Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1820915
Chunming Ai, Jiazhen Cui, Pingping Sun, Chao Liu
{"title":"Study on the effects and mechanisms of different coal matrix structures on the desulfurization efficiency of Pseudomonas putida.","authors":"Chunming Ai, Jiazhen Cui, Pingping Sun, Chao Liu","doi":"10.3389/fmicb.2026.1820915","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1820915","url":null,"abstract":"<p><p>This study aims to reveal the influence mechanism of coal matrix structure on microbial desulfurization efficiency and clarify the regulatory effect of coal chemical structural characteristics on microbial desulfurization efficiency, providing theoretical support for the precise application of coal biodesulfurization technology. Pseudomonas putida was used as the functional strain for microbial desulfurization experiments on 092a and 100b coal samples with significant structural differences, and the characteristics of the desulfurized coal samples were characterized by X-ray photoelectron spectroscopy (XPS) and Fourier transform infrared spectroscopy (FTIR). The results showed that the organic sulfur removal rate of 100b coal reached 60.9%, which was much higher than the 17.6% of 092a coal; Pseudomonas putida could efficiently degrade various forms of organic sulfur such as thiophene, sulfide and sulfoxide in 100b coal, while only selectively removing sulfone-type sulfur in 092a coal, and FTIR characterization further confirmed that coal matrix characteristics are the core factor determining the desulfurization efficiency of this strain. The high aromaticity and high condensation degree of 092a coal resulted in significant steric hindrance of sulfur components, which limited the specific binding between enzymes and substrates, whereas the thiophene sulfur in 100b coal could be efficiently degraded through the 4S metabolic pathway, and this study clarifies the regulatory effect of coal chemical structural characteristics on microbial desulfurization efficiency, further supplementing the theoretical basis for the precise application of coal biodesulfurization technology.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1820915"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125091/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147812066","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1789302
Carolina González de Figueras, Sara Gómez, Maria Lamprecht-Grandío, Salvador Mirete, Jorge Díaz-Rullo, Pablo Martínez-Rodríguez, Mercedes Sánchez-Costa, José Eduardo González-Pastor
{"title":"Enhancing UV-C and perchlorate resistance in <i>Arabidopsis thaliana</i> through the introduction of microbial genes from hypersaline environment.","authors":"Carolina González de Figueras, Sara Gómez, Maria Lamprecht-Grandío, Salvador Mirete, Jorge Díaz-Rullo, Pablo Martínez-Rodríguez, Mercedes Sánchez-Costa, José Eduardo González-Pastor","doi":"10.3389/fmicb.2026.1789302","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1789302","url":null,"abstract":"<p><p>Ultraviolet (UV) radiation reaching the Earth's surface affects all living organisms. Recent reports show a trend of increasing exposure levels due to stratospheric ozone depletion and contamination. UV-B radiation (280-315 nm), previously largely absorbed by the ozone layer, now reaches the surface in higher doses, posing a particular threat to plants, which are sessile organisms and cannot escape adverse conditions. The intrinsic protective and repair mechanisms in plants may be insufficient to counteract this increase, potentially impacting crop productivity, distribution, and quality, with serious implications for agriculture and ecological stability. This study aims to enhance plant resistance to UV radiation by introducing genes derived from extremophilic microorganism, which have previously shown to confer UV-protective effects in UV resistance to a radiation-sensitive <i>Escherichia coli</i> strain (<i>recA</i> mutant). Extremophile microorganisms have been discovered in high-irradiation environments, such as hypersaline lakes, where survival relies on unique genetic adaptations. In our laboratory, four genes were selected from metagenomic libraries derived from high-altitude hypersaline lakes in Argentina (Diamante and Ojo Seco, at 4,589 m and 3,200 m respectively) and from the Es Trenc salt flat (Mallorca, Spain). Based on these promising results, the genes were introduced into <i>Arabidopsis thaliana</i> to evaluate their potential to enhance UV-B tolerance in plants. The selected genes included one encoding a TATA-box binding protein, and three hypothetical proteins. Each gene was independently transformed into <i>Arabidopsis thaliana</i> lines and subjected to UV-B and UV-C irradiation (4.5 kJ·m<sup>-2</sup>), with UV-C (100-280 nm) ultimately chosen for its higher damaging potential to test the limits of plant tolerance. Additionally, cross-resistance was evaluated using sodium perchlorate, a common soil contaminant and oxidative stressor. Plants were exposed to concentrations between 3.67 and 7.34 g/L, exceeding those used in previous studies. As a result, the plants obtained were more resistant to UV radiation and were also capable of growing in environments containing higher levels of perchlorate in the growth medium. Thus, the expression of these genes in the plant appears to contribute to enhanced stress resistance.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1789302"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125036/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813205","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 plant-microbial combined remediation on soil microbial communities in coal mine dump.","authors":"Hanting Qu, Pengfei Wang, Xinyan Liu, Jingpeng Li, Jiajia Xu, Shuming Fan, Jie Liu, Jiaqi Liu, Yuxin Guo, Peng Zhang, Haijing Liu, Yuying Bao","doi":"10.3389/fmicb.2026.1767455","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1767455","url":null,"abstract":"<p><p>Open-pit coal mining in grassland ecosystems causes severe soil degradation and disrupts the native soil microbial communities. However, current remediation research predominantly focuses on plant growth or soil physicochemical properties, with a limited systematic analysis of the soil microbial community during remediation in the grassland coal mine dump. To address this gap, this study used high-throughput sequencing integrated with field experiments to systematically evaluate the effects of plant-microbial combined remediation on soil microbial communities in a coal mine dump located in a fragile, severely cold grassland. Our study revealed divergent restoration of soil bacteria and fungi. Bacterial communities demonstrated a strong recovery capacity, with diversity nearly restored to natural levels, while fungal communities remained significantly suppressed. Restoration treatments, especially AMF inoculation, successfully altered overall microbial structure and increased the abundance of key marker taxa. Network analysis further showed that remediation drove bacterial communities toward greater complexity and cooperation, whereas fungal communities responded with increased modularity. Critically, the assembly of the entire soil microbial community was primarily governed by a total phosphorus gradient, which clearly discriminated between bare dump, natural grassland, and restoration plots. Mixed planting fostered the most resilient bacterial community; however, microbial inoculation within this system proved counterproductive. Fungal resilience remained consistently lower than that of bacteria. Crucially, inoculation fundamentally altered ecosystem multifunctionality in monocultures, demonstrating its essential role in functional enhancement. Our results demonstrate that integrating specific plant combinations with microbial inoculation is key to enhancing soil microbial stability and ecosystem multifunctionality during restoration. In summary, our findings reveal the distinct response of soil microbial communities under remediation, and provide critical insights for the ecological restoration of mining areas.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1767455"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125021/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813211","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1823866
Hao Geng, Mengzhu Qi, Mengru Su, Feijie Zhi, Yuefeng Chu
{"title":"HflX mediates rifampicin resistance in <i>Brucella</i> by downregulating the expression of RNA polymerase-associated genes.","authors":"Hao Geng, Mengzhu Qi, Mengru Su, Feijie Zhi, Yuefeng Chu","doi":"10.3389/fmicb.2026.1823866","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1823866","url":null,"abstract":"<p><p>Brucella species (<i>Brucella</i> spp.) are facultative intracellular zoonotic pathogens responsible for brucellosis, a disease causing substantial global public health and economic burdens. Rifampicin remains a first-line therapeutic agent, but the molecular mechanisms underlying rifampicin resistance in <i>Brucella</i> remain poorly defined, especially the contribution of ribosome-associated regulatory proteins. HflX is a conserved ribosome-binding GTPase involved in ribosomal quality control and antibiotic resistance, yet its role in rifampicin resistance has not been reported. Here, we constructed <i>hflX</i> deletion and complemented strains of <i>Brucella</i> abortus 2308 and characterized their phenotypes using antimicrobial susceptibility tests, growth and time-kill assays, electron microscopy, proteomics, and RT-qPCR. Deletion of <i>hflX</i> significantly increased bacterial susceptibility to rifampicin, impaired growth recovery, and intensified intracellular stress without disrupting cell envelope integrity. Mechanistically, <i>hflX</i> depletion led to coordinated downregulation of RNA polymerase (RNAP) core subunits (<i>rpoA</i>, <i>rpoB</i>, and <i>rpoC</i>) and σ factors (<i>rpoD</i> and <i>rpoH</i>) at both protein and mRNA levels. Our findings demonstrate that HflX mediates rifampicin resistance in <i>Brucella</i> by regulating RNAP-associated gene expression and metabolic adaptation, establishing a novel HflX-RNAP regulatory axis. This study expands the understanding of antibiotic resistance in intracellular pathogens and highlights HflX as a promising target for developing anti-resistance strategies against brucellosis.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1823866"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13124723/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813265","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1715630
Xiangmei Zhao, Zhizong Liu, Yonglin Wu, Tao He, Liu Gao, Li Bao, Hongyin Zhou, Sheng Wang, Naiming Zhang
{"title":"Soil selenium activator mediates selenium form transformation and affects soil properties and microbial communities.","authors":"Xiangmei Zhao, Zhizong Liu, Yonglin Wu, Tao He, Liu Gao, Li Bao, Hongyin Zhou, Sheng Wang, Naiming Zhang","doi":"10.3389/fmicb.2026.1715630","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1715630","url":null,"abstract":"<p><strong>Introduction: </strong>Addressing global crop selenium (Se) deficiency requires novel strategies that enhance the bioavailability of native soil Se while minimizing environmental impact. This study introduced a novel organic-inorganic composite activator to achieve this goal.</p><p><strong>Methods: </strong>The composite activator was formulated by combining wood vinegar (WV), biochemical fulvic acid (BFA), and alginic acid (AA) with phosphorus tailings (PT), thereby avoiding the resource consumption and pollution risks associated with external Se input. Through orthogonal experimental design integrated with high-throughput sequencing, correlation analysis, co-occurrence network modeling, and functional prediction, this study systematically elucidated how the composite activator synergistically regulates Se speciation transformation, soil properties, and microbial community structure.</p><p><strong>Results: </strong>The optimized Z8 formulation yielded the following results: (1) Compared to the control (CK) (25.2 μg/kg), the bioavailable Se content under the Z8 treatment (39.2 μg/kg) significantly increased by 56%; and (2) The co-application of PT (containing 8.63% P) and organic acids increased soil available phosphorus (AP) by 21.2% after 60 days.</p><p><strong>Discussion: </strong>In conclusion, this study proposes a sustainable strategy of amending soil with organic acid-activated PT, which synergistically improves soil Se and P fertility while offering a new pathway for the resource utilization of industrial waste.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1715630"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13127118/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147812035","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":"Leveraging whole-genome sequencing for microbial contamination tracking and risk assessment in pharmaceutical manufacturing.","authors":"Qiongqiong Li, Deyin Deng, Xin Dou, Xinqin Chen, Xuhua Duan, Tingzhang Wang, Minghui Song","doi":"10.3389/fmicb.2026.1807989","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1807989","url":null,"abstract":"<p><strong>Background: </strong>Pharmaceutical cleanrooms remain vulnerable to microbial contamination introduced through environmental and personnel-associated pathways, yet the genomic characteristics and transmission dynamics of these contaminants are not well defined.</p><p><strong>Methods: </strong>In this study, whole-genome sequencing (WGS) was applied to characterize microbial populations across a sterile vaccine production line. We adopted an integrated strategy that combined routine environmental monitoring with targeted genomic investigation, mapping the overall distribution of microorganisms and prioritizing isolates showing abnormal or recurrent detection for sequencing. By integrating SNP-based phylogeny, sampling location metadata, and ARG/virulence profiling. we identified five dominant opportunistic species, each displaying distinct genomic signatures indicative of different introduction pathways.</p><p><strong>Results: </strong>By combining species-specific genomic features with their sampling distributions, we reconstructed four plausible contamination chains: clonal inward dissemination of <i>Burkholderia contaminans</i> from Grade B to Grade A areas, repeated water-associated introductions of <i>Ralstonia pickettii</i>, intermittent personnel-mediated seeding of <i>Staphylococcus epidermidis</i>, and sporadic external incursions of <i>Microbacterium laevaniformans</i>. ARGs and VFs were heterogeneously distributed, with mobile resistance determinants and colonization- or immune-evasion factors concentrated in <i>B. contaminans</i> and <i>R. pickettii</i>, suggesting elevated persistence potential under disinfectant pressure.</p><p><strong>Conclusion: </strong>These findings demonstrate that WGS enables precise source attribution and transmission-route reconstruction beyond the capability of conventional typing methods, thereby supporting real-time contamination control and evidence-based microbial-risk management in pharmaceutical manufacturing.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1807989"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125030/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813238","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1813524
Esmaeil ALSaleh
{"title":"Comparative genomics links ecological dominance and genome plasticity in sediment-derived <i>Vibrio diabolicus</i>.","authors":"Esmaeil ALSaleh","doi":"10.3389/fmicb.2026.1813524","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1813524","url":null,"abstract":"<p><p>Marine sediments harbor diverse <i>Vibrio</i> populations that play critical roles in benthic microbial ecology; however, the genomic determinants underlying the dominance of sediment-associated <i>Vibrio</i> taxa remain insufficiently characterized at the genome level. In this study, culture-based enumeration revealed <i>Vibrio diabolicus</i> as the dominant <i>Vibrio</i> species in marine sediment samples, providing ecological rationale for genome-resolved investigation. Because sediment-associated <i>vibrio</i> species, often responds rapidly to environmental fluctuations and organic enrichment in coastal ecosystems, their distribution and genomic characteristics may also reflect changes in sediment microbial community structure and local environmental conditions. Four sediment-derived <i>V. diabolicus</i> isolates (Vdiab_L2, Vdiab_L3, Vdiab_VA, and Vdiab_B48) were subjected to whole-genome sequencing and comparative genomic analysis alongside closely related reference genomes. Average nucleotide identity (ANI) analyses confirmed species-level assignment, with all isolates exhibiting ANI values exceeding 95% relative to <i>V. diabolicus</i> references, while remaining clearly distinct from <i>V. alginolyticus</i> and <i>V. parahaemolyticus</i> references. Core-genome phylogenetic reconstruction resolved the sediment isolates into a coherent <i>V. diabolicus</i> lineage, consistent with ANI-based relationships and demonstrating strong concordance between whole-genome similarity metrics and evolutionary history inferred from conserved genes. Pangenome analysis revealed a relatively small, conserved core genome accompanied by a dominant accessory gene pool composed primarily of shell and cloud genes, indicative of an open pangenome structure. Accessory gene clustering and presence-absence profiling further highlighted strain-specific genomic heterogeneity within the species. Importantly, this study focuses specifically on comparative genomic structure rather than comparative functional genomics, aiming to establish a genome-level evolutionary framework for sediment-associated <i>V. diabolicus</i> populations. Together, these findings demonstrate that <i>V. diabolicus</i> combines ecological dominance in marine sediments with extensive genomic plasticity, a combination likely facilitating persistence and adaptation within heterogeneous benthic environments. This study provides a comprehensive comparative genomic baseline for understanding sediment-associated <i>V. diabolicus</i> populations and establishes a framework for future ecological and functional genomic investigations.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1813524"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125005/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813287","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1715064
Murali Anagha, Roshni Ramachandran, Gangaraju Divyashri, Sindhu O, Somashekar A R, M V Krithika, T P Krishna Murthy
{"title":"<i>In vitro</i> identification of GABA-producing psychobiotic candidates from human breast milk.","authors":"Murali Anagha, Roshni Ramachandran, Gangaraju Divyashri, Sindhu O, Somashekar A R, M V Krithika, T P Krishna Murthy","doi":"10.3389/fmicb.2026.1715064","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1715064","url":null,"abstract":"<p><p>Human breastmilk is a rich source of beneficial microbiota and bioactive compounds, yet its potential as a reservoir of psychobiotics remains underexplored. In this study, breastmilk samples were aseptically collected from healthy lactating mothers and cultured using MRS media. A total of 188 bacterial isolates were screened for gamma-aminobutyric acid (GABA) production using monosodium glutamate (MSG) as a substrate, with quantification by High-Performance Liquid Chromatography (HPLC). Several isolates, mainly Gram-positive cocci of the <i>Enterococcus</i> genus, showed GABA production ranging from 0.3343 to 0.8471 g/L. The most potent isolate identified as <i>Enterococcus faecalis</i> RIT BM<sub>S15-3</sub> through 16S rRNA sequencing, exhibited notable resistance to gastrointestinal conditions and antimicrobial activity. Further, fermentative GABA production was optimized by adjusting pH, temperature, and MSG concentration. These findings highlight breastmilk as a promising source of GABA-producing bacteria with potential psychobiotic relevance. However, comprehensive strain-specific safety and <i>in vivo</i> evaluations are required before considering applications in functional foods or microbiota-based strategies targeting the gut-brain axis.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1715064"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13125111/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813244","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}
Frontiers in MicrobiologyPub Date : 2026-04-15eCollection Date: 2026-01-01DOI: 10.3389/fmicb.2026.1783087
Lázaro López, Pamela Cangui, Denyss Guilcazo, Antonio Machado, Zachary D Blount, Gabriel Trueba
{"title":"Fitness costs and persistence of plasmid-mediated cephalosporin resistance in <i>Escherichia coli</i>: an integrative review.","authors":"Lázaro López, Pamela Cangui, Denyss Guilcazo, Antonio Machado, Zachary D Blount, Gabriel Trueba","doi":"10.3389/fmicb.2026.1783087","DOIUrl":"https://doi.org/10.3389/fmicb.2026.1783087","url":null,"abstract":"<p><p>The global spread of resistance to third-generation cephalosporins (TGCs) in <i>Escherichia coli</i> limits therapeutic options and poses major challenges for human, animal, and environmental health. The spread of resistance genes, including those for extended-spectrum β-lactamases (ESBLs), AmpC-type β-lactamases, and carbapenemases, has been facilitated by horizontal gene transfer (HGT), often via conjugative plasmids. This plasmid-mediated mobilization has enabled rapid adaptation to front-line antibiotics across diverse bacterial populations and ecological niches. Here, we bring together an integrative synthesis of molecular mechanisms, genetic vehicles, and ecological dynamics of cephalosporin resistance in <i>E. coli</i>, alongside a PRISMA-guided quantitative synthesis of 40 studies that provide data on the fitness consequences of resistance plasmids. We have analyzed a total of 154 experimental observations to identify patterns related to plasmid host background, resistance gene family, and fitness-assay framework. Because multiple observations were frequently contributed by the same study, we accounted for hierarchical structure using mixed-effects models with Study_ID as a random intercept and evaluated key patterns in the full dataset and stratified by assay type (growth curves vs. head-to-head competition assays). Moreover, we found that fitness estimates were sensitive to assay type. For instance, head-to-head competition experiments captured a broader range of deviations from neutrality than growth curve assays, although the apparent difference in mean standardized fitness between assay types was attenuated after accounting for study-level clustering. Across the curated dataset, host-associated and resistance gene-family-associated signals were method-dependent: both were evident overall and in head-to-head competition assays, but were not retained in growth-curve-only subsets. Our analysis supports a context-dependent interpretation in which plasmid-host compatibility, resistance-gene context, ecological setting, and the measurement framework jointly shape the observed fitness consequences and dissemination potential of resistance plasmids across environments.</p>","PeriodicalId":12466,"journal":{"name":"Frontiers in Microbiology","volume":"17 ","pages":"1783087"},"PeriodicalIF":4.0,"publicationDate":"2026-04-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC13124721/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"147813267","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}