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Microplastics and soil microbiomes. 微塑料和土壤微生物组。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-29 DOI: 10.1186/s12915-025-02387-5
Kai Wang, Fayuan Wang, Yongxiang Yu, Side Yang, Yujie Han, Huaiying Yao
{"title":"Microplastics and soil microbiomes.","authors":"Kai Wang, Fayuan Wang, Yongxiang Yu, Side Yang, Yujie Han, Huaiying Yao","doi":"10.1186/s12915-025-02387-5","DOIUrl":"https://doi.org/10.1186/s12915-025-02387-5","url":null,"abstract":"<p><p>Microplastics, small particles that are released from plastics as they degrade, are ubiquitous and increasing in amount in most environments, including the soil. Here, we review the impacts of microplastics on the structure and activity of soil microbiomes and their key ecosystem functions. We then discuss how soil microbiomes regulate the environmental behavior of microplastics, such as enhancing pollutant adsorption and promoting degradation. Finally, we describe knowledge gaps and future priorities in understanding the ecological risks and potential mitigation strategies for microplastic pollution.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"273"},"PeriodicalIF":4.5,"publicationDate":"2025-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12398120/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943900","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Anterior olfactory nucleus mediates parallel inter-bulbar pathways in rodents. 啮齿动物前嗅核介导平行球间通路。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-29 DOI: 10.1186/s12915-025-02353-1
Li Wang, Anan Li, Sen Jin, Yue Liu, Feilong Yu, Rafi Haddad, Fan Jia, Peng Su, Jiajia Guo, Zhijian Zhang, Qing Liu, Fuqiang Xu
{"title":"Anterior olfactory nucleus mediates parallel inter-bulbar pathways in rodents.","authors":"Li Wang, Anan Li, Sen Jin, Yue Liu, Feilong Yu, Rafi Haddad, Fan Jia, Peng Su, Jiajia Guo, Zhijian Zhang, Qing Liu, Fuqiang Xu","doi":"10.1186/s12915-025-02353-1","DOIUrl":"https://doi.org/10.1186/s12915-025-02353-1","url":null,"abstract":"<p><strong>Background: </strong>Interhemispheric communication of olfactory information is crucial for accurate odor perception and odor source localization in animals. However, the underlying structural basis for this communication in mammals remains poorly understood. Using electrophysiological recordings and virus-mediated tracing, we systematically dissected the neural circuits involved in interhemispheric transmission between the bilateral olfactory bulbs (OBs).</p><p><strong>Results: </strong>We identified the anterior olfactory nucleus (AON) as a central hub that facilitates direct communication between the OBs via three distinct pathways: the excitatory inter-bulbar pathway, the inhibitory inter-bulbar pathway, and the bi-bulbar co-innervation pathway. Notably, our results highlight the differential roles of AON subregions in these pathways: the pars externa (AONpE) primarily mediates the inhibitory pathway, while the pars principalis (AONpP) participates in all three pathways. These pathways recruit CaMKIIα-positive neurons in specific AON regions, which in turn project to distinct neuronal populations within the OBs.  CONCLUSIONS: This study provides novel anatomical insights into the neural circuits underlying interhemispheric olfactory communication. The differential connectivity patterns of AON subregions contribute to a better understanding of how bilateral olfactory information is processed and transferred between the two OBs.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"271"},"PeriodicalIF":4.5,"publicationDate":"2025-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12395849/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943822","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
YModPred: an interpretable prediction method for multi-type RNA modification sites in S. cerevisiae based on deep learning. YModPred:一种基于深度学习的酿酒酵母多类型RNA修饰位点可解释预测方法。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-29 DOI: 10.1186/s12915-025-02372-y
Chunyan Ao, Mengting Niu, Quan Zou, Liang Yu, Yansu Wang
{"title":"YModPred: an interpretable prediction method for multi-type RNA modification sites in S. cerevisiae based on deep learning.","authors":"Chunyan Ao, Mengting Niu, Quan Zou, Liang Yu, Yansu Wang","doi":"10.1186/s12915-025-02372-y","DOIUrl":"https://doi.org/10.1186/s12915-025-02372-y","url":null,"abstract":"<p><strong>Background: </strong>RNA post-transcriptional modifications involve the addition of chemical groups to RNA molecules or alterations to their local structure. These modifications can change RNA base pairing, affect thermal stability, and influence RNA folding, thereby impacting alternative splicing, translation, cellular localization, stability, and interactions with proteins and other molecules. Accurate prediction of RNA modification sites is essential for understanding modification mechanisms.</p><p><strong>Results: </strong>We propose a novel deep learning model, YModPred, which accurately predicts multiple types of RNA modification sites in S. cerevisiae based on RNA sequences. YModPred combines convolution and self-attention mechanisms to enhance the model's ability to capture global sequence information and improve local feature learning. The model can predict multi-type RNA modification sites. Comparative analysis against benchmark models demonstrates that YModPred outperforms existing state-of-the-art methods in predicting various RNA modification types. Additionally, the model's prediction performance is further validated through visualization and motif analysis.</p><p><strong>Conclusions: </strong>YModPred is a deep learning-based model that effectively captures sequence features and dependencies, enabling accurate prediction of multi-type RNA modification sites in S. cerevisiae. We believe it will facilitate further research into the mechanisms of RNA modifications.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"272"},"PeriodicalIF":4.5,"publicationDate":"2025-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12398117/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943929","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Genetic stability in the lower Yangtze River basin from Song to Qing Dynasty. 宋清时期长江下游流域遗传稳定性研究。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-29 DOI: 10.1186/s12915-025-02343-3
Haifeng He, Xinyuan Kong, Le Tao, Liangsai Zhu, Xuanbo Wang, Mengting Xu, Yuanming Chen, Kongyang Zhu, Yu Xu, Haodong Chen, Hao Ma, Rui Wang, Xiaomin Yang, Tianyou Bai, Jianxin Guo, Yang Yang, Xin Jia, Chuan-Chao Wang
{"title":"Genetic stability in the lower Yangtze River basin from Song to Qing Dynasty.","authors":"Haifeng He, Xinyuan Kong, Le Tao, Liangsai Zhu, Xuanbo Wang, Mengting Xu, Yuanming Chen, Kongyang Zhu, Yu Xu, Haodong Chen, Hao Ma, Rui Wang, Xiaomin Yang, Tianyou Bai, Jianxin Guo, Yang Yang, Xin Jia, Chuan-Chao Wang","doi":"10.1186/s12915-025-02343-3","DOIUrl":"10.1186/s12915-025-02343-3","url":null,"abstract":"<p><strong>Background: </strong>The lower Yangtze River basin holds a pivotal role in Chinese history. As previous genetic research in this region has primarily focused on modern population datasets, the limited availability of ancient human genomes has hindered our capacity to reconstruct detailed ancient population histories and evaluate the genetic impact of Yellow River-related groups.  RESULTS: Here, we present the first set of ancient human genomes from the lower Yangtze River basin, comprising eight individuals from the Song to Qing Dynasties (960-1921 CE). We observed a high degree of genetic homogeneity in most samples, suggesting long-term regional genetic stability. Seven individuals were estimated to derive 69.3-100% of their ancestry from ancient Yellow River-related populations, while the remainder can be attributed to a southern East Asian substrate. Contemporary Han Chinese residing in the lower Yangtze basin can be modelled as direct genetic descendants of historical individuals from this area. Notably, one Qing Dynasty sample reveals a genetic link to the Eastern Mediterranean.</p><p><strong>Conclusions: </strong>Our findings illustrate enduring genetic continuity in the lower Yangtze River basin throughout historical times. These findings underscore the region's role as a genetic bridge between northern and southern East Asia, retaining local rice-farming ancestry while being shaped by southward expansions of Yellow River-related ancestry.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"270"},"PeriodicalIF":4.5,"publicationDate":"2025-08-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12395641/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943905","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Decoupling transcriptome layers: the distinct and variable nature of circular RNAs. 解耦转录组层:环状rna的独特和可变性质。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-27 DOI: 10.1186/s12915-025-02375-9
María Alonso-García, Laurence Liaubet, Thomas Faraut, Patrice Dehais, Christa Kühn, Julie Demars, Beatriz Gutiérrez-Gil, Annie Robic
{"title":"Decoupling transcriptome layers: the distinct and variable nature of circular RNAs.","authors":"María Alonso-García, Laurence Liaubet, Thomas Faraut, Patrice Dehais, Christa Kühn, Julie Demars, Beatriz Gutiérrez-Gil, Annie Robic","doi":"10.1186/s12915-025-02375-9","DOIUrl":"https://doi.org/10.1186/s12915-025-02375-9","url":null,"abstract":"<p><strong>Background: </strong>Circular RNAs (circRNAs) and mRNAs are distinct transcripts from the same genes, produced by different splicing mechanisms. This study investigates the behavior of the circular transcriptome relative to the linear one across biological conditions and tissues. We analyzed transcriptomic data from 36 bovine monocyte-derived macrophage (MDM) samples collected during an ex vivo Mycobacterium avium ssp. paratuberculosis (MAP) infection experiment, stratified by Johne's disease (JD) antibody status (JD+ or JD-) and by infection condition (control or MAP infected). We extended our analysis to healthy bovine tissues, including neonatal and post-pubertal testes, and liver and muscle samples from 12 animals stratified by sex and feed efficiency.</p><p><strong>Results: </strong>In the 36 MDM samples, we identified 3358 exonic circRNAs derived from 1895 genes. By comparing the mean expression levels of circRNAs and linear transcripts, and considering the number of expressed genes, we estimate that the circular transcriptome is approximately 100 times smaller than the linear transcriptome. Analyses of the circular and linear transcriptomes revealed that MAP infection impacted only the linear transcriptome of MDM_JD- . The other three transcriptomes-circular JD- , circular JD+ , and linear JD+ -showed no infection-specific response. In the testes, maturation was associated with profound but uncoordinated changes in the circular and linear transcriptomes. While circRNA abundance declined, the linear transcriptome underwent a complete reorganization marked by the activation of novel genes. In the liver, female samples clustered by feed efficiency only when the entire linear and top-expressed circular transcriptomes were considered, respectively. In MDMs, the circular transcriptomes of control and infected samples, as well as the JD+ linear transcriptome, were dominated by donor-specific signatures. In contrast, the JD- linear transcriptome reflected MAP infection, with infection-specific structuring overriding inter-individual variation.</p><p><strong>Conclusions: </strong>In both MDM and tissue samples, circular and linear transcriptomes follow distinct and largely independent regulatory logics. While both capture inter-individual variation, circRNA expression appears more variable and may carry fewer physiological signals, especially when no clear phenotypic signature has been detected in the corresponding linear transcriptome. These findings demonstrate that circular and linear RNAs arise from complementary and nonredundant layers of gene regulation, emphasizing the importance of analyzing both in parallel.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"269"},"PeriodicalIF":4.5,"publicationDate":"2025-08-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12392627/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943952","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Understanding the traits underlying vaccine-driven virulence evolution in malaria parasites. 了解疟疾寄生虫疫苗驱动的毒力进化背后的特征。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-26 DOI: 10.1186/s12915-025-02366-w
Youngseo Jeong, Tsukushi Kamiya, Nicole Mideo
{"title":"Understanding the traits underlying vaccine-driven virulence evolution in malaria parasites.","authors":"Youngseo Jeong, Tsukushi Kamiya, Nicole Mideo","doi":"10.1186/s12915-025-02366-w","DOIUrl":"https://doi.org/10.1186/s12915-025-02366-w","url":null,"abstract":"<p><strong>Background: </strong>Vaccine-driven evolution can erode the beneficial effects of vaccination and is a concern, especially for newly introduced vaccines. While obvious candidates for vaccine-driven evolution are the precise parasite antigens that are the targets of vaccine-induced immunity, traits underlying parasite virulence may also evolve. Previous experimental work in rodent malaria demonstrated that evolution in vaccinated hosts resulted in increased parasite virulence, as measured by anemia (minimum red blood cell density). However, no genetic changes were detected at vaccine target sites, leaving the underlying traits or their interactions with host responses unclear. Using a hierarchical Bayesian framework, we fitted a mathematical model of within-host malaria infection dynamics to experimental time series data from infections in mice inoculated with parasites that had evolved in either vaccinated mice or sham-vaccinated (control) mice. We compared parameter estimates across treatments to understand which parasite traits could plausibly explain differences in infection dynamics and virulence.</p><p><strong>Results: </strong>Vaccine-evolved parasites elicited lower targeted immune killing and anemia-driven erythropoiesis, differences that were observed at the level of treatment means and when accounting for individual-level variation. We validated our model by calculating early-infection parasite multiplication rates, finding no differences across treatments (either experimental or simulated)-differences that would be expected if the vaccine target antigen (AMA-1) had evolved.</p><p><strong>Conclusions: </strong>Our results emphasize the complexity of virulence, showing that parasite modulation of host responses can influence disease severity. We also highlight the important role for evolution of parasite traits beyond target antigens in response to vaccination.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"267"},"PeriodicalIF":4.5,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12382291/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943923","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Cranial base synostosis in mice caused by upregulation of Wnt following partial inhibition of Shh. Shh部分抑制后Wnt上调引起的小鼠颅底关节闭锁。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-26 DOI: 10.1186/s12915-025-02381-x
Jiangping Chen, Chengyan Ren, Chuanqing Mao, Yongzhen Lai, Meng Lu, Yuanjing Jiang, Weihui Chen
{"title":"Cranial base synostosis in mice caused by upregulation of Wnt following partial inhibition of Shh.","authors":"Jiangping Chen, Chengyan Ren, Chuanqing Mao, Yongzhen Lai, Meng Lu, Yuanjing Jiang, Weihui Chen","doi":"10.1186/s12915-025-02381-x","DOIUrl":"https://doi.org/10.1186/s12915-025-02381-x","url":null,"abstract":"<p><strong>Background: </strong>The cranial base develops from multipotent mesenchymal cells through endochondral ossification. Genetic ablation of Sonic hedgehog (Shh) or Smoothened (Smo) leads to early apoptosis of cranial base cells, thus limiting the study of their role in the early development of cranial base. Our previous studies have shown that administration of 150 mg/kg Vismodegib (a Smo-specific small molecule antagonist) in E9.5- or E10.5-mice leads to premature mineralization of the skull base synchondroses. In the current study, we further investigated the molecular mechanisms underlying this model.</p><p><strong>Results: </strong>Mice exposed to Vismodegib exhibit premature hypertrophic differentiation and osteogenesis of the cranial base synchondroses after E14.5. However, the expression of Patched1 (Ptch1), Gli1, parathyroid hormone-related protein (PTHrP), and Phh3 was not downregulated in exposure mice. We demonstrate that Shh and Wnt signaling pathways were activated in the cranial base region at E10.5. Administration of Vismodegib at E10.5 transiently inhibited Shh signaling in the cranial base area and caused upregulation of β-catenin expression along with ectopic expression of lymphoid enhancer-binding factor 1 (Lef1) and Runx2 in the ventral mesenchymal cells of the cranial base primordium at E12.5. Diverse degrees of cranial base craniosynostosis induced by various doses of Vismodegib suggest a dose-dependent effect of Shh in early basicranium development.</p><p><strong>Conclusions: </strong>The present experiment suggests that early activation of Shh standardizes normal embryonic development of cranial base after initial morphogenesis, which may be mediated through the \"antagonistic\" effect of Shh signaling on Wnt signaling. Our study provides new insights into the role of signal-crosstalk in early morphogenesis of the cranial base.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"268"},"PeriodicalIF":4.5,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12382131/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943922","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
A species-wide inventory of receptor-like kinases in Arabidopsis thaliana. 拟南芥中受体样激酶的全物种清单。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-26 DOI: 10.1186/s12915-025-02364-y
Zachary Kileeg, G Adam Mott
{"title":"A species-wide inventory of receptor-like kinases in Arabidopsis thaliana.","authors":"Zachary Kileeg, G Adam Mott","doi":"10.1186/s12915-025-02364-y","DOIUrl":"https://doi.org/10.1186/s12915-025-02364-y","url":null,"abstract":"<p><strong>Background: </strong>The receptor-like kinases (RLKs) are the largest family of proteins in plants. Characterized members play critical roles in diverse processes from growth to immunity, and yet the majority do not have a known function. Assigning function to RLKs poses a significant challenge due to the specificity of ligand recognition and because of the often pleiotropic or redundant functions RLKs possess. These problems inhibit the important work of identifying stress-related receptors that may be targets for crop improvement. Identification of stress-related evolutionary signatures can provide a way to expedite the discovery of candidate receptors. Pan-genome analysis can be used to compare naturally occurring variants within a species to identify evolutionary signatures that may otherwise be hidden by using only a single ecotype.</p><p><strong>Results: </strong>Using 146 ecotypes of Arabidopsis, we generated a pan-RLKome to investigate species-wide natural diversity and identify structural variation and other patterns indicative of stress adaptation. We discovered significant presence/absence variation across a subset of RLKs, most of which occurred in specific subclades nested within receptor subfamilies. These same subclades tended to have arisen through proximal or tandem duplication, both of which are common mechanisms during the expansion of stress-related genes. We also identified strong positive selection across many gene subfamilies and a bias of positive selection in the extracellular domains of receptors. This suggests escape from adaptive conflict within the extracellular domain may have played a large role in the evolution and adaptation of the RLKs.</p><p><strong>Conclusion: </strong>Taken together, this work represents an excellent tool for the comparative study of RLKs and has identified lineages and subclades within RLK subfamilies with the hallmarks of involvement in stress adaptation.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"266"},"PeriodicalIF":4.5,"publicationDate":"2025-08-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12382012/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943813","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Effect of rubusoside, a natural sucrose substitute, on the metabolism of Scardovia wiggsiae: a novel potential cariogenic pathogen. 一种天然蔗糖替代品荆芥苷对一种新的潜在致龋病原菌——威格斯卡杜维亚代谢的影响。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-22 DOI: 10.1186/s12915-025-02321-9
Peiling Wang, Rong Ma, Dandan Ma, Yisha Lin, Yimin Wang, Yuanyuan Zhang, Jinpu Chu
{"title":"Effect of rubusoside, a natural sucrose substitute, on the metabolism of Scardovia wiggsiae: a novel potential cariogenic pathogen.","authors":"Peiling Wang, Rong Ma, Dandan Ma, Yisha Lin, Yimin Wang, Yuanyuan Zhang, Jinpu Chu","doi":"10.1186/s12915-025-02321-9","DOIUrl":"https://doi.org/10.1186/s12915-025-02321-9","url":null,"abstract":"<p><strong>Background: </strong>Intake of glucose and sucrose accelerates the development of dental caries in children. Scardovia wiggsiae (S. wiggsiae) is a potential pathogen of early childhood caries (ECC). Previous research conducted by our group has demonstrated that rubusoside, a non-cariogenic sweetener, inhibits the caries pathogen Streptococcus mutans (S. mutans). To investigate the effects of rubusoside as a sucrose substitute and sweet additive on the growth and metabolism of S.wiggsiae and to predict the underlying mechanisms.</p><p><strong>Results: </strong>The minimum inhibitory concentration (MIC) of rubusoside was determined to be 1% using the microdilution method. Both as a standalone agent and in combination with sucrose, rubusoside significantly inhibited the growth, acid-producing capability, and adhesion of S.wiggsiae. Utilizing techniques such as crystal violet staining, anthrone-sulfuric acid reaction, BCA protein quantification, scanning electron microscopy (SEM), and confocal laser scanning microscopy (CLSM), we demonstrated that rubusoside effectively suppressed the formation of S. wiggsiae biofilms and reduced the synthesis of extracellular polysaccharides (EPS) and soluble proteins. The whole genome sequencing of S. wiggsiae was conducted for the first time and combined with RNA-seq analysis, the potential mechanism of rubusoside inhibiting bacterial biofilm formation was predicted: It might exert bacteriostatic effects by influencing bacterial carbohydrate metabolic pathways (such as nucleotide sugar synthesis, amino sugar and nucleotide sugar metabolism, galactose metabolism, and phosphotransferase system), and downregulating the expression of virulence genes (clpP and groEL) related to adhesion, invasion, and biofilm formation.</p><p><strong>Conclusions: </strong>Rubusoside exhibits a significant bacteriostatic effect against S. wiggsiae, a potential pathogen associated with early childhood dental caries. Notably, its inhibitory activity remains unaffected even in the presence of sucrose. Consequently, as a sucrose substitute or sweetener additive, rubusoside holds broad application prospects in both the food industry and oral hygiene products, offering a promising approach to the prevention and treatment of dental caries.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"262"},"PeriodicalIF":4.5,"publicationDate":"2025-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12374400/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943916","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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
Iron metabolism and ferroptosis in human health and disease. 铁代谢与铁下垂在人体健康和疾病中的作用。
IF 4.5 1区 生物学
BMC Biology Pub Date : 2025-08-22 DOI: 10.1186/s12915-025-02378-6
Meijuan Zhong, Yuandi Wang, Junxia Min, Fudi Wang
{"title":"Iron metabolism and ferroptosis in human health and disease.","authors":"Meijuan Zhong, Yuandi Wang, Junxia Min, Fudi Wang","doi":"10.1186/s12915-025-02378-6","DOIUrl":"https://doi.org/10.1186/s12915-025-02378-6","url":null,"abstract":"<p><p>Iron is indispensable to most lifeforms, underpinning a myriad of physiological processes. Dysregulation of iron homeostasis underlies a broad spectrum of biological phenomena and pathological conditions. Notably, excessive iron overload acts as a key driver of ferroptosis, a unique form of regulated cell death. Consequently, through the lens of ferrology, targeted modulation of iron balance and ferroptosis has emerged as a compelling avenue for the prevention and treatment of major diseases. Herein, we review the molecular mechanisms governing iron homeostasis, the roles of iron metabolism disorders and ferroptosis in disease pathogenesis, and the latest breakthroughs in iron-regulated therapeutic agents.</p>","PeriodicalId":9339,"journal":{"name":"BMC Biology","volume":"23 1","pages":"263"},"PeriodicalIF":4.5,"publicationDate":"2025-08-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12374342/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144943965","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"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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