Molecular Biology Reports最新文献

{"title":"Single-cell sequencing reveals that AK5 inhibits apoptosis in AD oligodendrocytes by regulating the AMPK signaling pathway.","authors":"Shiyun Yang, Bolun Chen, Jiatong Zhang, Xinmei Zhou, Yuanjing Jiang, Wangxia Tong, Jibing Chen, Ning Luo","doi":"10.1007/s11033-025-10311-x","DOIUrl":"10.1007/s11033-025-10311-x","url":null,"abstract":"<p><strong>Background: </strong>Neuroinflammation and abnormal energy metabolism have been shown to significantly contribute to the progression of Alzheimer's disease (AD). Adenylate kinase 5 (AK5), an enzyme predominantly expressed in the brain regulates ATP metabolism, has an unclear role in energy metabolism and neuroinflammation in AD.</p><p><strong>Methods: </strong>The AD datasets were derived from the GEO public database to analyze the expression levels of AK5 in AD and normal samples and to assess the relationship between AK5 expression and the clinical characteristics of AD patients. Functional enrichment analysis was employed to investigate the effects of changes in AK5 expression on energy metabolism and immunoinflammation in AD, as well as the underlying mechanisms. Moreover, the influence of AK5 expression variations on oligodendrocyte development was assessed, and the predicted outcomes were validated through cellular experiments.</p><p><strong>Results: </strong>Bioinformatic analysis revealed that AK5 was lowly expressed in AD olfactory lobe tissues, accompanied by increased immunoinflammation and apoptosis. Increased expression of AK5 was associated with the activation of AMPK signaling, enhanced oxidative phosphorylation, and overall stimulation of energy metabolism. In oligodendrocytes treated with Aβ1-42, overexpression of AK5 resulted in elevated levels of P-AMPK, SIRT1, and BCL-2 proteins, while reducing the levels of BAX, CASPASE-3, and NF-κB proteins. This modulation activated AMPK signaling, thereby inhibiting neuroinflammation and apoptosis. In contrast, low levels of AK5 expression during early differentiation triggered inflammatory responses and increased apoptosis in oligodendrocytes.</p><p><strong>Conclusion: </strong>AK5 inhibits AD oligodendrocyte apoptosis by activating the AMPK signaling pathway.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"213"},"PeriodicalIF":2.6,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11807073/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143374363","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A short review: the biological activity of vitamin D and its decomposition products.","authors":"Hirofumi Shimomura, Kiyofumi Wanibuchi, Kouich Hosoda, Avarzed Amgalanbaatar, Mitsuru Shoji, Shunji Hayashi","doi":"10.1007/s11033-025-10322-8","DOIUrl":"https://doi.org/10.1007/s11033-025-10322-8","url":null,"abstract":"<p><p>A vitamin D₃ metabolite 1α,25-dihydroxyvitamin D₃ exhibits numerous hormonal actions to various tissues and cells such as induction of calcium ion absorption, bone metabolism, activation of innate immune system. Because hormonal actions of 1α,25-dihydroxyvitamin D₃ are too complex, it is difficult to better understand overall views of intermolecular networks on the cell activation by 1α,25-dihydroxyvitamin D₃. In this review we concisely outline the most fundamental molecular mechanisms for the cell activation by 1α,25-dihydroxyvitamin D₃ based on the previous and recent studies. In addition, we expound biological activity of 25-hydroxyvitamin D₃ and 1α,25-dihydroxyvitamin D₃ that differs from hormonal actions. In addition, recent studies by our group revealed that vitamin D decomposition products confer extremely selective bactericidal action to Helicobacter pylori, a pathogen causative gastritis, peptic ulcers and gastric cancers in human. Vitamin D decomposition products induce the bacteriolysis as targeting of characteristic glycerophospholipids composed of the bacterial biomembranes. In the future we will expect to be capable of developing novel antibacterial agents targeting a characteristic glycerophospholipid of the pathogenic bacteria using vitamin D decomposition products as fundamental structures.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"214"},"PeriodicalIF":2.6,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143374353","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":"Inhibiting HSP90 changes the expression pattern of PINK1 and BNIP3 and induces oxidative stress in colon cancer cells.","authors":"Ejlal Abu-El-Rub, Ayman Alzu'bi, Fatimah A Almahasneh, Ramada R Khaswaneh, Rawan Almazari, Amani Kasasbeh, Ala A Aldamen, Heba F Ai-Jariri, Amal Alomari, Tuqa Yousef, Raed M Al-Zoubi","doi":"10.1007/s11033-025-10303-x","DOIUrl":"10.1007/s11033-025-10303-x","url":null,"abstract":"<p><strong>Background: </strong>Cancer cells can modulate the expression of many proteins that are essential for supporting their uncontrolled proliferation. Heat shock protein 90 (HSP90) is ubiquitously expressed in most cell types and participates in controlling many survival pathways. Cancer cells utilize HSP90 in order to prolong their survival, thus they tend to overexpress it. Based on its importance for cancer cells, we aim to investigate the molecular mechanisms that link HSP90 inhibition in colon cancer cells with oxidative stress and mitochondrial stress-related regulators.</p><p><strong>Materials and methods: </strong>We used RKO colon cancer cells, blocking HSP90 with the inhibitor AT13387 and HSP90 siRNA. Cell proliferation and apoptosis were measured via CCK8 ELISA and Fluorescent Apoptosis Assays. Western blotting and immunocytochemistry assessed oxidative and mitochondrial stress markers BNIP3, PINK1, GP91/NOX2, and IRE1α in treated cells.</p><p><strong>Results: </strong>Our findings reveal that inhibiting HSP90 with AT13387 reduces RKO cell viability by suppressing proliferation and enhancing Annexin-V expression, indicative of increased apoptosis. This rise in apoptosis is associated with PINK1 downregulation and BNIP3 upregulation, markers of mitochondrial dysfunction and oxidative stress, respectively. Additionally, AT13387 treatment elevated the protein level of GP91, a marker of oxidative stress, and IRE1α, a marker of ER stress. Similarly, genetic knockdown of HSP90 in RKO cells produced comparable effects, including reduced cell survival and a decreased PINK1/BNIP3 ratio.</p><p><strong>Conclusion: </strong>Targeting HSP90 in colon cancer cells disrupts their survival by decreasing PINK1 and increasing BNIP3, which activates oxidative and endoplasmic reticulum stress, ultimately triggering apoptosis.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"212"},"PeriodicalIF":2.6,"publicationDate":"2025-02-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11807072/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143374356","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Correction: Identification of the novel BRCA1 c.2463_2464delTA mutation in two high grade serous ovarian cancer sisters and potential dosage effects implications: a case report.","authors":"Valentina Lombardo, Giuseppa Scandurra, Angela Pettinato, Giovanni Luca Scaglione, Paolo Scollo, Ettore D Capoluongo","doi":"10.1007/s11033-025-10317-5","DOIUrl":"https://doi.org/10.1007/s11033-025-10317-5","url":null,"abstract":"","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"210"},"PeriodicalIF":2.6,"publicationDate":"2025-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143364922","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":"The first mitochondrial genomes of stylasterid corals (Hydrozoa; Stylasteridae) and their phylogenetic position.","authors":"Daniela Pica, Claudio Pica, Claudia F Vaga","doi":"10.1007/s11033-025-10324-6","DOIUrl":"https://doi.org/10.1007/s11033-025-10324-6","url":null,"abstract":"<p><strong>Background: </strong>Mitochondrial genomes among Medusozoa show considerable variation in the class Hydrozoa, and many phylogenetic relationships inside the subphylum remain still unresolved. Stylasteridae, one of the most species-rich families among hydrozoans, characterized by a calcareous skeleton, lacks mitochondrial genomic information, limiting our understanding of their evolution and phylogenetic position within Hydrozoa.</p><p><strong>Methods and results: </strong>This study present the first mitochondrial genome of two stylasterid species from the genus Errina (E. aspera and E. atlantica). Total genomic DNA was extracted and sequenced using Illumina NovaSeq 6000 and mitochondrial genomes were assembled and annotated using two different methods. Results hypothesized linear genomes of 14,938 bp and 14,969 bp respectively, containing 13 protein-coding genes, 2 transfer RNA genes, and 2 ribosomal RNA genes. The gene order was congruent with other Filifera, but lacking the cox1 duplication, transposition, and inversion common in other hydrozoans. Phylogenetic analyses confirmed the position of stylasterids as a sister group to Hydractiniidae within the Filifera suborder.</p><p><strong>Conclusions: </strong>This study provides the first information about the stylasterid mitochondrial genome structure. Moreover, the phylogenetic analysis confirms the phylogenetic position of Hydractiniidae as sister family of Stylasteridae. The new findings have highlighted the importance of sequencing additional genomic data to better unravel the evolutionary history of this significant family.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"211"},"PeriodicalIF":2.6,"publicationDate":"2025-02-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143364925","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":"Deciphering the impact of microRNAs in plant biology: a review of computational insights and experimental validation.","authors":"Tamilarasi Palani, Divya Selvakumar, Bharathi Nathan, Varanavasiappan Shanmugam, Kavithamani Duraisamy, Jayakanthan Mannu","doi":"10.1007/s11033-025-10273-0","DOIUrl":"https://doi.org/10.1007/s11033-025-10273-0","url":null,"abstract":"<p><p>Exploring the complex world of microRNA (miRNA) biogenesis and functions in plants is essential for understanding their diverse regulatory mechanisms. This review highlights the processes involved in miRNA biogenesis and their crucial roles in growth and development of plant, stress responses, and nutrient homeostasis. miRNAs play a central role in various developmental processes, including the transition from the juvenile to adult stage, the growth of shoot apical meristem, leaf and floral morphogenesis, and the determination of flowering time. By presenting the current state of research, we focus on the vital role of computational tools and databases in deciphering the regulatory networks controlled by miRNAs, which helps us navigate the intricate world of plant biology. Furthermore, it stresses the importance of experimental validation techniques in confirming computational predictions, ensuring that miRNA research is reliable and robust. As the field continues to grow, this review emphasizes the urgent need for integrated approaches, to deepen our knowledge of plant miRNA biology and its implications. These insights will pave the way for advancements in crop improvement, stress resilience, and biotechnological innovations.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"209"},"PeriodicalIF":2.6,"publicationDate":"2025-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143255868","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 CRISPR-based genetic modification for precise control of seed dormancy: progress, obstacles, and potential directions.","authors":"Vinaykumar Rachappanavar","doi":"10.1007/s11033-025-10285-w","DOIUrl":"https://doi.org/10.1007/s11033-025-10285-w","url":null,"abstract":"<p><p>Seed dormancy, a complex trait that is influenced by both nuclear and cytoplasmic factors, poses a significant challenge to agricultural productivity. Conventional dormancy-breaking techniques, including mechanical, physiological, and chemical methods, often yield inconsistent results, impair seed quality, and lack precision. This has necessitated exploration of more targeted and efficient approaches. CRISPR-based gene editing has emerged as a promising tool for the precise regulation of seed dormancy without compromising seed viability or sustainability. Although CRISPR has been successfully applied to modify genes that govern physiological traits in various crops, its use in dormancy regulation remains in the early stages. This review examines recent advancements in CRISPR-based approaches for modulating seed dormancy and discusses key gene targets, modification techniques, and the resulting effects. We also consider the future potential of CRISPR to enhance dormancy control across diverse crop species.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"204"},"PeriodicalIF":2.6,"publicationDate":"2025-02-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189778","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":"Plasmodium yoelii as a model for malaria: insights into pathogenesis, drug resistance, and vaccine development.","authors":"Oluwatobi Otun, Ikechukwu Achilonu","doi":"10.1007/s11033-025-10318-4","DOIUrl":"10.1007/s11033-025-10318-4","url":null,"abstract":"<p><p>Malaria continues to pose a serious global health threat, with rising drug resistance making treatment more difficult. Consequently, Plasmodium yoelii, a rodent malaria parasite, has become an invaluable model for studying the malaria parasite's complex biology, particularly host-parasite interactions and drug resistance mechanisms. Originating from African rodents, P. yoelii presents unique genetic diversity, mirroring critical aspects of human malaria and allowing for detailed research on the parasite's pre-erythrocytic and erythrocytic stages. This review introduces a novel perspective by comprehensively examining P. yoelii from multiple angles, including its origin, genetic composition, and contributions to vaccine development and drug efficacy studies. It highlights the significance of P. yoelii, revealing new insights into immune evasion, pathogenesis, and disease severity, which are critical for developing future malaria interventions. Furthermore, this review addresses the challenges associated with P. yoelii as a model, such as differences in host immune responses between rodents and humans. Despite these hurdles, the research using P. yoelii offers promising directions for combating malaria. This novel synthesis of P. yoelii studies underscores its essential role in advancing malaria research, particularly in understanding drug resistance and uncovering potential therapeutic and vaccine targets.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"208"},"PeriodicalIF":2.6,"publicationDate":"2025-02-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11799112/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189464","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A review of six bioactive compounds from preclinical studies as potential breast cancer inhibitors.","authors":"Shailima Rampogu, Mugahed A Al-Antari, Tae Hwan Oh, Baji Shaik","doi":"10.1007/s11033-025-10300-0","DOIUrl":"https://doi.org/10.1007/s11033-025-10300-0","url":null,"abstract":"<p><p>Breast cancer is one of the predominant causes of mortality in women worldwide. Although therapeutics such as surgery, chemotherapy, hormonal therapy, and radiotherapy have been used, they are associated with adverse effects or multidrug resistance. The use of natural compounds is a promising strategy, owing to their abundance and medicinal value. This review focuses on six natural compounds, namely cinnamaldehyde, diosmin, taxifolin, phloretin, arctigenin, and eugenol, and details their mechanisms of breast cancer inhibition based on in vitro and in vivo studies. These compounds generally promote apoptosis and cell cycle arrest, hinder metastasis and invasion, and decrease tumor growth. This review reinforces the use of natural compounds as therapeutics for breast cancer from their preclinical studies. These compounds might be promising for drug development due to their abundance, high reliability, and safety.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"203"},"PeriodicalIF":2.6,"publicationDate":"2025-02-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189901","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":"Prevalence and characteristics of ST131-O16 and ST131-O25b clones among extended-spectrum β-lactamase-producing Escherichia coli isolates causing bloodstream infection in Iran.","authors":"Mohammad Taha Ebrahimi, Shahnaz Halimi, Maryam Yavari-Bafghi, Reza Beigverdi, Hossein Ali Rahdar, Mohammad Emaneini, Fereshteh Jabalameli","doi":"10.1007/s11033-025-10310-y","DOIUrl":"https://doi.org/10.1007/s11033-025-10310-y","url":null,"abstract":"<p><strong>Background: </strong>The multidrug-resistant clone identified as Escherichia coli sequence type 131 (E. coli ST131) has spread worldwide. The current study is one of the first comprehensive investigations to ascertain the prevalence of ST131 and molecularly characterize the ST131-O25b and ST131-O16 subgroups causing bloodstream infections in Iran.</p><p><strong>Methods and results: </strong>To this end, 119 consecutive, non-repetitive E. coli clinical strains were isolated from blood samples of patients with septicemia in different hospital wards for one year in Tehran. The isolates were provided by the laboratories of tertiary hospitals affiliated with Tehran University of Medical Sciences. The disk diffusion method was used to investigate the sensitivity of bacteria to antibiotics. All phylogroup B2 isolates were screened for E. coli ST131 status using a triplex PCR assay that combines the identification of ST131-O25b and -O16 clades. The seven putative virulence factor genes (kpmstII, fimH, afa A, iroN, Sat, ibeA, and ompT) and resistance genes (bla_CTX-M-15, bla_OXA-48, and bla_CMY) were detected by PCR in E. coli ST131 isolates.</p><p><strong>Conclusions: </strong>The highest incidence of antibiotic resistance among 74/119 (62.18%) extended-spectrum β-lactamases-producing E. coli isolates was observed, respectively, against Nalidixic acid (82%), and Aztreonam (75%), followed by Ciprofloxacin (70%). Twenty out of 74 ESBL-producing E. coli isolates were found to be ST131 (27%), with 13 (65%) ST131-O25b and 7 (35%) ST131-O16 clades, respectively. The ST131-O16 isolates had a higher prevalence of resistance to Ceftriaxone, Amikacin, Aztreonam, and Cefepime than the -O25b ones. Concerning virulence capacity, our findings demonstrated that kpmstII, fimH, and ompT genes were found in 85%, 65%, and 30% of ST131 isolates, respectively. Our results reinforce the surveillance of E. coli ST131 clone dissemination as a major drug-resistant pathogen and an important new public health threat in Iran. Accumulation of multiple virulence factors, ESBL carriage, and identified antimicrobial resistance patterns of ST131-O25b and ST131-O16 clones indicate a necessity to develop strategies to control the spread of these isolates in both community and hospital settings.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"206"},"PeriodicalIF":2.6,"publicationDate":"2025-02-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143189476","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}