Biochimie最新文献

{"title":"In silico activity and effect of synthetic chalcones on Candida albicans and Candida tropicalis biofilms","authors":"Antonia Thassya Lucas dos Santos ,&nbsp;Maria Audilene de Freitas ,&nbsp;Maria Lucilene Queiroz da Silva ,&nbsp;Francildo dos Santos Silva ,&nbsp;Andressa Guilhermino dos Santos ,&nbsp;Aparecida Vitória Silva Menêses ,&nbsp;Naiza Saraiva Farias ,&nbsp;Joara Nályda Pereira Carneiro ,&nbsp;Victor Juno Alencar Fonseca ,&nbsp;Hélcio Silva dos Santos ,&nbsp;Francisco Rogenio da Silva Mendes ,&nbsp;Jacilene Silva ,&nbsp;Márcia Machado Marinho ,&nbsp;Emmanuel Silva Marinho ,&nbsp;Henrique Douglas Melo Coutinho ,&nbsp;Maria Flaviana Bezerra Morais-Braga","doi":"10.1016/j.biochi.2025.03.004","DOIUrl":"10.1016/j.biochi.2025.03.004","url":null,"abstract":"<div><div>Biofilm formation is considered one of the most important virulence factors for <em>Candida</em> species, which presents an extracellular matrix of polymeric substances that limits the passage of antifungals, leading to fungal resistance. Therefore, the present study investigated the biofilm eradication effect of synthetic chalcones against <em>Candida albicans</em> and <em>Candida tropicalis</em>. Molecular docking studies were conducted to verify the mechanism of action of chalcones on <em>Candida</em> species proteins. The biofilm eradication effect was determined using crystal violet methodology to quantify biomass and Thiazolyl blue tetrazolium bromide (MTT) to verify the influence on metabolic activity. A molecular docking study was also carried out with <em>Candida</em> proteins using the Protein Data Bank repository (<span><span>https://www.rcsb.org/</span><svg><path></path></svg></span>) and Autodocktools™ software. The results showed that (1E,4E)-1,5-diphenylpenta-1,4-dien-3-one (DB-Acetone), (1E,3E,6E,8E)-1,9-diphenylnona-1,3,6,8-tetraen-5-one (DB-CNM), and (1E,4E)-1,5-bis(4-methoxyphenyl)penta-1,4-dien-3-one (DB-Anisal) were able to eradicate the biomass of <em>C. albicans</em> CA INCQS 40006 (ATCC 10231), while fluconazole only reduced the biomass at the three tested concentrations (IC₅₀, IC₅₀ × 10, and IC₅₀ × 20) against <em>C. tropicalis</em> CT INCQS 40042 (ATCC 13803). Both chalcones and fluconazole successfully reduced metabolic activity across all tested strains. The molecular docking study concluded that DB-Acetone, DB-Anisal, and DB-CNM exhibited significant affinity energy values toward the binding sites of <em>C. albicans</em> and <em>C. tropicalis</em>. It is concluded that the synthetic chalcones showed promising results in inhibiting <em>Candida</em> spp. biofilm, demonstrating efficacy in reducing biomass as well as metabolic activity.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"234 ","pages":"Pages 29-39"},"PeriodicalIF":3.3,"publicationDate":"2025-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143671931","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":"Cloning, Expression, Characterization and in silico studies of l-asparaginase from Vibrio sp. (GBPx3)","authors":"Sareh sadat Mousavi Natanzi ,&nbsp;Sedigheh Asad ,&nbsp;Hossein Mahboudi ,&nbsp;Solat Eslami","doi":"10.1016/j.biochi.2025.03.003","DOIUrl":"10.1016/j.biochi.2025.03.003","url":null,"abstract":"<div><div><span>l</span>-asparaginase is a critical therapeutic enzyme for treating acute lymphoblastic leukemia (ALL), a common childhood malignancy. In this study, the <span>l</span>-asparaginase coding sequence from halophilic <em>Vibrio</em> sp. (GBPx3) was cloned, expressed in <em>Escherichia coli</em>, and characterized. The enzyme exhibited a molecular weight of 39.2 kDa and demonstrated a <em>K</em>_<em>m</em> of 4.517 mM, <em>k</em>_<em>cat</em> of 2.88 1/s, and <em>V</em>_<em>max</em> of 0.1055 μmol/min, reflecting high specificity for <span>l</span>-asparagine and minimal activity (0.4 %) toward <span>l</span>-glutamine. Optimal activity was observed at physiological conditions (37 °C, pH 7.5 and 125–150 mM NaCl), consistent with human serum osmolality. The half-life of the enzyme was 2.64 h in human serum at 37 °C that is longer than the half-life reported for <em>E. coli</em> <span>l</span>-asparaginase. Additionally, the enzyme had no toxic impact on human umbilical vein endothelial cells (HUVEC) and human erythrocytes. The recombinant <span>l</span>-asparaginase was predicted to be 29.3 % helix, 35.6 % turns, and 35.1 % random by circular dichroism spectroscopy. AlphaFold predicted a 3D structure with promising validation scores. The molecular docking study showed that Thr14, Ser60, Thr91, and Asp92 are putative active site residues, with a negative binding energy of −4.5 kJ/mol for the substrate-enzyme interaction. The enzyme's low immunogenicity, high serum stability, and reduced glutaminase activity highlight its potential as a safer therapeutic alternative. Future experiments and protein engineering studies are needed to explore enzyme's <em>in vivo</em> efficacy and improve its clinical effectiveness.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 122-131"},"PeriodicalIF":3.3,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143617969","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":"Inside front cover-EDB","authors":"","doi":"10.1016/S0300-9084(25)00047-1","DOIUrl":"10.1016/S0300-9084(25)00047-1","url":null,"abstract":"","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"231 ","pages":"Page IFC"},"PeriodicalIF":3.3,"publicationDate":"2025-03-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143591894","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":"Metformin's anticancer odyssey: Revealing multifaceted mechanisms across diverse neoplastic terrains- a critical review","authors":"Rashmi Saxena Pal ,&nbsp;Talha Jawaid ,&nbsp;M.A. Rahman ,&nbsp;Rakesh Verma ,&nbsp;Pratap Kumar Patra ,&nbsp;Sharma Vedika Vijaypal ,&nbsp;Yogendra Pal ,&nbsp;Rohit Upadhyay","doi":"10.1016/j.biochi.2025.03.002","DOIUrl":"10.1016/j.biochi.2025.03.002","url":null,"abstract":"<div><div>Metformin, initially prescribed as an oral hypoglycemic medication for type 2 diabetes, has recently gained attention for its potential anticancer effects. Its history dates to 1918, when guanidine, a component of the traditional European herb <em>Galega officinalis</em>, was found to reduce glycemia. This review precisely examines the mechanisms underlying Metformin's anticancer effects across various neoplastic conditions. This investigation explores the complex interactions between metformin and major signaling pathways associated with carcinogenesis, including AMP-activated protein kinase (AMPK), mTOR, and insulin-like growth factor (IGF) pathways. The review emphasizes Metformin's diverse effects on angiogenesis, inflammation, apoptosis, and cellular metabolism in cancer cells. Additionally, new data on metformin's capacity to alter the tumor microenvironment and enhance immune surveillance systems against cancer are examined. The review underscores Metformin's potential for repurposing in oncology, emphasizing its clinical relevance as an adjuvant therapy for various cancers. The review provides insightful information about the complex anticancer mechanisms of metformin by combining data from preclinical and clinical studies. These findings not only broaden our knowledge of the effects of metformin but also open new avenues for oncology research and treatment developments.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 109-121"},"PeriodicalIF":3.3,"publicationDate":"2025-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143588767","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":"Over-expression of AeWRKY2 promotes oleanolic acid and hederagenin accumulation in Aralia elata","authors":"Honghao Xu ,&nbsp;Hongfei Liu ,&nbsp;Ye Liu ,&nbsp;Wenhua Guo ,&nbsp;Yue Zhao ,&nbsp;Haoze Ying ,&nbsp;Yaru Liu ,&nbsp;Zhe Li ,&nbsp;Yi Zhang ,&nbsp;Lei Tao ,&nbsp;Tuya Siqin ,&nbsp;Wa Gao ,&nbsp;Xiangling You","doi":"10.1016/j.biochi.2025.03.001","DOIUrl":"10.1016/j.biochi.2025.03.001","url":null,"abstract":"<div><div>Oleanolic acid (OA) and hederagenin from <em>Aralia elata</em> have important medicinal value due to their anti-cancer and anti-inflammatory activities. Transcription factors (TFs) can affect the production of active substances by regulating the expression of genes in metabolic pathways. In this study, a transcription factor AeWRKY2 was cloned and overexpressed in <em>A. elata.</em> The result of gene expression analysis and high-performance liquid chromatography (HPLC) showed that the key enzyme genes of all transgenic strains analyzed were up-regulated to varying degrees. The contents of oleanolic acid and hederagenin were higher than those of wild type, up to 2.773 mg g⁻¹ DW and 0.325 mg g⁻¹ DW, respectively. After one-day MeJA treatment, the contents of oleanolic acid and hederagenin were further increased to 3.31 mg g⁻¹ and 0.37 mg g⁻¹, respectively.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 99-108"},"PeriodicalIF":3.3,"publicationDate":"2025-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143588791","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":"The characterization and comparison of femoral bone-derived skeletal stem cells","authors":"Kayla Howard,&nbsp;William Frank Ferris,&nbsp;Mari van de Vyver","doi":"10.1016/j.biochi.2025.02.010","DOIUrl":"10.1016/j.biochi.2025.02.010","url":null,"abstract":"<div><div>Skeletal stem cells (SSCs) reside in various niche locations within long bones to maintain bone homeostasis and facilitate fracture repair. Bone fragility, associated with ageing, increases the susceptibility of the femoral head to fractures due to an increase in bone adipocytes and concomitant loss of structural integrity. However, the specific contribution of epiphyseal SSCs to fragility is unknown. To explore this, a comparative analysis was performed on the transcriptional profiles and lineage commitment of Wistar rat femoral SSCs derived from the bone marrow (BM-), diaphyseal cortical bone (CB-) and proximal epiphyseal trabecular bone (PF–SSCs) isolated from the same long bones. SSCs were characterized based on morphology, immunophenotype (CD90/CD45), growth rate (population doubling time), gene expression profiles and differentiation capacity (Oil Red O, Alizarin Red S). qRT-PCR micro-arrays were performed on SSCs to evaluate the expression of stemness, SSC and lineage-specific markers in both undifferentiated and differentiated states. Our findings support the hypothesis that SSCs from different bone regions exhibit distinct transcriptional profiles, reflecting their specific niche environments. CB-SSCs displayed superior osteogenic potential as evidenced by the expression of key osteogenic genes and higher levels of mineralization. In contrast, PF-SSCs had a reduced osteogenic capacity with a higher adipogenic potential. Overall, the study revealed the importance of niche-specific stem cell properties for use in regenerative medicine applications and provides insight into the potential role of PF-SSCs in bone fragility and fracture risk.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 88-98"},"PeriodicalIF":3.3,"publicationDate":"2025-02-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143538235","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":"Doxorubicin-induced senescence is modulated by the eukaryotic release factor 3a and its polyglycine expansion in HCT116 cells","authors":"Béatrice Jolles ,&nbsp;Vérène Stierlé","doi":"10.1016/j.biochi.2025.02.009","DOIUrl":"10.1016/j.biochi.2025.02.009","url":null,"abstract":"<div><div>In humans, the release factor eRF3a exists in several forms that differ in the length of the polyglycine tract (7, 10, 11 or 12 glycines) in its N-terminal domain. For the 12-Gly eRF3a, an association with cancer risk and a decreased affinity for the cytoplasmic poly (A) binding protein have already been established. In this work, HCT116 colon cancer cells were treated with low doses of doxorubicin, which is known to induce senescence in these cells with high efficiency. The expression of p21 and p53 (senescence marker proteins) as well as lysosomal β-galactosidase activity were reduced when 12-Gly-eRF3a was overexpressed or eRF3a was depleted in cells. If low activity of mTORC1 pathway might be responsible for reduced senescence onset after eRF3a depletion, its activity is maintained in cells overexpressing 12-Gly-eRF3a. In both cases, a defect in termination efficiency could be involved.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 81-87"},"PeriodicalIF":3.3,"publicationDate":"2025-02-25","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143525502","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":"Inside front cover-EDB","authors":"","doi":"10.1016/S0300-9084(25)00029-X","DOIUrl":"10.1016/S0300-9084(25)00029-X","url":null,"abstract":"","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"230 ","pages":"Page IFC"},"PeriodicalIF":3.3,"publicationDate":"2025-02-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143471636","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":"Difference in the rearrangement of quail histone H1 allelic variants during divergent selection for reduction of body mass coupled to the food withdraw","authors":"Andrzej Kowalski ,&nbsp;Sebastian Knaga","doi":"10.1016/j.biochi.2025.02.008","DOIUrl":"10.1016/j.biochi.2025.02.008","url":null,"abstract":"<div><div>This study was undertaken to show whether chromatin phenotype(s) related to histone H1 polymorphism(s) exhibit connection with breeding practice (selection for reduction of body mass) and/or physiological trait (withdraw of the food) of the organism. For this purpose, a genetic diversity between quail lines selected for high and low reduction of body mass after transient food withdrawal was examined using variation in the histone H1 allelic expression. Symmetric and asymmetric expression of the isoforms of histone H1.b and histone H1.d was identified in 2-D PAGE due to various molecular weight and different intensities, respectively. Low (locus H1.d) to moderate (locus H1.b) differentiated populations conform to Hardy-Weinberg equilibrium but distribution of the phenotypes significantly differ between them. Whereas frequency of the same phenotype of histone H1.b is different between selected lines, the frequency of the same phenotypes of histone H1.d is similar in both selected lines. Thus, line-specific promotion of the phenotypes of histone H1.b suggest a response to conducted selection. Unlike this, a line-nonspecific arrangement of the phenotypes of histone H1.d appear due to the stress evoked by food withdrawal ongoing during the selection. Such a result indicate that histone H1 allelic variants possess individual impact on chromatin states and/or processes associated with breeding practices and physiological conditions of the organism. According to this, functional individualization is a characteristic feature of histone H1 polymorphic variants.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 75-80"},"PeriodicalIF":3.3,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143485008","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":"Molecular mechanism of selenite reduction by Bacillus amyloliquefaciens BB61 based on transcriptome analysis","authors":"Yujie Wang ,&nbsp;Fan Wan ,&nbsp;Huiqin Xue ,&nbsp;Yiqiong Hang ,&nbsp;Caixia Pei ,&nbsp;Yang Lu","doi":"10.1016/j.biochi.2025.02.005","DOIUrl":"10.1016/j.biochi.2025.02.005","url":null,"abstract":"<div><div>The microbial conversion of selenite represents an effective detoxification and assimilation process, although the underlying mechanisms remain incompletely understood. In this study, strain BB61 was a probiotic isolated from piglet feces and identified as <em>Bacillus amyloliquefaciens</em>, which could almost completely reduce 0.1 g/L Na₂SeO₃ to SeNPs within 48h. We investigated the potential mechanisms of selenite reduction in this strain through transcriptome sequencing and qPCR. The transcriptome analysis revealed the up-regulation of 829 genes and the down-regulation of 892 genes in response to 1 g/L Se treatment (padj &lt;0.05) in <em>Bacillus amyloliquefaciens BB61</em>. GO (Gene Ontology) enrichment analysis indicated that DEGs (Differentially expressed genes) were predominantly associated with transmembrane transporters, ion transmembrane transport, cytoplasmic and cell membrane composition, cell movement and localization, and carbon metabolism. Additionally, the KEGG (Encyclopedia of Genes and Genomes) pathway annotation analysis revealed that the DEGs were primarily involved in the pentose phosphate pathway, pyruvate metabolism, pyrimidine metabolism, cofactor biosynthesis, and other pathways (<em>P</em> &lt; 0.05). Among the highly expressed reductases, thioredoxin reductase (TrxA/B), nitrite reductase (NfsA), and selenite reductase (NamA) were all found to be up-regulated. Consequently, this study established a reduction pathway model for Se (IV), offering new insights into the molecular mechanisms underlying the bioreduction of selenite to form SeNPs.</div></div>","PeriodicalId":251,"journal":{"name":"Biochimie","volume":"233 ","pages":"Pages 36-46"},"PeriodicalIF":3.3,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143485013","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}