6 (BMP6), highly expressed in melanoma, were associated with the progression of PD and genes such as BAG6, heat shock protein family A member 1B (HSPA1B), and ubiquitin-conjugating enzyme E2C (UBE2C), highly expressed in PD, were associated with the progression of melanoma based on evidence from previous studies. Out of the significant common KEGG pathways observed between PD and melanoma, tryptophan metabolism, steroid biosynthesis, peroxisome proliferator-activated receptor (PPAR) signaling and arginine biosynthesis were directly related to the pathogenesis and progression of the two diseases. Therefore, these findings have elucidated the involvement of multiple genes and pathways in the association of PD and melanoma.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-08-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943709","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Peroxidases and Peroxidase-Mimicking Capacities of Copper Nanozymes: Catalytic Mechanism, Applications, and Properties-A Review.","authors":"Fahimeh Bahramnejad, Mojtaba Mortazavi, Ali Riahi-Madvar, Mehdi Rahimi","doi":"10.1002/bab.70035","DOIUrl":"https://doi.org/10.1002/bab.70035","url":null,"abstract":"<p><p>Peroxidases, despite their substrate selectivity and catalytic activity, suffer from instability and costly purification. Copper nanozymes, stable and cost-effective peroxidase mimics, are increasingly replacing natural peroxidases, which suffer from instability and expensive purification. Composed of diverse materials like metals, metal oxides, carbon, and metal-organic frameworks, Cu nanozymes demonstrate significant potential in biological diagnostics, environmental remediation, and pharmaceutical development. Their superior redox catalytic efficiency and stability, coupled with reactive oxygen species generation, are enabling novel antibacterial drug development. This underscores the significance of copper nanozymes with peroxidase-like activity across biology, chemistry, and medicine.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144820661","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Temporal Dynamics of Somatic Mutations in Tumor and Plasma Samples From Hepatocellular Carcinoma Patients Pre- and Post-Radioactive Particle Implantation: A Whole-Exome Sequencing Study.","authors":"Hongxin Niu, Jian Wang, Huirong Xu, Liang Hao, Jianqi Li","doi":"10.1002/bab.2792","DOIUrl":"https://doi.org/10.1002/bab.2792","url":null,"abstract":"<p><p>Hepatocellular carcinoma (HCC) is one of the deadliest cancers worldwide. This study investigates the temporal dynamics of somatic mutations in HCC patients treated with radioactive particle therapy. Using whole-exome sequencing (WES), we track these mutations at different stages: pre-therapy (intra-cancer), post-therapy 1 week, 1 month, and 6 months. We also assess the clinical relevance of somatic mutation dynamics in evaluating treatment response, considering tumor size, AFP levels, and liver function markers. This study involved six HCC patients who received radioactive particle therapy. Tumor and adjacent normal tissues were collected before therapy, whereas plasma samples were taken during follow-up visits at 1 week, 1 month, and 6 months after treatment. We extracted DNA from these samples and analyzed them using WES analysis to identify somatic mutations, such as single-nucleotide variants (SNVs) and insertions/deletions (indels), across different time points. The somatic mutations of HCC changed over time after radioactive particle therapy. Some key mutations became less common after treatment, whereas others remained or even increased. The overall number of mutations also shifted, suggesting that cancer cells might be adapting to the treatment. CTNNB1 mutations showed a clear decline in DNA variant allele frequency (VAF) over time, with mean values decreasing from approximately 0.32 at baseline to 0.13 at intra-paratumoral samples, indicating a potential treatment-responsive pattern. TP53 mutations remained relatively stable, with mean VAFs fluctuating only slightly from ∼0.25 to ∼0.20, suggesting possible therapy resistance. In contrast, MYH15 mutations displayed a modest decline (from ∼0.15 to ∼0.10), with a transient increase at 1 week, which may reflect short-term adaptive dynamics during treatment. This study demonstrates dynamic changes in somatic mutation profiles in HCC patients following radioactive particle therapy. The observed alterations in key mutations and overall mutational burden over time may inform future approaches for early detection, treatment monitoring, and therapeutic optimization.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-07-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144752427","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Utilizing Biowaste-Soil Consortia for Efficient Isolation of Cellulose-Producing Bacteria and Evaluation of Bacterial Cellulose.","authors":"Rakshanda Singh, Moniya Katyal, Ritu Mahajan, Ranjan Gupta, Neeraj K Aggarwal, Anita Yadav","doi":"10.1002/bab.70033","DOIUrl":"https://doi.org/10.1002/bab.70033","url":null,"abstract":"<p><p>This study presents an efficient, low-cost method for isolating a bacterial cellulose (BC) producer from a biowaste-soil consortium. Soil is a natural reservoir of diverse microorganisms, which, when combined with biowaste (vegetables and fruits), creates an ideal environment for enrichment and isolation of cellulose-producing bacteria. This synergistic consortium fosters the dominance of cellulose producers and increases the likelihood of isolating high-yield strains in a shorter enrichment cycle, thus reducing screening time. Use of this methodology significantly resulted in lower operational costs due to fewer lab consumables and media. This approach led to isolation and the identification of Komagataeibacter diospyri RSA4 via 16S rRNA gene sequencing. The isolate produced the highest cellulose yield under static conditions, highlighting its potential for sustainable and scalable BC production. Analytical techniques such as Fourier Transform Infrared Spectroscopy, Energy Dispersive Spectroscopy, Scanning Electron Microscopy analysis, and x-ray diffraction confirmed that cellulose produced by the isolate was of good quality.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":2.7,"publicationDate":"2025-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943743","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"BCRT-DETR: A Lightweight Blood Cell Detection Transformer Model for Enhanced Medical Diagnostics.","authors":"Xi Chen, Guohui Wang","doi":"10.1002/bab.70030","DOIUrl":"https://doi.org/10.1002/bab.70030","url":null,"abstract":"<p><p>In the biomedical field, the detection of microscopic images of blood cells is crucial for diagnosing of blood-related diseases. To enhance accuracy and real-time performance, we developed a blood cell real-time detection transformer (BCRT-DETR) to improve detection efficiency. A dynamic alignment integration backbone network (DAIBN) was introduced to address the spatial differences in features from diverse sources during multi-backbone information fusion. Additionally, a multi-scale parallel aggregation splicing (MPAS) module was integrated into the neck component to mitigate missed detections during cell feature extraction. The integration of high- and low-frequency (HiLo) attention with the attention-based intra-scale feature interaction (AIFI) module to form AIFI-HiLo effectively overcame the model's previous limitation of concentrating on regions with cellular density. The introduction of the retentive meet transformer block (RMT_Block) in the neck component further optimized the computational complexity, thereby increasing the detection speed. The experimental results indicated that, compared with the recent transformer-based real-time detection model, RT-DETR, BCRT-DETR achieved significant efficiency improvements with reductions of 33.8%, 51.1%, and 34.1% in parameters, giga floating-point operations per second (GFLOPs), and model size, respectively. Simultaneously, BCRT-DETR improved mAP50 and mAP50:95 by 0.8% and 1.6%, respectively, with mAP50 reaching 96.8%. Furthermore, BCRT-DETR demonstrated exceptional generalization capabilities across the blood cell detection, blood cell count and detection, and complete blood count datasets. Our model provides reliable technical support and offers innovative solutions for automated medical diagnosis.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144673932","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Mutagenesis Breeding and Liquid Surface Culture Strategy for R-2-(4-Hydroxyphenoxy) Propionic Acid-Producing Strains.","authors":"Lixiang Zhao, Shuping Zou, Yaping Xue, Yuguo Zheng","doi":"10.1002/bab.70024","DOIUrl":"https://doi.org/10.1002/bab.70024","url":null,"abstract":"<p><p>R-2-(4-hydroxyphenoxy)propionic acid (R-HPPA) is a globally sought-after intermediate for aromatic phenoxy propionic acid herbicides. In this study, a mutant strain of Beauveria bassiana, designated as ZJB23323 (CCTCC NO: M 2023584), was obtained through UV, atmospheric, and room temperature plasma, and N-methyl-N'-nitro-N-nitrosoguanidine mutagenesis, exhibiting 7.24-fold improved production of R-HPPA. The concentrations of glucose, yeast extract, and R-2-phenoxypropionic acid (R-PPA) in the initial medium were optimized for R-HPPA production by using response surface methodology with Box-Behnken design. The maximum R-HPPA yield of 25.8 g/L was obtained at optimal concentrations of 64.7 g/L for glucose, 21.9 g/L for yeast extract, and 31.7 g/L for R-PPA, which increased by 48.7% compared to the original medium. Finally, the scaled-up biosynthesis of R-HPPA was successfully carried out in a 6-L plastic tray bioreactor, and the kinetic model and model parameters of the R-HPPA batch fermentation process were described. The metabolic characterization of strain ZJB23323 for the fermentative production of R-HPPA under three modes of batch culture, constant rate feeding, and exponential feeding was further investigated. The results showed that 100 g/L of R-PPA could be completely converted to R-HPPA within 13 days under the exponential feeding culture strategy.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144673946","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Fortified Food With Withania Somnifera Modulates Glucose Metabolism in STZ-Induced Hyperglycemia in Rats.","authors":"Chethan Kumar Narayanaswamy, Gouthami Kuruvalli, Subhasish Maity, Althaf Hussain Shaik, Hymavathi Reddyvari, Vaddi Damodara Reddy, Guruprasad Nm","doi":"10.1002/bab.70031","DOIUrl":"https://doi.org/10.1002/bab.70031","url":null,"abstract":"<p><p>Diabetes mellitus is a metabolic disorder characterized by increased oxidative stress, hyperglycemia, and associated implications that require suitable therapy approaches. One of the most effective approaches is to add fortified foods with multifunctional properties. Withania somnifera (Ashwagandha) root powder can help diabetics maintain stable blood glucose levels and reduce oxidative stress and inflammation. This study investigated the effects of fortified meal supplementation on STZ-induced diabetic rats. 2-month-old male albino Wistar rats were divided into four groups as follows: Group 1 (Controls), Group II (Diabetic), Group III (Fortified Food), and Group IV (Diabetic + FF). Diabetes was induced by IP injection of Streptozotocin (STZ) at 50 mg/kg b.wt. The study found that supplying STZ-induced diabetics with fortified foods significantly improved fasting glucose, body weight, C-peptide levels, HbA1c, and insulin levels, as well as altered lipid profiles. Furthermore, diabetic rats fed with a fortified diet exhibited significant improvement in urea, uric acid, and creatinine levels. In addition, diabetic rats had aberrant plasma sodium, potassium, and calcium levels. Furthermore, liver function tests revealed elevated levels of AST, ALT, ALP, and LDH enzymes; however, diabetic rats fed with a supplemented diet had these enzyme levels reduced to normal. Moreover, we observed increased lipid peroxidation and nitric oxide levels with altered antioxidant status (reduced glutathione, catalase, glutathione peroxidase, superoxide dismutase, and glutathione S-transferase) in diabetic rats. Supplementation with fortified food decreased oxidative stress. Furthermore, fortified food supplementation to diabetic rats normalized the mRNA expression of PEPCK, G6Pase, IGFBP, GLUT-2, SREBP1c, ABCA1, ABCG1, and fatty acid synthase compared to diabetic rats. Our histopathology examinations confirmed these findings. Our findings revealed that fortified foods can be beneficial in diabetes management, reducing complications and increasing overall health outcomes. Fortified food, which is high in protein, minerals, and phytochemicals, provides an effective way to manage diabetes and promote overall health.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144673933","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Biocontrol Activity of Endophytic Isolates Bacillus safensis and Pseudomonas lactis From Azadirachta indica Against the Pathogen Xanthomonas campestris pv. vesicatoria in Tomato Plants.","authors":"Sunita Fernandes, Ayush Bhoj, Pranav Kulkarni, Purva Vaidya, Yogita Ranade, Priyanka Sharma","doi":"10.1002/bab.70023","DOIUrl":"https://doi.org/10.1002/bab.70023","url":null,"abstract":"<p><p>Biocontrol plays a pivotal role in mitigating biotic stress and promoting plant growth by utilizing beneficial microorganisms that exhibit antagonistic activity against phytopathogens. Xanthomonas campestris is a bacterial pathogen known to cause diseases such as bacterial black leaf spots in various economically important crops. Therefore, in the current study to identify effective biocontrol agents, over 30 endophytic isolates from various tissues of Azadirachta indica were examined for their antagonistic activity against X. campestris pv. vesicatoria. Among these, two potential isolates, Bacillus safensis (strain LE8) and Pseudomonas lactis (strain LE11), based on their inhibitory effects, were subsequently selected for further analysis to contribute to sustainable agricultural practices. The in vitro as well in vivo treatments to tomato leaves with these potential isolates showed both preventive as well as curative effects. The current investigation confirmed a notable reduction in disease symptoms, showcasing their effectiveness as a biocontrol agent. Our findings highlight the beneficial impact of endophytic bacteria as a biocontrol, providing a sustainable alternative to pesticides.</p>","PeriodicalId":9274,"journal":{"name":"Biotechnology and applied biochemistry","volume":" ","pages":""},"PeriodicalIF":3.2,"publicationDate":"2025-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144641795","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}