Molecular Biology Reports最新文献

{"title":"Atypical pathogen community-acquired pneumonia: an analysis of clinical characteristics, drug treatment, and prognosis in the related patients.","authors":"Ying Yu, Minghui Li","doi":"10.1007/s11033-025-10382-w","DOIUrl":"https://doi.org/10.1007/s11033-025-10382-w","url":null,"abstract":"<p><strong>Introduction: </strong>Serious respiratory infections can occur in both in-hospital and out-of-hospital settings. These infections are known as community-acquired pneumonias (CAPs). Streptococcus pneumoniae and other microorganisms commonly cause atypical pneumonia. This study examined the clinical features, medication therapy, and prognosis of 85 cases of community-acquired pneumonia (CAP) caused by Mycoplasma pneumoniae (MPP) and Chlamydia psittaci(C. psittaci)neumoniae (CPP).</p><p><strong>Methods: </strong>A retrospective analysis was conducted at Shaoxing People's Hospital from July 2021 to August 2024, using targeted next-generation sequencing (tNGS) of bronchoalveolar lavage fluid (BALF). Patients were classified into the MPP group (54 patients) and the CPP group (31 patients). Compared with the control group, the CPP group had a significantly lower proportion of patients with a contact history of poultry and birds, a shorter length of hospital stay, and a lower percentage of severe pneumonia cases.</p><p><strong>Results: </strong>The MPP group demonstrated higher incidences of cough and sputum production; conversely, the occurrences of fever, fatigue, diminished appetite, and generalised myalgia were comparatively lower. The MPP group exhibited markedly diminished levels of neutrophils, C-reactive protein, procalcitonin, erythrocyte sedimentation rate, heparin-binding protein, alanine aminotransferase, aspartate aminotransferase, lactate dehydrogenase, direct bilirubin, pH, lactic acid, and D-dimer compared with the CPP group. In contrast, the MPP group had a markedly higher lymphocyte count, platelet count, albumin levels, as well as higher concentrations of blood sodium and blood chloride. The drug treatment regimens differed between the two groups, resulting in one unfavourable outcome within the MPP group.</p><p><strong>Conclusion: </strong>In summary, fatigue, fever, and reduced appetite are more prominent symptoms in patients with CPP, whereas cough and sputum production are the primary manifestations of MPP. Pleural effusion is more prevalent in patients with CPP, Additionally, these patients also have increased inflammatory responses and decreased immune function.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"309"},"PeriodicalIF":2.6,"publicationDate":"2025-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143630535","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":"Advances in molecular epidemiology of diabetic retinopathy: from genomics to gut microbiomics.","authors":"Yida Huang, Suyun Rao, Xufang Sun, Jun Liu","doi":"10.1007/s11033-025-10383-9","DOIUrl":"https://doi.org/10.1007/s11033-025-10383-9","url":null,"abstract":"<p><p>Diabetic retinopathy (DR) remains a prevalent complication of diabetes mellitus and a leading cause of blindness worldwide. The growing global diabetic population underscores the urgency to deepen our understanding of DR pathogenesis and develop effective prevention strategies. This review synthesizes recent advancements in molecular epidemiology, spanning genomics, epigenomics, transcriptomics, proteomics, metabolomics, and gut microbiomics, elucidating genetic underpinnings, epigenetic modifications, transcriptional alterations, protein biomarkers, metabolic disruptions, and gut microbiota dysbiosis associated with DR. Highlighted are key findings from genome-wide association studies (GWAS), Mendelian randomization (MR) studies, candidate gene association studies, and advancements in epigenetic mechanisms, revealing intricate disease pathways and potential therapeutic targets. Additionally, insights into altered metabolic profiles and gut microbiota compositions in DR underscore their emerging roles in disease progression and complications. Challenges and future directions in molecular epidemiological research are discussed to accelerate the translation of these findings into clinical applications for personalized DR management. The integration of multi-omics research findings may provide novel perspectives for facilitating rapid and accurate disease diagnosis, enabling dynamic disease monitoring, and advancing targeted therapeutic strategies.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"304"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625241","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":"A multiplex PCR method to determine the sex of fetal rat tissues.","authors":"Cristine Camp, Paige Drotos, Adrian Courville, Miranda Reed, Rachel West","doi":"10.1007/s11033-025-10406-5","DOIUrl":"10.1007/s11033-025-10406-5","url":null,"abstract":"<p><strong>Background: </strong>Fetal and placental sex influence a variety of developmental processes during prenatal life; including metabolism, growth, and the response to in utero insults. Additionally, the National Institute of Health's requirement that sex as a biological variable be included into proposal design necessitates the development of tools to investigate sex during embryonic and fetal life. Rodent models are insightful models in the study of sexual dimorphism due to large litter sizes, short gestation period, and frequency of use as an animal model. In this methods paper, we demonstrate a multiplex PCR method to determine sex in fetal rat tail snips and placentas.</p><p><strong>Methods and results: </strong>We designed primers for X-chromosome and Y-chromosome homologs, DDX3X and DDX3Y, and developed a single-step PCR protocol that can determine the presence of both genes in one reaction. We performed PCR on fetal tail snips and placentas to amplify DDX3X only in females or DDX3X and DDX3Y in males. The multiplex PCR and subsequent gel electrophoresis revealed that the presence of only DDX3X or both DDX3X and DDX3Y could be detected in fetal tissues. We used adult male rat testis as a positive control and confirmed that both DDX3X and DDX3Y could be detected in adult male tissues as well.</p><p><strong>Conclusion: </strong>This protocol provides an important method to determine genetic sex in tissues before the ability to visually determine sex, allowing for sex to be used as a biological variable in prenatal research using the rat model.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"301"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11906549/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625232","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":"Tripartite motif 22 (TRIM22) downregulates TLR3-induced CCL5 expression in human renal proximal tubular epithelial cells.","authors":"Mayuki Tachizaki, Yuri Kobori, Shogo Kawaguchi, Kazuhiko Seya, Hiroshi Tanaka, Tadaatsu Imaizumi","doi":"10.1007/s11033-025-10409-2","DOIUrl":"10.1007/s11033-025-10409-2","url":null,"abstract":"<p><strong>Background: </strong>Tripartite motif 22 (TRIM22) plays a key role in viral defense by suppressing replication. Kidney transplant recipients and patients with chronic kidney disease are compromised hosts and susceptible to viral infections. Although several viruses that infect the renal tubules have been identified, the function and role of TRIM22 in viral infections of the renal tubules remain unknown. Tubular epithelial cells express Toll-like receptors (TLRs), which are pattern recognition receptors. Notably, TLR3 recognizes viral RNA and induces the release of type I interferons (IFNs) and subsequently several proinflammatory chemokines, such as IFN-β and C-C motif chemokine ligand 5 (CCL5). This study investigated the role of TRIM22 in TLR3-induced CCL5 expression in cultured human renal proximal tubular epithelial cells (hRPTECs).</p><p><strong>Methods and results: </strong>hRPTECs were treated with polyinosinic-polycytidylic acid (poly IC), a ligand for TLR3. Reverse transcription-quantitative polymerase chain reaction was used to analyze mRNA expression, and western blotting and enzyme-linked immunosorbent assays were used to analyze protein expression. Poly IC-induced TRIM22 mRNA and protein expression increased in concentration- and time-dependent manners. Cells were transfected with small interfering RNA against IFN-β or TRIM22 to knock down their respective expression. Knockdown of IFN-β attenuated poly IC-induced TRIM22 mRNA and protein expression. Whereas TRIM22 knockdown upregulated poly IC-induced CCL5 mRNA and protein expression.</p><p><strong>Conclusion: </strong>Our results revealed the TLR3-IFN-β-TRIM22 pathways in hRPTECs. TRIM22 suppressed TLR3-induced CCL5 expression, suggesting that TRIM22 suppresses viral infection-induced excessive inflammation in addition to direct antiviral defense.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"306"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625294","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":"Molecular cloning, expression, and bioinformatics analysis of the CueO laccase gene from Escherichia coli SDB2.","authors":"Hui Deng, Sicong Li, Yanling Huang, Jiangling Li, Qingsong Ni, Yang Zhao, Jin Chen, Xiurong Peng, Bin Li, Dan Yu","doi":"10.1007/s11033-025-10388-4","DOIUrl":"https://doi.org/10.1007/s11033-025-10388-4","url":null,"abstract":"<p><strong>Background: </strong>Laccase CueO, a multicopper oxidase, possesses the capability to degrade phenolic compounds. In prior research, a strain of Escherichia coli named SDB2, isolated from chicken cecum, was found to degrade sinapine (a phenolic constituent of rapeseed meal) through the secretion of laccase CueO. Herein, the cloning, expression, and bioinformatics analysis of the CueO gene derived from E. coli SDB2 are reported.</p><p><strong>Methods and results: </strong>Sequence analysis indicated that SDB2 CueO comprised 1551 bp, 516 amino acids, a putative molecular weight of 56.65 kDa, and an isoelectric point (pI) of 6.21. BLAST comparisons showed that the CueO protein sequence from E. coli SDB2 exhibited 65-90% identity with CueO from other bacteria. Multiple alignment analysis further confirmed the similarity and identity of SDB2 CueO with CueO from other species, and the amino acids surrounding the Cu-binding sites were highly conserved. A phylogenetic tree demonstrated a close evolutionary relationship between CueO from E. coli and CueO from Citrobacter amalonaticus. The three-dimensional (3D) structural model revealed four copper (Cu)-binding regions. Recombinant CueO was successfully obtained by expressing the CueO gene in E. coli BL21 after isopropyl β-D-1-thiogalactopyranoside (IPTG) induction. Bioinformatics analysis confirmed the similarity of recombinant CueO with native CueO.</p><p><strong>Conclusions: </strong>These findings established a basis for understanding the characteristics and functions of laccase CueO from E. coli SDB2, paving the way for future research to explore the properties of recombinant CueO and its potential practical applications in optimizing feed resources, such as rapeseed meal, in the feed production industry.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"307"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625261","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":"Methodological influences on circulating cell-free-mitochondrial and nuclear DNA concentrations in response to chronic stress.","authors":"Carina Daubermann, Benedict Herhaus, Elmo W I Neuberger, Perikles Simon, Katja Petrowski","doi":"10.1007/s11033-025-10369-7","DOIUrl":"10.1007/s11033-025-10369-7","url":null,"abstract":"<p><strong>Background: </strong>Mitochondria are versatile eukaryotic organelles that play a crucial role in the body's stress response. Prolonged stress exposure can cause structural and functional alterations, leading to mitochondrial DNA (mtDNA) damage and subsequent release of mtDNA into the circulation. Cell-free circulating mtDNA (ccf-mtDNA) is a potential biomarker indicating cellular damage and stress. In this study we investigated the applicability of ccf-mtDNA and cf-nDNA as biomarkers of chronic stress in healthy subjects.</p><p><strong>Methods and results: </strong>We developed a quantitative polymerase chain reaction (qPCR) assay to directly measure ccf-mtDNA in human blood plasma samples, addressing numerous challenges specifically related to ccf-mtDNA quantification. We validated our 68 bp target assay based on the FDA, International Organization for Standardization (ISO) and Clinical & Laboratory Standards Institute (CLSI) guidelines for assay development, including parameters such as limit of blank (LOB), limit of detection (LOD) and limit of quantification (LOQ). Furthermore, we implemented incurred samples analysis and inter-plate samples to ensure reliability and reproducibility of the assay. In addition, we evaluated the effects of centrifugation forces on ccf-mtDNA and cf-nDNA concentrations in native plasma samples and showed that mainly ccf-mtDNA is strongly affected by centrifugation forces. We found a significant negative correlation between ccf-mtDNA levels and chronic stress. In contrast, cf-nDNA levels were not affected in response to chronic stress.</p><p><strong>Conclusion: </strong>ccf-mtDNA can directly and reliably quantified in unpurified plasma samples. However, the ccf-mtDNA levels in plasma samples of healthy subjects are close the LOQ, showing that the assay is not yet suitable for all conditions.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"303"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11906544/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625247","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":"Morin hydrate treatment minimizes Di(2-ethylhexyl) phthalate-induced uterine fibrosis, oxidative stress, and apoptosis in mice.","authors":"Vikash Kumar, Rahul Kumar, Guruswami Gurusubramanian, Saurabh Singh Rathore, Vikas Kumar Roy","doi":"10.1007/s11033-025-10423-4","DOIUrl":"https://doi.org/10.1007/s11033-025-10423-4","url":null,"abstract":"<p><strong>Background: </strong>Di (2-ethylhexyl) phthalate (DEHP), a widely used chemical in plastics, has various health hazards when accumulated in the environment. DEHP has been shown to cause toxicity to various organs like the liver, kidney, and reproductive organs. Phytocompounds have been used to mitigate DEHP-mediated organ toxicity. Morin hydrate (MH), a phytocompound, has also been known to protect tissue and organs against various induced toxic conditions. However, the impact of MH treatment on DEHP-induced uterine dysfunction has not yet been still investigated. Therefore, the present study has investigated the impact of MH on uterine physiology and morphology of DEHP-intoxicated mice.</p><p><strong>Methods: </strong>Twenty Swiss mice were randomly divided into four groups (n = 5): control (CN), Di (2-ethylhexyl) phthalate (DP) (500 mg/kg), Di (2-ethylhexyl) phthalate (DP) + Morin hydrate (MH) (10 mg/kg), and Di (2-ethylhexyl) phthalate (DP) + Morin hydrate (MH) (100 mg/kg) for 14 days.</p><p><strong>Results: </strong>Our results showed that the expression of active caspase-3 was up-regulated, and Bcl2 was down-regulated in the uterus of DEHP-treated mice. Furthermore, the uterine histology also showed decreased luminal epithelium height and endometrium thickness in the DEHP-treated mice; however, myometrium layer (outer and inner) thickness was higher in DEHP-treated mice. The uterus of DEHP-treated mice also exhibited elevated oxidative stress and fibrosis, along with decreased estrogen levels and expression of estrogen receptors (ERs). MH treatment at both doses (10 and 100 mg/kg) suppressed DEHP-induced uterine apoptosis (increased Bcl2 and decreased active caspase-3 expression) and fibrosis. MH also increased the circulating estrogen levels at both doses; Further ERα and ERβ expression were elevated in the MH treated in both groups). The levels of oxidative stress malondialdehyde (MDA levels) were higher in the uterus of DEHP alone and DEHP plus MH-treated mice (100 mg/kg). Moreover, the antioxidant enzymes catalase, glutathione peroxidase and superoxide dismutase (Gpx and SOD) did not show a dose-dependent response to MH treatment; rather, MH showed a differential effect on these enzymes. The elevated oxidative stress in 100 mg/kg MH treated uterus, despite elevated Gpx and SOD, remains unclear. Thus, these results suggest that MH ameliorates DEHP-induced uterine fibrosis, apoptosis, and histoarchitecture through ER modulation.</p><p><strong>Conclusion: </strong>These findings suggest that MH improves uterine structure and function in DEHP-treated mice.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"308"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625267","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":"Simultaneous isolation and culture of endothelial colony-forming cells, endothelial cells and vascular smooth muscle cells from human umbilical cords.","authors":"Marie-Lotus Burger, Steeve Menétrey, Catherine Ponti, Karine Lepigeon, Joanna Sichitiu, Anne-Christine Peyter","doi":"10.1007/s11033-025-10418-1","DOIUrl":"10.1007/s11033-025-10418-1","url":null,"abstract":"<p><strong>Background: </strong>Regulation of the human umbilical circulation under physiological and pathological conditions remains poorly understood. We previously demonstrated that intrauterine growth restriction (IUGR) is associated with sex-specific alterations in the human umbilical circulation. Our data strongly suggest a differential contribution of subcellular compartmentation depending on fetal sex, vessel type and the presence of IUGR. We therefore developed a protocol to isolate and culture umbilical vascular cells to further investigate the relative contribution of each cell type and subcellular compartmentation to the human umbilical circulation regulation.</p><p><strong>Methods and results: </strong>Human umbilical cords and cord blood were collected just after delivery. Mononuclear cells were recovered from cord blood using a Ficoll gradient and cultured to obtain endothelial colony-forming cells (ECFCs). Endothelial cells (ECs) were isolated from human umbilical vein (HUV) and arteries (HUAs) by collagenase/dispase digestion, and vascular smooth muscle cells (SMCs) by migration from vascular explants. All cell types were characterized by visualization, and by analysis of biomarkers using immunocytofluorescence and Western blot. ECFCs were also submitted to polychromatic flow cytometry analysis.</p><p><strong>Conclusions: </strong>This protocol enables simultaneous isolation and culture of ECFCs, HUVECs, HUAECs, HUVSMCs and HUASMCs from the same umbilical cord. It is simpler, faster and more cost-effective than other previously published methods, with good success rates. This will be helpful to further investigate the regulatory mechanisms implicated in the human umbilical circulation under physiological and pathological conditions and to study the influence of fetal sex.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"302"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11906538/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625268","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":"Site-specific PEGylation of recombinant protein SAC-TRAIL and characterization of the effect on antitumor activity.","authors":"Shuting Pan, Yuguo Dong, Xuedong Wang, Yuhong Ren, Zebo Xiu, Jian Zhang","doi":"10.1007/s11033-025-10412-7","DOIUrl":"https://doi.org/10.1007/s11033-025-10412-7","url":null,"abstract":"<p><strong>Background: </strong>Tumor necrosis factor-related apoptosis-inducing ligand (TRAIL) is a promising anti-tumor agent with selective cytotoxicity across a broad spectrum of tumor cell lines. In previous studies, we engineered a recombinant protein drug, SAC-TRAIL, which significantly enhanced the antitumor activity of TRAIL without exhibiting toxicity to normal cells. However, its application in cancer therapy is restricted due to poor resistance to proteolytic degradation and a limited in vivo half-life.</p><p><strong>Methods and results: </strong>To address these limitations, we designed a site-specific PEGylation method by conjugating methoxy-polyethylene glycol maleimide (mPEG-MAL) to the thiol group of specific cysteine residues on SAC-TRAIL. In this study, we optimized the PEGylation conditions for SAC-TRAIL, evaluated the in vitro activity and stability of mPEG-MAL-SAC-TRAIL, and conducted in vivo studies to assess its antitumor efficacy. It was shown that approximately 95% of SAC-TRAIL was PEGylated by mPEG-MAL within 30 min, exhibiting improved in vitro stability and antitumor activity. Furthermore, mPEG-MAL-SAC-TRAIL demonstrated enhanced anti-tumor activity and stability in an animal tumor model.</p><p><strong>Conclusions: </strong>In summary, site-specific PEGylation at Cys-SH residues offers a promising strategy for extending the effective duration of SAC-TRAIL.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"305"},"PeriodicalIF":2.6,"publicationDate":"2025-03-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143625273","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 aptamer-protein interactions for bovine sperm sorting through in silico and in vitro studies.","authors":"Sumit Kumar Singh, Manya Mathur, Himanshu Kamboj, Jai Kumar Kaushik, Ashok Kumar Mohanty, Sudarshan Kumar","doi":"10.1007/s11033-025-10402-9","DOIUrl":"https://doi.org/10.1007/s11033-025-10402-9","url":null,"abstract":"<p><strong>Background: </strong>In recent years, aptamers have emerged as versatile molecular tools with promising applications in various fields, including diagnostics and therapeutics. In livestock reproduction, their application holds promise for improving the sorting and identification of X and Y chromosome-bearing sperm cells, which is essential for increasing productivity in the dairy and beef industries.</p><p><strong>Method: </strong>This study utilized seven rounds of Cell-SELEX using bovine X and Y sperm cells to isolate specific aptamers that target these cells. A comprehensive in-silico analysis was conducted to evaluate the binding interactions between the selected aptamer sequences and the differentially expressed plasma membrane proteins of X and Y sperm cells.</p><p><strong>Result: </strong>The analysis identified the aptamer sequences APT1X, APT2X, and APT5X as having the most stable interactions with the X sperm surface proteins TLR8 (Toll-like receptor 8), CLRN3, and TLR7 (Toll-like receptor 7), respectively. APT2Y exhibited a relatively high affinity for the protein SCAMP1, a Y-sperm-specific protein. Aptamer‒protein interactions are characterized by hydrogen bonds and hydrophobic contacts. Notably, APT1X formed the greatest number of hydrogen bonds with the polar residues of TLR8, whereas TLR7-APT5X interactions exhibited the greatest number of hydrophobic contacts.</p><p><strong>Conclusion: </strong>The use of in-silico analysis for evaluating the interaction between candidate aptamer sequences and differentially expressed X and Y bovine sperm proteins provides valuable insights. This approach might facilitate the sorting of bovine X and Y sperm cells, contributing to advancements in livestock reproduction strategies.</p>","PeriodicalId":18755,"journal":{"name":"Molecular Biology Reports","volume":"52 1","pages":"300"},"PeriodicalIF":2.6,"publicationDate":"2025-03-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143630537","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}