Biochemistry and Biophysics Reports最新文献

{"title":"Optimal autofluorescence blocking for reliable immunofluorescence in human ovarian samples: A comparison of 4 blocking kits.","authors":"Rebekka Einenkel-Ulrich, Johanna Schlingheider, Cara Maria Färber, Andreas Schallmoser, Nicole Sänger","doi":"10.1016/j.bbrep.2026.102762","DOIUrl":"10.1016/j.bbrep.2026.102762","url":null,"abstract":"<p><strong>Introduction: </strong>Fertility depends on the complex process of folliculogenesis, yet many aspects of early human follicle development remain unclear. Immunohistofluorescence (IHF) enables detailed analysis of follicular structures and allows quantification. However, it is often affected by tissue autofluorescence. This study compares four commercially available kits to identify the most effective method for reducing autofluorescence and improving IHF accuracy.</p><p><strong>Methods: </strong>Sections of human ovarian tissue were treated according to the staining protocol without antibodies, but with one of four kits reducing autofluorescence to compare their efficacy. Images were taken on the Ti2-E fluorescence microscope in three different fluorescence channels.The kit with the highest reduction in autofluorescence was applied for a strong and a rather subtle staining in order to analyze the signal-to-background ratio (SBR).</p><p><strong>Results: </strong>All tested reagents reduced tissue autofluorescence in all three fluorescence channels. Among the evaluated products, TrueBlack showed the greatest reduction in autofluorescence. When combined with IHF staining, it significantly reduced background fluorescence and improved the SBR. Nevertheless, TrueVIEW and Ready Probes were similarly effective.</p><p><strong>Conclusion: </strong>Autofluorescence in human ovarian tissue can be effectively reduced using commercially available reagents. Among the tested products, TrueBlack showed the highest efficacy with our specific protocol and setup. Given the high demand for research and the rarity of suitable human ovarian samples, sharing these results may support more accurate and reproducible immunofluorescence analyses in future studies.</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"47 ","pages":"102762"},"PeriodicalIF":3.3,"publicationDate":"2026-08-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13543083/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148896575","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Corrigendum to \"Nanochelate-based BCc1 delivery and its impact on key regulatory pathways in BALB/c breast cancer: An analysis of Beclin-1, ATG-4B, ATG-7, and mTOR expression\" [Biochem. Biophys. Rep. 45 (2026) 102418].","authors":"Fereshteh Moheb Afzali, Masoumeh Heshmati, Ali Salimi, Somayeh Kalanaky, Saideh Fakharzadeh, Maryam Hafizi, Mohammad Esmail Akbari, Mohammad Hassan Nazaran, Mehrdad Hashemi","doi":"10.1016/j.bbrep.2026.102751","DOIUrl":"https://doi.org/10.1016/j.bbrep.2026.102751","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1016/j.bbrep.2025.102418.].</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"47 ","pages":"102751"},"PeriodicalIF":3.3,"publicationDate":"2026-08-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13575798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148975723","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Corrigendum to \"Characterization of the tail current of Channelrhodopsin-2 variants\" [Biochem. Biophys. Rep. 39 (2024) 101787].","authors":"TiShang Zheng, HengQi Wei, CongJian Zhao","doi":"10.1016/j.bbrep.2026.102719","DOIUrl":"https://doi.org/10.1016/j.bbrep.2026.102719","url":null,"abstract":"<p><p>[This corrects the article DOI: 10.1016/j.bbrep.2024.101787.].</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"47 ","pages":"102719"},"PeriodicalIF":3.3,"publicationDate":"2026-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13575797/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148975658","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Salvianolic acid B mitigates senescence and promotes osteogenesis of senescent bone marrow mesenchymal stem cells via the PI3K/AKT pathway.","authors":"Shaozi Zhong, Dianxuan Wu, Qize Chen, Chun Zeng, Huabin Chen, Jie Huang","doi":"10.1016/j.bbrep.2026.102624","DOIUrl":"10.1016/j.bbrep.2026.102624","url":null,"abstract":"<p><p>Senescence is a major contributor to osteoporosis, with progressive bone loss in later life characterizing age-related osteoporosis. The decline in bone marrow mesenchymal stem cells (BMSCs) function, particularly the reduction in osteogenic capacity, plays a central role in this process. Therefore, improving the function of senescent BMSCs could potentially slow the age-related osteoporosis progression. Salvianolic acid B (Sal-B), the most abundant and bioactive water-soluble compound derived from the traditional herb <i>Salvia miltiorrhiza</i> and growing evidence supports its efficacy against osteoporosis. However, the underlying cellular and molecular mechanisms remain unclear. This study aimed to investigate the effects and mechanisms of Sal-B on senescent BMSCs in vitro. Our study show that Sal-B not only promoted osteogenic differentiation but also attenuated cellular senescence in senescent BMSCs. Mechanistically, the PI3K/AKT pathway played a crucial role in mediating these beneficial effects. These findings clarify the biological action and mechanism of Sal-B at the cellular level, providing a theoretical foundation for subsequent in vivo studies.</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"102624"},"PeriodicalIF":3.3,"publicationDate":"2026-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13254721/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148248993","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Computational identification of putative mRNA-miRNA signatures in chemoresistant and metastatic triple-negative breast cancer.","authors":"Mahvash Farajzadeh-Dehkordi, Elham Rezvani Boroujeni, Sina Darzi, Manijeh Jalilvand, Babak Rahmani","doi":"10.1016/j.bbrep.2026.102656","DOIUrl":"10.1016/j.bbrep.2026.102656","url":null,"abstract":"<p><p>Triple-negative breast cancer (TNBC) is a heterogeneous malignancy that is recognized as having a high rate of metastasis and limited treatment options. Identifying new molecular signatures for TNBC remains urgent and challenging. In this study, we aimed to identify novel mRNA and miRNA expression profiles associated with invasive and drug-resistant TNBC using bioinformatics methods. We analyzed four datasets (GSE43502, GSE88847, GSE61723, and GSE154255) obtained from the Gene Expression Omnibus (GEO) repository. Significantly differentially expressed genes (DEGs) and miRNAs (DEMs), along with mRNA-miRNA interaction networks, were identified, visualized, and validated using <i>R</i> packages, enrichment analysis, protein-protein interaction (PPI) networks, and in silico validation through the UALCAN database. A total of 3242 DEGs and 95 DEMs were identified. Among these DEMs, 18 (13 downregulated and 5 upregulated) were selected as novel candidates. Target genes related to the candidate miRNAs were predicted and overlapped with DEGs. We identified 111 commonly upregulated and 129 commonly downregulated genes. Gene set enrichment analysis revealed that upregulated genes were involved in immune-related pathways, whereas downregulated genes were enriched in oncogenic signaling pathways, including MAPK and BRAF/RAF1 fusions. The mRNA-miRNA network highlighted miR-4690-5p and miR-338-3p as key regulators. <i>In silico</i> validation results confirmed that the BRD4 and LYN genes, as well as miR-16-2-3p, were significantly overexpressed, while the XBP1 gene and miR-5684 were markedly downregulated in TNBC samples. Overall, this study reveals computationally novel mRNA and miRNA expression profiles associated with metastatic and chemoresistant TNBC samples. These findings provide preliminary molecular insights may serve as tissue-specific and context-dependent biomarkers for future experimental investigations.</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"102656"},"PeriodicalIF":3.3,"publicationDate":"2026-06-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13254719/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148249002","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"<i>Hydroxamate formation in the lipopeptide containing siderophore</i> taiwachelin.","authors":"Aaron J Gringer, Kernen P Agwaza, Isabel Da Fonseca, Pablo Sobrado","doi":"10.1016/j.bbrep.2026.102660","DOIUrl":"10.1016/j.bbrep.2026.102660","url":null,"abstract":"<p><p><i>Cupriavidus taiwanensis</i> is a nitrogen-fixing bacterium found in root nodules of the invasive tropical weed <i>Mimosa pudica</i>. <i>C. taiwanensis</i> has been shown to grow in environments contaminated with heavy metals such as Pb, Cu, and Cd. Taiwachelin, a recently identified siderophore produced by <i>C. taiwanensis</i>, is an iron chelator that contains a hydroxamate functional group for metal binding. In its biosynthesis, a flavin-dependent N-monooxygenase (NMO) was predicted to hydroxylate l-ornithine, leading to formation of the metal binding hydroxamate moiety. Here, we report the cloning, expression, and biochemical characterization of this enzyme, herein referred to as CtNMO. CtNMO was isolated with bound FAD and catalyzed the hydroxylation of l-ornithine with a <i>k</i> _cat of 0.72 ± 0.04 s^-1 and a <i>K</i> _M of 156 ± 26 μM. A ∼25-fold preference for NADPH over NADH was observed. Expression of CtNMO as a fusion to maltose-binding protein resulted in enhanced enzymatic activity. These results validate CtNMO as an efficient l-ornithine hydroxylase and establish its potential utility in future applications, including bioremediation.</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"102660"},"PeriodicalIF":3.3,"publicationDate":"2026-06-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13253195/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148248954","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comprehensive characterization of the human neural stem cell line HNSC.100 as a versatile model for neurobiological research.","authors":"Estera Jeruzalska, Carolin Ketteler, Elisa Stützenberger, Sandra Burczyk, Larissa Möller, Dierk Niessing","doi":"10.1016/j.bbrep.2026.102655","DOIUrl":"10.1016/j.bbrep.2026.102655","url":null,"abstract":"<p><p>Studying neural-related questions is inherently challenging due to the limited number of suitable cell models. Here, we characterize a previously reported immortalized human neural stem cell line, HNSC.100, serving as a robust model for a wide range of neurobiological research questions. The cell line expresses key neural stem cell markers, including SOX2, vimentin, nestin, and allows for efficient genetic manipulation. Furthermore, HNSC.100 cells can be differentiated into neurons, astrocytes, and oligodendrocytes, thereby covering a wide spectrum of major neural cell types. We adapted corresponding differentiation protocols and established a comprehensive panel of molecular markers to validate successful differentiation, enabling precise characterization of the resulting cell population. In addition, we provide a complete dataset of RNA expression levels for all detectable genes in HNSC.100 cells. Based on this dataset, we assembled a list of expressed genes implicated in neural disorders that can be studied with this cell line. Together, we present a detailed characterization of the HNSC.100 cell line and provide new tools and reference data to facilitate its use. This resource enables researchers to evaluate the line's suitability for specific applications and to rapidly integrate HNSC.100 cells into their experimental workflows.</p>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"102655"},"PeriodicalIF":3.3,"publicationDate":"2026-06-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13251743/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148222785","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The Farnesoid X receptor-bile acid axis contributes to immune evasion in gastric cancer and its inhibition enhances efficacy of anti-PD-L1 therapy","authors":"Cristina Di Giorgio ,&nbsp;Michele Biagioli ,&nbsp;Silvia Marchianò ,&nbsp;Carmen Massa ,&nbsp;Ginevra Lachi ,&nbsp;Ginevra Urbani ,&nbsp;Martina Bordoni ,&nbsp;Rachele Bellini ,&nbsp;Luigi Cari ,&nbsp;Benedetta Sensini ,&nbsp;Maria Rosaria Sette ,&nbsp;Elva Morretta ,&nbsp;Maria Chiara Monti ,&nbsp;Nicola Natalizi ,&nbsp;Luigina Graziosi ,&nbsp;Eleonora Distrutti ,&nbsp;Annibale Donini ,&nbsp;Angela Zampella ,&nbsp;Stefano Fiorucci","doi":"10.1016/j.bbrep.2026.102653","DOIUrl":"10.1016/j.bbrep.2026.102653","url":null,"abstract":"<div><div>Gastric cancer ranks among the most prevalent malignancies globally and remains a major contributor to cancer-related mortality. Its progression is profoundly shaped by the tumor microenvironment (TME), a dynamic milieu comprising extracellular matrix components, soluble mediators, and diverse non-malignant immune populations that collectively influence tumor initiation and evolution. Although immunotherapeutic strategies have recently attracted increasing attention in the management of solid tumors, including gastric carcinoma, the determinants of immune evasion in this context are still not fully delineated. The Farnesoid X receptor (FXR), a key nuclear receptor for bile acids, has recently been implicated in regulating TME composition and immune cell recruitment within gastric tumors. Yet, how bile acid signaling contributes to the bidirectional interactions between malignant and immune cells remains largely undefined. This study aimed to investigate the role of FXR in modulating immune-regulatory networks associated with PD-L1/PD-1 in gastric cancer. RNA-seq analysis of paired gastric mucosa from 39 gastric cancer patients revealed significant molecular differences between intestinal and diffuse tumors. FXR was overexpressed in the intestinal subtype and correlated with poor prognosis. MS/MS analysis demonstrated enrichment of tumor tissues by cholic acid and chenodeoxycholic acid compared to non-neoplastic pairs, supporting the hypothesis of dysregulated bile acid metabolism. In vitro, exposure of gastric cancer cell lines and patient-derived organoids to FXR ligands increased PD-L1 expression through direct binding of FXR-responsive elements in the PD-L1 promoter. Targeting FXR may offer a therapeutic approach to improve the effectiveness of immunotherapies in intestinal gastric cancer.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"Article 102653"},"PeriodicalIF":2.2,"publicationDate":"2026-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148167376","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Timosaponin B-II attenuates hemorrhagic transformation-driven acceleration of alzheimer disease-related pathology after ischemic stroke","authors":"Yafen Dong ,&nbsp;Xuesong Bai ,&nbsp;Ye Chen,&nbsp;Jian Wang,&nbsp;Qiaoyan Cui,&nbsp;Liming Fan,&nbsp;Shushu Li,&nbsp;Yan Qiu","doi":"10.1016/j.bbrep.2026.102654","DOIUrl":"10.1016/j.bbrep.2026.102654","url":null,"abstract":"<div><div>Hemorrhagic transformation (HT) is a major complication of reperfusion therapy after ischemic stroke, but its impact on Alzheimer disease (AD) progression remains unclear. In this study, we used an early-stage APP/PS1 mouse model and found that HT following transient middle cerebral artery occlusion(tMCAO) aggravated cognitive impairment and promoted AD-like pathological changes, which were markedly attenuated by Timosaponin B-II (TB-II) treatment. TB-II effectively alleviated HT following tMCAO(tMCAO/HT)-induced cognitive and recognition memory deficits in APP/PS1 mice and reduced hippocampal Aβ42 production. In vitro, TB-II pretreatment reversed oxygen-glucose deprivation/reoxygenation (OGD/R) and hemin-induced increases in Aβ42 production and apoptotic propensity, as well as decreases in mitochondrial membrane potential and cell viability in N2a/APPswe cells. Mechanistically, TB-II activated NRF2, which in turn indirectly modulating GSK-3β-mediated APP phosphorylation and negatively regulated BACE1 transcription through binding promoter binding, ultimately suppressing amyloidogenic processing. Together, our findings suggest that TB-II may serve as a potential therapeutic agent against HT-associated acceleration of AD-like pathology after ischemia-reperfusion.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"Article 102654"},"PeriodicalIF":2.2,"publicationDate":"2026-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"148167377","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Distinct hyaluronan content and hierarchical organization of collagen-elastic fiber assemblies in subcutaneous fascia","authors":"Natsuki Maeda ,&nbsp;Kenshi Togashi ,&nbsp;Yongchol Shin ,&nbsp;Yasutada Imamura","doi":"10.1016/j.bbrep.2026.102536","DOIUrl":"10.1016/j.bbrep.2026.102536","url":null,"abstract":"<div><div>Previous studies have demonstrated that the subcutaneous fascia is a continuous connective tissue layer consisting of morphologically distinct “loose regions” and “dense regions”. However, the molecular basis of this regional heterogeneity remains unclear. This study aimed to analyze the biochemical and compositional differences between these two regions to elucidate the factors responsible for their functional and structural distinctions. Loose and dense fascia were isolated from chicken subcutaneous fascia and subjected to collagen composition analysis using SDS-PAGE, hyaluronan (HA) quantification, and fluorescence and electron microscopy combined with various biochemical treatments.</div><div>The results showed no significant differences in the composition ratios of major fibrillar collagens (types I, III, and V) or in total collagen content per dry weight between the two regions. In contrast, significant differences were found in non-collagenous matrix components; specifically, loose fascia contained approximately twice as much HA as dense fascia (loose: 0.31%, dense: 0.15%). Collagen hybridizing peptide (CHP) staining, which detects denatured/disrupted collagen chains, showed strong signals at the bundle boundaries in dense fascia, suggesting region-specific differences in supramolecular organization and locally increased collagen triple-helix dynamics/instability at bundle peripheries. In addition, elastase treatment led to loosening/disruption of collagen bundles, an observation consistent with a contribution of elastic-fiber components to maintaining higher-order bundle integrity, although enzyme purity and secondary mechanical effects cannot be fully excluded.</div><div>These results suggest that the regional mechanical behaviors are not fully explained by differences in major collagen composition and are more strongly associated with differences in hyaluronan abundance and supramolecular organization. These findings provide a molecular and ultrastructural basis that may underlie the distinct mechanical behaviors previously reported for loose and dense regions of the subcutaneous fascia.</div></div>","PeriodicalId":8771,"journal":{"name":"Biochemistry and Biophysics Reports","volume":"46 ","pages":"Article 102536"},"PeriodicalIF":2.2,"publicationDate":"2026-06-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147388238","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}