{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,18]],"date-time":"2026-03-18T01:47:00Z","timestamp":1773798420131,"version":"3.50.1"},"reference-count":109,"publisher":"MDPI AG","issue":"4","license":[{"start":{"date-parts":[[2025,8,8]],"date-time":"2025-08-08T00:00:00Z","timestamp":1754611200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"FCT\u2014The Foundation for Science and Technology","award":["UID\/05021\/2023"],"award-info":[{"award-number":["UID\/05021\/2023"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["JoX"],"abstract":"<jats:p>Antibiotics have played an evolving role in poultry production, generally transitioning from widespread use to more precise and controlled applications. Despite this shift, the long-term consequences of earlier practices continue to affect current and future generations. This review aims to explore the multifaceted consequences of antibiotic use in poultry production, with particular emphasis on the growing challenge of antimicrobial resistance (AMR). Evidence demonstrates that antibiotic use affects the gut microbiome, often resulting in long-lasting decreased diversity and restructuring of the bacterial communities. Moreover, consequences extend to the surrounding environment, including the airborne microbiome, water systems, and poultry litter, where alterations in microbial communities tend to be more subtle, whereas changes in genetic elements related to resistance are often more pronounced (drift). The emergence and persistence of resistance in these environments facilitate the spread of resistance genes across ecological boundaries, contributing to the broader dissemination of AMR. These findings highlight the complex, interconnected nature of AMR, underscoring the urgent need for responses grounded in the One Health framework. Such approaches are essential for safeguarding both public and environmental health while maintaining sustainable poultry production practices.<\/jats:p>","DOI":"10.3390\/jox15040129","type":"journal-article","created":{"date-parts":[[2025,8,8]],"date-time":"2025-08-08T15:30:52Z","timestamp":1754667052000},"page":"129","update-policy":"https:\/\/doi.org\/10.3390\/mdpi_crossmark_policy","source":"Crossref","is-referenced-by-count":1,"title":["Xenobiotics and Broiler Microbiota: Molecular Insights into Bacterial Antimicrobial Resistance and Food Safety Implications for Human Health"],"prefix":"10.3390","volume":"15","author":[{"given":"Marta","family":"Gon\u00e7alves","sequence":"first","affiliation":[{"name":"School of Medicine and Biomedical Sciences (ICBAS), University of Porto, Rua de Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1283-1042","authenticated-orcid":false,"given":"Nuno","family":"Vale","sequence":"additional","affiliation":[{"name":"PerMed Research Group, RISE-Health, Faculty of Medicine, University of Porto, Alameda Professor Hern\u00e2ni Monteiro, 4200-319 Porto, Portugal"},{"name":"RISE-Health, Department of Community Medicine, Health Information and Decision (MEDCIDS), Faculty of Medicine, University of Porto, Alameda Professor Hern\u00e2ni Monteiro, 4200-319 Porto, Portugal"},{"name":"Laboratory of Personalized Medicine, Department of Community Medicine, Health Information and Decision (MEDCIDS), Faculty of Medicine, University of Porto, Rua Doutor Pl\u00e1cido da Costa, 4200-450 Porto, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6115-8811","authenticated-orcid":false,"given":"Paulo","family":"Martins da Costa","sequence":"additional","affiliation":[{"name":"School of Medicine and Biomedical Sciences (ICBAS), University of Porto, Rua de Jorge Viterbo Ferreira, 228, 4050-313 Porto, Portugal"},{"name":"Interdisciplinary Centre of Marine and Environmental Research (CIIMAR), Terminal de Cruzeiros do Porto, de Leix\u00f5es, Av. General Norton de Matos s\/n, 4450-208 Matosinhos, Portugal"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7204-6006","authenticated-orcid":false,"given":"Paula","family":"Silva","sequence":"additional","affiliation":[{"name":"Laboratory of Histology and Embryology, Department of Microscopy, School of Medicine and Biomedical Sciences (ICBAS), University of Porto, Rua Jorge Viterbo Ferreira 228, 4050-313 Porto, Portugal"},{"name":"iNOVA Media Lab, ICNOVA-NOVA Institute of Communication, NOVA School of Social Sciences and Humanities, Universidade NOVA de Lisboa, 1069-061 Lisbon, Portugal"}]}],"member":"1968","published-online":{"date-parts":[[2025,8,8]]},"reference":[{"key":"ref_1","unstructured":"The European Environment Agency (2024). Veterinary Antimicrobials in Europe\u2019s Environment: A One Health Perspective, Publications Office of the European Union."},{"key":"ref_2","first-page":"1","article-title":"Economics of antibiotic use in U.S. swine and poultry production","volume":"30","author":"Teillant","year":"2015","journal-title":"Choices"},{"key":"ref_3","doi-asserted-by":"crossref","first-page":"1350","DOI":"10.1126\/science.aao1495","article-title":"Reducing antimicrobial use in food animals","volume":"357","author":"Glennon","year":"2017","journal-title":"Science"},{"key":"ref_4","doi-asserted-by":"crossref","unstructured":"Mulchandani, R., Wang, Y., Gilbert, M., and Van Boeckel, T.P. (2023). Global trends in antimicrobial use in food-producing animals: 2020 to 2030. PLOS Glob. Public Health, 3.","DOI":"10.1371\/journal.pgph.0001305"},{"key":"ref_5","doi-asserted-by":"crossref","first-page":"eaaw1944","DOI":"10.1126\/science.aaw1944","article-title":"Global trends in antimicrobial resistance in animals in low- and middle-income countries","volume":"365","author":"Pires","year":"2019","journal-title":"Science"},{"key":"ref_6","doi-asserted-by":"crossref","unstructured":"Kasabova, S., Hartmann, M., Freise, F., Hommerich, K., Fischer, S., Wilms-Schulze-Kump, A., Rohn, K., K\u00e4sbohrer, A., and Kreienbrock, L. (2021). Antibiotic Usage Pattern in Broiler Chicken Flocks in Germany. Front. Vet. Sci., 8.","DOI":"10.3389\/fvets.2021.673809"},{"key":"ref_7","doi-asserted-by":"crossref","first-page":"2466","DOI":"10.3382\/ps.2007-00249","article-title":"History of the Use of Antibiotic as Growth Promoters in European Poultry Feeds","volume":"86","author":"Castanon","year":"2007","journal-title":"Poult. Sci."},{"key":"ref_8","first-page":"101815","article-title":"Public health risks associated with antibiotic residues in poultry food products","volume":"21","author":"Izah","year":"2025","journal-title":"J. Agric. Food Res."},{"key":"ref_9","doi-asserted-by":"crossref","unstructured":"Lopes, E.D.S., De Souza, L.C.A., Santaren, K.C.F., Parente, C.E.T., and Seldin, L. (2025). Microbiome and Resistome in Poultry Litter-Fertilized and Unfertilized Agricultural Soils. Antibiotics, 14.","DOI":"10.3390\/antibiotics14040355"},{"key":"ref_10","doi-asserted-by":"crossref","unstructured":"Wang, C., Wang, X., Hao, J., Kong, H., Zhao, L., Li, M., Zou, M., and Liu, G. (2024). Serotype Distribution and Antimicrobial Resistance of Salmonella Isolates from Poultry Sources in China. Antibiotics, 13.","DOI":"10.3390\/antibiotics13100959"},{"key":"ref_11","doi-asserted-by":"crossref","unstructured":"Oladeinde, A., Abdo, Z., Zwirzitz, B., Woyda, R., Lakin, S.M., Press, M.O., Cox, N.A., Thomas, J.C., Looft, T., and Rothrock, M.J. (2022). Litter Commensal Bacteria Can Limit the Horizontal Gene Transfer of Antimicrobial Resistance to Salmonella in Chickens. Appl. Environ. Microbiol., 88.","DOI":"10.1128\/aem.02517-21"},{"key":"ref_12","doi-asserted-by":"crossref","unstructured":"Zha, Y., Li, Q., Liu, H., Ge, Y., Wei, Y., Wang, H., Zhang, L., Fan, J., Chen, Y., and Zhang, C. (2023). Occurrence and ecological risk assessment of antibiotics in manure and the surrounding soil from typical chicken farms in Hangzhou, China. Front. Environ. Sci., 11.","DOI":"10.3389\/fenvs.2023.1241405"},{"key":"ref_13","doi-asserted-by":"crossref","first-page":"371","DOI":"10.1016\/j.ijantimicag.2018.11.010","article-title":"Antibiotic discovery: History, methods and perspectives","volume":"53","author":"Durand","year":"2019","journal-title":"Int. J. Antimicrob. Agents"},{"key":"ref_14","doi-asserted-by":"crossref","unstructured":"Schnug, E., and De Kok, L.J. (2016). Organic Xenobiotics. Phosphorus in Agriculture: 100% Zero, Springer Netherlands.","DOI":"10.1007\/978-94-017-7612-7"},{"key":"ref_15","doi-asserted-by":"crossref","first-page":"216","DOI":"10.1093\/ilar\/ilaa003","article-title":"Nonexperimental Xenobiotics: Unintended Consequences of Intentionally Administered Substances in Terrestrial Animal Models","volume":"60","author":"Perkins","year":"2019","journal-title":"ILAR J."},{"key":"ref_16","doi-asserted-by":"crossref","first-page":"2603067","DOI":"10.1155\/2017\/2603067","article-title":"Application of QuEChERS for Determining Xenobiotics in Foods of Animal Origin","volume":"2017","author":"Garcia","year":"2017","journal-title":"J. Anal. Methods Chem."},{"key":"ref_17","doi-asserted-by":"crossref","unstructured":"Bernier, S., and Surette, M. (2013). Concentration-dependent activity in natural environments. Front. Microbiol., 4.","DOI":"10.3389\/fmicb.2013.00020"},{"key":"ref_18","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1016\/j.jes.2020.05.030","article-title":"A survey of sub-inhibitory concentrations of antibiotics in the environment","volume":"99","author":"Chow","year":"2021","journal-title":"J. Environ. Sci."},{"key":"ref_19","doi-asserted-by":"crossref","first-page":"ftx083","DOI":"10.1093\/femspd\/ftx083","article-title":"Do antimicrobial mass medications work? A systematic review and meta-analysis of randomised clinical trials investigating antimicrobial prophylaxis or metaphylaxis against naturally occurring bovine respiratory disease","volume":"75","author":"Baptiste","year":"2017","journal-title":"Pathog. Dis."},{"key":"ref_20","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1007\/s10123-023-00462-x","article-title":"Antimicrobial use and resistance in food animal production: Food safety and associated concerns in Sub-Saharan Africa","volume":"27","author":"Odey","year":"2024","journal-title":"Int. Microbiol."},{"key":"ref_21","doi-asserted-by":"crossref","first-page":"29","DOI":"10.1081\/ABIO-120005768","article-title":"Antibiotics as growth promotants: Mode of action","volume":"13","author":"Gaskins","year":"2002","journal-title":"Anim. Biotechnol."},{"key":"ref_22","unstructured":"European, U. (2019). Regulation (EU) 2019\/6 of the European Parliament and of the Council of 11 December 2018 on Veterinary Medicinal Products, European Union."},{"key":"ref_23","unstructured":"European, U. (2019). Regulation (EU) 2019\/4 of the European Parliament and of the Council of 11 December 2018 on the Manufacture, Placing on the Market and Use of Medicated Feed, European Union."},{"key":"ref_24","doi-asserted-by":"crossref","unstructured":"Von Wintersdorff, C.J.H., Penders, J., Van Niekerk, J.M., Mills, N.D., Majumder, S., Van Alphen, L.B., Savelkoul, P.H.M., and Wolffs, P.F.G. (2016). Dissemination of Antimicrobial Resistance in Microbial Ecosystems through Horizontal Gene Transfer. Front. Microbiol., 7.","DOI":"10.3389\/fmicb.2016.00173"},{"key":"ref_25","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1038\/s41579-021-00649-x","article-title":"Antibiotic resistance in the environment","volume":"20","author":"Larsson","year":"2022","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_26","doi-asserted-by":"crossref","first-page":"675","DOI":"10.5455\/javar.2024.k817","article-title":"A review of antimicrobial usage practice in livestock and poultry production and its consequences on human and animal health","volume":"11","author":"Islam","year":"2024","journal-title":"J. Adv. Vet. Anim. Res."},{"key":"ref_27","doi-asserted-by":"crossref","first-page":"1717","DOI":"10.1007\/s00204-024-03760-z","article-title":"The two faces of antibiotics: An overview of the effects of antibiotic residues in foodstuffs","volume":"98","year":"2024","journal-title":"Arch. Toxicol."},{"key":"ref_28","doi-asserted-by":"crossref","unstructured":"Zou, A., Nadeau, K., Xiong, X., Wang, P.W., Copeland, J.K., Lee, J.Y., Pierre, J.S., Ty, M., Taj, B., and Brumell, J.H. (2022). Systematic profiling of the chicken gut microbiome reveals dietary supplementation with antibiotics alters expression of multiple microbial pathways with minimal impact on community structure. Microbiome, 10.","DOI":"10.1186\/s40168-022-01319-7"},{"key":"ref_29","doi-asserted-by":"crossref","first-page":"104671","DOI":"10.1016\/j.psj.2024.104671","article-title":"Effects of isoquinoline alkaloids as an alternative to antibiotic on oxidative stress, inflammatory status, and cecal microbiome of broilers under high stocking density","volume":"104","author":"Insawake","year":"2025","journal-title":"Poult. Sci."},{"key":"ref_30","doi-asserted-by":"crossref","unstructured":"Ma, B., Wang, D., Mei, X., Lei, C., Li, C., and Wang, H. (2023). Effect of Enrofloxacin on the Microbiome, Metabolome, and Abundance of Antibiotic Resistance Genes in the Chicken Cecum. Microbiol. Spectr., 11.","DOI":"10.1128\/spectrum.04795-22"},{"key":"ref_31","doi-asserted-by":"crossref","unstructured":"Peto, L., Fawcett, N., Kamfose, M.M., Scarborough, C., Peniket, A., Danby, R., Peto, T.E.A., Crook, D.W., Llewelyn, M.J., and Sarah Walker, A. (2024). The impact of different antimicrobial exposures on the gut microbiome in the ARMORD observational study. medRxiv.","DOI":"10.7554\/eLife.97751.1"},{"key":"ref_32","doi-asserted-by":"crossref","first-page":"233","DOI":"10.1038\/nrmicro2536","article-title":"Shifting the balance: Antibiotic effects on host\u2013microbiota mutualism","volume":"9","author":"Willing","year":"2011","journal-title":"Nat. Rev. Microbiol."},{"key":"ref_33","doi-asserted-by":"crossref","unstructured":"Zhan, R., Lu, Y., Xu, Y., Li, X., Wang, X., and Yu, G. (2025). Effects of antibiotics on chicken gut microbiota: Community alterations and pathogen identification. Front. Microbiol., 16.","DOI":"10.3389\/fmicb.2025.1562510"},{"key":"ref_34","doi-asserted-by":"crossref","unstructured":"Plata, G., Baxter, N.T., Susanti, D., Volland-Munson, A., Gangaiah, D., Nagireddy, A., Mane, S.P., Balakuntla, J., Hawkins, T.B., and Kumar Mahajan, A. (2022). Growth promotion and antibiotic induced metabolic shifts in the chicken gut microbiome. Commun. Biol., 5.","DOI":"10.1038\/s42003-022-03239-6"},{"key":"ref_35","doi-asserted-by":"crossref","unstructured":"Paul, S.S., Rama Rao, S.V., Hegde, N., Williams, N.J., Chatterjee, R.N., Raju, M.V.L.N., Reddy, G.N., Kumar, V., Phani Kumar, P.S., and Mallick, S. (2022). Effects of Dietary Antimicrobial Growth Promoters on Performance Parameters and Abundance and Diversity of Broiler Chicken Gut Microbiome and Selection of Antibiotic Resistance Genes. Front. Microbiol., 13.","DOI":"10.3389\/fmicb.2022.905050"},{"key":"ref_36","doi-asserted-by":"crossref","unstructured":"Lundberg, R., Scharch, C., and Sandvang, D. (2021). The link between broiler flock heterogeneity and cecal microbiome composition. Anim. Microbiome, 3.","DOI":"10.1186\/s42523-021-00110-7"},{"key":"ref_37","doi-asserted-by":"crossref","unstructured":"Park, S.H., Lee, S.I., Kim, S.A., Christensen, K., and Ricke, S.C. (2017). Comparison of antibiotic supplementation versus a yeast-based prebiotic on the cecal microbiome of commercial broilers. PLoS ONE, 12.","DOI":"10.1371\/journal.pone.0182805"},{"key":"ref_38","doi-asserted-by":"crossref","first-page":"104665","DOI":"10.1016\/j.psj.2024.104665","article-title":"Distribution and environmental dissemination of antibiotic resistance genes in poultry farms and surrounding ecosystems","volume":"104","author":"Li","year":"2025","journal-title":"Poult. Sci."},{"key":"ref_39","doi-asserted-by":"crossref","first-page":"112687","DOI":"10.1016\/j.ecoenv.2021.112687","article-title":"Revealing the distribution characteristics of antibiotic resistance genes and bacterial communities in animal-aerosol-human in a chicken farm: From One-Health perspective","volume":"224","author":"Yang","year":"2021","journal-title":"Ecotoxicol. Environ. Saf."},{"key":"ref_40","doi-asserted-by":"crossref","unstructured":"Bhat, B.A., Mir, R.A., Qadri, H., Dhiman, R., Almilaibary, A., Alkhanani, M., and Mir, M.A. (2023). Integrons in the development of antimicrobial resistance: Critical review and perspectives. Front. Microbiol., 14.","DOI":"10.3389\/fmicb.2023.1231938"},{"key":"ref_41","doi-asserted-by":"crossref","first-page":"3028","DOI":"10.1128\/AEM.06920-11","article-title":"Functional Cloning and Characterization of Antibiotic Resistance Genes from the Chicken Gut Microbiome","volume":"78","author":"Zhou","year":"2012","journal-title":"Appl. Environ. Microbiol."},{"key":"ref_42","doi-asserted-by":"crossref","first-page":"157420","DOI":"10.1016\/j.scitotenv.2022.157420","article-title":"Airborne bacterial communities in the poultry farm and their relevance with environmental factors and antibiotic resistance genes","volume":"846","author":"Xu","year":"2022","journal-title":"Sci. Total Environ."},{"key":"ref_43","doi-asserted-by":"crossref","first-page":"129288","DOI":"10.1016\/j.jhazmat.2022.129288","article-title":"Effects of antibiotics consumption on the behavior of airborne antibiotic resistance genes in chicken farms","volume":"437","author":"Song","year":"2022","journal-title":"J. Hazard. Mater."},{"key":"ref_44","doi-asserted-by":"crossref","first-page":"106927","DOI":"10.1016\/j.envint.2021.106927","article-title":"Spread of airborne antibiotic resistance from animal farms to the environment: Dispersal pattern and exposure risk","volume":"158","author":"Bai","year":"2022","journal-title":"Environ. Int."},{"key":"ref_45","doi-asserted-by":"crossref","unstructured":"Lou, C., Chen, Z., Bai, Y., Chai, T., Guan, Y., and Wu, B. (2023). Exploring the Microbial Community Structure in the Chicken House Environment by Metagenomic Analysis. Animals, 14.","DOI":"10.3390\/ani14010055"},{"key":"ref_46","doi-asserted-by":"crossref","unstructured":"Smith, B.L., and King, M.D. (2023). Sampling and Characterization of Bioaerosols in Poultry Houses. Microorganisms, 11.","DOI":"10.3390\/microorganisms11082068"},{"key":"ref_47","doi-asserted-by":"crossref","unstructured":"Tao, C.-W., Chen, J.-S., Hsu, B.-M., Koner, S., Hung, T.-C., Wu, H.-M., and Rathod, J. (2021). Molecular Evaluation of Traditional Chicken Farm-Associated Bioaerosols for Methicillin-Resistant Staphylococcus aureus Shedding. Antibiotics, 10.","DOI":"10.3390\/antibiotics10080917"},{"key":"ref_48","doi-asserted-by":"crossref","first-page":"649","DOI":"10.1080\/02786826.2025.2471867","article-title":"Bioaerosol is an important source for dissemination of antibiotic resistance genes in chicken farms","volume":"59","author":"Laghari","year":"2025","journal-title":"Aerosol Sci. Technol."},{"key":"ref_49","doi-asserted-by":"crossref","first-page":"1707863","DOI":"10.1155\/2024\/1707863","article-title":"Comparison of Airborne Antibiotic Resistance Genes in the Chicken Farm during Winter and Summer","volume":"2024","author":"Song","year":"2024","journal-title":"Indoor Air"},{"key":"ref_50","doi-asserted-by":"crossref","first-page":"105083","DOI":"10.1016\/j.psj.2025.105083","article-title":"Effects and health risk assessments of different spray disinfectants on microbial aerosols in chicken houses","volume":"104","author":"Zhao","year":"2025","journal-title":"Poult. Sci."},{"key":"ref_51","doi-asserted-by":"crossref","unstructured":"Piccirillo, A., Tolosi, R., Mughini-Gras, L., Kers, J.G., and Laconi, A. (2024). Drinking Water and Biofilm as Sources of Antimicrobial Resistance in Free-Range Organic Broiler Farms. Antibiotics, 13.","DOI":"10.3390\/antibiotics13090808"},{"key":"ref_52","doi-asserted-by":"crossref","unstructured":"Mustedanagic, A., Matt, M., Weyermair, K., Schrattenecker, A., Kubitza, I., Firth, C.L., Loncaric, I., Wagner, M., and Stessl, B. (2023). Assessment of microbial quality in poultry drinking water on farms in Austria. Front. Vet. Sci., 10.","DOI":"10.3389\/fvets.2023.1254442"},{"key":"ref_53","doi-asserted-by":"crossref","unstructured":"Hahne, F., Jensch, S., Hamscher, G., Mei\u00dfner, J., Kietzmann, M., Kemper, N., Schulz, J., and Mateus-Vargas, R.H. (2022). Innovative Perspectives on Biofilm Interactions in Poultry Drinking Water Systems and Veterinary Antibiotics Used Worldwide. Antibiotics, 11.","DOI":"10.3390\/antibiotics11010077"},{"key":"ref_54","doi-asserted-by":"crossref","first-page":"5481","DOI":"10.1016\/j.psj.2020.08.050","article-title":"Research Note: Tracing pathways of entry and persistence of facultative pathogenic and antibiotic-resistant bacteria in a commercial broiler farm with substantial health problems","volume":"99","author":"Heinemann","year":"2020","journal-title":"Poult. Sci."},{"key":"ref_55","doi-asserted-by":"crossref","first-page":"106710","DOI":"10.1016\/j.micpath.2024.106710","article-title":"In-silico insights of ESBL variants and tracking the probable sources of ESBL-producing Escherichia coli in a small-scale poultry farm","volume":"192","author":"Sharmila","year":"2024","journal-title":"Microb. Pathog."},{"key":"ref_56","doi-asserted-by":"crossref","unstructured":"Lee, Y.J., Jung, H.R., Yoon, S., Lim, S.K., and Lee, Y.J. (2023). Situational analysis on fluoroquinolones use and characterization of high-level ciprofloxacin-resistant Enterococcus faecalis by integrated broiler operations in South Korea. Front. Vet. Sci., 10.","DOI":"10.3389\/fvets.2023.1158721"},{"key":"ref_57","doi-asserted-by":"crossref","unstructured":"Rui, Y., and Qiu, G. (2024). Analysis of Antibiotic Resistance Genes in Water Reservoirs and Related Wastewater from Animal Farms in Central China. Microorganisms, 12.","DOI":"10.3390\/microorganisms12020396"},{"key":"ref_58","doi-asserted-by":"crossref","unstructured":"Smoglica, C., Farooq, M., Ruffini, F., Marsilio, F., and Di Francesco, C.E. (2023). Microbial Community and Abundance of Selected Antimicrobial Resistance Genes in Poultry Litter from Conventional and Antibiotic-Free Farms. Antibiotics, 12.","DOI":"10.3390\/antibiotics12091461"},{"key":"ref_59","doi-asserted-by":"crossref","first-page":"300","DOI":"10.1002\/jeq2.20560","article-title":"Effect of poultry litter soil amendment on antibiotic-resistant Escherichia coli","volume":"53","author":"Agga","year":"2024","journal-title":"J. Environ. Qual."},{"key":"ref_60","doi-asserted-by":"crossref","first-page":"174286","DOI":"10.1016\/j.scitotenv.2024.174286","article-title":"Tetracycline and fluoroquinolone antibiotics contamination in agricultural soils fertilized long-term with chicken litter: Trends and ravages","volume":"946","author":"Kuppusamy","year":"2024","journal-title":"Sci. Total Environ."},{"key":"ref_61","doi-asserted-by":"crossref","unstructured":"Ngogang, M.P., Ernest, T., Kariuki, J., Mouliom Mouiche, M.M., Ngogang, J., Wade, A., and Van Der Sande, M.A.B. (2020). Microbial Contamination of Chicken Litter Manure and Antimicrobial Resistance Threat in an Urban Area Setting in Cameroon. Antibiotics, 10.","DOI":"10.3390\/antibiotics10010020"},{"key":"ref_62","doi-asserted-by":"crossref","unstructured":"Gupta, C.L., Blum, S.E., Kattusamy, K., Daniel, T., Druyan, S., Shapira, R., Krifucks, O., Zhu, Y.-G., Zhou, X.-Y., and Su, J.-Q. (2021). Longitudinal study on the effects of growth-promoting and therapeutic antibiotics on the dynamics of chicken cloacal and litter microbiomes and resistomes. Microbiome, 9.","DOI":"10.1186\/s40168-021-01136-4"},{"key":"ref_63","doi-asserted-by":"crossref","first-page":"20017","DOI":"10.1007\/s11356-024-32492-x","article-title":"Fate of fluoroquinolones in field soil environment after incorporation of poultry litter from a farm with enrofloxacin administration via drinking water","volume":"31","year":"2024","journal-title":"Environ. Sci. Pollut. Res."},{"key":"ref_64","doi-asserted-by":"crossref","first-page":"106362","DOI":"10.1016\/j.prevetmed.2024.106362","article-title":"Assessing the spread of sulfachloropyridazine in poultry environment and its impact on Escherichia coli resistance","volume":"233","author":"Vargas","year":"2024","journal-title":"Prev. Vet. Med."},{"key":"ref_65","doi-asserted-by":"crossref","unstructured":"Oxendine, A., Walsh, A.A., Young, T., Dixon, B., Hoke, A., Rogers, E.E., Lee, M.D., and Maurer, J.J. (2023). Conditions Necessary for the Transfer of Antimicrobial Resistance in Poultry Litter. Antibiotics, 12.","DOI":"10.3390\/antibiotics12061006"},{"key":"ref_66","doi-asserted-by":"crossref","first-page":"121517","DOI":"10.1016\/j.envpol.2023.121517","article-title":"Resistome profiling reveals transmission dynamics of antimicrobial resistance genes from poultry litter to soil and plant","volume":"327","author":"Tripathi","year":"2023","journal-title":"Environ. Pollut."},{"key":"ref_67","doi-asserted-by":"crossref","first-page":"172905","DOI":"10.1016\/j.scitotenv.2024.172905","article-title":"Leaching of antibiotic resistance genes and microbial assemblages following poultry litter applications in karst and non-karst landscapes","volume":"934","author":"Seyoum","year":"2024","journal-title":"Sci. Total Environ."},{"key":"ref_68","doi-asserted-by":"crossref","first-page":"310","DOI":"10.1016\/j.wasman.2023.12.005","article-title":"Effect of on-farm poultry litter composting processes on physicochemical, biological, and toxicological parameters and reduction of antibiotics and antibiotic-resistant Escherichia coli","volume":"174","author":"Okada","year":"2024","journal-title":"Waste Manag."},{"key":"ref_69","doi-asserted-by":"crossref","first-page":"1127","DOI":"10.14202\/vetworld.2025.1127-1136","article-title":"Competing microorganisms with exclusion effects against multidrug-resistant Salmonella Infantis in chicken litter supplemented with growth-promoting antimicrobials","volume":"18","author":"Barrero","year":"2025","journal-title":"Vet. World"},{"key":"ref_70","doi-asserted-by":"crossref","unstructured":"Gomes, B., Dias, M., Cervantes, R., Pena, P., Santos, J., Vasconcelos Pinto, M., and Viegas, C. (2023). One Health Approach to Tackle Microbial Contamination on Poultries\u2014A Systematic Review. Toxics, 11.","DOI":"10.3390\/toxics11040374"},{"key":"ref_71","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1186\/s42522-020-00014-7","article-title":"Extended-spectrum \u00df-lactamase-producing Escherichia coli among humans, chickens and poultry environments in Abuja, Nigeria","volume":"2","author":"Aworh","year":"2020","journal-title":"One Health Outlook"},{"key":"ref_72","doi-asserted-by":"crossref","first-page":"105755","DOI":"10.1016\/j.meegid.2025.105755","article-title":"Pathogens and drug resistance or virulence genes from animals and surrounding environment in Shenzhen, 2023 using targeted next-generation sequencing","volume":"131","author":"Niu","year":"2025","journal-title":"Infect. Genet. Evol."},{"key":"ref_73","doi-asserted-by":"crossref","unstructured":"Garcia-Llorens, J., Monroy, I., Torres-Boncompte, J., Soriano, J., Catal\u00e1-Gregori, P., and Sevilla-Navarro, S. (2024). Tracking the Prevalence of Antibiotic Resistance in Enterococcus Within the Spanish Poultry Industry: Insights from a One Health Approach. Antibiotics, 14.","DOI":"10.3390\/antibiotics14010016"},{"key":"ref_74","doi-asserted-by":"crossref","first-page":"wrae261","DOI":"10.1093\/ismejo\/wrae261","article-title":"Occurrence of \u201cunder-the-radar\u201d antibiotic resistance in anthropogenically affected produce","volume":"19","author":"Davidovich","year":"2025","journal-title":"ISME J."},{"key":"ref_75","doi-asserted-by":"crossref","unstructured":"Rajendiran, S., Veloo, Y., Thahir, S.S.A., and Shaharudin, R. (2022). Resistance towards Critically Important Antimicrobials among Enterococcus faecalis and E. faecium in Poultry Farm Environments in Selangor, Malaysia. Antibiotics, 11.","DOI":"10.3390\/antibiotics11081118"},{"key":"ref_76","doi-asserted-by":"crossref","first-page":"000775-v6","DOI":"10.1099\/acmi.0.000775.v6","article-title":"Identification of Salmonella enterica biovars Gallinarum and Pullorum and their antibiotic resistance pattern in integrated crop-livestock farms and poultry meats","volume":"6","author":"Julianingsih","year":"2024","journal-title":"Access Microbiol."},{"key":"ref_77","doi-asserted-by":"crossref","first-page":"420","DOI":"10.1021\/acs.est.5b03522","article-title":"Metagenomic Assembly Reveals Hosts of Antibiotic Resistance Genes and the Shared Resistome in Pig, Chicken, and Human Feces","volume":"50","author":"Ma","year":"2016","journal-title":"Environ. Sci. Technol."},{"key":"ref_78","doi-asserted-by":"crossref","first-page":"105649","DOI":"10.1016\/j.envint.2020.105649","article-title":"Integrated metagenomic and metatranscriptomic profiling reveals differentially expressed resistomes in human, chicken, and pig gut microbiomes","volume":"138","author":"Wang","year":"2020","journal-title":"Environ. Int."},{"key":"ref_79","doi-asserted-by":"crossref","first-page":"174734","DOI":"10.1016\/j.scitotenv.2024.174734","article-title":"Metagenomic profiling uncovers microbiota and antibiotic resistance patterns across human, chicken, pig fecal, and soil environments","volume":"947","author":"Bai","year":"2024","journal-title":"Sci. Total Environ."},{"key":"ref_80","doi-asserted-by":"crossref","unstructured":"Xiong, W., Wang, Y., Sun, Y., Ma, L., Zeng, Q., Jiang, X., Li, A., Zeng, Z., and Zhang, T. (2018). Antibiotic-mediated changes in the fecal microbiome of broiler chickens define the incidence of antibiotic resistance genes. Microbiome, 6.","DOI":"10.1186\/s40168-018-0419-2"},{"key":"ref_81","doi-asserted-by":"crossref","unstructured":"Coltro, E.P., Cafferati Beltrame, L., Da Cunha, C.R., Zamparette, C.P., Feltrin, C., Benetti Filho, V., Vanny, P.D.A., Beduschi Filho, S., Klein, T.C.R., and Scheffer, M.C. (2025). Evaluation of the resistome and gut microbiome composition of hospitalized patients in a health unit of southern Brazil coming from a high animal husbandry production region. Front. Antibiot., 3.","DOI":"10.3389\/frabi.2024.1489356"},{"key":"ref_82","doi-asserted-by":"crossref","first-page":"152144","DOI":"10.1016\/j.scitotenv.2021.152144","article-title":"Structure of the manure resistome and the associated mobilome for assessing the risk of antimicrobial resistance transmission to crops","volume":"808","author":"Korzeniewska","year":"2022","journal-title":"Sci. Total Environ."},{"key":"ref_83","doi-asserted-by":"crossref","unstructured":"Feng, Y., Lu, X., Zhao, J., Li, H., Xu, J., Li, Z., Wang, M., Peng, Y., Tian, T., and Yuan, G. (2025). Regional antimicrobial resistance gene flow among the One Health sectors in China. Microbiome, 13.","DOI":"10.1186\/s40168-024-01983-x"},{"key":"ref_84","doi-asserted-by":"crossref","unstructured":"Xin, X., Yin, Y., Kong, J., Wang, M., Wang, Z., and Li, R. (2025). Genomic Insights into Carbapenem-Resistant Organisms Producing New Delhi Metallo-\u03b2-Lactamase in Live Poultry Markets. Microorganisms, 13.","DOI":"10.20944\/preprints202504.1019.v1"},{"key":"ref_85","doi-asserted-by":"crossref","unstructured":"Hurtado, A., Ocejo, M., Oporto, B., Lav\u00edn, J.L., Rodr\u00edguez, R., Marcos, M.\u00c1., Urrutikoetxea-Guti\u00e9rrez, M., Alkorta, M., and Marim\u00f3n, J.M. (2025). A One Health approach for the genomic characterization of antibiotic-resistant Campylobacter isolates using Nanopore whole-genome sequencing. Front. Microbiol., 16.","DOI":"10.3389\/fmicb.2025.1540210"},{"key":"ref_86","doi-asserted-by":"crossref","unstructured":"Flatgard, B.M., Williams, A.D., Amin, M.B., Hobman, J.L., Stekel, D.J., Rousham, E.K., and Islam, M.A. (2024). Tracking antimicrobial resistance transmission in urban and rural communities in Bangladesh: A One Health study of genomic diversity of ESBL-producing and carbapenem-resistant Escherichia coli. Microbiol. Spectr., 12.","DOI":"10.1128\/spectrum.03956-23"},{"key":"ref_87","doi-asserted-by":"crossref","unstructured":"Njoga, E.O., Nwanta, J.A., and Chah, K.F. (2023). Detection of multidrug-resistant Campylobacter species from food-producing animals and humans in Nigeria: Public health implications and one health control measures. Comp. Immunol. Microbiol. Infect. Dis., 103.","DOI":"10.1016\/j.cimid.2023.102083"},{"key":"ref_88","doi-asserted-by":"crossref","unstructured":"James, E.M., Kimera, Z.I., Mgaya, F.X., Niccodem, E.M., Efraim, J.E., Matee, M.I., and Mbugi, E.V. (2025). Occurrence of virulence genes in multidrug-resistant Escherichia coli isolates from humans, animals, and the environment: One health perspective. PLoS ONE, 20.","DOI":"10.1371\/journal.pone.0317874"},{"key":"ref_89","doi-asserted-by":"crossref","first-page":"336","DOI":"10.4315\/JFP-21-273","article-title":"Virulence Genotype and Phenotype of Multiple Antimicrobial-Resistant Escherichia coli Isolates from Broilers Assessed from a \u201cOne-Health\u201d Perspective","volume":"85","author":"Rehman","year":"2022","journal-title":"J. Food Prot."},{"key":"ref_90","doi-asserted-by":"crossref","first-page":"701","DOI":"10.3201\/eid3004.231031","article-title":"A One Health Perspective on Salmonella enterica Serovar Infantis, an Emerging Human Multidrug-Resistant Pathogen","volume":"30","author":"Mattock","year":"2024","journal-title":"Emerg. Infect. Dis."},{"key":"ref_91","doi-asserted-by":"crossref","unstructured":"Zaidi, S.E.Z., Zaheer, R., Poulin-Laprade, D., Scott, A., Rehman, M.A., Diarra, M., Topp, E., Domselaar, G.V., Zovoilis, A., and McAllister, T.A. (2023). Comparative Genomic Analysis of Enterococci across Sectors of the One Health Continuum. Microorganisms, 11.","DOI":"10.3390\/microorganisms11030727"},{"key":"ref_92","doi-asserted-by":"crossref","first-page":"dlae094","DOI":"10.1093\/jacamr\/dlae094","article-title":"Non-prescription sale and dispensing of antibiotics for prophylaxis in broiler chickens in Lusaka District, Zambia: Findings and implications on one health","volume":"6","author":"Mudenda","year":"2024","journal-title":"JAC-Antimicrob. Resist."},{"key":"ref_93","doi-asserted-by":"crossref","first-page":"175705","DOI":"10.1016\/j.scitotenv.2024.175705","article-title":"Epidemiology and antimicrobial resistance profiles of pathogenic Escherichia coli from commercial swine and poultry abattoirs and farms in South Africa: A One Health approach","volume":"951","author":"Ogundare","year":"2024","journal-title":"Sci. Total Environ."},{"key":"ref_94","doi-asserted-by":"crossref","first-page":"27","DOI":"10.47665\/tb.42.1.005","article-title":"Integrating One Health strategy to mitigate antibiotic resistance in Salmonella: Insights from poultry isolates in Southeast Asia","volume":"42","author":"Kamaruzaman","year":"2025","journal-title":"Trop. Biomed."},{"key":"ref_95","doi-asserted-by":"crossref","first-page":"125177","DOI":"10.1016\/j.envpol.2024.125177","article-title":"Cross-environmental cycling of antimicrobial resistance in agricultural areas fertilized with poultry litter: A one health approach","volume":"363","author":"Lopes","year":"2024","journal-title":"Environ. Pollut."},{"key":"ref_96","doi-asserted-by":"crossref","first-page":"84","DOI":"10.1111\/zph.13087","article-title":"Antibiotic resistance through the lens of One Health: A study from an urban and a rural area in Sri Lanka","volume":"71","author":"Gunasekara","year":"2024","journal-title":"Zoonoses Public Health"},{"key":"ref_97","doi-asserted-by":"crossref","unstructured":"Menck-Costa, M.F., Baptista, A.A.S., Sanches, M.S., Santos, B.Q.D., Cicero, C.E., Kitagawa, H.Y., Justino, L., Medeiros, L.P., Souza, M.D., and Rocha, S.P.D. (2023). Resistance and Virulence Surveillance in Escherichia coli Isolated from Commercial Meat Samples: A One Health Approach. Microorganisms, 11.","DOI":"10.3390\/microorganisms11112712"},{"key":"ref_98","doi-asserted-by":"crossref","unstructured":"Chala, G., Eguale, T., Abunna, F., Asrat, D., and Stringer, A. (2021). Identification and Characterization of Campylobacter Species in Livestock, Humans, and Water in Livestock Owning Households of Peri-urban Addis Ababa, Ethiopia: A One Health Approach. Front. Public Health, 9.","DOI":"10.3389\/fpubh.2021.750551"},{"key":"ref_99","doi-asserted-by":"crossref","first-page":"101053","DOI":"10.1016\/j.onehlt.2025.101053","article-title":"A review of antimicrobial resistance challenges in Nigeria: The need for a one health approach","volume":"20","author":"Alabi","year":"2025","journal-title":"One Health"},{"key":"ref_100","doi-asserted-by":"crossref","unstructured":"Zhang, S., Yang, J., Abbas, M., Yang, Q., Li, Q., Liu, M., Zhu, D., Wang, M., Tian, B., and Cheng, A. (2025). Threats across boundaries: The spread of ESBL-positive Enterobacteriaceae bacteria and its challenge to the \u201cone health\u201d concept. Front. Microbiol., 16.","DOI":"10.3389\/fmicb.2025.1496716"},{"key":"ref_101","doi-asserted-by":"crossref","first-page":"25","DOI":"10.1186\/s42269-025-01317-3","article-title":"Revisiting antibiotic stewardship: Veterinary contributions to combating antimicrobial resistance globally","volume":"49","author":"Alhassan","year":"2025","journal-title":"Bull. Natl. Res. Cent."},{"key":"ref_102","doi-asserted-by":"crossref","first-page":"53","DOI":"10.17645\/pag.v8i4.3356","article-title":"Adapting to a Global Health Challenge: Managing Antimicrobial Resistance in the Nordics","volume":"8","author":"Time","year":"2020","journal-title":"Politics Gov."},{"key":"ref_103","unstructured":"WOAH (2025, July 16). Strategy on Antimicrobial Resistance and Prudent Use of Antimicrobials. Available online: https:\/\/www.woah.org\/app\/uploads\/2021\/03\/en-amr-strategy-2022-final-single-pages.pdf."},{"key":"ref_104","unstructured":"Food and Agriculture Organization of the United Nations (2022). Fao Action Plan on Antimicrobial Resistance 2021\u20132025: Supporting Innovation and Resilience. Food and Agriculture Sectors, Food & Agriculture Organization."},{"key":"ref_105","unstructured":"EMA Committee for Medicinal Products for Veterinary Use (CVMP) and EFSA Panel on Biological Hazards (BIOHAZ), Murphy, D., Ricci, A., Auce, Z., Beechinor, J.G., Bergendahl, H., Breathnach, R., Bure\u0161, J., Duarte Da Silva, J.P., and Hederov\u00e1, J. (2017). EMA and EFSA Joint Scientific Opinion on measures to reduce the need to use antimicrobial agents in animal husbandry in the European Union, and the resulting impacts on food safety (RONAFA). EFSA J., 15, e04666."},{"key":"ref_106","doi-asserted-by":"crossref","unstructured":"Franklin, A.M., Weller, D.L., Durso, L.M., Bagley, M., Davis, B.C., Frye, J.G., Grim, C.J., Ibekwe, A.M., Jahne, M.A., and Keely, S.P. (2024). A one health approach for monitoring antimicrobial resistance: Developing a national freshwater pilot effort. Front. Water, 6.","DOI":"10.3389\/frwa.2024.1359109"},{"key":"ref_107","unstructured":"Smits, C.H., Li, D., and den Hartog, L. (2021). Animal Nutrition Strategies and Options to Reduce the Use of Antimicrobials in Animal Production, FAO."},{"key":"ref_108","unstructured":"Antimicrobial Advice Ad Hoc Expert Group (2025, July 16). Updated Advice on the Use of Colistin Productsin Animals Within the European Union: Development of Resistance and Possible Impact on Human and Animal Health (EMA\/CVMP\/CHMP\/231573\/2016). Available online: https:\/\/www.ema.europa.eu\/en\/documents\/scientific-guideline\/updated-advice-use-colistin-products-animals-within-european-union-development-resistance-and-possible-impact-human-and-animal-health_en.pdf-0."},{"key":"ref_109","unstructured":"FAO (2025, July 16). Assessment Tool for Laboratories and Antimicrobial Resistance Surveillance Systems (ATLASS). Available online: https:\/\/www.fao.org\/antimicrobial-resistance\/resources\/tools\/ATLASS\/en\/."}],"container-title":["Journal of Xenobiotics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.mdpi.com\/2039-4713\/15\/4\/129\/pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,10,9]],"date-time":"2025-10-09T18:26:53Z","timestamp":1760034413000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.mdpi.com\/2039-4713\/15\/4\/129"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,8,8]]},"references-count":109,"journal-issue":{"issue":"4","published-online":{"date-parts":[[2025,8]]}},"alternative-id":["jox15040129"],"URL":"https:\/\/doi.org\/10.3390\/jox15040129","relation":{},"ISSN":["2039-4713"],"issn-type":[{"value":"2039-4713","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,8,8]]}}}