BMC Microbiology最新文献

{"title":"Exploring nagZ as a virulence biomarker and treatment target in Enterobacter cloacae.","authors":"Xianggui Yang, Xuejing Yu, Li Zhou, Dan Wang, Weixian Chen","doi":"10.1186/s12866-024-03718-2","DOIUrl":"10.1186/s12866-024-03718-2","url":null,"abstract":"<p><strong>Background: </strong>Enterobacter cloacae is increasingly prevalent and resistant to multiple antibiotics, making it a significant pathogen in healthcare settings with high mortality rates. However, its pathogenic mechanisms are not fully understood.</p><p><strong>Results: </strong>In this study, we explored the role of nagZ in regulating the virulence of E. cloacae and its potential as a therapeutic target. Our research showed that pathogenic strains of E. cloacae express higher levels of nagZ than colonizing strains, particularly in simulated infection environments. Deleting nagZ significantly reduced E. cloacae virulence in various infection models, including Galleria mellonella larvae, mice, and RAW264.7 cells. Moreover, nagZ knockout decreased the bacterium's ability to induce inflammatory factor levels, while complementing nagZ in knockout strains partially rescued this ability. Importantly, the absence of nagZ also enhanced the antibacterial efficacy of ceftazidime against E. cloacae.</p><p><strong>Conclusions: </strong>These findings underscore the crucial role of nagZ in E. cloacae pathogenesis and highlight its potential as a novel therapeutic target for treating infections caused by this pathogen.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"10"},"PeriodicalIF":4.0,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11715595/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944995","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":"In vitro characterization of lactic acid bacteria and bifidobacteria from wild and domestic pigs: probiotic potential for post-weaning piglets.","authors":"Katerina Kavanova, Iveta Kostovova, Monika Moravkova, Tereza Kubasova, Magdalena Crhanova","doi":"10.1186/s12866-024-03711-9","DOIUrl":"https://doi.org/10.1186/s12866-024-03711-9","url":null,"abstract":"<p><strong>Background: </strong>Gastrointestinal diseases in weaned piglets are a frequent cause of high morbidity and mortality in domestic pigs. The use of antibiotics is problematic due to increasing antibiotic resistance in bacterial populations, for which reason the use of suitable probiotics is highly recommended to maintain animal health and welfare.</p><p><strong>Results: </strong>In this study, 57 strains of biologically safe lactic acid bacteria (LAB) and bifidobacteria originating from the gastrointestinal tract (GIT) of pigs were identified and characterized in terms of their probiotic properties for potential use in weaned piglets. These strains were divided into two sets based on their origin - from the GIT of wild boars (n = 41) and from the GIT of domestic pigs (n = 16). Strains obtained from wild boars exhibited greater taxonomic diversity compared to isolates from domestic pigs. While searching for coding sequences (CDS) encoding bacteriocins and bile salt hydrolases (BSH), no significant difference was detected between the two tested groups. On the other hand, CDS encoding adhesinlike factors were more frequent in the dataset isolated from wild boars than in the dataset obtained from domestic pigs. Moreover, more CDS encoding carbohydrateactive enzymes (CAZymes) were carried in the genomes of strains obtained from wild boars. Utilization of important selected carbohydrate substrates, such as starch, D-raffinose, D-mannose, Dcellobiose and gentiobiose, was confirmed by API testing. Antimicrobial activity against at least one of the five tested pathogens was found in 51% of wild boar strains but in none of the isolates from domestic pigs.</p><p><strong>Conclusion: </strong>This suggests that the intestinal microbiota of wild boars could serve as a promising source of probiotics for domestic pigs.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"8"},"PeriodicalIF":4.0,"publicationDate":"2025-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11715547/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"143055855","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":"Pervasive horizontal transmission of Wolbachia in natural populations of closely related and widespread tropical skipper butterflies.","authors":"Pedro Ribeiro, Anzhelika Butenko, Daniel Linke, Hamid Reza Ghanavi, Joana Isabel Meier, Niklas Wahlberg, Pável Matos-Maraví","doi":"10.1186/s12866-024-03719-1","DOIUrl":"https://doi.org/10.1186/s12866-024-03719-1","url":null,"abstract":"<p><strong>Background: </strong>The endosymbiotic relationship between Wolbachia bacteria and insects has been of interest for many years due to their diverse types of host reproductive phenotypic manipulation and potential role in the host's evolutionary history and population dynamics. Even though infection rates are high in Lepidoptera and specifically in butterflies, and reproductive manipulation is present in these taxa, less attention has been given to understanding how Wolbachia is acquired and maintained in their natural populations, across and within species having continental geographical distributions.</p><p><strong>Results: </strong>We used whole genome sequencing data to investigate the phylogenetics, demographic history, and infection rate dynamics of Wolbachia in four species of the Spicauda genus of skipper butterflies (Lepidoptera: Hesperiidae), a taxon that presents sympatric and often syntopic distribution, with drastic variability in species abundance in the Neotropical region. We show that infection is maintained by high turnover rates driven mainly by pervasive horizontal transmissions, while also presenting novel cases of double infection by distantly related supergroups of Wolbachia in S. simplicius.</p><p><strong>Conclusions: </strong>Our results suggest that Wolbachia population dynamics is host species-specific, with genetic cohesiveness across wide geographical distributions. We demonstrate that low coverage whole genome sequencing data can be used for an exhaustive assessment of Wolbachia infection in natural populations of butterflies, as well as its dynamics in closely related host species. This ultimately leads to a better understanding of the endosymbiotic population dynamics of Wolbachia and its effects on the host's biology and evolution.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"5"},"PeriodicalIF":4.0,"publicationDate":"2025-01-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11706079/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944999","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":"Bacterial etiologies, antimicrobial susceptibility profiles and associated factors among patients with otitis media referred to Nekemte Public Health Research and Referral Laboratory Center, Western Ethiopia: A cross-sectional study.","authors":"Endalu Tesfaye Guteta, Fedasan Alemu Abdi, Seifu Gizaw Feyisa, Betrearon Sileshi Kinfu, Tadese Bekele Tafesse","doi":"10.1186/s12866-024-03664-z","DOIUrl":"https://doi.org/10.1186/s12866-024-03664-z","url":null,"abstract":"<p><strong>Background: </strong>Otitis media is among the leading causes of illnesses responsible for causing hearing problems and adding significant costs to the public health system. Bacteria are the most common causative agents for otitis media. Currently, there is little information on the prevalence and antimicrobial susceptibility patterns of pathogenic bacterial isolates from patients with otitis media in Ethiopia.</p><p><strong>Methodology: </strong>A laboratory - based cross-sectional study was conducted from June to September 2023 among 242 patients with otitis media referred to Nekemte Public Health Research and Referral Laboratory Center. Sociodemographic and clinical data were obtained by trained nurses and/or health officers in face-to-face interviews using structured questionnaires. Middle ear discharge samples were collected by Ear, Nose and Throat (ENT) specialists (Otolaryngologist) following all aseptic techniques. Conventional culture, different biochemical tests and antimicrobial susceptibility testing were performed for all the isolated bacteria. Reference strains were used as a positive and negative controls. The data were checked for completeness and consistency, entered into EpiData version 4.6.06 and analyzed by SPSS version 25. Logistic regression analysis was performed to determine the associated factors of otitis media. Adjusted odds ratio was used to determine strength of association. Statistical significance was obtained at p-value of below 0.05. The data were interpreted using graphs, tables, and results statements.</p><p><strong>Results: </strong>A total of 242 middle ear discharge samples were collected and cultured from which 212 (87.6%) were culture positive. A total of 228 pathogenic bacterial isolates were recovered. The predominant bacterial isolates were S. aureus 92 (40.4%) followed by P. aeruginosa 33 (14.5%) and E. coli 24 (10.5%). One hundred and fifty-one (66.2%) bacterial pathogens were multidrug resistant. Piperacillin-tazobactam and tobramycin were relatively common drugs to which most of the isolates were susceptible while they were most resistant to ampicillin and tetracycline. Purulent discharge (p-value = 0.001), middle ear discharge ≥ 14 days (P-value = 0.000) and a history of active/passive smoking (P-value = 0.043) were significantly associated with otitis media.</p><p><strong>Conclusion: </strong>The prevalence of bacterial pathogens, most of which were multidrug-resistant, was high among patients with otitis media. A significant association was observed with purulent ear discharge, chronic otitis media, and passive or active smoking. Choosing the proper antibiotic for the treatment of bacterial infection is crucial.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"6"},"PeriodicalIF":4.0,"publicationDate":"2025-01-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11705670/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944982","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":"Fusarium oxysporum assisted green synthesis of small-sized silver nanoparticles for high antibacterial, and photocatalytic decolorization performances.","authors":"Reyad M El-Sharkawy, Inas A Ahmed, Taghrid G Kharboush","doi":"10.1186/s12866-024-03686-7","DOIUrl":"https://doi.org/10.1186/s12866-024-03686-7","url":null,"abstract":"<p><strong>Background: </strong>Novel platforms using nanotechnology-based medicines have exponentially increased in our daily lives. The unique characteristics of metal oxide and noble metals nanoparticles make them suitable for different fields including antimicrobial agents, cosmetics, textiles, wound dressings, and anticancer drug carriers.</p><p><strong>Methods: </strong>This study focuses on the biosynthesis of small-sized SNPs using exo-metabolites of Fusarium oxysporum via bioprocess optimization using Plackett-Burman (PBD) and central composite designs (CCD) while evaluating their multifaceted bioactivities.</p><p><strong>Results: </strong>The successful biofabrication of smaller-sized SNPs with an average particle size of ~ 5 nm was achieved upon the bioprocess optimization. The developed SNPs exhibited significant antibacterial activity against multidrug-resistant bacterial pathogens in a concentration- and time-dependent manner. The minimum inhibitory concentrations (MICs) for SNPs were 0.078 µg/ml (Escherichia coli), 0.156 µg/ml (Pseudomonas aeruginosa), and 1.25 µg/ml (Enterococcus faecalis), while the minimum bactericidal concentrations (MBCs) were correspondingly 0.156 µg/ml, 0.312 µg/l, and 1.25 µg/ml. SNPs-treated cells displayed bacteriostatic and bactericidal effects as revealed by time-kill assay and the ultrastructure changes observed in SEM and TEM analyses. The results marked the potent antioxidant activity of SNPs against DPPH, O₂^•-, H₂O₂, and OH-radicals with IC₅₀ values of 74.3, 96.7, 116.6, and 167.9 µg/ml, respectively. Significantly, the biosynthesized SNPs displayed cytotoxic activity on MCF-7, A549, and HepG-2 cell lines with IC₅₀ values of 89.4, 121.4, and 138.9 µg/ml, respectively. SNPs exhibited promising photocatalytic efficiency at different concentrations and times compared with dark conditions. The highest decolorization percentage of crystal violet dye was 98.60% after 240 min at 100 µg SNPs concentration.</p><p><strong>Conclusions: </strong>The green synthesis of SNPs by F. oxysporum exometabolites is eco-friendly, and inexpensive, with the production of small-size, and greatly stabilized nanoparticles. This study corroborated that SNPs can be highly promising enough to be applied for antibacterial and anticancer control systems, for ameliorating free radical-related disorders, and as a photocatalyst for wastewater treatment.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"4"},"PeriodicalIF":4.0,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11702280/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944996","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 characteristics and phylogenetic relationships of Cutibacterium acnes breast milk isolates.","authors":"Jiaqi Sun, Guoxuan Hang, Huimin Lv, Yu Li, Qiujie Song, Zhi Zhong, Zhihong Sun, Wenjun Liu","doi":"10.1186/s12866-024-03717-3","DOIUrl":"https://doi.org/10.1186/s12866-024-03717-3","url":null,"abstract":"<p><strong>Background: </strong>Cutibacterium acnes is one of the most commonly found microbes in breast milk. However, little is known about the genomic characteristics of C. acnes isolated from breast milk. In this study, the sequencing and assembly results of 10 C. acnes isolates from breast milk were compared with the genomic data of 454 strains downloaded from NCBI, and the characteristics of breast milk isolates from various perspectives, including phylogeny, genomic characteristics, virulence genes, drug resistance genes, and carbohydrate utilization, were elucidated.</p><p><strong>Results: </strong>The findings of this study revealed no differences between the breast milk isolates and other isolates in terms of genomic features, phylogenetic relationships, virulence, and resistance-related genes. However, breast milk-derived isolates exhibited significantly lower copies of the carbohydrate metabolic enzyme genes GT5 and GT51 (P < 0.05) and a higher copy number of the GH31 gene (P < 0.05) than others. C. acnes primarily consists of three genetic branches (A, B, and C), which correspond to the three subspecies of C. acnes (C. acnes subsp. elongatum, C. acnes subsp. defendens, C. acnes subsp. acnes). The genetic differences between branches B and C were smaller than that between branch A. Branches A and B carry a higher number of copies of carbohydrate enzymes, including CE1, CE10, GH3, and CBM32 than branch C. Branches B and C possess the carbohydrate enzymes PL8 and GH23, which are absent in branch A. Core genes, core intergenic regions, and concatenated sequences of core genes and core intergenic regions were compared to construct a phylogenetic tree, and it was found that core intergenic regions could be used to describe phylogenetic relationships.</p><p><strong>Conclusions: </strong>It is therefore speculated that the C. acnes in breast milk originates from the nipple or breast surface. This study provides a novel genetic basis for genetic differentiation of C. acnes isolates from breast milk.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"2"},"PeriodicalIF":4.0,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11702113/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944997","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 typing, antimicrobial resistance gene, virulence factor and plasmid replicon database for the important pathogenic bacteria Klebsiella pneumoniae.","authors":"Andrey Shelenkov, Anna Slavokhotova, Yulia Mikhaylova, Vasiliy Akimkin","doi":"10.1186/s12866-024-03720-8","DOIUrl":"https://doi.org/10.1186/s12866-024-03720-8","url":null,"abstract":"<p><strong>Background: </strong>The infections of bacterial origin represent a significant problem to the public healthcare worldwide both in clinical and community settings. Recent decade was marked by limiting treatment options for bacterial infections due to growing antimicrobial resistance (AMR) acquired and transferred by various bacterial species, especially the ones causing healthcare-associated infections, which has become a dangerous issue noticed by the World Health Organization. Numerous reports shown that the spread of AMR is often driven by several species-specific lineages usually called the 'global clones of high risk'. Thus, it is essential to track the isolates belonging to such clones and investigate the mechanisms of their pathogenicity and AMR acquisition. Currently, the whole genome-based analysis is more and more often used for these purposes, including the epidemiological surveillance and analysis of mobile elements involved in resistance transfer. However, in spite of the exponential growth of available bacterial genomes, their representation usually lack uniformity and availability of supporting metadata, which creates a bottleneck for such investigations.</p><p><strong>Description: </strong>In this database, we provide the results of a thorough genomic analysis of 61,857 genomes of a highly dangerous bacterial pathogen Klebsiella pneumoniae. Important isolate typing information including multilocus sequence typing (MLST) types (STs), assignment of the isolates to known global clones, capsular (KL) and lipooligosaccharide (O) types, the presence of CRISPR-Cas systems, and cgMLST profiles are given, and the information regarding the presence of AMR, virulence genes and plasmid replicons within the genomes is provided.</p><p><strong>Conclusion: </strong>This database is freely available under CC BY-NC-SA at https://doi.org/10.5281/zenodo.11069018 . The database will facilitate selection of the proper reference isolate sets for any types of genome-based investigations. It will be helpful for investigations in the field of K. pneumoniae genomic epidemiology, as well as antimicrobial resistance analysis and the development of prevention measures against this important pathogen.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"3"},"PeriodicalIF":4.0,"publicationDate":"2025-01-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11702089/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142944998","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":"Microbiota analysis of perimenopausal women experiencing recurrent vaginitis in conjunction with urinary tract infection.","authors":"Yingying Bi, Yuezhu Wang, Wu Li, Yuhang Chen, Jinlong Qin, Huajun Zheng","doi":"10.1186/s12866-024-03709-3","DOIUrl":"https://doi.org/10.1186/s12866-024-03709-3","url":null,"abstract":"<p><strong>Background: </strong>Recurrent vaginitis in conjunction with urinary tract infection (RV/UTI) in perimenopausal women is a common clinical condition that impacts both doctors and patients. Its pathogenesis is not completely known, but the urogenital microbiota is thought to be involved. We compared the urogenital and gut microbiotas of perimenopausal women experiencing RV/UTI with those of age-matched controls to provide a new microbiological perspective and scheme for solving clinical problems.</p><p><strong>Results: </strong>Fifty women of perimenopausal age who were diagnosed with RV/UTI and 50 age-matched healthy controls were enrolled. The urogenital and intestinal microbiota were analyzed via 16S ribosomal RNA gene sequencing by collecting samples from the mouth, anus, urine, cervix, and upper and lower vaginal ends. Among the microbiota of healthy perimenopausal women, the mouth had the highest richness, whereas the anus and mouth had the highest levels of diversity. Compared with those in healthy controls, in the microbiota of patients with RV/UTI, the evenness of the upper vaginal end, anus and cervix significantly increased, whereas the richness and diversity of the cervix significantly decreased. Lactobacillus accounted for 40.65% of the bacteria in the upper vaginal end and 39.85% of the bacteria in the lower vaginal end of healthy women of perimenopausal age, and there were no significant differences in Lactobacillus abundance among the patients with RV/UTI. The relative abundances of 54 genera and 97 species were significantly different between patients and healthy individuals, particularly in the cervix and urine. A total of 147 predicted pathways were significantly different between patients and healthy controls, with the microbiota of the anus exhibiting the greatest number of functional changes, followed by the urine microbiota. A random forest model composed of 16 genera in the lower vaginal end had the highest discriminatory power (AUC 81.48%) to predict RV/UTI.</p><p><strong>Conclusions: </strong>Our study provides insight into the nature of the urogenital and intestinal microbiota in perimenopausal women, and reveals significant changes in the microbiota in patients with RV/UTI. This information will help characterize the relationship between the urogenital microbiota and RV/UTI, potentially aiding in the development of diagnostic and therapeutic strategies.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"25 1","pages":"1"},"PeriodicalIF":4.0,"publicationDate":"2025-01-04","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142926714","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Two new strains of Streptomyces with metabolic potential for biological control of pear black spot disease.","authors":"Yi-Huang Chen, Jia-Xing Zhang, Yan Min, Yang Liu, Jian-Ming Wang, Lin-Quan Bai, Xiao-Xia Luo","doi":"10.1186/s12866-024-03609-6","DOIUrl":"10.1186/s12866-024-03609-6","url":null,"abstract":"<p><strong>Background: </strong>Pear black spot is caused by Alternaria tenuissima. It is one of the diseases of concern limiting pear production worldwide. Existing cultivation methods and fungicides are not sufficient to control early blight. Therefore, the aim of this study was to isolate and characterize two strains of Streptomyces and evaluate their potential for biological control of crop diseases caused by Alternaria tenuissima while promoting plant growth. It enriches the resources of biocontrol strains.</p><p><strong>Methods: </strong>In this study, the genetic background of the strain was elucidated through 16S rRNA gene analysis and multiphase taxonomic identification methods. The metabolic potential of the strain was assessed using a variety of approaches, including antiSMASH, COG, and KEGG databases, RGI tools, as well as the scanning of CAZY and plant-promoting genes. The biocontrol potential of the strain was further substantiated through a combination of plate experiments, gene cluster biopathway resolution and mass spectrometry validation of metabolites. Finally, the biocontrol efficacy of the strain was confirmed through fruit control experiments.</p><p><strong>Results: </strong>The study identified the potential new species status of the strains. Strain TRM 76130 exhibited a gene size of 5.94 Mbp and a G + C content of 73.65%, while strain TRM 76172 had a gene size of 8.30 Mbp and a G + C content of 71.38%. Both strains contained genes related to amino acid transport and metabolism, along with several CAZY genes and 19 plant growth factors. The resistance genes of strain TRM 76172 were classified as macrolides, and genomic prediction revealed the biosynthetic pathway of the active compound Candidin. Mass spectrometry analysis indicated that strains TRM 76172 and TRM 76130 contained the active compounds amphotericin A and daptomycin, respectively. The pear assays demonstrated that both strains of Streptomyces were capable of reducing the symptoms of pear black spot.</p><p><strong>Conclusion: </strong>The present study concludes that strains TRM76172 and TRM76130 possess significant potential to control Alternaria tenuissima and promote plant growth, thereby enriching the biocontrol fungal library.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"24 1","pages":"550"},"PeriodicalIF":4.0,"publicationDate":"2024-12-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11689623/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142909305","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":"Effects of saffron-grape intercropping on saffron flower number and rhizosphere microbial community.","authors":"Yuanyuan Tao, Guifen Zhou, Xingchang Zhang, Mengqing Feng, Liqin Li, Xiaodong Qian","doi":"10.1186/s12866-024-03716-4","DOIUrl":"10.1186/s12866-024-03716-4","url":null,"abstract":"<p><strong>Background: </strong>Saffron (Crocus sativus L.) is a valuable herb. With the increasing demand for saffron, people are starting to focus on how to increase its yields. Intercropping and microbial interactions have a positive effect on plant yield, including enhanced soil fertility, enriched microbial diversity, reduced pest and disease incidences, and improved plant growth. However, the impact of intercropping saffron with other plants on saffron yields and soil microbial community diversity remains unclear. In our study, we counted the number of saffron flowers in two cropping patterns (saffron monoculture and saffron-grape intercropping), and analyzed the microbial community diversity and composition using Illumina high-throughput sequencing methods based on 16 S and ITS amplicons.</p><p><strong>Results: </strong>The results showed that saffron-grape intercropping significantly increased number of flowers compared to saffron monoculture (P < 0.01). Saffron-grape intercropping influenced rhizosphere soil chemical properties and altered rhizosphere microbial communities. The pH of intercropped rhizosphere soil increased significantly from 5.84 to 6.43. Spearman's correlation revealed a significantly positive correlation between pH and Bacillus, Sphingomonas, Sphingobacterium, Halomonas, Pseudolabrys, and Dongia. Conversely, it showed a significant negative correlation with Pedobacter, Achromobacter, Tumebacillus, and Sphingopyxis in bacteria. In fungi, a significant negative correlation was observed. Although there was no significant difference in diversity, intercropping increased the observed richness and biodiversity of both bacteria and fungi compared to monoculture. The intercropping led to a higher relative abundance of bacterial genera such as Sphingomonas and Streptomyces, as well as fungal genera including Acremonium, Llyonectria, Penicillium, Cadophora, Plectosphaerella, and Tetracladium. Intercropping decreased the dominance of certain microbial taxa, including Fictibacillus, Microbacterium, and Glutamicibacter among bacterial genera, as well as Fusarium and Arthrographis among fungal genera. Additionally, functional analysis revealed that intercropping was significantly higher (P < 0.01) than monoculture in dark hydrogen oxidation, denitrification, nitrate denitrification, nitrous oxide denitrification, nitrite denitrification, and manganese oxidation. Plant pathogens decreased from 6.13% in monoculture to 2.46% in intercropping.</p><p><strong>Conclusion: </strong>This study found that saffron-grape intercropping positively affected saffron yield. Based on the existing data, intercropping resulted in an increase in microbial communities, including some taxa previously identified as beneficial for other plants. These findings establish the foundation for the widespread application of saffron-grape intercropping and offer a promising strategy for increasing saffron yield.</p>","PeriodicalId":9233,"journal":{"name":"BMC Microbiology","volume":"24 1","pages":"551"},"PeriodicalIF":4.0,"publicationDate":"2024-12-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11684302/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142906474","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}