Lancet Microbe最新文献

{"title":"Africa launches plan to eliminate cholera by 2030.","authors":"Munyaradzi Makoni","doi":"10.1016/j.lanmic.2025.101284","DOIUrl":"https://doi.org/10.1016/j.lanmic.2025.101284","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":" ","pages":"101284"},"PeriodicalIF":20.4,"publicationDate":"2025-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145490796","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Health security at genomic artificial intelligence-antimicrobial resistance frontiers in low-income countries.","authors":"Dickson Aruhomukama, Dathan M Byonanebye, Francis Kakooza","doi":"10.1016/j.lanmic.2025.101282","DOIUrl":"https://doi.org/10.1016/j.lanmic.2025.101282","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":" ","pages":"101282"},"PeriodicalIF":20.4,"publicationDate":"2025-11-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145490811","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Epidemic potential of SFTSV: increasing evidence for non-vector-borne transmission.","authors":"Wen Zheng, Hong Zhou, Michael J Carr, Weifeng Shi","doi":"10.1016/j.lanmic.2025.101271","DOIUrl":"https://doi.org/10.1016/j.lanmic.2025.101271","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":" ","pages":"101271"},"PeriodicalIF":20.4,"publicationDate":"2025-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145477231","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Addressing methodological bias in phageome research to clarify bacteriophage diversity.","authors":"Johanna Mora-Domínguez, William Calero-Cáceres","doi":"10.1016/j.lanmic.2025.101285","DOIUrl":"https://doi.org/10.1016/j.lanmic.2025.101285","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":" ","pages":"101285"},"PeriodicalIF":20.4,"publicationDate":"2025-11-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145477212","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"USA300 North American epidemic meticillin-resistant Staphylococcus aureus in South America: new pathogenicity island.","authors":"Gregory Melocco, Karine Dantas, Herrison Fontana, Caroline L Martini, Elder Sano, Felipe Vasquez-Ponce, Johana Becerra, Bruna Fuga, Fernanda Esposito, Mateus R Ribas, Alessandro C O Silveira, Nilton Lincopan","doi":"10.1016/j.lanmic.2025.101276","DOIUrl":"https://doi.org/10.1016/j.lanmic.2025.101276","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":" ","pages":"101276"},"PeriodicalIF":20.4,"publicationDate":"2025-11-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145453496","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Clostridioides difficile should be considered a bacterial priority pathogen","authors":"Wiep Klaas Smits , Kevin W Garey , Thomas V Riley , Yiping W Han , Vincent B Young , John Heritage , Christian John Lillis , Dena Lyras , Maja Rupnik , Stuart Johnson","doi":"10.1016/j.lanmic.2025.101184","DOIUrl":"10.1016/j.lanmic.2025.101184","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":"6 11","pages":"Article 101184"},"PeriodicalIF":20.4,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144530236","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Import of multidrug-resistant Vibrio cholerae from Ethiopia to Germany and the UK","authors":"Sandra Appelt , Satheesh Nair , Clare R Barker , Claire Jenkins , Jacob Gatz , Anna-Maria Rohleder , Holger C Scholz , Susann Dupke","doi":"10.1016/j.lanmic.2025.101179","DOIUrl":"10.1016/j.lanmic.2025.101179","url":null,"abstract":"","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":"6 11","pages":"Article 101179"},"PeriodicalIF":20.4,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144486554","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Zoonotic infections due to avian Chlamydia abortus: what are we missing?","authors":"Prof Nicole Borel DVM ,&nbsp;David Longbottom PhD ,&nbsp;Prof Gilbert Greub MD, PhD ,&nbsp;Sarah Albini DVM ,&nbsp;Prof Daisy Vanrompay DVM ,&nbsp;Karine Laroucau PhD","doi":"10.1016/j.lanmic.2025.101197","DOIUrl":"10.1016/j.lanmic.2025.101197","url":null,"abstract":"<div><div><em>Chlamydia abortus</em> is an obligate intracellular bacterium primarily affecting ruminants and causing reproductive failures in sheep and goats. As a recognised zoonotic pathogen, <em>C abortus</em> can cause obstetric and respiratory infections in humans, with severe consequences in pregnant women and immunocompromised individuals. Previous studies have identified novel <em>C abortus</em> strains in avian species, closely related to the zoonotic <em>Chlamydia psittaci</em>, with some strains associated with cases of human pneumonia. In this Personal View, we review the evolving taxonomy of <em>C abortus</em> in light of these novel avian strains, propose subspecies distinctions, and describe the different zoonotic risks associated with both avian and ruminant strains. Challenges in diagnostics, host preference, and case detection are discussed, emphasising the need for a One Health approach to fully understand and mitigate these risks. With increasing reports of human <em>C abortus</em> infections, precise strain classification and differentiation between avian and ruminant subspecies, along with targeted surveillance, are essential to limit their zoonotic transmission.</div></div>","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":"6 11","pages":"Article 101197"},"PeriodicalIF":20.4,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144973866","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Estimating the association of antimicrobial resistance genes with minimum inhibitory concentration in Escherichia coli: an observational study","authors":"Samuel Lipworth DPhil ,&nbsp;Kevin Chau DPhil ,&nbsp;Sarah Oakley MSc ,&nbsp;Lucinda Barrett FRCPath ,&nbsp;Prof Derrick Crook FRCP ,&nbsp;Prof Tim Peto FRCP ,&nbsp;Prof A Sarah Walker PhD ,&nbsp;Prof Nicole Stoesser DPhil","doi":"10.1016/j.lanmic.2025.101183","DOIUrl":"10.1016/j.lanmic.2025.101183","url":null,"abstract":"<div><h3>Background</h3><div>Surveillance and prediction of antibiotic resistance in <em>Escherichia coli</em> relies on curated databases of genes and mutations. We aimed to quantify the effect of acquiring specific genetic elements on minimum inhibitory concentrations (MICs) for particular antibiotic–species combinations, addressing the current scarcity of such data in existing databases.</div></div><div><h3>Methods</h3><div>For this observational study, we evaluated a collection of <em>E coli</em> isolates with linked whole-genome sequencing and MIC data, originating from human urinary or bloodstream infections obtained from the Oxford University Hospitals National Health Service Foundation Trust in Oxfordshire, UK. We used multivariable interval regression models to estimate the change in MIC (with 95% CIs) for specific antibiotics associated with the acquisition of antibiotic resistance genes and associated mutations in the National Center for Biotechnology Information AMRFinder database, with and without an adjustment for population structure. We then tested the ability of these models to predict MIC and binary resistance or susceptibility using leave-one-out cross-validation.</div></div><div><h3>Findings</h3><div>We evaluated 2875 <em>E coli</em> isolates obtained during 2013–2018 and 2020. Although most ARGs and resistance mutations (89 [80%] of 111) were associated with an increased MIC, a much smaller number (27 [24%] of 111) was found to be putatively independently resistance-conferring (ie, associated with an MIC above the European Committee on Antimicrobial Susceptibility Testing breakpoint) when acquired in isolation. We found evidence of differential effects of acquired ARGs and resistance mutations between different generations of cephalosporin antibiotics and showed that sub-breakpoint variation in MIC can be linked to genetic mechanisms of resistance. 20 697 (83·3%; range 52·9–97·7 across all antibiotics) of 24 858 MICs were correctly exactly predicted and 23 677 (95·2%; 87·3–97·7) of 24 858 MICs were predicted to within one doubling dilution.</div></div><div><h3>Interpretation</h3><div>Quantitative estimates of the independent effect of the acquisition of ARGs on MIC add to the interpretability and utility of existing databases. Compared with approaches using machine learning models, the use of these estimates yields similar or better performance in the prediction of antibiotic resistance phenotype with more readily interpretable results. The methods outlined here could be readily applied to other antibiotic–pathogen combinations.</div></div><div><h3>Funding</h3><div>The National Institute for Health and Care Research (NIHR) and the Medical Research Council (MRC).</div></div>","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":"6 11","pages":"Article 101183"},"PeriodicalIF":20.4,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145276249","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"A viral clonality evenness score to predict progression to adult T-cell leukaemia in asymptomatic carriers of human T-lymphotropic virus type 1 in Japan: a retrospective longitudinal cohort study","authors":"Snehal Dilip Karpe PhD ,&nbsp;Maria Artesi PhD ,&nbsp;Jérôme Wayet MSc ,&nbsp;Keith Durkin PhD ,&nbsp;Vincent Hahaut PhD ,&nbsp;Prof Kaoru Uchimaru MD ,&nbsp;Junya Makiyama MD ,&nbsp;Prof Masako Iwanaga MD ,&nbsp;Atae Utsunomiya MD ,&nbsp;P Martijn Kolijn PhD ,&nbsp;Prof Anton W Langerak PhD ,&nbsp;Prof Arsène Burny PhD ,&nbsp;Ambroise Marçais MD ,&nbsp;Prof Olivier Hermine MD ,&nbsp;Prof Toshiki Watanabe MD ,&nbsp;Prof Michel Georges PhD ,&nbsp;Anne Van den Broeke PhD","doi":"10.1016/j.lanmic.2025.101198","DOIUrl":"10.1016/j.lanmic.2025.101198","url":null,"abstract":"&lt;div&gt;&lt;h3&gt;Background&lt;/h3&gt;&lt;div&gt;Adult T-cell leukaemia/lymphoma (ATL) is a highly aggressive T-cell malignancy that occurs in approximately 2–7% of individuals with human T-lymphotropic virus type 1 (HTLV-1), after decades of asymptomatic infection. To address the urgent need for predictive biomarkers to identify asymptomatic carriers of HTLV-1 at high risk of progression to ATL, we aimed to evaluate viral clonality sequencing as a potential tool for risk stratification.&lt;/div&gt;&lt;/div&gt;&lt;div&gt;&lt;h3&gt;Methods&lt;/h3&gt;&lt;div&gt;This retrospective longitudinal cohort study involved HTLV-1 carriers enrolled in the Joint Study on Predisposing Factors of ATL Development, a nationwide cohort study initiated in Japan in 2002. Participants were selected from this cohort on the basis of their baseline proviral load at the time of enrolment as an asymptomatic carrier, length of follow-up, and clinical outcome. The cohort was subdivided into three subgroups: the first comprising HTLV-1 carriers who developed ATL, the second comprising carriers with high proviral load (≥4%) who did not progress to ATL, and the third comprising carriers with low proviral load (&lt;4%) who did not progress to ATL. DNA extracted from peripheral blood mononuclear cells collected at enrolment and at least one follow-up visit was analysed by HTLV-1 clonality sequencing and the proviral load was quantified. We calculated a viral clonality evenness (VCE) score, based on the Shannon Evenness Index, to quantify the uniformity of the clonal distribution of samples, for which 0 represents a perfectly monoclonal architecture and 1 indicates a completely polyclonal landscape. We then estimated the performance of proviral load thresholds and VCE scoring to classify the risk of progression to ATL using the area under the receiver operating characteristic curve (AUC), the accuracy, and Matthews correlation coefficient. VCEs were compared between participant subgroups with the Wilcoxon rank sum test.&lt;/div&gt;&lt;/div&gt;&lt;div&gt;&lt;h3&gt;Findings&lt;/h3&gt;&lt;div&gt;56 participants followed up by JSPFAD between Feb 6, 2003, and July 19, 2022, were included in this study: 17 who progressed to ATL (mean follow-up 8·3 years [SD 4·0]), 18 who had a high proviral load and did not progress to ATL (9·7 years [3·4]), and 21 who had a low proviral load and did not progress to ATL (7·5 years [3·0]). Clonality sequencing of samples from 39 participants who did not progress to ATL revealed hundreds to thousands of HTLV-1 integration sites at both timepoints, corresponding to multiple clones of low and uniform abundance, and these participants had high VCE scores (≥0·694) at baseline. By contrast, most participants (14 of 17) who progressed to ATL had a single predominant clone or two to four predominant clones at both timepoints, and lower VCE scores (&lt;0·694) at baseline than those who did not progress (p&lt;0·0001). AUCs were very similar for proviral load thresholds (91 [95% CI 80–98]) and VCE scoring (91 [78–100]), although when using methods that g","PeriodicalId":46633,"journal":{"name":"Lancet Microbe","volume":"6 11","pages":"Article 101198"},"PeriodicalIF":20.4,"publicationDate":"2025-11-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145469153","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}