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The Antimicrobial Peptide D-CONGA-Q7 Eradicates Drug-Resistant E. coli by Disrupting Bacterial Cell Membranes.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-21 DOI: 10.3390/biology14030226
Zonghan Jiang, Leisheng Sun, Yuanyuan Li, Haoyu Li, Yu Fu, Jiyun Li, Zhiliang Sun
{"title":"The Antimicrobial Peptide D-CONGA-Q7 Eradicates Drug-Resistant <i>E. coli</i> by Disrupting Bacterial Cell Membranes.","authors":"Zonghan Jiang, Leisheng Sun, Yuanyuan Li, Haoyu Li, Yu Fu, Jiyun Li, Zhiliang Sun","doi":"10.3390/biology14030226","DOIUrl":"10.3390/biology14030226","url":null,"abstract":"<p><p><i>Escherichia coli</i> (<i>E. coli</i>) is a zoonotic bacterium widespread in the environment, highly transmissible, and responsible for significant economic losses and millions of cases of illness annually. The rise of multidrug-resistant (MDR) strains has rendered last-line antibiotics such as polymyxin and meropenem ineffective, making the development of new antibiotics urgent. Although D-CONGA-Q7 has broad-spectrum bactericidal activity, its underlying mechanism remains poorly understood. In this study, we used in vitro and in vivo experiments to demonstrate that D-CONGA-Q7 effectively kills both antibiotic-sensitive and multidrug-resistant strains of <i>E. coli</i>. D-CONGA-Q7 disrupts the cell membranes of Gram-negative bacteria, and the treatment of <i>E. coli</i> strain <i>LN175</i> with D-CONGA-Q7 resulted in a significant up-regulation of the <i>Mlac</i> gene, suggesting that D-CONGA-Q7 may interact with phospholipids in the cell membrane. Furthermore, in treating <i>K88</i>-induced bacterial enteritis in the small intestine, D-CONGA-Q7 significantly reduced intestinal inflammation. In conclusion, this study provides a novel approach to combat drug-resistant <i>E. coli</i>.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11940214/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711858","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}
引用次数: 0
Dietary Methionine Hydroxy Analog Regulates Hepatic Lipid Metabolism via SIRT1/AMPK Signaling Pathways in Largemouth Bass Micropterus salmodies.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-21 DOI: 10.3390/biology14030227
Ju Zhao, Zhongjie Yang, Haifeng Liu, Chao Yang, Yujun Chen, Quanquan Cao, Jun Jiang
{"title":"Dietary Methionine Hydroxy Analog Regulates Hepatic Lipid Metabolism via SIRT1/AMPK Signaling Pathways in Largemouth Bass <i>Micropterus salmodies</i>.","authors":"Ju Zhao, Zhongjie Yang, Haifeng Liu, Chao Yang, Yujun Chen, Quanquan Cao, Jun Jiang","doi":"10.3390/biology14030227","DOIUrl":"10.3390/biology14030227","url":null,"abstract":"<p><p>This experiment was arranged to explore the impacts of dietary MHA on liver lipid metabolism in largemouth bass. A total of 480 fish (14.49 ± 0.13 g) were randomly allocated into four groups, each with three replicates. They were then given four different diets containing graded levels of MHA (0.0, 3.0, 6.0, and 9.0 g/kg) for 84 days. The results showed that dietary MHA increased hepatic lipid vacuoles and lipid content (<i>p</i> < 0.05). Dietary supplementation with MHA 9.0 g/kg diets increased the activities of acetyl-coA carboxylase (ACC), fatty acid synthase (FAS), and stearoyl-coA desaturase 1 (SCD-1). Dietary MHA up-regulated the mRNA expressions of liver lipid synthesis (ACC, FAS, SCD-1 and SREBP-1c) (<i>p</i> < 0.05). Furthermore, compared with the 0.0 g/kg diet group, the group supplemented with 9.0 g/kg MHA in the diet exhibited a significant decrease in the activities of liver lipid-oxidation-related enzymes (acetyl-CoA carboxylase (ACC), fatty acid synthase (FAS), and stearoyl-CoA desaturase 1 (SCD-1), as well as HSL and CPT1) and the gene expressions of ATGL, HSLa, HSLb, CPT1a, and PPARα (<i>p</i> < 0.05). Additionally, the mRNA expressions and protein levels of SIRT1 and AMPK in the 9.0 g/kg MHA-supplemented group were significantly lower than those in the 0.0 g/kg diet group (<i>p</i> < 0.05). Overall, the present results suggested that dietary MHA could increase lipid accumulation through regulating SIRT1/AMPK signaling pathways in the livers of largemouth bass.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939594/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711720","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}
引用次数: 0
Antarctic Soil and Viable Microbiota After Long-Term Storage at Constant -20 °C.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030222
Cristian-Emilian Pop, Sergiu Fendrihan, Nicolai Crăciun, Garbis Vasilighean, Daniela Ecaterina Chifor, Florica Topârceanu, Andreea Florea, Dan Florin Mihăilescu, Maria Mernea
{"title":"Antarctic Soil and Viable Microbiota After Long-Term Storage at Constant -20 °C.","authors":"Cristian-Emilian Pop, Sergiu Fendrihan, Nicolai Crăciun, Garbis Vasilighean, Daniela Ecaterina Chifor, Florica Topârceanu, Andreea Florea, Dan Florin Mihăilescu, Maria Mernea","doi":"10.3390/biology14030222","DOIUrl":"10.3390/biology14030222","url":null,"abstract":"<p><p>During an Antarctic expedition that took place in December 2010-January 2011 in the East Antarctic coastal region, soil samples were collected in aseptic conditions and stored for over a decade in freezers at -20 °C. Due to the shortly afterward passing of the Antarctic researcher in charge, Teodor Negoiță, the samples remained unintentionally frozen for a long period and were made available for research 13 years later. A chemical analysis of soil as well as screening for viable microbial presence was performed; soil analysis was conducted via inductively coupled plasma atomic emission spectroscopy (ICP-AES) and Fourier-transform infrared spectroscopy coupled with attenuated total reflection (FTIR-ATR). The presence of aerobic and facultative aerobic microbiotas was evaluated through a Biolog Ecoplates assay, and isolated strains were 16S sequenced for final taxonomic identification. The results obtained new insights into Antarctic soil characteristics from both chemical and microbiological aspects, even after over a decade of conservation.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11940283/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711803","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}
引用次数: 0
Research on Genotoxicity Evaluation of the Fungal Alpha-Amylase Enzyme on Drosophila melanogaster.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030219
Arzu Taşpınar Ünal, Fahriye Zemheri Navruz, Safiye Elif Korcan, Sinan İnce, Emine Uygur Göçer
{"title":"Research on Genotoxicity Evaluation of the Fungal Alpha-Amylase Enzyme on <i>Drosophila melanogaster</i>.","authors":"Arzu Taşpınar Ünal, Fahriye Zemheri Navruz, Safiye Elif Korcan, Sinan İnce, Emine Uygur Göçer","doi":"10.3390/biology14030219","DOIUrl":"10.3390/biology14030219","url":null,"abstract":"<p><p>Alpha-amylase is an extracellular enzyme abundantly produced from fungal sources. The catalytic activity of microbial enzymes is higher, more stable, and economical compared to plant and animal enzymes; they can be produced in large quantities in a short time and do not produce unwanted by-products. In this study, the genotoxic effect of different concentrations (25 mg/mL, 50 mg/mL, and 100 mg/mL) of a native fungal thermostable alpha-amylase enzyme, produced from the <i>Aspergillus niger</i> G2-1 isolate with an enzyme activity of 38.6 U/mg, was investigated on the <i>Drosophila melanogaster</i> model organism. The effect of the alpha-amylase enzyme added to the culture medium on the developmental performance of <i>D. melanogaster</i> was assessed through larval toxicity analysis, its effect on DNA damage through the comet assay, and its response to oxidative stress through various biochemical parameters. As a result, it was determined that low-dose alpha-amylase enzyme concentration (25 mg/mL) did not cause intracellular oxidative stress, did not cause genotoxicity, and did not adversely affect growth performance, although feeding with alpha-amylase at 50 mg/mL and 100 mg/mL concentrations caused a significant decrease in the survival rate of <i>D. melanogaster</i> larvae and an increase in DNA damage rate in imagos. However, oxidative stress parameters in adult <i>D. melanogaster</i> did not change after the same alpha-amylase application.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939532/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711776","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}
引用次数: 0
Impacts of Urbanization and Habitat Characteristics on the Human Risk of West Nile Disease in the United States.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030224
Jian Ma, Nuo Xu, Ying Xu, Zheng Y X Huang, Chuanwu Chen, Yingying X G Wang
{"title":"Impacts of Urbanization and Habitat Characteristics on the Human Risk of West Nile Disease in the United States.","authors":"Jian Ma, Nuo Xu, Ying Xu, Zheng Y X Huang, Chuanwu Chen, Yingying X G Wang","doi":"10.3390/biology14030224","DOIUrl":"10.3390/biology14030224","url":null,"abstract":"<p><p>Since its initial identification in 1999, West Nile virus has spread rapidly throughout North America, exhibiting high spatial heterogeneity. Previous studies exploring the spatial patterns of the human risk of West Nile Disease (WND) in the United States have demonstrated the important roles of landscape and climatic factors. However, relatively few studies have endeavored to elucidate the effects of habitat fragmentation on WND risk, though it has been considered to affect disease risk through its influence on host community composition, vector abundance and human-vector-host interactions. In this study, we investigated and compared the effects of landscape factors, with a particular focus on habitat fragmentation, on the human risk of WND in the eastern and western United States. Our results demonstrated that landscape factors exhibited significant relationships with disease risk in both regions, while their effects could vary between the regions. Generally, urbanization was positively correlated with the WND risk in both regions, while the fragmentation indices of developed areas showed negative correlations only in the east. In contrast, forest area positively correlated with WND risk in the west, while a negative relationship was found in the east. The fragmentation indices of natural areas in both regions were generally positively associated with WND risk. These differences may be due to the differences in vector species and related processes (host-related or vector-related) between the two regions. With ongoing environmental change, this study provides new insights into understanding the risk factors for WND in the United States and the effects of habitat fragmentation on animal disease risk.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939350/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711808","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}
引用次数: 0
Targeting Atherosclerosis via NEDD4L Signaling-A Review of the Current Literature.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030220
Lucas Fornari Laurindo, Victória Dogani Rodrigues, Enzo Pereira de Lima, Beatriz Leme Boaro, Julia Maria Mendes Peloi, Raquel Cristina Ferraroni Sanches, Cláudia Rucco Penteado Detregiachi, Ricardo José Tofano, Maria Angelica Miglino, Katia Portero Sloan, Lance Alan Sloan, Sandra Maria Barbalho
{"title":"Targeting Atherosclerosis via NEDD4L Signaling-A Review of the Current Literature.","authors":"Lucas Fornari Laurindo, Victória Dogani Rodrigues, Enzo Pereira de Lima, Beatriz Leme Boaro, Julia Maria Mendes Peloi, Raquel Cristina Ferraroni Sanches, Cláudia Rucco Penteado Detregiachi, Ricardo José Tofano, Maria Angelica Miglino, Katia Portero Sloan, Lance Alan Sloan, Sandra Maria Barbalho","doi":"10.3390/biology14030220","DOIUrl":"10.3390/biology14030220","url":null,"abstract":"<p><p>Cardiovascular diseases are the primary cause of mortality worldwide. In this scenario, atherosclerotic cardiovascular outcomes dominate since their incidence increases as populations grow and age. Atherosclerosis is a chronic inflammatory disease that affects arteries. Although its pathophysiology is heterogeneous, some genes are indissociably associated with its occurrence, and understanding their effects on the disease's occurrence could undoubtedly define effective screening and treatment strategies. One such gene is NEDD4L. The NEDD4L gene is related to ubiquitin ligase enzyme activities. It is essential to regulate vascular inflammation, atherosclerosis plaque stability, endothelial and vascular smooth cell function, and lipid metabolism, particularly in controlling cholesterol levels. However, the evidence is dubious, and no review has yet synthesized the effects of targeting NEDD4L on atherosclerosis. Therefore, our review aims to fill this gap by analyzing the literature on NEDD4L concerning atherosclerosis occurrence. To achieve this goal, we performed a systematic literature search of reputable databases, including PubMed, Google Scholar, Web of Science, Scopus, and Embase. The inclusion criteria comprised peer-reviewed original studies using in vitro and animal models due to the unavailability of relevant clinical studies. Systematic reviews, meta-analyses, and articles that did not focus on the relationship between NEDD4L and atherosclerosis and those unrelated to this health condition were excluded. Studies not written in the English language were also excluded. The search strategy included studies from January 2000 to January 2025 in the final analysis to capture recent advancements. Following screening, five studies were included. Most of the included studies underscored NEDD4L's role in increasing atherosclerosis plaque formation, but other studies indicated that stimulating NEDD4L may positively counter atherosclerosis plaque formation. Therefore, future research endeavors must address several limitations, which have been tentatively highlighted throughout the manuscript, for more informative research based on preclinical studies and to successfully translate the findings into clinical trials.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939431/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711853","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}
引用次数: 0
Spatial Distribution Patterns, Environmental Drivers, and Hotspot Dynamics of the European Rabbit on a Mediterranean Island: Implications for Conservation and Management.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030225
Yiannis G Zevgolis, Foto Konsola, Athanasia-Zoi Bouloutsi, Niki-Nektaria Douskou, Ioanna Emmanouilidou, Maria-Alexandra Kordatou, Anastasia Lekka, Maria-Eirini Limnioti, Maria Loupou, Despoina Papageorgiou, Michailia-Theodora Papamakariou, Eleni Tsiripli, Panagiotis Tzedopoulos, Christos Xagoraris, Alexandros D Kouris, Panayiotis G Dimitrakopoulos
{"title":"Spatial Distribution Patterns, Environmental Drivers, and Hotspot Dynamics of the European Rabbit on a Mediterranean Island: Implications for Conservation and Management.","authors":"Yiannis G Zevgolis, Foto Konsola, Athanasia-Zoi Bouloutsi, Niki-Nektaria Douskou, Ioanna Emmanouilidou, Maria-Alexandra Kordatou, Anastasia Lekka, Maria-Eirini Limnioti, Maria Loupou, Despoina Papageorgiou, Michailia-Theodora Papamakariou, Eleni Tsiripli, Panagiotis Tzedopoulos, Christos Xagoraris, Alexandros D Kouris, Panayiotis G Dimitrakopoulos","doi":"10.3390/biology14030225","DOIUrl":"10.3390/biology14030225","url":null,"abstract":"<p><p>The European rabbit (<i>Oryctolagus cuniculus</i>) presents a significant conservation and management challenge in Greece. While it has been listed in national biodiversity assessments, its population dynamics on the island of Lemnos demonstrate the characteristics of a highly adaptable and rapidly expanding species, exerting substantial ecological and economic impacts. Addressing this issue requires a spatially explicit understanding of its distribution patterns and habitat preferences, particularly given its extensive population growth over the past three decades. To this end, we conducted 40 field surveys across the island, documenting 1534 presence records of the species. We applied Kernel Density Estimation, Getis-Ord Gi *, and Anselin Local Moran's I to identify the spatial distribution patterns and significant hotspots. A spatial lag model was used to quantify hotspot intensity and clustering dynamics, while abiotic, biotic, and anthropogenic factors were analyzed to assess habitat associations. Our results revealed that rabbit hotspots are predominantly concentrated in fertile lowland agroecosystems, with nearly 60% of high-density areas overlapping conservation zones. Soil and field conditions, grazing-supporting landscapes, and arable and subsidized agricultural areas emerged as significant predictors of <i>O. cuniculus</i> presence. The observed spatial dependencies indicated that while hotspot intensities and clustering dynamics are influenced by the conditions in neighboring areas, habitat characteristics remain fundamental in shaping their distribution, highlighting the broader landscape-scale spatial patterns affecting rabbit populations. These findings underscore the necessity of adopting spatially informed management strategies that mitigate agricultural impacts while accounting for interconnected spatial dynamics, providing a foundation for informed decision-making to manage rabbit populations while balancing conservation and agricultural priorities.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939462/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711846","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}
引用次数: 0
Role of lncRNA XIST/miR-146a Axis in Matrix Degradation and Apoptosis of Osteoarthritic Chondrocytes Through Regulation of MMP-13 and BCL2.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030221
Sara Cheleschi, Nicola Mondanelli, Iole Seccafico, Roberta Corsaro, Elena Moretti, Giulia Collodel, Antonella Fioravanti
{"title":"Role of lncRNA XIST/miR-146a Axis in Matrix Degradation and Apoptosis of Osteoarthritic Chondrocytes Through Regulation of MMP-13 and BCL2.","authors":"Sara Cheleschi, Nicola Mondanelli, Iole Seccafico, Roberta Corsaro, Elena Moretti, Giulia Collodel, Antonella Fioravanti","doi":"10.3390/biology14030221","DOIUrl":"10.3390/biology14030221","url":null,"abstract":"<p><p>Growing evidence demonstrates the critical roles of long non-coding RNAs (lncRNAs) in osteoarthritis (OA) pathogenesis. The lncRNA XIST is one of the most commonly studied; however, its function remains unclear. This study aimed to research the molecular mechanism of XIST in human OA chondrocytes. Cells were transfected with small interfering RNA against XIST or with a microRNA (miR)-146a inhibitor in the presence of interleukin (IL)-1β. Viability was detected using MTT; apoptosis using cytometry; and XIST, miR-146a, B-cell lymphoma (BCL)2, and metalloproteinase (MMP)-13 expression using real-time PCR. The analysis of p50 and p65 nuclear factor (NF)-κB was conducted using PCR and immunofluorescence. Our findings showed that XIST was highly expressed in OA chondrocytes when compared to T/C-28a2 lines. Furthermore, XIST silencing significantly promoted survival and limited apoptosis, with a concomitant over expression of BCL2, reduction in MMP-13 mRNA, and NF-κB activation after IL-1β stimulus. Conversely, miR-146a was significantly down-regulated in OA cells, while its levels were increased following XIST silencing; moreover, miR-146a inhibition induced opposite results to those caused by XIST. Finally, the down-regulation of XIST was correlated to the over-expression of miR-146a, with a consequent modulation of BCL2, MMP-13, and NF-κB. This study suggests an influence of the XIST/miR-146a axis on the viability, apoptosis, and matrix degradation occurring in OA.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11940272/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711792","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}
引用次数: 0
Weighted Gene Networks Derived from Multi-Omics Reveal Core Cancer Genes in Lung Cancer.
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-20 DOI: 10.3390/biology14030223
Qingcai He, Zhilong Mi, Ziqiao Yin, Zhiming Zheng, Binghui Guo
{"title":"Weighted Gene Networks Derived from Multi-Omics Reveal Core Cancer Genes in Lung Cancer.","authors":"Qingcai He, Zhilong Mi, Ziqiao Yin, Zhiming Zheng, Binghui Guo","doi":"10.3390/biology14030223","DOIUrl":"10.3390/biology14030223","url":null,"abstract":"<p><p>Lung cancer remains the leading cause of cancer-related deaths worldwide, driven by its complexity and the heterogeneity of its subtypes, which influence pathogenesis, tumor microenvironment, and genetic alterations. We developed a novel weighted gene regulatory network reconstruction method based on maximum entropy and Markov chain entropy principles, which integrates gene expression and DNA methylation data to generate biologically informed networks. Applied to LUAD and LUSC datasets, we define a network methylation index to determine whether gene methylation acts as oncogenic or tumor-suppressive. By revealing a stable core set of pathogenic genes, we identify not only genes with significant expression changes, such as <i>CD74</i> and <i>HGF</i>, but also pathogenic genes with stable expression, such as <i>BRAF</i> and <i>KDM6A</i>. Additionally, we uncover potential driver genes, such as <i>CORO2B</i> and <i>C20orf194</i>, associated with disease stage, gender, and smoking status. This method offers a more comprehensive understanding of NSCLC mechanisms, paving the way for improved therapeutic strategies.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 3","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11939803/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143711893","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}
引用次数: 0
The Role of tRNA-Derived Small RNAs (tsRNAs) in Regulating Cell Death of Cardiovascular Diseases. tRNA衍生的小RNA(tsRNA)在调控心血管疾病细胞死亡中的作用。
IF 3.6 3区 生物学
Biology-Basel Pub Date : 2025-02-19 DOI: 10.3390/biology14020218
Jiaxu Guo, Xinzhe Chen, Jiahao Ren, Yunhong Wang, Kun Wang, Sumin Yang
{"title":"The Role of tRNA-Derived Small RNAs (tsRNAs) in Regulating Cell Death of Cardiovascular Diseases.","authors":"Jiaxu Guo, Xinzhe Chen, Jiahao Ren, Yunhong Wang, Kun Wang, Sumin Yang","doi":"10.3390/biology14020218","DOIUrl":"10.3390/biology14020218","url":null,"abstract":"<p><p>Transfer RNA is a class of non-coding RNA that plays a role in amino acid translocation during protein synthesis. After specific modification, the cleaved fragment is called tRNA-derived small RNA. The advancement of bioinformatics technology has led to an increase in the visibility of small RNA derived from tRNA, and their functions in biological processes are being revealed. These include gene silencing, transcription and translation, epigenetics, and cell death. These properties have led to the implication of tsRNAs in various diseases. Although the current research mainly focuses on the role of tRNA-derived small RNA in cancer, there is mounting evidence that they are also strongly associated with cardiovascular disease, including cardiac hypertrophy, atrial fibrillation, heart failure, and myocarditis. Therefore, the regulatory role of tRNA-derived small RNA in cardiovascular disease will become an emerging therapeutic strategy. This review succinctly summarizes the characteristics, classification, and regulatory effect of tsRNA. By exploring the mechanism of tsRNA, it will provide a new tool for the diagnosis and prognosis of cardiovascular disease.</p>","PeriodicalId":48624,"journal":{"name":"Biology-Basel","volume":"14 2","pages":""},"PeriodicalIF":3.6,"publicationDate":"2025-02-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11853139/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143504991","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}
引用次数: 0
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