Microbiology Spectrum微生物学谱
Microbiology Spectrum(英文缩写 MICROBIOL SPECTR),ISSN 2165-0497,eISSN 2165-0497,中文译名:微生物学谱 是一本学术期刊。本页汇总该期刊的最新影响因子、分区信息以及最新收录于 PubMed 的文献,帮助您快速了解期刊全貌。
发文量统计区间：2025-09-28 至 2026-09-28，按本站收录文献的发表日期统计。
期刊介绍
历年影响因子趋势
| JCR 数据年份 | 影响因子 | JCR 分区 |
|---|---|---|
| 2021 | 9.043 | Q1 |
| 2022 | 3.700 | Q2 |
| 2023 | 3.700 | Q2 |
| 2024 | 3.800 | Q2 |
| 2025 | 4.100 | Q2 |
Microbiology Spectrum 最新收录文献
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1. {"_":"Clinical and molecular epidemiology of type 2 diabetes mellitus-associated intestinal colonization.","i":["Staphylococcus aureus"]}
PMID:日期:2026-09-25Intestinal colonization in type 2 diabetes mellitus (T2DM) remains poorly defined with respect to prevalence, clinical associations, and molecular characteristics. We investigated intestinal colonization in 142 patients with T2DM and characterized the recovered isolates using antimicrobial susceptibility testing, resistance gene profiling, multilocus sequence typing, accessory gene regulator typing, typing, and whole-genome sequencing. Clinical and laboratory characteristics were compared between colonized and non-colonized patients, and siderophore production and biofilm formation were evaluated in major molecular types. colonization was identified in 30 patients (21.1%, 95% confidence interval: 15.2%-28.6%) based on a single fecal sample per patient, including one methicillin-resistant isolate. Isolates remained highly susceptible to most tested antimicrobials, except penicillin. The β-lactamase gene was the most prevalent resistance determinant (83.3%). MLST revealed a polyclonal population dominated by ST15 (30.0%), ST1156 (26.7%), and ST5 (26.7%), with agr II (56.7%) and type t84 (43.3%) being the most common types. Whole-genome sequencing further demonstrated distinct plasmid architectures between methicillin-susceptible and methicillin-resistant (MRSA) isolates and identified an SCCmec IVc (2B) element in the MRSA isolate. Siderophore production was significantly higher in ST15 and ST1156 than in ST5, whereas biofilm formation did not. These findings provide a comprehensive characterization of the clinical and epidemiological profiles of intestinal colonization in patients with T2DM and highlight the need for continued genomic surveillance and mechanistic studies to support infection prevention and therapeutic strategies.IMPORTANCEIntestinal colonization in type 2 diabetes mellitus (T2DM) has remained largely uncharacterized despite the well-documented heightened infection risk in this population. Here, we show that 21.1% (95% confidence interval: 15.2%-28.6%) of hospitalized T2DM patients harbor gut (only 3.3% methicillin-resistant [MRSA]). The isolates form a polyclonal population dominated by ST15, ST1156, and ST5, carry predominantly , and display lineage-specific differences in siderophore production-an iron-acquisition trait critical for gut persistence. These data establish the diabetic intestine as a clinically relevant reservoir, underscore the limitations of nares-only surveillance, and highlight the need for integrated genomic and mechanistic studies to guide infection prevention in T2DM.
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2. {"_":"Field-deployable visual detection of and its toxigenic pathovar using a one-step RPA-CRISPR/Cas13a assay.","i":["Burkholderia gladioli"]}
PMID:日期:2026-09-25pathovar produces the potent mitochondrial toxin bongkrekic acid (BA), causing severe foodborne outbreaks. Conventional detection methods are constrained by prolonged turnaround times and the need for sophisticated instruments, limiting their utility for on-site surveillance. In this study, two independent one-step RPA-CRISPR/Cas13a detection systems were established: one targeting a species-level marker for broad screening of and the other targeting the gene cluster for specific identification of the toxigenic pathovar. The complete one-step reaction was performed at 37°C for 30 min, and results were visually interpreted using a portable blue-light transilluminator. The visual detection limit reached 1 × 10⁰ copy/μL for both assays, with no cross-reactivity observed against a panel of six non-target strains. Component validation experiments confirmed that all listed constituents were indispensable for fluorescence signal generation. The practical applicability of the platform was evaluated using 100 naturally contaminated black fungus and mushroom substrate samples. The species-level assay returned positive rates of 78% (39/50) for black fungus and 42% (21/50) for substrate samples, while the -targeted assay yielded positive rates of 38% (19/50) and 8% (4/50), respectively. The visual readout results were in 100% concordance with conventional quantitative real-time PCR. This field-deployable, equipment-free visual detection platform holds considerable promise for on-site surveillance and early warning of BA-producing in food and environmental matrices.IMPORTANCEBongkrekic acid (BA) poisoning caused by pv. is a lethal food safety threat, particularly in China and Southeast Asia. Current detection methods depend heavily on laboratory-based instruments, limiting their utility for on-site surveillance. This study developed two independent one-step RPA-CRISPR/Cas13a detection systems: one for broad screening of at the species level and the other for specific identification of the toxigenic pathovar. The one-step reaction was completed at 37°C within 30 min, and results were visually interpreted using only a portable blue-light transilluminator. The visual detection limit reached 1 × 10⁰ copy/μL, and the method exhibited 100% concordance with quantitative real-time PCR when applied to 100 naturally contaminated samples. This field-deployable, equipment-free platform provides a practical tool for on-site surveillance and early warning of BA-producing in food and environmental matrices.
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3. An rRNA hybridization-based approach for rapid and accurate identification of diverse fungal pathogens.
PMID:日期:2026-09-25Invasive fungal infections are a global threat for which early diagnosis is critical for patient outcomes, but current diagnostic measures remain notoriously slow. Here, we extend our multiplexed, hybridization-based rRNA-targeted strategy for rapid, sensitive pathogen identification, previously designed for diverse bacteria and species, to identify diverse fungal pathogens. We created a set of 91 probes targeting 86 medically relevant fungal species, designed to recognize regions of differential conservation across taxonomic groupings, from class- to species-specific probes. We assessed assay performance across a Training Set of 93 clinical isolates spanning 32 species of common fungal pathogens across 18 genera, with Pearson correlations of probeset reactivity profiles identifying the pathogen at the species, genus, and family level with 83%, 94%, and 95% accuracy, respectively, in a leave-one-out analysis. We developed a new classifier on this Training Set, using taxonomic categories to select progressively more informative probes at each taxonomic level. After optimization, we assessed performance on an independent Validation Set of 54 clinical isolates spanning the same species as the Training Set, with 91%, 94%, and 98% at the species, genus, and family levels, respectively. We piloted our assay on formalin-fixed paraffin-embedded (FFPE) tissue, demonstrating rapid, culture-independent fungal identification from this high-value clinical sample type, often the sole specimen available. The assay requires <30 min hands-on time (or <65 min from FFPE tissue), returning results in <8 h from cultured specimen on an RNA detection platform available in clinical laboratories.IMPORTANCETimely identification of fungal pathogens is critical for patient outcomes. Here we describe a multiplexed hybridization-based assay targeting rRNA that capitalizes on the high sequence conservation and abundance of rRNA to generate unique reactivity profiles that serve as "fingerprints" of diverse fungal pathogens. By comparing these fingerprints to a Training Set of known isolates, this novel assay enables accurate identification of 32 species of pathogenic fungi from crude lysates of cultured clinical isolates.
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4. {"_":"PBT2 potentiates carbapenem antibiotics against diverse strains.","i":["Klebsiella pneumoniae"]}
PMID:日期:2026-09-25Carbapenem-resistant is recognized by the World Health Organization as a critical priority for urgent antimicrobial development. Due to the lack of novel antimicrobial classes in the development pipeline, this study investigated the application of an antibiotic potentiator, the zinc ionophore PBT2, to restore the utility of critical antibiotics. The data show that zinc and PBT2 can increase the sensitivity of diverse clinical strains of to carbapenem antibiotics, including those strains containing metallo-β-lactamases and porin mutations. PBT2 induced zinc and iron dyshomeostasis in these strains, resulting in altered uptake of multiple antimicrobial agents. Furthermore, PBT2 exposure also decreased resistance to agents, including ethanol and hydrogen peroxide, and reduced the potential for horizontal gene mobilization. Collectively, these impacts on metal homeostasis and cell composition suggest that PBT2 may have potential as an adjunct therapy for the treatment of multidrug-resistant . Carbapenem-resistant is a major nosocomial threat and a top World Health Organization priority for urgent antimicrobial development. Resistance can be mediated by multiple classes of mobilizable carbapenemase enzymes, with varied treatment recommendations, depending on which class is present. This work describes how a repurposed drug called PBT2 can potentiate carbapenem activity against a clinical panel, independent of resistance mechanism. This could support the development of PBT2 as a broad-spectrum potentiator compound against drug-resistant .
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5. Integrated EBV and host DNA methylation profiling identifies distinct candidate EBV-host junction patterns in chronic active EBV infection.
PMID:日期:2026-09-25Chronic active Epstein-Barr virus (EBV) infection (CAEBV) is a potentially life-threatening lymphoproliferative disease with limited effective therapies. Host-virus interactions, including epigenetic regulation, may contribute to CAEBV progression. The methylation landscape of EBV and the host genome, and the genomic features of EBV-host junctions in CAEBV remain incompletely characterized. We profiled EBV DNA methylation in peripheral blood mononuclear cells (PBMCs) from patients with CAEBV and infectious mononucleosis (IM) using targeted bisulfite sequencing. Host DNA methylation patterns were assessed by reduced representation bisulfite sequencing in CAEBV, IM, healthy EBV carriers, and EBV-uninfected controls. In parallel, candidate EBV-host junctions were identified by liquid-phase hybridization capture sequencing. Because same-sample junction-specific PCR and Sanger sequencing were not available, the capture-derived junctions were regarded as candidate events. The EBV genome showed global hypermethylation in CAEBV compared with IM, together with distinct latency-associated promoter methylation patterns. CAEBV also exhibited a distinct host methylation signature relative to control groups, with differentially methylated genes enriched in immune-related processes and cancer-associated pathways. Candidate EBV-host junctions were detected more frequently in CAEBV than in IM, with viral-side regions showing recurrent candidate junction detection, including , , and . In CAEBV, candidate junctions were enriched in intronic and promoter regions, common fragile sites, and repetitive elements. At the gene level, recurrently targeted host loci included genes implicated in genomic instability and cancer-related pathways. In exploratory longitudinal analyses, allogeneic hematopoietic stem cell transplantation was associated with lower EBV methylation levels and fewer detectable candidate EBV-host junctions, whereas chemotherapy alone was not associated with comparable changes. These data characterize EBV and host methylation landscapes together with candidate EBV-host junction patterns in CAEBV. The findings provide epigenetic and genomic clues to CAEBV pathogenesis and generate hypotheses regarding potential biomarkers of treatment response, but require validation in larger, independent cohorts. Chronic active Epstein-Barr virus (CAEBV) infection is a rare but severe disease that can progress to life-threatening inflammation or lymphoma, yet its molecular basis remains poorly understood. We found that both the EBV genome and the host genome exhibit distinct DNA methylation patterns in children with CAEBV compared with infectious mononucleosis. We also identified more frequent candidate EBV-host junction signals in CAEBV and observed that these signals became less detectable after successful hematopoietic stem cell transplantation. These findings improve our understanding of host-virus interactions in CAEBV and provide candidate molecular features that may be useful for future studies of disease mechanisms and treatment monitoring.
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6. {"_":"Prophage ΦESI promotes competitive dominance in the emergent serovar Infantis lineage.","i":["Salmonella"]}
PMID:日期:2026-09-25The global emergence of multidrug-resistant serovar Infantis has been largely attributed to the pESI megaplasmid; however, additional factors contributing to the ecological success of this lineage remain poorly understood. Here, we characterize a phage of emergent Infantis (ΦESI), a temperate bacteriophage discovered during coculture of an emergent pESI-positive strain (PM57) and a non-emergent strain (DR006). Phage ΦESI shows a siphovirus morphotype with a long tail and an elongated head, with a genome of 46,490 bp, which is integrated as a prophage at the 3'-end of an Arg-tRNA gene in PM57, but is absent in DR006, which is susceptible to ΦESI-mediated lysis. Screening of ΦESI genes across 20,429 global Infantis genomes revealed a near-exclusive association of ΦESI and ΦESI-like prophages with the emergent pESI-positive lineage. Further bioinformatic analyses of complete chromosomes revealed diverse ΦESI insertion profiles showing geographic clustering and the presence of large-scale chromosomal inversions flanked by ΦESI genes. competition assays demonstrated that PM57 outcompeted DR006 in coculture, coinciding with high viral loads that selectively lysed DR006. Consistently, susceptibility assays showed that strains lacking ΦESI/ΦESI-like prophages were susceptible to ΦESI infection. Together, these findings identify ΦESI as a lineage-associated prophage that mediates competitive exclusion of susceptible strains. Our results support a role for prophage-driven competition in the ecological success of the multidrug-resistant Infantis lineage.IMPORTANCEEmergent multidrug-resistant serovar Infantis strains carrying pESI megaplasmids have spread worldwide, posing a global public health threat and a significant economic burden. Nevertheless, the factors contributing to the success of this foodborne pathogen, beyond pESI, remain poorly understood. Here, we describe ΦESI, a novel temperate bacteriophage carried by the emergent lineage as a chromosomally integrated prophage. We show that ΦESI provides a competitive advantage to emergent strains by selectively killing non-emergent competitors while protecting lysogens from reinfection. Our findings uncover the contribution of ΦESI/ΦESI-like bacteriophages to the success of emergent Infantis, highlighting how lineage-associated prophages can shape the ecological success of pathogenic bacteria.
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7. {"_":"Fungicidal effects of eight disinfectants against resistant (formerly ), , and .","i":["Candidozyma auris","Candida auris","Aspergillus fumigatus","Trichophyton indotineae"]}
PMID:日期:2026-09-25Disinfectants are widely used in hospital environments to control bacterial, viral, and fungal hospital-acquired infections. In recent years, nosocomial infections caused by drug-resistant fungi, such as , , and , have posed an increasing transmission risk among patients and healthcare workers, making treatment more challenging. Although many disinfectants are routinely applied in hospital settings, data on their efficacy against drug-resistant fungi remain limited. In this study, we evaluated the antifungal efficacy of eight disinfectants against these three species of drug-resistant fungi, including aldehyde-, alcohol-, chlorine-, iodine-, and peroxide-based formulations. Using minimum fungicidal concentrations, all disinfectants exhibited fungicidal activity against the three fungi at appropriate concentrations; however, when tested at the manufacturer-recommended working concentrations using a quantitative suspension test in the presence of 0.3% bovine serum albumin as an organic interferent, only five disinfectants produced a ≥5 log reduction in viable organisms within 5 min of exposure. Comparative analysis further revealed that a commercial benzalkonium chloride solution (Meifute solution) and peracetic acid exhibited particularly strong potential for the rapid elimination of these drug-resistant fungal pathogens. Disinfectants are primarily developed against bacteria and viruses; there are no dedicated fungicides for use in hospitals, especially for drug-resistant fungi. This study aimed to identify the best disinfectant among those already labeled as having fungicidal attributes for eliminating drug-resistant fungi, to address disinfection and infection control in medical institutions.
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8. Impervious cover is associated with culture-based morphotype diversity in urban stormwater runoff.
PMID:日期:2026-09-25Urban stormwater runoff transports diverse biological material into receiving waters, but whether storm-by-storm culture-based diversity is associated with simple environmental variables is not well quantified. This study examined whether culture-based morphotype diversity in urban runoff was associated with impervious cover percentages and basic weather variables. Runoff was sampled during 25 storms at three Chapel Hill, NC, catchments representing green, residential, and commercial urban land-use patterns to obtain 75 site-storm samples. For each sample, colonies grown on nutrient agar were segmented into morphotypes from overhead images, and Shannon, Gini-Simpson, and Pielou evenness indices were computed from morphotype area fractions. Shannon diversity and Simpson diversity were consistently highest for the green space site, intermediate at the residential space site, and lowest for the commercial space site, while evenness showed the opposite pattern. Linear mixed-effect models with storm as a random effect identified land-use type, used here as a proxy for impervious cover, as the dominant predictor, whereas 24-h rainfall and daily mean air temperature showed weak associations. These results show a strong and repeatable association between impervious cover and culture-based runoff morphotype diversity. Because the assay relies on nutrient agar culturing and visible colony morphotypes and includes no non-storm controls, it should not be interpreted as a measure of total microbial diversity. By sampling 25 storms in three contrasting urban catchments and using culture-based morphotypes on nutrient agar, this study shows that a simple plate-based assay can detect a strong and repeatable land-cover signal in stormwater runoff. Shannon and Gini-Simpson morphotype diversity were consistently highest at the least impervious site and lowest at the most impervious site, whereas rainfall and temperature showed weak associations within the sampled range. The study does not capture the full runoff microbiome, but it does provide a clear culture-based observation that impervious cover is associated with runoff morphotype diversity across repeated storms.
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9. {"_":"Dermatophytosis beyond : genomic characterization of rare keratinophilic fungi and in North India.","i":["Trichophyton indotineae","Myriodontium keratinophilum","Aphanoascus verrucosus"]}
PMID:日期:2026-09-25Fungal skin infections represent the fourth most prevalent disease globally, predominantly attributed to dermatophyte species such as . Nevertheless, sporadic instances of dermatophytosis may also arise from opportunistic, uncommon fungi. This study documents the association of keratinophilic fungi, and , with cases of dermatophytosis in Kashmir, North India. Internal transcribed spacer region sequencing of 64 isolates obtained from skin, hair, and nail samples of 62 patients identified 61% of isolates ( = 39) as , followed by and in 20% ( = 13) and 19% ( = 12) cases, respectively. Furthermore, the first hybrid genome assembly of is reported in the present study. Genomic analysis of both and species revealed median intra-species single nucleotide polymorphism (SNP) differences of 100 and 27, respectively, suggesting highly related strains in the patient population. functional annotation identified a higher number of coding regions in compared to and , including carbohydrate-active enzymes (CAZymes) exhibiting unique substrate affinities and subtilisin 3 () gene, previously implicated as a potential virulence gene in dermatophytes. Notably, in addition to all the multidrug transporters encoded by species, genome contains six putative ATP-binding cassette (ABC) transporters showing 40%-70% sequence similarity with the gene. exhibited reduced susceptibility to multiple antifungals, including high minimum inhibitory concentrations (MICs) (>16 mg/L) against griseofulvin and itraconazole. Importantly, itraconazole is a primary therapeutic agent for terbinafine-resistant infections, underscoring the necessity for early and accurate identification and intervention of dermatophytic infections.IMPORTANCEThe study reports cases of dermatophytosis associated with two rare keratinophilic fungi, i.e., and . The cases mainly presented as tinea corporis and cruris, commonly caused by in the Indian subcontinent, which may remain undiagnosed due to a lack of molecular identification. Furthermore, the first-ever genome report of and its functional annotation is useful for further studies and management of opportunistic pathogens that exhibit reduced susceptibility towards itraconazole, the first-line drug of treatment for terbinafine-resistant infections. An early correct molecular identification of the etiologic agents of skin infections is warranted to tackle the new agents of dermatophytosis at the earliest stage.
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10. Species and strain-specific phenotypes shape performance and output of a five-species yeast consortium.
PMID:日期:2026-09-24Spontaneous wine alcoholic fermentation is initiated by complex yeast communities, which shape the fermentation process and fermentation outcome. While this yeast ecosystem has been described extensively, the biotic factors impacting population dynamics, and the relative ecological importance of the taxonomic levels of species and of strains in defining these parameters remain poorly resolved. Here, we established a consortium of five yeast species that are commonly identified as major contributors to spontaneous wine fermentations: , , , , and . Each species in this consortium was represented by two phenotypically diverging strains. Two systematic consortium perturbations, single-species drop-out, and single-strain substitutions were applied, and fermentation kinetics, sugar utilization, population dynamics, primary metabolites, and major volatile compounds were characterized. Both species drop-out and strain substitution produced significant impacts on population dynamics, growth behaviors, and metabolic outputs. Two-way analysis confirmed that the non- substitutions affected the metabolic output more broadly than the strain. Sugar utilization and population data jointly revealed competitive interactions among species, while chemical outputs tracked the identity of each consortium comprising different species and strains. The data support a hierarchical interpretation in which species identity establishes consortium structure, and strain identity modulates its effect size.IMPORTANCEMicrobial communities drive important processes in food production, yet we still poorly understand how these complex communities behave. Wine fermentation offers a tractable model, as it is carried out by multiple yeast species whose combined activity determines the metabolic outcome. It is commonly assumed that knowing which species are present is sufficient to predict community function, while differences among strains of the same species are often overlooked. By establishing a defined community of five wine yeast species and systematically removing species or substituting individual strains, we show that species identity sets the basic structure of the community, while the particular strain of each species tunes the size of that effect. This distinction matters for anyone seeking to design or predict the behavior of microbial communities, and it shows that strain-level differences must be accounted for when engineering predictable microbial fermentations.