BMC Microbiology最新文献

{"title":"Characterization of the intestinal microorganism in patients with congenital intestinal atresia: the preliminary exploration for establishment and influence of initial intestinal flora in newborns.","authors":"Yang Chen, Ling Zhou, Qianghui Liao, Dong Xiao, Ledao Zhu, Jinlong Yao, Jiashu Liu, Xu'ning Zhang, Xiaopeng Ma, Feng Ren, Zhiyong Wang","doi":"10.1186/s12866-025-04006-3","DOIUrl":"https://doi.org/10.1186/s12866-025-04006-3","url":null,"abstract":"<p><strong>Purpose: </strong>This study aimed to analyze the differences in microbial composition between the proximal and distal intestinal segments of newborns with intestinal atresia, speculating about the mechanism underlying the initial establishment of neonatal intestinal flora. Additionally, differential metabolic pathways were explored to predict their potential effects on gravidas and fetuses.</p><p><strong>Methods: </strong>The microbial characteristics of intestinal flora were assessed using 16SrRNA sequencing. The alpha and beta-diversity indices were calculated to compare the microbial composition among three groups. Principal Coordinates Analysis (PCoA) was employed to identify and quantify differences in microbial communities. Furthermore, PICRUSt software was utilized to predict the possible functional impacts of differential metabolic pathways by comparing them with public databases.</p><p><strong>Results: </strong>Samples were collected from 23 neonates with intestinal atresia (proximal and distal segments) and 25 healthy neonates (first meconium) based on predefined selection criteria. No significant differences in baseline characteristics were observed between the control and intestinal atresia groups (P > 0.05). Alpha-Diversity analysis revealed that the distal intestinal group exhibited greater microbial species richness. Beta-Diversity analysis indicated significant differences in bacterial composition between the control group and the distal intestinal group (P < 0.05), with the distal group showing a more pronounced divergence compared to the proximal group. Functional prediction analysis suggested that the differential metabolic pathways might protect the intestinal mucosal barrier. However, they could also negatively impact blood glucose regulation and lipid transport in gravidas and fetuses, potentially contributing to adverse emotional states in pregnant women.</p><p><strong>Conclusion: </strong>The distinct microbial profiles observed among the three groups suggest that the establishment of neonatal intestinal flora may result from a combination of placental transmission and digestive tract colonization. Functional pathway analysis suggested these microbial metabolic differences may exert pleiotropic effects, demonstrating both protective roles in intestinal barrier function and potentially detrimental impacts on emotional modulation and glucose/lipid dysregulation.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"283"},"PeriodicalIF":4.0,"publicationDate":"2025-05-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12065272/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143954779","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Compound probiotics alleviate hyperuricemia-induced renal injury via restoring gut microbiota and metabolism.","authors":"Ping Liu, Ping Hu, Meiping Jin, Weiqian Sun, Jiajun Wu, Yuyan Tang, Danye Shi, Ting Xie, Yijing Tong, Lusheng Huang, Dongliang Zhang, Hui Zheng, Xudong Xu, Haidong He","doi":"10.1186/s12866-025-04012-5","DOIUrl":"https://doi.org/10.1186/s12866-025-04012-5","url":null,"abstract":"<p><p>To investigate the role and mechanisms of gut microbiota in hyperuricemia-induced renal injury, we established renal failure models using unilateral nephrectomized mice. After four weeks of adenine and potassium oxalate-supplemented diet, probiotic intervention was administered. Renal pathological and functional changes were assessed through H&E staining and plasma biochemical analysis. Gut microbiota composition and metabolite profiles were evaluated using 16 S rRNA gene sequencing and non-targeted metabolomics of fecal samples.Our findings demonstrate that the compound probioticS effectively attenuated hyperuricemia-associated renal dysfunction and interstitial fibrosis. The intervention reduced oxidative stress, mitophagy, and apoptosis in renal tubules. Probiotic treatment enhanced gut microbiota diversity, notably increasing the abundance of Prevotella_9, Dorea, and unclassified Bacteroidota, while decreasing unclassified Desulfovibrio. KEGG enrichment analysis revealed that probiotic intervention upregulated arginine and proline metabolism, as well as tyrosine metabolism in feces. Furthermore, it enhanced the metabolism of arginine, proline, valine, leucine, and isoleucine in plasma.Notably, sulfocholic acid and urocanic acid showed negative correlations with oxidative stress markers, autophagy, and apoptosis indicators. Similarly, plasma L-proline levels were inversely correlated with these pathological parameters.These results suggest that the compound probiotics may mitigate hyperuricemia-induced kidney damage through restoration of gut microbiota homeostasis and preservation of plasma and fecal metabolites. The protective mechanisms likely involve attenuation of hyperuricemia-associated oxidative stress, mitochondrial dysregulation, and phagocytosis-induced apoptosis.Our study provides compelling evidence that probiotic supplementation represents a promising therapeutic strategy for hyperuricemia-induced renal injury, potentially through modulation of gut microbiota and associated metabolic pathways.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"280"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060558/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143966073","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Soil microorganism colonization influenced the growth and secondary metabolite accumulation of Bletilla striata (Thunb.) Rchb. F.","authors":"Qingqing Xu, Yan Fu, Jinqiang Zhang, Chunyun Xu, Changgui Yang, Qingsong Yuan, Jiao Xu, Weike Jiang, Yongping Zhang, Tao Zhou, Chenghong Xiao","doi":"10.1186/s12866-025-03960-2","DOIUrl":"https://doi.org/10.1186/s12866-025-03960-2","url":null,"abstract":"<p><p>Bletilla striata (Thunb.) Rchb. F., a perennial herbaceous plant renowned for its medicinal properties, exhibits growth and secondary metabolite production that are significantly influenced by soil microorganisms. Exploring how soil microorganisms influence the growth and secondary metabolites of B. striata, we cultivated sterile seedlings in radiation-sterilized soil inoculated with microbiota from either sandy clay or sandy loam soils. Following a two-year growth period, we employed 16S and ITS Illumina sequencing to analyze the bacterial and fungal communities colonizing the rhizosphere soil, roots, tubers, and leaves of B. striata. Concurrently, we assessed the growth indices of the plants and utilized UHPLC-MS/MS to quantify the metabolites in the tubers, with a particular focus on the index component militarine and single bacteria were isolated for verification. Our findings revealed significant variations in the metabolite profiles and growth of B. striata across different soil microbial treatments. Specifically, sandy loam microorganisms were found to enhance plant growth, whereas sandy clay microorganisms increased the concentration of secondary metabolites. We identified specific microbes predominantly in loam soil that colonized roots and promoted growth (e.g., Entrophospora, Aspergillus, Fusarium). Similarly, certain microbes in loam soil colonized tubers and enhanced their growth (e.g., Sphingomonas, Hyphomicrobium). Additionally, microbes predominantly found in sandy soil colonized tubers and stimulated the synthesis of secondary metabolites (e.g., Myrmecridium, Apiotrichum montevideense). Notably, Aspergillus versicolor (B-6), isolated from the rhizosphere soil of B. striata after the introduction of sandy loam microorganisms, demonstrated a growth-promoting effect on sterile seedlings upon inoculation. This study elucidates the role of soil microorganisms in colonizing various regions of B. striata, thereby modulating its growth and secondary metabolite production. These insights have significant implications for optimizing the yield and quality of B. striata in both medicinal and agricultural applications.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"276"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060540/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143977101","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Coral microbiome in estuary coral community of Pearl River Estuary: insights into variation in coral holobiont adaptability to low-salinity conditions.","authors":"Mengling Lan, Kaixiang Gao, Zhenjun Qin, Zhanhong Li, Ru Meng, Lifei Wei, Biao Chen, Xiaopeng Yu, Lijia Xu, Yongzhi Wang, Kefu Yu","doi":"10.1186/s12866-025-04013-4","DOIUrl":"https://doi.org/10.1186/s12866-025-04013-4","url":null,"abstract":"<p><strong>Background: </strong>Low salinity is a crucial environmental stressor that affects estuarine coral ecosystems considerably. However, few studies have focused on the effects of low-salinity conditions on coral-associated microorganisms and the adaptability of coral holobionts.</p><p><strong>Methods: </strong>We explored the community structure of coral symbiotic Symbiodiniaceae and associated bacteria in low-salinity conditions using samples of six coral species from the Pearl River Estuary and analyzed the adaptability of coral holobionts in estuaries.</p><p><strong>Results: </strong>The symbiotic Symbiodiniaceae of all six studied coral species were dominated by Cladocopium, but, the Symbiodiniaceae subclades differed among these coral species. Some coral species (e.g., Acropora solitaryensis) had a high diversity of symbiotic Symbiodiniaceae but low Symbiodiniaceae density, with different adaptability to low-salinity stress in the Pearl River Estuary. Other coral species (e.g., Plesiastrea versipora) potentially increased their resistance by associating with specific Symbiodiniaceae subclades and with high Symbiodiniaceae density under low-salinity stress. The microbiome associated with the coral species were dominated by Proteobacteria, Chloroflexi, and Bacteroidetes; however, its diversity and composition varied among coral species. Some coral species (e.g., Acropora solitaryensis) had a high diversity of associated bacteria, with different adaptability owing to low-salinity stress. Other coral species (e.g., Plesiastrea versipora) potentially increased their resistance by having minority bacterial dominance under low-salinity stress.</p><p><strong>Conclusions: </strong>High Symbiodiniaceae density and high bacterial diversity may be conducive to increase the tolerance of coral holobiont to low-salinity environments. Different coral species have distinct ways of adapting to low-salinity stress, and this difference is mainly through the dynamic regulation of the coral microbiome by corals.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"278"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060303/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143954412","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Sex-specific microbiota associations with backfat thickness, eye muscle area, and rumen fermentation in Qinchuan cattle.","authors":"Yueting Pan, Gege Sun, Guo Li, Shuaicheng Chen, Haibing Liu, Huaxuan Li, Chugang Mei, Wucai Yang, Linsen Zan","doi":"10.1186/s12866-025-03986-6","DOIUrl":"https://doi.org/10.1186/s12866-025-03986-6","url":null,"abstract":"<p><strong>Background: </strong>Ruminant livestock are essential for global food production, and understanding sex-specific rumen fermentation and microbial differences is key to improving production efficiency and meat quality. This study explored sex-specific variations in backfat thickness, eye muscle area, rumen fermentation, and microbiota in Qinchuan cattle.</p><p><strong>Results: </strong>The results revealed that heifers exhibited higher backfat thickness, butyrate concentrations, and acetate/propionate ratio, whereas bulls had larger eye muscle areas and higher propionate concentrations. Volatile fatty acids (VFAs) transport-related genes (CA4, DRA, and NHE1) were more highly expressed in bulls. Heifers showed greater microbial diversity with distinct sex-specific community structures. Bulls had a higher abundance of Prevotella, while butyrate-producing bacteria like Butyrivibrio and Pseudobutyrivibrio were more abundant in heifers. Functional predictions revealed that bulls were enriched in glycan biosynthesis and amino acid metabolism pathways, whereas heifers showed enhanced lipid metabolism pathways. Correlation analyses showed that backfat thickness was positively correlated with acetate and butyrate production, and acetate/propionate ratio, but negatively correlated with Veillonellaceae_UCG-001. Eye muscle area was negatively correlated with isobutyrate production and the abundance of Elusimicrobium and Anaeroplasma, but positively correlated with Lachnospiraceae_NK3A20_group. Redundancy analysis (RDA) identified propionate and butyrate as key drivers of microbial community differences. The Random Forest model identified key predictors for backfat thickness, including rumen fermentation parameters, microbial taxa, and metabolic pathways, explaining 28% of the variation. However, eye muscle area was not well predicted by the current parameters.</p><p><strong>Conclusion: </strong>These findings enhance our understanding of sex-specific microbial and metabolic profiles, offering potential strategies for optimizing livestock management and breeding programs.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"277"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060573/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143977005","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Alteration of gut microbiota associated with hypertension in children.","authors":"Jiahong Sun, Liu Yang, Chuanwei Ma, Lili Yang, Min Zhao, Costan G Magnussen, Bo Xi","doi":"10.1186/s12866-025-03999-1","DOIUrl":"https://doi.org/10.1186/s12866-025-03999-1","url":null,"abstract":"<p><strong>Background: </strong>The association of disturbance in gut microbiota with hypertension (HTN) defined on three separate occasions among children and adolescents remains unclear. In this study, we aimed to compare the differences in gut microbiota composition and diversity between children with HTN and those with normal blood pressure (BP).</p><p><strong>Methods: </strong>Data and stool samples were collected from the second follow-up of a childhood cardiovascular health cohort study in 2021. 16 S ribosomal RNA gene sequencing was conducted to determine the relative abundance of microbial taxa in 51 children aged 10-14 years with HTN and 51 children with normal BP.</p><p><strong>Results: </strong>Compared with children with normal BP, those with HTN had decreased gut microbiome diversity. At the genus level, after adjusting for the false discovery rate (FDR), the proportions of several gut microbiota such as Blautia (P_FDR=0.042), Coprococcus (P_FDR=0.042), Eubacterium_ventriosum_group (P_FDR=0.027), Christensenellaceae_R-7_group (P_FDR=0.027), and norank_f__Lachnospiraceae (P_FDR=0.015) significantly decreased in children with HTN compared to those with normal BP. Receiver operating characteristic analysis, net reclassification improvement (NRI) and integrated discrimination improvement (IDI) were performed and showed that the genera norank_f__Lachnospiraceae and Dorea significantly enhanced the ability of body mass index to differentiate between children with HTN and those with normal BP (area under the receiver operating characteristic curve: 0.95, 95% confidence interval 0.91-0.99; NRI > 0; IDI = 0.12, P < 0.05). Phylogenetic Investigation of Communities by Reconstruction of Unobserved States showed that the mean proportions of cofactors and vitamins metabolism pathway and the glycan anabolism pathway were higher in children with HTN.</p><p><strong>Conclusions: </strong>Disturbances in the abundance and diversity of gut microbiota may contribute to the development of HTN in children. Gut microbiota biomarkers may be of significant importance in the early identification and diagnosis of childhood HTN.</p><p><strong>Clinical trial number: </strong>Not applicable.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"282"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060425/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143971184","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Changes of intestinal microbiome and its relationship with painful diabetic neuropathy in rats.","authors":"Shuaiying Jia, Haiqi Mi, Yao Su, Yuning Liu, Zhi Ming, Jingyan Lin","doi":"10.1186/s12866-025-04015-2","DOIUrl":"https://doi.org/10.1186/s12866-025-04015-2","url":null,"abstract":"<p><strong>Objective: </strong>To analyze the gut bacterial microbiome in rats with painful diabetic neuropathy (PDN) compared to normal rats.</p><p><strong>Methods: </strong>Type 2 diabetes was induced in rats via a high-fat and high-sugar diet combined with a low dose of streptozotocin. Glucose metabolism and insulin sensitivity were evaluated using intraperitoneal glucose tolerance tests and insulin tolerance tests. The progression of peripheral neuropathy was assessed using the mechanical withdrawal threshold and thermal withdrawal latency. Histopathological analysis of rat colon tissues was performed using hematoxylin-eosin staining to observe morphological changes. The expression levels of pro-inflammatory cytokines TNF-α and IL-1β in spinal cord tissues were measured using enzyme-linked immunosorbent assay (ELISA). Fecal samples were then collected for metagenomic sequencing and analysis.</p><p><strong>Result: </strong>Behavioral tests revealed reduced mechanical withdrawal threshold and thermal withdrawal latency in PDN rats. Histological analysis showed significant colonic mucosal damage and inflammatory cell infiltration, suggesting impaired intestinal barrier function. Elevated TNF-α and IL-1β levels in spinal cord tissues further highlight peripheral inflammation's role in PDN. Sequencing analysis revealed significant differences in gut microbiota composition between PDN and control rats, with altered Bacillota/Bacteroidota ratios and increased Lactobacillus abundance. Functional annotation analysis, based on the KEGG, EggNOG, and CAZy databases, indicated significant enrichment of metabolic pathways related to carbohydrate and amino acid metabolism, energy metabolism, and cell structure biogenesis in PDN rats. Cluster analysis identified higher functional clustering in Metabolism and Genetic Information Processing pathways in PDN rats.</p><p><strong>Conclusion: </strong>This study demonstrates that PDN leads to altered gut microbiota composition, disrupted metabolic pathways, and increased inflammation, contributing to the pathological progression of diabetic neuropathy. This study provides new insights into the interplay between gut microbiota and diabetic neuropathy, offering potential avenues for therapeutic interventions targeting microbiome and metabolism.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"281"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060437/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143971185","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Comparative genomic analysis of a novel heat-tolerant and euryhaline strain of unicellular marine cyanobacterium Cyanobacterium sp. DS4 from a high-temperature lagoon.","authors":"Ching-Nen Nathan Chen, Keng-Min Lin, Yu-Chen Lin, Hsin-Ying Chang, Tze Ching Yong, Yi-Fang Chiu, Chih-Horng Kuo, Hsiu-An Chu","doi":"10.1186/s12866-025-03993-7","DOIUrl":"https://doi.org/10.1186/s12866-025-03993-7","url":null,"abstract":"<p><strong>Background: </strong>Cyanobacteria have diversified through their long evolutionary history and occupy a wide range of environments on Earth. To advance our understanding of their adaptation mechanisms in extreme environments, we performed stress tolerance characterizations, whole genome sequencing, and comparative genomic analyses of a novel heat-tolerant and euryhaline strain of the unicellular cyanobacterium Cyanobacterium sp. Dongsha4 (DS4). This strain was isolated from a lagoon on Dongsha Island in the South China Sea, a habitat with fluctuations in temperature, salinity, light intensity, and nutrient supply.</p><p><strong>Results: </strong>DS4 cells can tolerate long-term high-temperature up to 50 ℃ and salinity from 0 to 6.6%, which is similar to the results previously obtained for Cyanobacterium aponinum. In contrast, most mesophilic cyanobacteria cannot survive under these extreme conditions. Based on the 16S rRNA gene phylogeny, DS4 is most closely related to Cyanobacterium sp. NBRC102756 isolated from Iwojima Island, Japan, and Cyanobacterium sp. MCCB114 isolated from Vypeen Island, India. For comparison with strains that have genomic information available, DS4 is most similar to Cyanobacterium aponinum strain PCC10605 (PCC10605), sharing 81.7% of the genomic segments and 92.9% average nucleotide identity (ANI). Gene content comparisons identified multiple distinct features of DS4. Unlike related strains, DS4 possesses the genes necessary for nitrogen fixation. Other notable genes include those involved in photosynthesis, central metabolisms, cyanobacterial starch metabolisms, stress tolerances, and biosynthesis of novel secondary metabolites.</p><p><strong>Conclusions: </strong>These findings promote our understanding of the physiology, ecology, evolution, and stress tolerance mechanisms of cyanobacteria. The information is valuable for future functional studies and biotechnology applications of heat-tolerant and euryhaline marine cyanobacteria.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"279"},"PeriodicalIF":4.0,"publicationDate":"2025-05-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12060301/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143980770","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic and phenotypic insights into ST164 bla_NDM-1-positive Acinetobacter baumannii from intestinal colonization in China.","authors":"Kun Wang, Weidong Zhu, Lu Gong, Xiaolu Yang, Haowei Ye, Zhenghao Lou, Jie Yang, Xiawei Jiang, Wei Li, Fangfang Tao, Hao Xu, Beiwen Zheng, Wenhong Liu","doi":"10.1186/s12866-025-03979-5","DOIUrl":"https://doi.org/10.1186/s12866-025-03979-5","url":null,"abstract":"<p><strong>Background: </strong>Carbapenem-resistant Acinetobacter baumannii (CRAB) poses a critical global threat, especially in ICUs. Yet, reports on ST164 CRAB harboring bla_NDM-1 remain scarce. This study investigates two clinical CRAB isolates, L4773hy and L4796hy, derived from intestinal colonization in Hangzhou, China, focusing on their phenotypic and genomic characteristics as well as the broader transmission of ST164 A. baumannii.</p><p><strong>Methods: </strong>Bacterial identification was performed using matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF) mass spectrometry. Antimicrobial susceptibility was assessed via agar and broth microdilution. Whole-genome sequencing employed Illumina NovaSeq 6000 and Oxford Nanopore platforms. Resistance genes, insertion elements, transposons, and integrons were detected using ResFinder, PlasmidFinder, VFDB, ISFinder, pdifFinder, and IntegronFinder. Strains were typed by MLST, and a phylogenetic tree was constructed with kSNP3.0. Genetic environment diagrams were generated using Easyfig 2.2.5.</p><p><strong>Results: </strong>Two bla_NDM-1-carrying A. baumannii isolates exhibiting extensive resistance to carbapenems, cephalosporins, and fluoroquinolones. Whole-genome sequencing and genetic environment analysis revealed the presence of a conserved structural sequence (ISAba14-ISAba14-aphA-ISAba125-bla_NDM-1-ble_MBL) on their chromosomes. Phylogenetic and clonal dissemination analysis showed that ST164 CRAB is primarily distributed in China and exhibits clonal spread. Pathogenicity studies indicated that bla_NDM-1-positive ST164 strains have enhanced survival under immune pressure but do not display increased virulence in infection models.</p><p><strong>Conclusion: </strong>This study provides the genomic and phenotypic characterization of intestinally colonized ST164 bla_NDM-1 positive CRAB in Hangzhou, China. The elucidation of the genetic environment of bla_NDM-1 further confirms the clonal dissemination of ST164 isolates, highlighting the importance of enhanced surveillance and infection control measures to mitigate the spread of these multidrug-resistant pathogens.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"272"},"PeriodicalIF":4.0,"publicationDate":"2025-05-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12057158/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143976138","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Uncovering potential biomarkers and metabolic pathways in systemic lupus erythematosus and lupus nephritis through integrated microbiome and metabolome analysis.","authors":"Siyun Cheng, Xiaojie Chu, Zhongyu Wang, Adeel Khan, Yue Tao, Han Shen, Ping Yang","doi":"10.1186/s12866-025-03995-5","DOIUrl":"https://doi.org/10.1186/s12866-025-03995-5","url":null,"abstract":"<p><strong>Objective: </strong>This study aims to explore the relationship between gut microbiota and fecal metabolomic profiles in patients with systemic lupus erythematosus (SLE), with and without lupus nephritis (LN), in order to identify potentially relevant biomarkers and better understand their association with disease progression.</p><p><strong>Methods: </strong>Fecal samples from 15 healthy controls (HC) and 36 SLE patients (18 SLE-nonLN and 18 SLE-LN) were analyzed using 16S rRNA gene sequencing and untargeted metabolomics. Differential microbial taxa and metabolites were identified using Linear Discriminant Analysis Effect Size (LEfSe) and Orthogonal Partial Least Squares Discriminant Analysis (OPLS-DA). Kyoto Encyclopedia of Genes and Genomes (KEGG) pathway and Receiver Operating Characteristic (ROC) curve analyses were used to assess the potential clinical relevance of selected metabolites.</p><p><strong>Results: </strong>Beta diversity analysis demonstrated distinct microbial clustering between groups (p < 0.05). SLE-LN samples showed an increased relative abundance of Proteobacteria and decreased Firmicutes compared to SLE-nonLN. Metabolomic profiling identified multiple differentially abundant metabolites, with notable enrichment in primary bile acid biosynthesis pathways (e.g., Glycocholic acid, AUC = 0.951). In the SLE-nonLN group, increased Glycoursodeoxycholic acid levels (AUC = 0.922) were observed in pathways related to taurine and hypotaurine metabolism. Correlation analysis indicated a negative association between Escherichia-Shigella and bile acid levels (p < 0.01).</p><p><strong>Conclusion: </strong>This integrative analysis suggests that patients with SLE and LN harbor distinct gut microbiota and metabolomic profiles. The identified microbial taxa and metabolites may have potential as non-invasive biomarkers and could contribute to a better understanding of SLE pathogenesis and progression.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"275"},"PeriodicalIF":4.0,"publicationDate":"2025-05-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12057120/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143969963","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}