BMC Microbiology最新文献

{"title":"Investigating the antimicrobial and anticancer potential of culturable fungal endophytes isolated from the stems of Kirkia acuminata Oliv.","authors":"Mfundo Magagula, Thabiso E Motaung, Zukile Mbita, Khumiso Dithebe","doi":"10.1186/s12866-025-03964-y","DOIUrl":"10.1186/s12866-025-03964-y","url":null,"abstract":"","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"343"},"PeriodicalIF":4.0,"publicationDate":"2025-05-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12123725/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144181018","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":"Insights into Candida auris dispersal cells and their impact on antifungal resistance.","authors":"Bahgat Fayed","doi":"10.1186/s12866-025-04055-8","DOIUrl":"10.1186/s12866-025-04055-8","url":null,"abstract":"<p><p>The emerging Candidozyma auris (formerly known as Candida auris, C. auris) has caused several outbreaks globally. While several studies explored the resistant biofilm formed by C. auris, little is known regarding the cells dispersed following biofilm formation. Herein, I investigated and characterized the cells dispersed from C. auris biofilms. Cells dispersed from biofilm developed in 96 well plate were isolated and counted. The antifungal susceptibility testing showed that the dispersed cells display similar antifungal susceptibility as the parent planktonic cells, except amphotericin B. Gene expression analysis performed by quantitative real-time PCR indicated that dispersed cells can express genes coded for antifungal resistance (ERG2, ERG6, ERG11, FKS1, CHS1, CHS2, CDR1, MDR1) more than the parent planktonic cells. It was observed that dispersed cells can acquire resistance to caspofungin faster than the parent planktonic cells once exposed to caspofungin at sub MIC level. Furthermore, biofilms formed by dispersed cells displayed significantly higher metabolic activity, as indicated by the XTT analysis. To provide more insight, I explored the expression of genes coding for biofilm initiation and maturation and the data obtained indicated that dispersed cells overexpressed ALS5 and KRE6 genes. Further, GC-MS analysis indicated that dispersed cells exhibit altered metabolic profile that enhance cells survivability under stress and nutrient limit condition. The presented study is the first to explore C. auris dispersed cells and indicated that they are not able to revert to the planktonic mode once released from the biofilm.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"342"},"PeriodicalIF":4.0,"publicationDate":"2025-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12121289/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144180753","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":"Probiotic attributes, antioxidant and neuromodulatory effects of GABA-Producing Lactiplantibacillus plantarum SY1 and optimization of GABA production.","authors":"Xinfeng Bai, Pu Shi, Weihua Chu","doi":"10.1186/s12866-025-04070-9","DOIUrl":"10.1186/s12866-025-04070-9","url":null,"abstract":"<p><p>Γ-aminobutyric acid (GABA), a major inhibitory neurotransmitter in the central nervous system, has been shown to alleviate various physiological disorders including insomnia, hypertension, depression, and memory loss. Lactic acid bacteria (LAB), recognized as safe GABA producers, have attracted increasing attention. This study aimed to screen GABA-producing LAB from naturally fermented dairy products and evaluate their probiotic potential, antioxidant and neuromodulatory activities, while optimizing GABA production. GABA-producing LAB were screened using the Berthelot method and thin-layer chromatography. The safety of Lactiplantibacillus plantarum SY1 was assessed through hemolysin production and drug sensitivity tests. L. plantarum SY1 demonstrated high tolerance to acidic conditions and low bile salt concentrations, along with significant antioxidant capacity (49 ± 0.2% DPPH radical scavenging rate, 86.1 ± 0.14% hydroxyl radical scavenging rate, and 32.7 ± 1.6% superoxide radical anion scavenging rate). In vivo experiments revealed that L. plantarum SY1 extended the lifespan of C. elegans N2, enhanced oxidative stress resistance, and delayed paralysis in transgenic C. elegans (CL4176) by 23.53%. Through OFAT strategy and RSM optimization, GABA production reached 1.49 g/L under optimal conditions (37℃, pH 4.44, 96 h fermentation, and 4.16% inoculum). These findings demonstrate that L. plantarum SY1 is a promising GABA-producing strain with antioxidant and neuromodulatory effects, suggesting its potential as an anti-aging and neuroprotective probiotic.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"341"},"PeriodicalIF":4.0,"publicationDate":"2025-05-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12121261/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144180786","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":"Characterization of vanA-harboring plasmids supports differentiation of outbreak-related and sporadic vancomycin-resistant Enterococcus faecium isolates in a tertiary care hospital.","authors":"A Sobkowiak, N Scherff, V van Almsick, F Schuler, T J Brix, A Mellmann, V Schwierzeck","doi":"10.1186/s12866-025-04058-5","DOIUrl":"10.1186/s12866-025-04058-5","url":null,"abstract":"<p><strong>Background: </strong>The prevention of vancomycin-resistant Enterococcus faecium (VREfm) infections and transmissions poses a major challenge to hospitals. Vancomycin resistance can be plasmid encoded; however, as the analysis of plasmids is challenging, so far only a few reports have provided a detailed characterization of plasmids in nosocomial VREfm transmission. Here we describe a nosocomial VREfm outbreak caused by a vanA positive ST80 isolate. vanA plasmid sequence data was used to distinguish outbreak-associated isolates from sporadic VREfm cases and to investigate the spread of this plasmid within the local VREfm population.</p><p><strong>Methods: </strong>446 VREfm isolates were collected from routine surveillance between 01/2022 and 02/2024 and analyzed using long-read whole genome sequencing (lrWGS). Genetic relatedness of isolates was evaluated based on core genome multilocus sequence typing (cgMLST). Genetically similar vanA plasmids were identified using a Mash based approach.</p><p><strong>Results: </strong>30 genetically similar VREfm isolates were identified in patients' screening and environmental samples. Infection control evaluation confirmed transmission through shared hospital rooms. All outbreak-related VREfm isolates, including environmental samples, carried a highly similar vanA plasmid (Mash distance of < 0.001) with an identical replicon type. After enhanced infection control measures were established, no new transmissions were detected. Comparison with additional VREfm isolates from the respective department showed no evidence for further plasmid transmission.</p><p><strong>Conclusions: </strong>Our study illustrates how vanA plasmid analysis can support the evaluation of VREfm transmission in hospitals. The outbreak-associated vanA plasmids were genetically highly similar, but could be clearly distinguished from other vanA plasmids in the local hospital population. Taken together, detailed analysis of hospital-associated vanA plasmids can improve our understanding of VREfm transmission and epidemiology.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"337"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117755/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172301","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":"Breed-specific differences of gut microbiota and metabolomic insights into fat deposition and meat quality in Chinese Songliao Black Pig and Large White × Landrace Pig Breeds.","authors":"Suthar Teerath Kumar, Yunpeng Zhang, Qi Zhang, Riaz Muhammad Azeem, Zhang Jing, Li Pan, Wu-Sheng Sun, Yuan Zhao, Shu-Min Zhang","doi":"10.1186/s12866-025-04051-y","DOIUrl":"10.1186/s12866-025-04051-y","url":null,"abstract":"<p><strong>Background: </strong>Gut microbiota ferment non-digestible substances to produce metabolites that accumulate in muscle and influence host metabolism. However, the regulatory mechanisms connecting gut microbiota, metabolites, and fat deposition across pig breeds remain unclear. This study explores the gut-muscle axis regulating fat deposition and meat quality in Chinese Songliao Black Pig (SBP) and Large White × Landrace Pigs (LWLDP). Digesta samples from the ileum, cecum, and rectum of both breeds were analyzed using 16 S rRNA sequencing for microbiome profiling and ultra-high-performance liquid chromatography (UHPLC) for metabolomics. Multi-omics data, including microbiota and metabolite profiles were integrated with our previously published data of transcriptomics and metabolomics insights into fat deposition in the longissimus dorsi (LD) muscle using the MixOmics DIABLO method.</p><p><strong>Results: </strong>Microbiome analysis revealed that Fibrobacter, Unidentified_Peptostreptococcaceae, Sutterella, and Unidentifed_Rickettsiales were enriched in SBP, while Ruminococcus, Corynebacterium, and Streptococcaceae in LWLDP. Metabolomic analysis indicated that SBP was enriched in fatty acid biosynthesis pathways, including linoleic acid, α-linolenic acid, and arachidonic acid, whereas LWLDP was associated with insulin signaling, starch and sucrose metabolism. Integrated analysis identified Peptostreptococcaceae and Rickettsiales in SBP, along with metabolites phosphatidylcholine (PC(22:4)), N-acylethanolamine (NAE(20:4)), and lysophosphatidylcholine (LysoPC(24:1)) were correlated with key genes (EIF4E, MSTN, PPARGC1A, NR4A3, and SOCS1) regulating fat deposition. In LWLDP, Corynebacterium and Streptococcaceae were linked to the PPP1R3B gene, which is involved in glycogen metabolism, as well as metabolites 2-methyl-3-hydroxybutyric acid and 5-keto-gluconic acid, suggesting a shift toward glycolysis over lipolysis.</p><p><strong>Conclusion: </strong>This study concluded that cecum-associated microbes in LWLDP may enhance carbohydrate metabolism, leading to reduced fat deposition, whereas rectum-associated microbes in SBP contribute to docosahexaenoic acid (DHA) biosynthesis, thereby improving meat quality. These findings highlight gut microbiota-derived metabolites as potential biomarkers for optimizing meat production and livestock breeding strategies.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"334"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117720/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144157020","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":"Gut microbiota and relevant metabolites analysis in perianal abscess of infants.","authors":"Shuai Wang, Jingfeng Zhang, Mingfeng Fan, Zhenmei Dong, Laian Li, Juan Xu, Wanbin Yin, Xiangjun Xu","doi":"10.1186/s12866-025-04020-5","DOIUrl":"10.1186/s12866-025-04020-5","url":null,"abstract":"<p><strong>Objectives: </strong>To explore the characteristics of the gut microbiota and metabolites in infants with perianal abscess compared with healthy infants, thereby providing a reference for treating perianal abscess in infants.</p><p><strong>Methods: </strong>The gut microbiota of 19 infants with perianal abscess and 21 healthy infants were compared using 16S rRNA gene sequencing. Metabolite compositions were compared between a subset of 16 infants with perianal abscess and 8 healthy infants.</p><p><strong>Results: </strong>Both groups showed significant differences in the abundance of the genera Ruminococcus (P = 0.002) and Parasutterella (P = 0.004). Five metabolic pathways, namely, steroid biosynthesis, one-carbon pool by folate, synthesis, secretion, and action of the parathyroid hormone, cholesterol metabolism, and tuberculosis, were significantly enriched. Three metabolites, namely, calcidiol, dihydrofolic acid, and taurochenodesoxycholic acid, were involved in these enriched pathways.</p><p><strong>Conclusion: </strong>The study revealed significant differences in the composition of the gut microbiota and metabolites between healthy infants and those with perianal abscess, suggesting a potential association between the gut microbiota and infantile perianal abscess.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"333"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117782/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144157024","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":"The global transcriptional regulator MgaSpn affects the virulence of Streptococcus pneumoniae by regulating PcpA.","authors":"Shuhui Wang, Tianyi Xu, Ye Tao, Li Lei, Xuemei Zhang, Yibing Yin, Yuqiang Zheng","doi":"10.1186/s12866-025-04047-8","DOIUrl":"10.1186/s12866-025-04047-8","url":null,"abstract":"<p><p>The global transcriptional regulator MgaSpn is a significant virulence factor of Streptococcus pneumoniae. In our previous study, we found that MgaSpn is a regulator of bacterial virulence by modulating the levels of phosphorylcholine (ChoP) and capsular polysaccharides (CPS) on the surface of S. pneumoniae. Here, we report for the first time that pcpA expression was significantly increased in mgaSpn deletion strains and significantly decreased when mgaSpn was overexpressed. Electrophoretic mobility-shift and DNase I footprinting assays confirmed that MgaSpn interacts with the pcpA promoter (P_pcpA) at two specific binding sites. Virulence experiments demonstrated that the interaction between MgaSpn and PcpA is necessary for pneumococcal colonization and invasive infection. Western blot analysis indicated that iron concentration can influences the regulation of PcpA expression via MgaSpn. In summary, these results revealed that MgaSpn regulates PcpA and plays a significant role in pneumococcal pathogenesis.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"340"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117962/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172683","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":"Impact of antimicrobial exposure at delivery and siblings on early Bifidobacterium succession and allergy development up to 24 months of age.","authors":"Naruaki Imoto, Chie Kano, Hiroto Morita, Tatsuhiko Hirota, Fumitaka Amanuma, Hidekazu Maruyama, Shuko Nojiri, Shin Watanabe","doi":"10.1186/s12866-025-04056-7","DOIUrl":"10.1186/s12866-025-04056-7","url":null,"abstract":"<p><strong>Background: </strong>Allergic diseases such as asthma, eczema, and food allergies are rising globally. The infant gut microbiota, particularly the dominance of Bifidobacterium, shapes immune development and allergy risk. In Japan-where Bifidobacterium prevalence is notably high-longitudinal investigations focusing on the pre-weaning period, when external influences are relatively limited, remain scarce. Therefore, based on consistent hypotheses and findings from previous studies, we investigated how two important early factors-antibiotic exposure at birth and the presence of older siblings-influence the gut environment in early infancy and subsequent allergy development.</p><p><strong>Results: </strong>In a prospective cohort of 121 Japanese infants, stool samples were collected at seven time points from birth through 24 months. We quantified the relative abundances of Bifidobacterium, Bacteroides, Clostridium, and Faecalibacterium and recorded allergic outcomes at 2 years. Both antimicrobial exposure at delivery and sibling presence significantly altered gut microbiota composition and overall diversity in early infancy. Although the full cohort showed no consistent diversity or Bifidobacterium differences by allergic status, in several subgroups where these two factors were excluded, infants who had an allergy by 24 months exhibited marked shifts in early gut microbiota community structure-particularly in beta diversity-and reduced Bifidobacterium occupancy during the pre-weaning period (1-6 months) versus non-allergic peers. Moreover, infants whose gut microbiota was initially affected by these factors showed a recovery in diversity after weaning, a rebound more pronounced in non-allergic individuals.</p><p><strong>Conclusions: </strong>These findings indicate that both the initial community configuration and its capacity to rebound after perturbation are critical determinants of allergy risk. By focusing on dynamic changes through weaning and adjusting for decisive confounders, this study refines insight beyond prior cross-sectional work. Early interventions that preserve or restore microbial diversity and Bifidobacterium dominance may therefore offer a promising strategy to mitigate allergic disease development.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"332"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117752/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144157025","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":"Flavobacterium algoriphilum sp. nov., Flavobacterium arabinosi sp. nov., Flavobacterium cryoconiti sp. nov., Flavobacterium galactosi sp. nov., Flavobacterium melibiosi sp. nov., and Flavobacterium algoris sp. nov., six novel cold-adapted bacteria isolated from glaciers.","authors":"Lei-Lei Yang, Yu-Hua Xin, Qing Liu","doi":"10.1186/s12866-025-04067-4","DOIUrl":"10.1186/s12866-025-04067-4","url":null,"abstract":"<p><strong>Background: </strong>Six novel cold-adapted bacteria, LB3P122^T, LT1R49^T, ZT3R17^T, ZT3R25^T, XS2P12^T, and GB2R13^T, were isolated from glaciers on the Tibetan Plateau. This study aimed to characterize their taxonomic status and elucidate their molecular adaptations to cold environments using a polyphasic approach.</p><p><strong>Results: </strong>All strains were Gram-stain-negative, rod-shaped, and psychrophilic, growing at 0 °C with an optimum at 14-20 °C and at pH values of 6.0-8.0 (optimum pH 7.0). Analysis of the 16S rRNA gene sequences placed their taxonomic positions within the genus Flavobacterium, with similarities ranging from 97.2 to 98.4% to species with validly published names. Phylogenetic analysis of the 16S rRNA gene sequences revealed that the six strains formed distinct clades with Flavobacterium gawalongense GSP16^T. Phylogenomic analysis showed that these strains clustered with Flavobacterium gawalongense GSP16^T and exhibited a close relationship with Flavobacterium urumqiense CGMCC 1.9230^T and Flavobacterium xinjiangense CGMCC 1.2749^T. Average nucleotide identity (ANI) values ranging from 82.5 to 93.6% and digital DNA-DNA hybridization (dDDH) values ranging from 26.1 to 51.5% between these strains and their closest relatives were well below the bacterial species delineation thresholds (95-96% ANI, 70% dDDH). The predominant fatty acids were iso-C_15:0 and summed feature 3 (C_16:1 ω7c and/or C_16:1 ω6c). Genomic analysis identified genes associated with cryoprotection, oxidative stress response, cold-shock response, and osmoprotection in these strains, underscoring their adaptations to glacial environments.</p><p><strong>Conclusions: </strong>Based on polyphasic taxonomic evidence, the strains represent six novel species within the genus Flavobacterium, with the proposed names Flavobacterium algoriphilum sp. nov. (LB3P122^T = CGMCC 1.11443^T = NBRC 114820^T), Flavobacterium arabinosi sp. nov. (LT1R49^T = CGMCC 1.11617^T = NBRC 114822^T), Flavobacterium cryoconiti sp. nov. (ZT3R17^T = CGMCC 1.11707^T = NBRC 114824^T), Flavobacterium galactosi sp. nov. (ZT3R25^T = CGMCC 1.11711^T = NBRC 114825^T), Flavobacterium melibiosi sp. nov. (XS2P12^T = CGMCC 1.23198^T = NBRC 114826^T), and Flavobacterium algoris sp. nov. (GB2R13^T = CGMCC 1.24741^T = NBRC 114830^T). These findings enhance our understanding of Flavobacterium diversity and cold adaptation in cryospheric ecosystems.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"336"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117939/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172308","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":"The effect of the administration form of antibiotic therapy on the gut microbiome in patients with infected diabetic foot ulcers - DFIATIM trial.","authors":"Chahrazed Mekadim, Jakub Mrazek, Kateřina Olša Fliegerová, Hana Sechovcová, Tiziana Maria Mahayri, Radka Jarošíková, Jitka Husáková, Veronika Wosková, Petr Tůma, Jan Polák, Dominika Sojáková, Andrea Němcová, Michal Dubský, Vladimíra Fejfarová","doi":"10.1186/s12866-025-04041-0","DOIUrl":"10.1186/s12866-025-04041-0","url":null,"abstract":"<p><strong>Background: </strong>Diabetic foot infections (DFIs) contribute to the global disability burden. Beta-lactams are the most commonly used antibiotics for treating DFIs. However, the use of antibiotics may lead to disruption of the healthy balance of the gut microbiota, causing dysbiosis.</p><p><strong>Methods: </strong>Patients with infected diabetic foot ulcers (iDFUs) were treated with two kinds of beta-lactams (amoxicillin/clavulanic acid or ceftazidime) according to microbial sensitivity of causative agents via bolus or continuous administration modes. Changes in the gut microbiome of patients were analyzed. Diabetic patients without iDFUs were used as a control group. 16 S ribosomal RNA gene amplicon sequencing was performed on stool samples collected from participants.</p><p><strong>Results: </strong>Alpha diversity and beta diversity of gut microbiota of treated patients did not show significant differences between bolus and continuous modes. However, significant differences were observed between gut microbiota diversity of treated patients and control group. PCoA plots showed individualized responses of the patient's gut microbiota to antibiotics at different times using both administration forms associated with the pre-treatment state of microbiota composition. Enterococcus, Sellimonas, and Lachnoclostridium were the common bacterial markers differentially abundant in the gut microbiota of antibiotic-treated patients with iDFUs while Roseburia, Dorea, and Monoglobus were mainly abundant in the gut microbiota of patients without iDFUs. Predicted pathways like \"Transporters\", \"ABC transporters\" and \"Phosphotranspherase system (PTS)\" were upregulated in the gut microbiome of patients treated with bolus regime which may lead to increased intestinal barrier permeability.</p><p><strong>Conclusion: </strong>The present study reported alterations in gut microbiota composition and functionality and provided the bacterial markers as well as potential metabolic signatures associated with each administration mode in patients with iDFUs, which may be used as a reference set for future studies of the effect of antibiotics administration on the gut microbiome of patients with iDFUs. This study shed light on the importance of understanding the effect of antibiotic administration form on gut microbiome in patients with iDFUs.</p><p><strong>Trial registration: </strong>The DFIATIM Clinical Trial (Full title: \"Rationalisation of ATB therapy in diabetic foot infection and its impact on the intestinal microbiota\") is submitted to the European Union Clinical Trials Database under the EudraCT Number: 2019-001997-27. The date of registration is July 17th, 2020.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"339"},"PeriodicalIF":4.0,"publicationDate":"2025-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12117690/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144172525","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}