Journal Description
Antibiotics
Antibiotics
is an international, peer-reviewed, open access journal on all aspects of antibiotics, published monthly online by MDPI. The Croatian Pharmacological Society (CPS) and Northern Greece Society of Medical Biopathology (EIBBE) are affiliated with Antibiotics, and their members receive discounts on the article processing charges.
- Open Access— free for readers, with article processing charges (APC) paid by authors or their institutions.
- High Visibility: indexed within Scopus, SCIE (Web of Science), PubMed, PMC, Embase, CAPlus / SciFinder, and other databases.
- Journal Rank: JCR - Q1 (Infectious Diseases) / CiteScore - Q1 (General Pharmacology, Toxicology and Pharmaceutics )
- Rapid Publication: manuscripts are peer-reviewed and a first decision is provided to authors approximately 16.4 days after submission; acceptance to publication is undertaken in 2.8 days (median values for papers published in this journal in the second half of 2025).
- Recognition of Reviewers: reviewers who provide timely, thorough peer-review reports receive vouchers entitling them to a discount on the APC of their next publication in any MDPI journal, in appreciation of the work done.
Impact Factor:
4.6 (2024);
5-Year Impact Factor:
4.9 (2024)
Latest Articles
Perspectives and Challenges of Healthcare Professionals, Patients, and Caregivers Regarding Utilizing Antibiotics and Implementing Antibiotic Stewardship in Healthcare Facilities in Low- and Middle-Income Countries: A Systematic Review of Qualitative Studies
Antibiotics 2026, 15(5), 468; https://doi.org/10.3390/antibiotics15050468 (registering DOI) - 5 May 2026
Abstract
Background: Antibiotic resistance (ABR) is a critical global health threat, disproportionately affecting low- and middle-income countries (LMICs) where systemic constraints, economic pressures and sociocultural factors drive inappropriate antibiotic use. While quantitative studies describe prevalence patterns, they fail to capture the underlying motivations and
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Background: Antibiotic resistance (ABR) is a critical global health threat, disproportionately affecting low- and middle-income countries (LMICs) where systemic constraints, economic pressures and sociocultural factors drive inappropriate antibiotic use. While quantitative studies describe prevalence patterns, they fail to capture the underlying motivations and contextual barriers influencing prescribing and dispensing behaviors. This systematic review synthesizes qualitative evidence on the perceptions of healthcare professionals, patients, and caregivers regarding antibiotic use and explores the barriers and facilitators for implementing antibiotic stewardship programs in LMIC healthcare settings. Methods: We conducted a systematic review following PRISMA 2020 guidelines, based on a registered protocol in PROSPERO ID: CRD42024583749. Searches were performed in Medline, Embase, Cochrane Library, Web of Science, and Google Scholar for English-language studies published between 2014 and 2024. Qualitative and mixed-method studies examining stakeholder perspectives on antibiotic use and antibiotic stewardship implementation in LMICs were included. Studies were excluded if they focused exclusively on pediatric or neonatal populations, veterinary medicine, or quantitative outcomes without qualitative components. The data were analyzed using thematic analysis to identify and categorize codes and identify themes following methodological quality assessment of included studies using the Critical Appraisal Skills Programme Qualitative Studies Checklist by two independent reviewers. Results: Out of 2214 studies screened, a total of 119 studies from 33 LMICs were included, encompassing over 4000 participants across hospital, primary care, and community settings. Five interlinked themes emerged: (1) antibiotic use as a pragmatic response to diagnostic uncertainty and resource constraints; (2) financial and commercial drivers shaping prescribing and dispensing practices; (3) the disconnect between knowledge, sociocultural norms, and clinical behavior; (4) multi-level structural and professional barriers to antibiotic stewardship implementation; and (5) the critical role of health system vulnerabilities in perpetuating misuse. Conclusions: Inappropriate antibiotic use in LMICs reflects rational adaptations to systemic limitations rather than isolated knowledge gaps. Effective ABS strategies must address structural deficiencies, economic incentives, and sociocultural norms, while integrating context-specific interventions that strengthen health systems and engage all levels of care. The findings should, however, be evaluated in light of the geographic unevenness of the evidence base, the exclusion of non-English and gray literature, and lack of certainty assessments for synthesized themes.
Full article
(This article belongs to the Section Antibiotic Therapy in Infectious Diseases)
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Open AccessReview
Non-Tuberculous Mycobacteria at the Human–Animal–Environment Interface: Antimicrobial Resistance, Environmental Persistence and Cross-Species Exposure Risks
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Irena Reil, Silvio Špičić, Sanja Duvnjak, Maja Zdelar-Tuk, Šimun Naletilić, Gordan Kompes and Maja Dopuđ
Antibiotics 2026, 15(5), 467; https://doi.org/10.3390/antibiotics15050467 - 5 May 2026
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Background/Objectives: Non-tuberculous mycobacteria (NTM) are increasingly recognized as important opportunistic pathogens at the human–animal–environment interface. Their growing relevance is driven by increasing disease burden, environmental persistence, occurrence in multiple animal hosts and complex antimicrobial resistance (AMR) patterns. Unlike classical zoonotic pathogens, most NTM
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Background/Objectives: Non-tuberculous mycobacteria (NTM) are increasingly recognized as important opportunistic pathogens at the human–animal–environment interface. Their growing relevance is driven by increasing disease burden, environmental persistence, occurrence in multiple animal hosts and complex antimicrobial resistance (AMR) patterns. Unlike classical zoonotic pathogens, most NTM are primarily acquired from shared environmental reservoirs rather than through sustained host-to-host transmission. This review examines NTM from a One Health perspective, focusing on AMR, ecology, animal occurrence, cross-species exposure and public health relevance. Methods: A narrative review of the current literature was conducted to synthesize evidence on the ecology, environmental reservoirs, occurrence in animals, transmission patterns and AMR mechanisms of NTM. Particular attention was given to studies addressing the human–animal–environment interface and the implications of NTM for One Health surveillance and risk assessment. Results: The reviewed literature shows that NTM are widely distributed in water, soil, sediments and biofilms, creating repeated opportunities for exposure in both animals and humans. They have been reported in livestock, wildlife, companion animals, reptiles and aquatic organisms, where they may act as colonizers, opportunistic pathogens, or sources of diagnostic interference. Evidence for direct animal-to-human transmission remains limited, but animal and environmental findings are important for understanding ecological overlap, host range and circulation of resistant strains. AMR in NTM is shaped by intrinsic resistance, acquired mutations, efflux activity, and biofilm-associated tolerance, which together complicate treatment and resistance prediction. Conclusions: NTM should be considered environmentally maintained, multi-host organisms of increasing One Health importance rather than conventional zoonotic pathogens. Improved interdisciplinary surveillance, diagnostics and research are needed to clarify exposure pathways, resistance development and public health risk.
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Open AccessArticle
Clinical Experience of Ceftaroline Fosamil in Gram-Positive Infective Endocarditis: A Multicenter Real-World Observational Study
by
Daniel Arnés-García, Jorge Calderón-Parra, Marina Calvo-Salvador, Carmen Herrero-Rodríguez, Svetlana Sadyrbaeva-Dolgova and Carmen Hidalgo-Tenorio
Antibiotics 2026, 15(5), 466; https://doi.org/10.3390/antibiotics15050466 - 5 May 2026
Abstract
Background/Objectives: Ceftaroline fosamil (CFT) is a fifth-generation cephalosporin approved in Spain for skin and soft tissue infections and community-acquired pneumonia. CFT may also be useful against endovascular infections. This real-world study aimed to evaluate its effectiveness and safety in patients with Gram-positive (GP)
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Background/Objectives: Ceftaroline fosamil (CFT) is a fifth-generation cephalosporin approved in Spain for skin and soft tissue infections and community-acquired pneumonia. CFT may also be useful against endovascular infections. This real-world study aimed to evaluate its effectiveness and safety in patients with Gram-positive (GP) infective endocarditis (IE). Methods: This observational, retrospective multicenter study enrolled adults with GP-IE treated with CFT for ≥48 h. Recruitment extended from CFT incorporation in participating hospitals through May 2024. Data were gathered on demographic, clinical, and microbiological variables, adverse effects, overall and IE-related mortality, relapses, and a composite unfavorable outcome. Results: Seventy-six patients (65.8% male) were enrolled, with a mean age of 68.9 ± 12.8 years and an age-adjusted Charlson index of 4; 55.3% had previous moderate/severe valvular heart disease, 35.5% had atrial fibrillation, 34.2% chronic heart failure, 17.1% chronic kidney disease, and 22.4% septic shock. IE was native valve-related in 53.9%, involving the aortic valve in 38.2% and the mitral in 30.3%. Staphylococcus aureus was isolated in 48.7%, being methicillin-resistant in 40.5% of cases. CFT was salvage therapy in 65.8% and combined with other antibiotics in 94.7%. Valve replacement was indicated in 64.5% but performed in only 67.3% of these. At six months, the adverse effect rate was 9.2%, overall crude mortality 38.2%, infection-related mortality 28.9%, and composite unfavorable outcome 40.1%. In multivariate analysis, mortality-related factors were age-adjusted Charlson index, septic shock, and methicillin-sensitive S. aureus. Conclusions: CFT showed favorable outcomes and acceptable safety in the real-life treatment of GP-related IE in clinically complex patients with high comorbidity and previous antibiotic therapy failures.
Full article
(This article belongs to the Section Novel Antimicrobial Agents)
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Open AccessReview
Managing Pneumonia Due to Rare Non-Fermenting Gram-Negative Bacteria: Epidemiology, Risk Factors and Therapeutic Strategies
by
Alessandro Capone, Francesca Gavaruzzi, Valentina Antonelli, Claudia Rotondo, Samir Al Moghazi, Emanuela Caraffa, Pierangelo Chinello, Carla Fontana and Stefania Cicalini
Antibiotics 2026, 15(5), 465; https://doi.org/10.3390/antibiotics15050465 - 4 May 2026
Abstract
Pneumonia remains a leading cause of morbidity and mortality worldwide, with bacterial pathogens contributing significantly to its burden. While Pseudomonas aeruginosa and Acinetobacter baumannii complex are well-recognized non-fermenting Gram-negative bacteria (NFGNB) causing severe pneumonia, particularly in healthcare settings, an expanding array of other,
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Pneumonia remains a leading cause of morbidity and mortality worldwide, with bacterial pathogens contributing significantly to its burden. While Pseudomonas aeruginosa and Acinetobacter baumannii complex are well-recognized non-fermenting Gram-negative bacteria (NFGNB) causing severe pneumonia, particularly in healthcare settings, an expanding array of other, rarer NFGNB species is increasingly implicated. These species include, but are not limited to, Achromobacter spp., Ochrobactrum spp., Burkholderia spp., Aeromonas spp., Roseomonas spp., Elizabethkingia spp., Chryseobacterium spp. Alcaligenes spp., Ralstonia spp., Cupriavidus spp., Sphingomonas spp., Rhizobium spp., Empedobacter spp., and Brevundimonas spp. In this article we aim to provide a focused review of the contemporary epidemiology and specific risk factors for pneumonia caused by this diverse group of rare NFGNB, explicitly excluding P. aeruginosa, Stenotrophomonas maltophilia, and A. baumannii. We seek to delineate the emerging patterns of pneumonia associated with Achromobacter spp., Burkholderia spp., Aeromonas spp., Roseomonas spp., Elizabethkingia spp., Pandoraea spp., Sphingomonas spp., and K. gyiorum. Moreover, we discuss antimicrobial treatment strategies for pneumonia caused by rarer NFGNB including Ochrobactrum spp., Chryseobacterium spp., Alcaligenes spp., Ralstonia spp., Cupriavidus spp., Rhizobium spp., Empedobacter spp., and Brevundimonas spp. A deeper understanding of these specific epidemiological trends and risk factors is important for guiding precise diagnostic approaches, informing antimicrobial stewardship programs, and developing targeted infection prevention and control strategies with the aim of mitigating the impact of these challenging pathogens in the clinical setting.
Full article
(This article belongs to the Section Antibiotic Therapy in Infectious Diseases)
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Open AccessArticle
High-Resolution Genomic Surveillance of Carbapenem-Resistant Acinetobacter baumannii: IC-2 Clonal Diversity, Resistance Determinants, and Virulence Signatures
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Arianna Basile, Valentina Antonelli, Claudia Rotondo, Michele Properzi, Francesco Messina, Silvia D’Arezzo, Valentina Dimartino, Ivano Petriccione, Laura Loiacono, Maria Grazia Bocci, Giulia Capecchi, Alessia Arcangeli, Alessandra Marani, Filippo Pasquale Riggio, Massimiliano Lucidi, Francesco Imperi, Paolo Visca and Carla Fontana
Antibiotics 2026, 15(5), 464; https://doi.org/10.3390/antibiotics15050464 - 4 May 2026
Abstract
Background/Objectives: Acinetobacter baumannii is a critical opportunistic pathogen causing severe healthcare-associated infections, particularly in intensive care units. The global dissemination of carbapenem-resistant A. baumannii (CRAB) and its environmental persistence necessitate continuous genomic surveillance to monitor high-risk clones. Methods: We conducted whole-genome sequencing
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Background/Objectives: Acinetobacter baumannii is a critical opportunistic pathogen causing severe healthcare-associated infections, particularly in intensive care units. The global dissemination of carbapenem-resistant A. baumannii (CRAB) and its environmental persistence necessitate continuous genomic surveillance to monitor high-risk clones. Methods: We conducted whole-genome sequencing (WGS), core genome multi-locus sequence typing (cgMLST), and phylogenomic analyses on 26 CRAB isolates collected at the National Institute for Infectious Diseases (INMI) “Lazzaro Spallanzani” IRCCS (September 2023–September 2024). Antimicrobial resistance determinants, virulence-related genes, and capsular (KL) and lipooligosaccharide outer core (OCL) loci were characterized by interrogation of comprehensive bioinformatic pipelines. Results: All CRAB isolates displayed an extensively drug-resistant (XDR) phenotype, with a shared resistance pattern to carbapenems, aminoglycosides, fluoroquinolones, fosfomycin, and sulfonamides, while being susceptible only to colistin and cefiderocol. The carbapenemase gene blaOXA-23 was detected in all CRAB isolates, together with clone-specific blaOXA-51-like variants. For all isolates, the resistome profile fully matched the observed resistance phenotype. All isolates belonged to the International Clonal Lineage II (ICL II), Pasteur Sequence Type (ST) 2, and Oxford ST369, ST208, and ST455. Integration of cgMLST data with phylogenomic analyses and genome-based classification of KL and OCL loci revealed five distinct clusters, each one including nearly identical isolates, indicating both intra-hospital dissemination and possible inter-hospital transmission. Virulome profiling revealed heterogeneous repertoires of virulence-associated genes, resulting in cluster-specific patterns, while patristic analysis identified phylogenetic clusters linking the study isolates to other Italian and other European lineages. Conclusions: This study underscores the complex genomic landscape of CRAB in our setting, driven by the circulation of different ICL II clonal types, and reinforces the urgency of integrated genomic surveillance and robust antimicrobial stewardship to mitigate the spread of high-risk XDR A. baumannii clones.
Full article
(This article belongs to the Special Issue Antibiotic Resistance Genes: Mechanisms, Evolution and Dissemination)
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Open AccessSystematic Review
Prevalence and Global Distribution of Bacterial Species Associated with Acute Otitis Media in Children: Systematic Review and Meta-Analysis
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Hye Ok Kim, Suhyeon Ha, Seung Hyung Lee, Yeon Ju Oh, Jae Min Lee, Youn-Jung Kim, Manish Kumar Singh, Sung Soo Kim, Jin Woo Choi and Seung Geun Yeo
Antibiotics 2026, 15(5), 463; https://doi.org/10.3390/antibiotics15050463 - 3 May 2026
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Background/Objectives: Acute otitis media (AOM) remains a leading cause of pediatric morbidity and a primary indication for antibiotic prescription worldwide. Given the potential for serious complications and the evolving landscape of antimicrobial resistance, up-to-date epidemiological data on causative bacteria are essential. This study
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Background/Objectives: Acute otitis media (AOM) remains a leading cause of pediatric morbidity and a primary indication for antibiotic prescription worldwide. Given the potential for serious complications and the evolving landscape of antimicrobial resistance, up-to-date epidemiological data on causative bacteria are essential. This study aimed to assess the global prevalence of major bacterial pathogens in pediatric AOM and evaluate variations across geographic regions and temporal periods (pre-2000 vs. post-2000). Methods: A systematic search of PubMed, Embase, and Web of Science (1980–2025) was conducted to identify studies reporting middle ear fluid culture results in children (0–18 years) with AOM. Following the Preferred Reporting Items for Systematic Reviews and Meta-Analyses (PRISMA) guidelines, 45 studies encompassing 16,305 AOM episodes were included. Data were synthesized from North America, Europe, the Middle East, Asia, Oceania, and Africa. Pooled prevalence estimates and 95% confidence intervals (CIs) were calculated using a random-effects model, and heterogeneity was assessed via the I2 statistic. Results: The overall pooled culture-positive rate was 66.6% (95% CI, 62.2–70.8%). Regional pooled estimates ranged from 56.1% in the Middle East (95% CI, 40.3–70.6%; underlying counts, 3776/10,652) to 77.5% in North America (95% CI, 68.2–84.7%; underlying counts, 1567/2125). Streptococcus pneumoniae was the most prevalent pathogen, with a pooled proportion of 29.0% (95% CI, 26.3–31.8%), followed by Haemophilus influenzae (22.3%; 95% CI, 19.3–25.6%) and Moraxella catarrhalis (4.6%; 95% CI, 3.4–6.1%). While S. pneumoniae remained the leading pathogen in most regions, H. influenzae showed marked geographic variability, peaking in the Middle East at 27.5% (95% CI, 17.0–41.2%; underlying counts, 2280/10,652) and reaching its lowest level in Asia at 13.5% (95% CI, 7.8–22.4%; underlying counts, 336/1854). The pooled culture-positive rate declined from 72.5% before 2000 (95% CI, 67.6–76.9%; underlying counts, 5769/8199) to 59.4% in 2000 and later (95% CI, 52.1–66.3%; underlying counts, 6661/15,707), although S. pneumoniae remained the predominant isolate in both periods. Conclusions: S. pneumoniae remains the primary bacterial driver of pediatric AOM globally. However, the observed geographic disparities and the temporal shift in pathogen prevalence following pneumococcal conjugate vaccine (PCV) introduction underscore the necessity for region-specific empirical antibiotic selection. These findings highlight the critical need for sustained microbiological surveillance to inform future vaccination and treatment strategies.
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Open AccessReview
Research on Silver-Based Wound Dressing: An Ontological Analysis
by
Prabir K. Dutta, Thant Syn and Arkalgud Ramaprasad
Antibiotics 2026, 15(5), 462; https://doi.org/10.3390/antibiotics15050462 - 2 May 2026
Abstract
Background/Objectives: Silver’s ability to kill pathogenic bacteria is being widely researched in environment, consumer, and health-related applications. One topic of voluminous research is the antimicrobial properties of silver and silver in wound dressings. This research literature has been reviewed in articles using qualitative
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Background/Objectives: Silver’s ability to kill pathogenic bacteria is being widely researched in environment, consumer, and health-related applications. One topic of voluminous research is the antimicrobial properties of silver and silver in wound dressings. This research literature has been reviewed in articles using qualitative analyses, meta-analyses, systematic reviews, bibliometric analyses, and other grounded methods. We present a new strategy for the analysis of the population of articles on the subject based on an ontology of this topic. Methods: A search of the Scopus database for all peer-reviewed articles on silver in wound dressings yielded a population of 4711 relevant ones. The ontology is a logical deconstruction of the problem: “use of silver species on nanosupports deposited on a matrix with antimicrobial effectiveness assayed by methods to promote wound healing of chronic wounds as determined by recovery”. Each bolded term denotes a dimension of the ontology, and each dimension denotes a taxonomy of constituent elements. A Convolutional Neural Network (CNN) was trained using a manually mapped subset of articles. The CNN was then used to map the population of articles. Results: Out of the 4711 articles, 3079 dealt with silver and wound dressings; the others involved silver, but were not related to wound dressings and were not considered. Overall analysis shows that three classes of silver encompass the entire field: silver nanoparticles (AgNP) (78% of papers), inorganic silver-ion-containing species (7%) and silver associated with organic molecules (15%). AgNP papers have grown exponentially beginning in the early 2000s; there is no clear trend regarding inorganic silver-containing-species papers; whereas with the silver-organics species papers, there has been growth in the past decades, but now the number of publications is stabilizing. Research on the AgNPs has primarily focused on in vitro testing (54%), with very limited animal testing (17%) and human testing (3%). On the other hand, with silver-organics, animal (30%) and human testing (38%) are prominent. Inorganic silver ion species also have been human-tested extensively (43%). Thus, in clinical applications of silver wound dressings, AgNP lags considerably as compared to the other silver species, though academic research in AgNP is robust. Conclusions: From detailed temporal visualizations of the ontological mapping, the antecedents and consequences of silver in wound dressings are presented. This first ontological analysis is a novel way of visualizing an entire research field and the temporal characteristics of the various dimensions of the ontology provide information on the current state of research as well as where the field is headed.
Full article
(This article belongs to the Special Issue Metal-Based Antibiotics and Therapeutics)
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Open AccessArticle
Prevalence of Antimicrobial-Resistant Bacterial Pathogens Among Livestock in Subtropical Environments
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Benazir Kanwal, Ehtisham Asif, Nazeer H. Kalhoro, Urooj Zafar, Hassan Adil and Aqeel Ahmad
Antibiotics 2026, 15(5), 461; https://doi.org/10.3390/antibiotics15050461 - 2 May 2026
Abstract
Background/Objectives: The prevalence of resistant pathogens in livestock and the environment threatens human health. Frequently used antibiotics in livestock gradually increase the resistance pattern, which intimately threatens the livestock industry. Methods: About 536 pathological samples were collected from January 2023 to
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Background/Objectives: The prevalence of resistant pathogens in livestock and the environment threatens human health. Frequently used antibiotics in livestock gradually increase the resistance pattern, which intimately threatens the livestock industry. Methods: About 536 pathological samples were collected from January 2023 to December 2024 from chicken (472), birds (2), goat (25), sheep (12), and cows (21) and buffaloes (4), across the Sindh, Pakistan. A wide variety and number of bacterial pathogens were isolated and identified. After performing their antibiogram study, phylogenetic analysis was also performed. Results: The prevalence of different bacterial infections was studied in livestock. Salmonella spp. was found to be the most common cause of bacterial infection in livestock (77.79%), followed by Escherichia coli (62.69%) and Staphylococcus aureus (8.02%). The highest number of Salmonella spp. and S. aureus isolates were found to be resistant to ampicillin (80.67% and 81.4%, respectively), while E. coli isolates were found to be resistant to amoxicillin (97.87%) majorly. MARI revealed that 79.7% of Salmonella spp., including all MDR strains (n = 332); 55.59% of E. coli (n = 336), and 88.37% of S. aureus (n = 43) had indexes greater than 0.2. 16S bacterial identification and phylogenic analysis were performed through molecular methods. Conclusions: AMR is one of the most considerable livestock health issues that also affect human health. The MARI indicate a high rate of antibiotic use and resistance in the isolated Salmonella, E. coli, and S. aureus require the urgent need for continuous antimicrobial susceptibility surveillance and control of antibiotic use in livestock.
Full article
Open AccessArticle
Antibiotics for Prophylaxis of Infective Endocarditis in Pediatric Patients: Knowledge and Prescribing Practices Between Italian Dentists
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Martina Barone, Giovanni Bruno, Christian Bacci, Michele Basilicata, Patrizio Bollero, Raffaella Docimo, Antonio Gracco, Alberto De Stefani and Filippo Cavallari
Antibiotics 2026, 15(5), 460; https://doi.org/10.3390/antibiotics15050460 - 1 May 2026
Abstract
Background: In pediatric dental care, antibiotics are routinely prescribed for both therapeutic and preventive purposes. Their use is primarily indicated for the management of widespread dental or oral infections, in conjunction with appropriate clinical treatment. Additionally, antibiotics are administered to prevent infective endocarditis
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Background: In pediatric dental care, antibiotics are routinely prescribed for both therapeutic and preventive purposes. Their use is primarily indicated for the management of widespread dental or oral infections, in conjunction with appropriate clinical treatment. Additionally, antibiotics are administered to prevent infective endocarditis (IE) in patients identified as being at increased risk. The present study aimed to evaluate the knowledge and prescribing practices of Italian dentists regarding antibiotic use in pediatric patients through an anonymous online questionnaire. Methods: A specifically designed questionnaire was electronically distributed to a group of Italian dentists. The questionnaire included three sections: demographic data, general knowledge on antibiotic prescribing, and IE prophylaxis in pediatric dentistry. Data were analyzed using appropriate statistical methods. Results: The study included 242 Italian dentists. Only a limited number of statistically significant differences were observed between specialists in pediatric dentistry and general dentists or those with other specializations, as well as between practitioners who mainly treat pediatric patients and those who predominantly treat adults. Regarding antibiotic prophylaxis for IE, most respondents identified amoxicillin as the first-line antibiotic for pediatric patients without penicillin allergy, whereas nearly 30% indicated clindamycin for patients with penicillin allergy. The knowledge about the dosage of assumption of the antibiotic of choice and the timing of administration of the antibiotic prophylaxis were considered as not sufficient. Conclusions: Important gaps remain in dentists’ knowledge of current guidelines for IE prophylaxis, particularly regarding drug dosage and administration. Increased awareness of updated recommendations and potential adverse effects of alternative antibiotics, such as clindamycin, is needed.
Full article
(This article belongs to the Special Issue Antibiotic Prescribing in Primary Dental Care—2nd Edition)
Open AccessArticle
Rule-Based Ion Prediction with Orthogonal Constraints Reveals Bacterial Phospholipid Remodeling Signatures
by
Wanying Hu, Wenhan Li, Meirong Song, Jianfei Zhu and Kui Zhu
Antibiotics 2026, 15(5), 459; https://doi.org/10.3390/antibiotics15050459 - 30 Apr 2026
Abstract
Background: Phospholipids are essential components of bacterial membranes and play central roles in membrane integrity and adaptation to antibiotic stress. However, confident annotation of phospholipid molecular species remains challenging due to the complexity of the lipidome and the limited structural constraints in conventional
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Background: Phospholipids are essential components of bacterial membranes and play central roles in membrane integrity and adaptation to antibiotic stress. However, confident annotation of phospholipid molecular species remains challenging due to the complexity of the lipidome and the limited structural constraints in conventional lipidomics workflows. Methods: Here, we present a bacterial phospholipidomic framework that integrates orthogonal structural evidence to achieve high-confidence and traceable annotation. Thin-layer chromatography (TLC) provides phospholipid headgroup assignment, gas chromatography–mass spectrometry (GC–MS) defines the acyl-chain pool, and Paternò–Büchi derivatization enables C=C localization, collectively restricting the structural search space prior to liquid chromatography–tandem mass spectrometry (LC–MS/MS) analysis. A rule-based ion prediction library further standardizes diagnostic ion assignment and reduces annotation ambiguity. Results: Applying this platform, we found Escherichia coli in the stationary phase remodeled the membrane phospholipids, with cardiolipin (CL) increasing from ~5% to ~10% and cyclopropane-containing phospholipid species rising to ~75%. Similar remodeling patterns are observed under diverse antibiotic exposures at sub-inhibitory concentrations, consistent with convergence toward a tolerance-associated membrane state. Extension of the framework to Enterococcus faecium supports proof-of-concept application in an additional Gram-positive model, with vancomycin-resistant strains exhibiting pronounced phosphatidylglycerol (PG) enrichment and reduced CL. Conclusions: Our work provides a scalable and reproducible strategy for bacterial phospholipid annotation, enabling molecular-species-resolved investigation of membrane adaptation and offering a framework for future exploration of lipid homeostasis pathways as potential antimicrobial targets.
Full article
(This article belongs to the Section Genetic and Biochemical Studies of Antibiotic Activity and Resistance)
Open AccessSystematic Review
The Effectiveness of Small Group Education on Improving Antibiotic Prescribing in General Practice: A Mixed Methods Systematic Review
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Kevin F. Roche, Anthony Maher, Eimear C. Morrissey, Rosie Dunne, Andrew W. Murphy, Babatunde Ayeni and Gerard J. Molloy
Antibiotics 2026, 15(5), 458; https://doi.org/10.3390/antibiotics15050458 - 30 Apr 2026
Abstract
Background/Objectives: Reducing inappropriate use of antimicrobial agents in healthcare settings is a critical strategy to mitigate the growing threat of antimicrobial resistance. Globally, the highest consumption of antimicrobials in human healthcare originates from antibiotic prescriptions made in General Practice settings. Small group
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Background/Objectives: Reducing inappropriate use of antimicrobial agents in healthcare settings is a critical strategy to mitigate the growing threat of antimicrobial resistance. Globally, the highest consumption of antimicrobials in human healthcare originates from antibiotic prescriptions made in General Practice settings. Small group learning has long held a key role in General Practice education, characterized by active participation, common learning goals, and opportunities for reflection. This mode of delivery has been explored as a potential approach to increase appropriate antibiotic prescribing, supported by research indicating that more didactic educational interventions are unlikely to effectively improve physician prescribing behaviours. This systematic review specifically sought to synthesise the evidence on the effectiveness of small group-based, interventions in improving appropriate antibiotic prescribing behaviours in general practice. Methods: A mixed methods systematic review was employed. Studies were eligible if they reported on in-person, small group-based educational interventions to improve antibiotic prescribing among GPs. Full-text screening resulted in 19 eligible studies. Key characteristics, such as study design, intervention content, and outcomes, were extracted. Results: The 19 included studies used single and multi-modal interventions, with 68% focusing on respiratory tract infections. Common topics were patient communication (n = 11) and adherence to prescribing guidelines (n = 8). Most (n = 11) reported positive outcomes like reduced prescribing and were acceptable to GPs. Conclusions: These types of interventions can be effective in increasing the appropriate use of antibiotics in General Practice and are well received by GP participants. However, further research is required on the optimal content delivered in interventions and their associated long-term impact.
Full article
(This article belongs to the Special Issue Managing Appropriate Antibiotic Prescribing and Use in Primary Care)
Open AccessArticle
Evaluating the Practical Impact of Fast Microbiology on the Treatment of Bloodstream Infections: Real-World Evidence from a High-Complexity Infectious Disease Center
by
Maria Grazia Bocci, Stefania Cicalini, Giulia Capecchi, Sara Leone, Emanuela Caraffa, Giulia Valeria Stazi, Barbara Massa, Silvia D’Arezzo, Marina Selleri and Carla Fontana
Antibiotics 2026, 15(5), 457; https://doi.org/10.3390/antibiotics15050457 - 30 Apr 2026
Abstract
Background/Objectives: Bloodstream infections (BSIs) are a major cause of morbidity and mortality, particularly when delays in pathogen identification hinder timely and targeted antimicrobial therapy. Rapid diagnostic tests (RDTs) accelerate microbiological identification, yet their clinical impact remains heterogeneous across different healthcare settings. This study
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Background/Objectives: Bloodstream infections (BSIs) are a major cause of morbidity and mortality, particularly when delays in pathogen identification hinder timely and targeted antimicrobial therapy. Rapid diagnostic tests (RDTs) accelerate microbiological identification, yet their clinical impact remains heterogeneous across different healthcare settings. This study aimed to evaluate the real-world effect of implementing FAST microbiology, a diagnostic workflow that integrates RDTs into conventional blood culture processing, on diagnostic timeliness, antimicrobial decision-making, and patient management in a hospital specializing in complex infectious diseases. Methods: We conducted a quasi-experimental study comparing non-FAST and FAST workflows over a 24-month period, including 166 adult patients with sepsis admitted to ICU and non-ICU units, accounting for 231 BSIs. Microbiological outcomes, treatment dynamics, time to targeted therapy, and key clinical endpoints were compared between non-FAST and FAST groups. Results: FAST microbiology significantly reduced the time to initiation of targeted therapy across clinical settings. No statistically significant differences were observed in hospital length of stay, overall mortality, or 28-day mortality between the two groups. Baseline clinical severity, age, and comorbidity burden remained the main determinants of clinical outcomes. Conclusions: These real-world findings support the integration of rapid diagnostics into existing antimicrobial stewardship frameworks by improving diagnostic timeliness and supporting earlier microbiologically guided therapeutic decisions. However, the results also highlight that accelerating diagnostics alone may not be sufficient to improve survival in critically ill patients with complex infectious diseases, where outcomes are predominantly driven by patient- and disease-related factors.
Full article
(This article belongs to the Special Issue Antibiotic Susceptibility Testing and Rapid Diagnostics of Antimicrobial Resistance)
Open AccessSystematic Review
Mobile Genetic Elements Associated with Antimicrobial Resistance Across One Health Interfaces in Africa: A Systematic Review and Meta-Analysis
by
Kedir A. Hassen, Jose Fafetine, Laurinda Augusto, Inacio Mandomando, Marcelino Garrine, Rogerio Marcos and Gudeta W. Sileshi
Antibiotics 2026, 15(5), 456; https://doi.org/10.3390/antibiotics15050456 - 30 Apr 2026
Abstract
Background: High infectious disease burden and uncontrolled antibiotic usage across human, animal, and environmental contaminants make antimicrobial resistance (AMR) a growing public health problem in Africa. Mobile genetic elements (MGEs) such plasmids, transposons, integrons, conjugative elements, and phages help spread AMR via horizontal
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Background: High infectious disease burden and uncontrolled antibiotic usage across human, animal, and environmental contaminants make antimicrobial resistance (AMR) a growing public health problem in Africa. Mobile genetic elements (MGEs) such plasmids, transposons, integrons, conjugative elements, and phages help spread AMR via horizontal gene transfer (HGT) across human, animal, food, and environmental sources. Despite growing evidence for antibiotic resistance genes (ARGs), Africa lacks a one-health-focused synthesis of mobile genetic element-mediated AMR. Objective: This systematic review and meta-analysis aimed to consolidate information on MGEs and ARGs in AMR dissemination throughout Africa’s one health interface. Methods: The literature was searched using PubMed, Scopus, and ScienceDirect. Observational. molecular epidemiology, whole genome sequencing (WGS), and metagenomic investigations of MGE-associated AMR in Africa were eligible. The study selection, data extraction, and quality assessment were performed by two independent reviewer and quality was graded using ROBVIS 2 utilizing Rayyan software. Narrative synthesis, random-effect meta-analysis, subgroup analysis, and meta-regression were utilized. Results: A total of 109 studies were included, with 91 studies contributing to the meta-analysis. MGEs reported were plasmids (71.7%) and integrons (54.8%). ARGs carried by MGEs were blaCTMX-M-15 (78.6%), Sul2 (69.6%), blaTEM (59.1%), and tetA (49.9%). Horizontal gene transfer was seen in 259 instances; however, transmission was unclear. In 442 observations, transmission pathways across human, animal, and environmental interfaces showed AMR prevalence of 75.1% in human, 98.0% in human–animal, and 61.3% in one health interface. Whole-genome sequencing was the most frequently used method for detecting MGEsThe pooled pathogen and AMR prevalence rates were 73.3% (95% CI: 60.5–83.7%) and 94% (95% CI: 85–98%), with significant heterogeneity (I2 = 97.8% and 97.4%, respectively). The prevalence of Escherichia coli was 93% and Salmonella enterica 85% in subgroup analysis. Fluoroquinolones, aminoglycosides, and beta-lactams were prevalent in humans (89.7%) and human–animal interactions (98.0%) according to AMR Class. Conclusions: Horizontal gene transfer has propagated MGE-mediated antimicrobial resistance across human, animal, and environmental interfaces in Africa. To combat AMR in Africa, coordinated, genomics-informed One Health surveillance and antibiotic stewardship are needed. Due to variability and publication bias, these data should be considered cautiously. Pooled data may only show descriptive patterns, and not necessarily precise continent-wide prevalence estimates.
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(This article belongs to the Special Issue Antibiotic Resistance Genes: Mechanisms, Evolution and Dissemination)
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Widespread Multidrug Resistance and Virulence Determinants in Escherichia coli Across the Interconnected Farm-to-Food Continuum
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David Yembilla Yamik, Wattana Pelyuntha, Wichanan Wannasrichan, Nattha Vigad, Kridda Chukiatsiri, Viphavanh Chanthavong, Mingkwan Yingkajorn and Kitiya Vongkamjan
Antibiotics 2026, 15(5), 455; https://doi.org/10.3390/antibiotics15050455 - 30 Apr 2026
Abstract
Background/Objectives: Globally, the management of infections has been complicated greatly by the rapid emergence of antibiotic resistance among bacterial pathogens, particularly Escherichia coli (E. coli). This bacterium is commonly found in a wide range of vertebrate hosts, including livestock, which can
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Background/Objectives: Globally, the management of infections has been complicated greatly by the rapid emergence of antibiotic resistance among bacterial pathogens, particularly Escherichia coli (E. coli). This bacterium is commonly found in a wide range of vertebrate hosts, including livestock, which can serve as important sources of specific pathogenic or multidrug-resistant strains. Cross-contamination can occur from farm to food, posing public health concerns. Methods: This cross-sectional study examined the antibiotic resistance and virulence gene profiles of E. coli isolated from farm animals, food processing facilities (including meat and contact surfaces), and the surrounding environment (wastewater). Results: Out of 383 samples, 230 samples (60.1%) were positive for E. coli (95% CI: 55.1–64.9). The prevalence rates showed significant variation across different sources, with positive rates of 72.3% (180/249) in animal sources, 33.7% (28/83) in food sources, and 43.1% (22/51) in environmental sources. Over 80% of the isolates across all sources carried the sheA virulence gene, which is associated with hemolytic activity in E. coli. Multidrug resistance (MDR) was commonly observed, with rates of 61.1% in animal samples, 57.1% in food sources, and 50.0% in environmental samples. The E. coli isolates exhibited high levels of antibiotic resistance, particularly to streptomycin (64.9%), ampicillin (58.0%), and tetracycline (57.6%). The most common resistance gene pattern was tetA-strA-blaTEM (22.6%). Conclusions: These findings indicate widespread occurrence of antibiotic-resistant and virulence gene-carrying E. coli strains across the farm-to-food continuum, underscoring the urgent need for enhanced antimicrobial stewardship and surveillance programs to mitigate transmission from food-producing animals and reduce public health complications.
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Resistome and Mobilome Profiling of Raw Cow and Buffalo Milk from the Brazilian Amazon via Shotgun Metagenomics
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Paulo Alex Machado Carneiro, Lenita Ramires dos Santos, Rodrigo Jardim, Christian Barnadd Danniell Gomes e Silva, Flábio Ribeiro de Araújo and Alberto Martín Rivera Dávila
Antibiotics 2026, 15(5), 454; https://doi.org/10.3390/antibiotics15050454 - 30 Apr 2026
Abstract
Background/Objectives: Antimicrobial resistance (AMR) is a global health threat, with raw milk serving as a potential reservoir for antimicrobial resistance genes (ARGs) and mobile genetic elements (MGEs). This study characterized the resistome and mobilome of raw milk from cows (Bos taurus)
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Background/Objectives: Antimicrobial resistance (AMR) is a global health threat, with raw milk serving as a potential reservoir for antimicrobial resistance genes (ARGs) and mobile genetic elements (MGEs). This study characterized the resistome and mobilome of raw milk from cows (Bos taurus) and water buffalo (Bubalus bubalis) in the Brazilian Amazon, a region where unpasteurized dairy consumption is culturally ingrained. Methods: Using shotgun metagenomic sequencing, we analyzed 32 pooled milk samples from extensive and semi-intensive farms in the Manaus Metropolitan Region. Results: Sequencing yielded over 3.1 million contigs. While cow milk showed a higher prevalence of positive samples (80%), buffalo milk exhibited a significantly higher abundance and diversity of ARG-associated contigs (301 contigs vs. 85 in cows). Clinically relevant genes were identified, including AbaQ, ArnT, and KpnF, alongside complex multi-AMR cassettes co-occurring with plasmids and widespread viral sequences (dominated by Caudoviricetes). Integrons were ubiquitous in cattle and highly prevalent in buffalo samples. Conclusions: These findings indicate that raw milk in the Amazon harbors a rich reservoir of resistance determinants and MGEs, likely driven by farm-level antibiotic usage. This underscores a critical food safety risk and highlights the need for One Health-based surveillance in the region.
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(This article belongs to the Special Issue Antimicrobial Resistance and Infections in Animals)
Open AccessArticle
Toxinotyping, Antibiotic Resistance Profile, and In Vitro Bio-Control of Clostridium perfringens Type G Isolated from Chickens with Necrotic Enteritis by Lytic Bacteriophages
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Hoang Minh Duc, Nguyen Thi Lan, Tran Thi Khanh Hoa, Cam Thi Thu Ha, Le Van Hung, Nguyen Van Thang and Hoang Minh Son
Antibiotics 2026, 15(5), 453; https://doi.org/10.3390/antibiotics15050453 - 30 Apr 2026
Abstract
Background/Objectives: Necrotic enteritis (NE), induced by Clostridium perfringens, is responsible for significant economic losses in the poultry industry worldwide. The growing restrictions on antibiotic use have driven the search for alternative strategies for disease control. The purpose of this study is to
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Background/Objectives: Necrotic enteritis (NE), induced by Clostridium perfringens, is responsible for significant economic losses in the poultry industry worldwide. The growing restrictions on antibiotic use have driven the search for alternative strategies for disease control. The purpose of this study is to isolate and characterize lytic phages targeting multidrug-resistant C. perfringens type G recovered from chickens with NE. Methods: C. perfringens was isolated from chickens with NE using a culture method with selective TSC agar. Bacterial identification was carried out using biochemical tests and PCR. C. perfringens isolates were toxinotyped by PCR. Antibiotic susceptibility test was performed using the agar dilution method. Bacteriophages were isolated from chicken intestine samples collected from wet markets using the double-layer agar technique. Phage isolates were characterized by host range, one-step growth, stability, and whole genome sequencing. The efficacy of phage CPP8 in controlling multidrug-resistant C. perfringens type G was evaluated in GAM broth. Results: In this study, 16 C. perfringens strains were isolated from 100 chickens suspected of NE. Among these isolates, 10 (62.5%) belonged to type G, while the remaining 6 (37.5%) were type A. A total of 11 phages capable of lysing C. perfringens type G were isolated from the chicken intestine. Among them, phage CPP8 has the widest host range, short latent period, large burst size, and high stability. Moreover, the genome of CPP8 lacked genes related to antibiotic resistance, toxins, virulence factors, or lysogeny. Treatment with CPP8 resulted in a significant reduction in viable counts of C. perfringens at 37 °C. Conclusions: Our findings highlight phage CPP8 as a promising candidate for bio-control of multidrug-resistant C. perfringens type G.
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(This article belongs to the Special Issue Bacteriophage Therapy: A Renaissance Weapon—Recent Developments and Application, 3rd Edition)
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Open AccessArticle
Levofloxacin and Rifampin Resistance in Helicobacter pylori Isolates from Central-Western Colombia: Role of gyrA Mutations in Fluoroquinolone Resistance
by
Adalucy Álvarez-Aldana, Leonardo Beltrán-Angarita, Yina Marcela Guaca-González, Manuel Alejandro Velandia-López and Lyudmila Boyanova
Antibiotics 2026, 15(5), 452; https://doi.org/10.3390/antibiotics15050452 - 30 Apr 2026
Abstract
Background: Helicobacter pylori causes one of the most prevalent chronic bacterial infections worldwide. Data about H. pylori resistance rates to levofloxacin and rifampin (antimicrobials for second-, third- or fourth-line therapy) in Colombia and South America are scarce. The present study aimed to
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Background: Helicobacter pylori causes one of the most prevalent chronic bacterial infections worldwide. Data about H. pylori resistance rates to levofloxacin and rifampin (antimicrobials for second-, third- or fourth-line therapy) in Colombia and South America are scarce. The present study aimed to assess levofloxacin and rifampin resistance rates among 61 H. pylori isolates from the western-central region of Colombia and to identify gyrA point mutations associated with levofloxacin resistance. Methods: For this purpose, antimicrobial susceptibility was determined using the E-test method and gyrA mutations in levofloxacin-resistant isolates were identified by PCR amplification followed by DNA sequencing. Results: Resistance rates to levofloxacin and rifampin were 24.6% and 13.1%, respectively. Among the 15 levofloxacin-resistant isolates, 6 (40%) isolates had ≥2 gyrA mutations and 5 of them exhibited high (≥32 mg/L) levofloxacin MICs. In addition, two new mutations (Y90C and V89D) were also detected. Conclusions: Clinically relevant resistance to levofloxacin and rifampin was detected among H. pylori isolates from central-western Colombia. Multiple gyrA mutations were identified in a significant proportion of levofloxacin-resistant isolates and were mainly associated with high MIC values, highlighting the need for regional surveillance to guide eradication therapies.
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(This article belongs to the Special Issue Epidemiology of and Antibiotic Therapy for Helicobacter pylori Infection)
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Genome-Based Analysis of Chromosomal Colistin Non-Susceptibility in Stenotrophomonas pavanii Isolated from the Phycosphere of Pectinodesmus pectinatus
by
Heejin Ahn, Hyunwoo Zin, Muhammad Akmal and Tae-Jin Choi
Antibiotics 2026, 15(5), 451; https://doi.org/10.3390/antibiotics15050451 - 30 Apr 2026
Abstract
Background/Objectives: Freshwater microalgae–bacteria consortia are increasingly utilized in wastewater treatment and biomass production. However, bacteria associated with the algal phycosphere may act as environmental reservoirs of multidrug-resistant (MDR) phenotypes and antibiotic resistance genes (ARGs), including resistance to last-resort antibiotics such as colistin. Methods:
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Background/Objectives: Freshwater microalgae–bacteria consortia are increasingly utilized in wastewater treatment and biomass production. However, bacteria associated with the algal phycosphere may act as environmental reservoirs of multidrug-resistant (MDR) phenotypes and antibiotic resistance genes (ARGs), including resistance to last-resort antibiotics such as colistin. Methods: An axenic culture of the freshwater microalga Pectinodesmus pectinatus was established using a NaClO-based cleaning protocol. Three phycosphere-associated bacterial strains (Chryseobacterium sp., Pseudomonas monteilii, and Stenotrophomonas pavanii) were isolated and identified by 16S rRNA gene analysis. Antimicrobial susceptibility testing was performed using broth microdilution against 16 antibiotics. Whole-genome sequencing of the most resistant isolate, S. pavanii, was conducted using Oxford Nanopore technology, followed by genome annotation and in silico resistome analysis using CARD, AMRFinderPlus, and ResFinder. Results: Among the three isolates, S. pavanii exhibited the broadest resistance profile, including high minimum inhibitory concentrations (MICs) to multiple β-lactams and colistin (MIC ≥ 16 μg/mL). No plasmid-borne mcr genes were detected. Instead, the genome encoded multiple chromosomal determinants potentially associated with polymyxin non-susceptibility, including lipid A and lipopolysaccharide modification pathways (e.g., arn genes and eptA), outer-membrane maintenance and LPS transport systems, multidrug efflux pumps, and regulatory elements. Integration of genomic and phenotypic data suggested that the observed colistin non-susceptibility may be associated with intrinsic chromosomal determinants inferred from whole-genome analysis. Conclusions: This study demonstrates that the P. pectinatus phycosphere can harbor multidrug-resistant (MDR) bacteria, including strains exhibiting colistin non-susceptibility potentially associated with a repertoire of intrinsic chromosomal resistance mechanisms inferred from genomic analysis. Therefore, freshwater microalgae-based systems should be considered potential environmental reservoirs contributing to the dissemination of antimicrobial resistance.
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(This article belongs to the Section Genetic and Biochemical Studies of Antibiotic Activity and Resistance)
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Open AccessArticle
Plasma and Intracellular Concentrations of Doxycycline and Azithromycin in Patients with Severe Scrub Typhus
by
Debasree Kundu, Merylin Sebastian, Shadab Ahmad, Sohail Khan, Divya Dayanand, Blessed Winston Aruldhas, Binu Susan Mathew, Karthik Gunasekaran, Nalini Newbigging, Kundavaram P. P. Abhilash, Anand Zachariah, Ramya Iyadurai, Samuel George Hansdak, Sowmya Sathyendra, Thambu David Sudarsanam, Abi Manesh, John Victor Peter, Jeanne Salje, Ooriapadickal C. Abraham, Nicholas P. J. Day, Joel Tarning and George M. Vargheseadd
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Antibiotics 2026, 15(5), 450; https://doi.org/10.3390/antibiotics15050450 - 30 Apr 2026
Abstract
Background/Objectives: Scrub typhus, a life-threatening infection caused by Orientia tsutsugamushi, is treated with doxycycline or azithromycin. In severe disease, combination therapy with azithromycin and doxycycline had better clinical outcomes than either drug alone. However, it is not clear what causes the improved
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Background/Objectives: Scrub typhus, a life-threatening infection caused by Orientia tsutsugamushi, is treated with doxycycline or azithromycin. In severe disease, combination therapy with azithromycin and doxycycline had better clinical outcomes than either drug alone. However, it is not clear what causes the improved efficacy. To understand the same, we examined the plasma concentrations, intracellular concentrations, and efficacy of doxycycline, azithromycin, and both drugs in combination in 51 patients with severe scrub typhus. Methods: A randomly selected subset of adult (>18 years) participants from the INTREST trial (Clinical Trials Registry–India, number CTRI/2018/08/015159), who had been randomized in a 1:1:1 ratio to receive doxycycline, azithromycin, or both drugs, respectively, were included in this study for comparative drug concentration analysis. Blood samples were collected on days 0, 1, 3, and 7 to monitor bacterial load using quantitative polymerase chain reaction (PCR). Five milliliters of sterile blood were collected 3–10 h after the final dose on day 7 for comparative drug concentration measured using high-resolution multiple reaction monitoring. Data were analyzed in GraphPad Prism v.10.0.3. Results: Fifty-one patients (males, 59%; median age, 52 years) were enrolled. Fifteen, seventeen, and nineteen patients received azithromycin, doxycycline, and both, respectively. Doxycycline achieved a median plasma concentration of 1112 (42.51–5697) ng/mL and was undetectable intracellularly. The intracellular concentration of azithromycin (1127 [16.78–19,250] ng/mL) surpassed its plasma concentration (227.1 [48.78–1022] ng/mL). On day 3, PCR negativity rates were 56.24%, 93.3%, and 94.7% in the doxycycline, azithromycin, and combination groups, respectively. Conclusions: The high plasma concentrations of doxycycline and intracellular accumulation of azithromycin may contribute to improved clinical outcomes when used in combination.
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(This article belongs to the Section Antibiotic Therapy in Infectious Diseases)
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Open AccessArticle
NGS-Based Genomic Characterization of ESBL/AmpC-Producing Extraintestinal Pathogenic Escherichia coli from Captive Wildlife in Tunisia
by
Zaineb Hamzaoui, Hajer Kilani, Sana Ferjani, Elaa Maamar, Ahmed Fakhfakh, Lamia Kanzari and Ilhem Boutiba-Ben Boubaker
Antibiotics 2026, 15(5), 449; https://doi.org/10.3390/antibiotics15050449 - 29 Apr 2026
Abstract
Background/Objectives: Multidrug-resistant (MDR) Escherichia coli resistant to third-generation cephalosporins are a growing One Health concern, but data on extraintestinal pathogenic E. coli (ExPEC) from wildlife in North Africa remain scarce. We aimed to characterize ESBL/AmpC-producing ExPEC from captive wild mammals in Tunisia and
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Background/Objectives: Multidrug-resistant (MDR) Escherichia coli resistant to third-generation cephalosporins are a growing One Health concern, but data on extraintestinal pathogenic E. coli (ExPEC) from wildlife in North Africa remain scarce. We aimed to characterize ESBL/AmpC-producing ExPEC from captive wild mammals in Tunisia and to situate these isolates in a global genomic context. Methods: In 2018, 30 fecal samples from 14 captive wild mammals in a private farm were screened on cefotaxime agar. Four cefotaxime-resistant E. coli isolates were recovered from a llama, lion, hyena, and tiger. Antimicrobial susceptibility testing and Illumina whole-genome sequencing were combined with in silico typing, resistome and virulome profiling, plasmid and mobile element analysis, human pathogenicity prediction and core-genome MLST-based minimum-spanning trees. Results: All isolates were MDR but remained susceptible to carbapenems, colistin and tigecycline. Two ST162/B1 isolates from the llama and tiger carried blaCMY-2, whereas two ST69/D isolates from the lion and hyena harbored blaCTX-M-15 and qnrS1. Genomes encoded 61–68 antimicrobial resistance genes and 114–131 virulence-associated genes, together with IncF-, IncI1- and IncY-type plasmids and IS26-rich insertion sequence profiles. Mating-out assays yielded cefotaxime-resistant transconjugants, supporting plasmid transferability of blaCMY-2 or blaCTX-M-15. PathogenFinder predicted a ≥0.93 probability of human pathogenicity for all isolates. cgMLST-based trees showed that Tunisian ST69 and ST162 clustered within internationally disseminated lineages containing human, animal and food isolates, rather than forming wildlife-restricted branches. Conclusions: Captive wild mammals in Tunisia can harbor high-risk ExPEC lineages combining ESBL/AmpC production, multidrug resistance and extensive virulence and mobility gene repertoires. These findings highlight captive wildlife as potential reservoirs and sentinels of clinically relevant E. coli and underscore the need for integrated WGS-based One Health surveillance at the human–animal–environment interface in North Africa.
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(This article belongs to the Special Issue Epidemiology and Genomics of Antimicrobial Resistance of Difficult-to-Treat Pathogens)
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