{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,5,2]],"date-time":"2026-05-02T22:40:57Z","timestamp":1777761657293,"version":"3.51.4"},"reference-count":83,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-017"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-037"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-012"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-029"},{"start":{"date-parts":[[2026,3,1]],"date-time":"2026-03-01T00:00:00Z","timestamp":1772323200000},"content-version":"stm-asf","delay-in-days":0,"URL":"https:\/\/doi.org\/10.15223\/policy-004"}],"funder":[{"DOI":"10.13039\/501100003725","name":"National Research Foundation of Korea","doi-asserted-by":"publisher","award":["NRF-2021R1A5A1033157"],"award-info":[{"award-number":["NRF-2021R1A5A1033157"]}],"id":[{"id":"10.13039\/501100003725","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100016039","name":"Center for Depression Research and Clinical Care, University of Texas Southwestern Medical Center","doi-asserted-by":"publisher","award":["RS-2024-00509487"],"award-info":[{"award-number":["RS-2024-00509487"]}],"id":[{"id":"10.13039\/100016039","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Science of The Total Environment"],"published-print":{"date-parts":[[2026,3]]},"DOI":"10.1016\/j.scitotenv.2026.181588","type":"journal-article","created":{"date-parts":[[2026,2,24]],"date-time":"2026-02-24T08:13:17Z","timestamp":1771920797000},"page":"181588","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"C","title":["Whole-genome shotgun metagenomics reveals environmental perturbations in the gut microbiome and resistome of wild raccoon dogs rescued at a wildlife center"],"prefix":"10.1016","volume":"1021","author":[{"given":"Junbum","family":"Lee","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sungjoo","family":"Hong","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jeongheon","family":"Choi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Hyokeun","family":"Song","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jang-Hee","family":"Han","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Young Deok","family":"Suh","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Seong Chan","family":"Yeon","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Seongbeom","family":"Cho","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"78","reference":[{"key":"10.1016\/j.scitotenv.2026.181588_bb0005","doi-asserted-by":"crossref","first-page":"D690","DOI":"10.1093\/nar\/gkac920","article-title":"CARD 2023: expanded curation, support for machine learning, and resistome prediction at the Comprehensive Antibiotic Resistance Database","volume":"51","author":"Alcock","year":"2023","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0010","doi-asserted-by":"crossref","DOI":"10.1093\/bioinformatics\/btaf147","article-title":"CoverM: read alignment statistics for metagenomics","volume":"41","author":"Aroney","year":"2025","journal-title":"Bioinformatics"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0015","doi-asserted-by":"crossref","DOI":"10.7554\/eLife.65088","article-title":"Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3","volume":"10","author":"Beghini","year":"2021","journal-title":"eLife"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0020","doi-asserted-by":"crossref","first-page":"3444","DOI":"10.3390\/nu12113444","article-title":"Fructose-induced intestinal microbiota shift following two types of short-term high-fructose dietary phases","volume":"12","author":"Beisner","year":"2020","journal-title":"Nutrients"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0025","doi-asserted-by":"crossref","first-page":"632","DOI":"10.1038\/s41587-019-0100-8","article-title":"Taxonomic assignment of uncultivated prokaryotic virus genomes is enabled by gene-sharing networks","volume":"37","author":"Bin Jang","year":"2019","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0030","doi-asserted-by":"crossref","first-page":"1633","DOI":"10.1038\/s41587-023-01688-w","article-title":"Extending and improving metagenomic taxonomic profiling with uncharacterized species using MetaPhlAn 4","volume":"41","author":"Blanco-M\u00edguez","year":"2023","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0035","doi-asserted-by":"crossref","DOI":"10.1016\/j.jff.2020.103974","article-title":"Intestinimonas-like bacteria are important butyrate producers that utilize N\u03b5-fructosyllysine and lysine in formula-fed infants and adults","volume":"70","author":"Bui","year":"2020","journal-title":"J. Funct. Foods"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0040","doi-asserted-by":"crossref","DOI":"10.1016\/j.envres.2024.120220","article-title":"Captivity increased the abundance of high-risk antibiotic resistance genes in the giant panda gut microbiome","volume":"263","author":"Cai","year":"2024","journal-title":"Environ. Res."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0045","doi-asserted-by":"crossref","DOI":"10.3389\/fgene.2021.658256","article-title":"De novo genome assembly of the raccoon dog (Nyctereutes procyonoides)","volume":"12","author":"Chueca","year":"2021","journal-title":"Front. Genet."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0050","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0265514","article-title":"A systematic review of factors affecting wildlife survival during rehabilitation and release","volume":"17","author":"Cope","year":"2022","journal-title":"PloS One"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0055","doi-asserted-by":"crossref","DOI":"10.1016\/j.landurbplan.2022.104581","article-title":"Predicting current and future species distribution of the raccoon dog (Nyctereutes procyonoides) in Shanghai, China","volume":"228","author":"Diao","year":"2022","journal-title":"Landsc. Urban Plan."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0060","doi-asserted-by":"crossref","DOI":"10.1016\/j.envpol.2021.118406","article-title":"A closer look on the variety and abundance of the faecal resistome of wild boar","volume":"292","author":"Dias","year":"2022","journal-title":"Environ. Pollut."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0065","doi-asserted-by":"crossref","DOI":"10.1093\/jambio\/lxaf017","article-title":"Making sense of sentinels: wildlife as the One Health bridge for environmental antimicrobial resistance surveillance","volume":"136","author":"Doyle","year":"2025","journal-title":"J. Appl. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0070","doi-asserted-by":"crossref","first-page":"4","DOI":"10.1186\/s42523-020-00068-y","article-title":"Signatures of landscape and captivity in the gut microbiota of southern hairy-nosed wombats (Lasiorhinus latifrons)","volume":"3","author":"Eisenhofer","year":"2021","journal-title":"Anim. Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0075","doi-asserted-by":"crossref","first-page":"241","DOI":"10.1128\/CMR.00117-13","article-title":"OXA \u03b2-lactamases","volume":"27","author":"Evans","year":"2014","journal-title":"Clin. Microbiol. Rev."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0080","doi-asserted-by":"crossref","first-page":"379","DOI":"10.1111\/1749-4877.12630","article-title":"Seasonal variations in the composition and functional profiles of gut microbiota reflect dietary changes in plateau pikas","volume":"17","author":"Fan","year":"2022","journal-title":"Integr. Zool."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0085","doi-asserted-by":"crossref","DOI":"10.3390\/ijms22115454","article-title":"Processed animal proteins from insect and poultry by-products in a fish meal-free diet for rainbow trout: impact on intestinal microbiota and inflammatory markers","volume":"22","author":"Gaudioso","year":"2021","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0090","doi-asserted-by":"crossref","DOI":"10.1186\/s40168-020-00990-y","article-title":"VirSorter2: a multi-classifier, expert-guided approach to detect diverse DNA and RNA viruses","volume":"9","author":"Guo","year":"2021","journal-title":"Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0095","doi-asserted-by":"crossref","first-page":"9","DOI":"10.3106\/1348-6160(2006)31[9:SFHOTR]2.0.CO;2","article-title":"Seasonal food habits of the raccoon dog at a western suburb of Tokyo","volume":"31","author":"Hirasawa","year":"2006","journal-title":"Mammal Study"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0100","doi-asserted-by":"crossref","first-page":"1631","DOI":"10.1292\/jvms.17-0456","article-title":"Population structure of the raccoon dog (Nyctereutes procyonoides) using microsatellite loci analysis in South Korea: implications for disease management","volume":"80","author":"Hong","year":"2018","journal-title":"J. Vet. Med. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0105","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0293169","article-title":"Importance of mobile genetic elements for dissemination of antimicrobial resistance in metagenomic sewage samples across the world","volume":"18","author":"Johansson","year":"2023","journal-title":"PloS One"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0110","doi-asserted-by":"crossref","first-page":"90","DOI":"10.1186\/s40168-020-00867-0","article-title":"VIBRANT: automated recovery, annotation and curation of microbial viruses, and evaluation of viral community function from genomic sequences","volume":"8","author":"Kieft","year":"2020","journal-title":"Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0115","doi-asserted-by":"crossref","first-page":"20993","DOI":"10.1038\/s41598-023-48221-2","article-title":"Comparative analyses of the faecal resistome against \u03b2-lactam and quinolone antibiotics in humans and livestock using metagenomic sequencing","volume":"13","author":"Kim","year":"2023","journal-title":"Sci. Rep."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0120","doi-asserted-by":"crossref","DOI":"10.1111\/1758-2229.13261","article-title":"Zoonotic bacterial and parasitic intestinal pathogens in foxes, raccoons and other predators from eastern Germany","volume":"16","author":"Kittl","year":"2024","journal-title":"Environ. Microbiol. Rep."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0125","series-title":"pheatmap: Pretty Heatmaps. R package version 1.0. 12","author":"Kolde","year":"2019"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0130","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pcbi.1004226","article-title":"Sparse and compositionally robust inference of microbial ecological networks","volume":"11","author":"Kurtz","year":"2015","journal-title":"PLoS Comput. Biol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0135","doi-asserted-by":"crossref","DOI":"10.3389\/fcimb.2022.873989","article-title":"Wildlife and antibiotic resistance","volume":"12","author":"Laborda","year":"2022","journal-title":"Front. Cell. Infect. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0140","doi-asserted-by":"crossref","first-page":"203","DOI":"10.1128\/AEM.01254-08","article-title":"Quantifying nonspecific TEM \u03b2-lactamase (bla TEM) genes in a wastewater stream","volume":"75","author":"Lachmayr","year":"2009","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0145","doi-asserted-by":"crossref","first-page":"357","DOI":"10.1038\/nmeth.1923","article-title":"Fast gapped-read alignment with Bowtie 2","volume":"9","author":"Langmead","year":"2012","journal-title":"Nat. Methods"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0150","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":"10.1016\/j.scitotenv.2026.181588_bb0155","doi-asserted-by":"crossref","first-page":"534","DOI":"10.1136\/gutjnl-2020-323778","article-title":"Dysosmobacter welbionis is a newly isolated human commensal bacterium preventing diet-induced obesity and metabolic disorders in mice","volume":"71","author":"Le Roy","year":"2022","journal-title":"Gut"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0160","first-page":"1792","article-title":"Succinic acid production by Anaerobiospirillum succiniciproducens ATCC 29305 growing on galactose, galactose\/glucose, and galactose\/lactose","volume":"18","author":"Lee","year":"2008","journal-title":"J. Microbiol. Biotechnol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0165","doi-asserted-by":"crossref","DOI":"10.3389\/fmicb.2022.873856","article-title":"Prevalence, characteristics, and clonal distribution of Escherichia coli carrying mobilized colistin resistance gene mcr-1.1 in swine farms and their differences according to swine production stages","volume":"13","author":"Lee","year":"2022","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0170","doi-asserted-by":"crossref","first-page":"1983","DOI":"10.1109\/TVCG.2014.2346248","article-title":"UpSet: visualization of intersecting sets","volume":"20","author":"Lex","year":"2014","journal-title":"IEEE Trans. Vis. Comput. Graph."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0175","doi-asserted-by":"crossref","first-page":"39","DOI":"10.1016\/j.gpb.2018.12.003","article-title":"Antibiotic treatment drives the diversification of the human gut resistome","volume":"17","author":"Li","year":"2019","journal-title":"Genomics Proteomics Bioinformatics"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0180","doi-asserted-by":"crossref","DOI":"10.1038\/s41522-023-00388-2","article-title":"Gut microbiome responds compositionally and functionally to the seasonal diet variations in wild gibbons","volume":"9","author":"Li","year":"2023","journal-title":"NPJ Biofilms Microbiomes"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0185","doi-asserted-by":"crossref","first-page":"135","DOI":"10.1007\/s00203-019-01721-0","article-title":"Comparative analysis of the gut microbiota of the blue fox (Alopex lagopus) and raccoon dog (Nyctereutes procyonoides)","volume":"202","author":"Liu","year":"2020","journal-title":"Arch. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0190","doi-asserted-by":"crossref","first-page":"220","DOI":"10.1038\/nature11550","article-title":"Diversity, stability and resilience of the human gut microbiota","volume":"489","author":"Lozupone","year":"2012","journal-title":"Nature"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0195","doi-asserted-by":"crossref","first-page":"21","DOI":"10.1038\/s41396-022-01315-7","article-title":"Dissecting microbial communities and resistomes for interconnected humans, soil, and livestock","volume":"17","author":"Maciel-Guerra","year":"2023","journal-title":"ISME J."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0200","doi-asserted-by":"crossref","DOI":"10.1016\/j.watres.2025.123102","article-title":"Longitudinal metagenomic analysis on antibiotic resistome, mobilome, and microbiome of river ecosystems in a sub-tropical metropolitan city","volume":"274","author":"Mao","year":"2025","journal-title":"Water Res."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0205","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0061217","article-title":"Phyloseq: an R package for reproducible interactive analysis and graphics of microbiome census data","volume":"8","author":"McMurdie","year":"2013","journal-title":"PloS One"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0210","doi-asserted-by":"crossref","first-page":"443","DOI":"10.4161\/viru.28196","article-title":"Functional metagenomics for the investigation of antibiotic resistance","volume":"5","author":"Mullany","year":"2014","journal-title":"Virulence"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0215","doi-asserted-by":"crossref","first-page":"126","DOI":"10.1186\/s13071-022-05245-3","article-title":"Invasive raccoon (Procyon lotor) and raccoon dog (Nyctereutes procyonoides) as potential reservoirs of tick-borne pathogens: data review from native and introduced areas","volume":"15","author":"My\u015bliwy","year":"2022","journal-title":"Parasit. Vectors"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0220","doi-asserted-by":"crossref","first-page":"578","DOI":"10.1038\/s41587-020-00774-7","article-title":"CheckV assesses the quality and completeness of metagenome-assembled viral genomes","volume":"39","author":"Nayfach","year":"2021","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0225","doi-asserted-by":"crossref","DOI":"10.3390\/ijms22094965","article-title":"Seasonal regulation of metabolism: the effect of wintertime fasting and autumnal fattening on key central regulators of metabolism and the metabolic profile of the raccoon dog (Nyctereutes Procyonoides)","volume":"22","author":"Niiranen","year":"2021","journal-title":"Int. J. Mol. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0230","doi-asserted-by":"crossref","first-page":"824","DOI":"10.1101\/gr.213959.116","article-title":"metaSPAdes: a new versatile metagenomic assembler","volume":"27","author":"Nurk","year":"2017","journal-title":"Genome Res."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0235","series-title":"Package \u2018vegan\u2019. Community ecology package, version","first-page":"1","volume":"2","author":"Oksanen","year":"2013"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0240","doi-asserted-by":"crossref","first-page":"726","DOI":"10.1016\/j.chom.2022.03.002","article-title":"Dynamics of the normal gut microbiota: a longitudinal one-year population study in Sweden","volume":"30","author":"Olsson","year":"2022","journal-title":"Cell Host Microbe"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0245","doi-asserted-by":"crossref","DOI":"10.1038\/s41467-018-06393-w","article-title":"Maternal gut and breast milk microbiota affect infant gut antibiotic resistome and mobile genetic elements","volume":"9","author":"P\u00e4rn\u00e4nen","year":"2018","journal-title":"Nat. Commun."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0250","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1186\/s12866-019-1491-x","article-title":"Dietary probiotics have different effects on the composition of fecal microbiota in farmed raccoon dog (Nyctereutes procyonoides) and silver fox (Vulpes vulpes fulva)","volume":"19","author":"Peng","year":"2019","journal-title":"BMC Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0255","doi-asserted-by":"crossref","DOI":"10.3389\/fvets.2023.1158588","article-title":"An overview of carbapenem-resistant organisms from food-producing animals, seafood, aquaculture, companion animals, and wildlife","volume":"10","author":"Ram\u00edrez-Castillo","year":"2023","journal-title":"Front. Vet. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0260","doi-asserted-by":"crossref","DOI":"10.1186\/s40168-021-01170-2","article-title":"Gut microbiota response to antibiotics is personalized and depends on baseline microbiota","volume":"9","author":"Rashidi","year":"2021","journal-title":"Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0265","doi-asserted-by":"crossref","first-page":"1643","DOI":"10.3390\/ani15111643","article-title":"A preliminary investigation of the gastrointestinal bacterial microbiomes of barred owls (Strix varia) admitted to a wildlife hospital","volume":"15","author":"Rhim","year":"2025","journal-title":"Animals"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0270","doi-asserted-by":"crossref","DOI":"10.3389\/fmars.2023.1159754","article-title":"Tracing the invertebrate herpesviruses in the global sequence datasets","volume":"10","author":"Rosani","year":"2023","journal-title":"Front. Mar. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0275","doi-asserted-by":"crossref","first-page":"134","DOI":"10.1038\/s41522-024-00580-y","article-title":"Diversity of bacteria within the human gut and its contribution to the functional unity of holobionts","volume":"10","author":"Rosenberg","year":"2024","journal-title":"npj Biofilms Microbiomes"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0280","doi-asserted-by":"crossref","DOI":"10.1080\/19490976.2023.2192522","article-title":"ViroProfiler: a containerized bioinformatics pipeline for viral metagenomic data analysis","volume":"15","author":"Ru","year":"2023","journal-title":"Gut Microbes"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0285","doi-asserted-by":"crossref","DOI":"10.1186\/s42523-025-00449-1","article-title":"Antimicrobial treatment affects the microbiome and resistome of both treated and untreated rehabilitating harbour seals (Phoca vitulina)","volume":"7","author":"Rubio-Garcia","year":"2025","journal-title":"Anim. Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0290","doi-asserted-by":"crossref","DOI":"10.1038\/s41598-020-78849-3","article-title":"Global trends in antimicrobial use in aquaculture","volume":"10","author":"Schar","year":"2020","journal-title":"Sci. Rep."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0295","doi-asserted-by":"crossref","DOI":"10.1016\/j.vetmic.2020.108643","article-title":"Impacts and characteristics of antimicrobial resistance of Escherichia coli isolates by administration of third-generation cephalosporins in layer hatcheries","volume":"243","author":"Seo","year":"2020","journal-title":"Vet. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0300","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1186\/s40168-025-02086-x","article-title":"Environmental drivers of the resistome across the Baltic Sea","volume":"13","author":"Serrana","year":"2025","journal-title":"Microbiome"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0305","doi-asserted-by":"crossref","DOI":"10.3390\/v11100968","article-title":"Gut DNA virome diversity and its association with host bacteria regulate inflammatory phenotype and neuronal immunotoxicity in experimental gulf war illness","volume":"11","author":"Seth","year":"2019","journal-title":"Viruses"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0310","doi-asserted-by":"crossref","DOI":"10.1099\/jmm.0.001631","article-title":"Antimicrobial resistance in Escherichia coli isolates from Japanese raccoon dogs (Nyctereutes viverrinus) in Kanagawa prefecture, Japan: emergence of extended-spectrum cephalosporin-resistant human-related clones","volume":"71","author":"Shimizu","year":"2022","journal-title":"J. Med. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0315","doi-asserted-by":"crossref","first-page":"6155","DOI":"10.1038\/s41467-022-33871-z","article-title":"Structural insight into Tn3 family transposition mechanism","volume":"13","author":"Shkumatov","year":"2022","journal-title":"Nat. Commun."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0320","doi-asserted-by":"crossref","DOI":"10.1128\/spectrum.01163-22","article-title":"Environmental perturbations during the rehabilitation of wild migratory birds induce gut microbiome alteration and antibiotic resistance acquisition","volume":"10","author":"Song","year":"2022","journal-title":"Microbiol. Spectr."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0325","doi-asserted-by":"crossref","first-page":"1026","DOI":"10.1038\/nbt.3988","article-title":"MMseqs2 enables sensitive protein sequence searching for the analysis of massive data sets","volume":"35","author":"Steinegger","year":"2017","journal-title":"Nat. Biotechnol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0330","doi-asserted-by":"crossref","DOI":"10.1016\/j.envres.2024.119861","article-title":"Metagenomic insights into resistome, mobilome and virulome in different fecal waste","volume":"262","author":"Su","year":"2024","journal-title":"Environ. Res."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0335","article-title":"Environmental remodeling of human gut microbiota and antibiotic resistome in livestock farms","volume":"11","author":"Sun","year":"2020","journal-title":"Nat. Commun."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0340","doi-asserted-by":"crossref","first-page":"68","DOI":"10.2108\/zs170116","article-title":"A comparison of food habits between Japanese marten and raccoon dog in Western Tokyo with reference to fruit use","volume":"35","author":"Takatsuki","year":"2018","journal-title":"Zoolog. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0345","doi-asserted-by":"crossref","first-page":"159","DOI":"10.1016\/j.csda.2004.03.005","article-title":"PLS path modeling","volume":"48","author":"Tenenhaus","year":"2005","journal-title":"Comput. Stat. Data Anal."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0350","doi-asserted-by":"crossref","DOI":"10.1080\/22221751.2024.2361025","article-title":"First molecular evidence of hepatitis E virus in farmed raccoon dogs","volume":"13","author":"Tian","year":"2024","journal-title":"Emerg. Microbes Infect."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0355","doi-asserted-by":"crossref","first-page":"1893","DOI":"10.1136\/gutjnl-2024-333378","article-title":"What defines a healthy gut microbiome?","volume":"73","author":"Van Hul","year":"2024","journal-title":"Gut"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0360","doi-asserted-by":"crossref","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":"10.1016\/j.scitotenv.2026.181588_bb0365","doi-asserted-by":"crossref","DOI":"10.1080\/19490976.2023.2296603","article-title":"Microbial collaborations and conflicts: unraveling interactions in the gut ecosystem","volume":"16","author":"Wang","year":"2024","journal-title":"Gut Microbes"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0370","doi-asserted-by":"crossref","DOI":"10.1128\/AEM.00484-21","article-title":"Comparison of antimicrobial-resistant Escherichia coli isolates from urban raccoons and domestic dogs","volume":"87","author":"Worsley-Tonks","year":"2021","journal-title":"Appl. Environ. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0375","doi-asserted-by":"crossref","first-page":"175","DOI":"10.1038\/nrmicro1614","article-title":"The antibiotic resistome: the nexus of chemical and genetic diversity","volume":"5","author":"Wright","year":"2007","journal-title":"Nat. Rev. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0380","doi-asserted-by":"crossref","first-page":"1017","DOI":"10.1007\/s00284-021-02357-4","article-title":"Effects of chronic stress on the fecal microbiome of Malayan pangolins (Manis javanica) rescued from the illegal wildlife trade","volume":"78","author":"Yan","year":"2021","journal-title":"Curr. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0385","doi-asserted-by":"crossref","first-page":"260","DOI":"10.3389\/fcimb.2018.00260","article-title":"Type VI secretion systems present new insights on pathogenic Yersinia","volume":"8","author":"Yang","year":"2018","journal-title":"Front. Cell. Infect. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0390","doi-asserted-by":"crossref","DOI":"10.3389\/fvets.2021.693564","article-title":"Viral metagenomics reveals diverse viruses in the feces samples of raccoon dogs","volume":"8","author":"Yang","year":"2021","journal-title":"Front. Vet. Sci."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0395","doi-asserted-by":"crossref","DOI":"10.3390\/pathogens12121458","article-title":"Exploring the diversity of plant-associated viruses and related viruses in riverine freshwater samples collected in Berlin, Germany","volume":"12","author":"Zell","year":"2023","journal-title":"Pathogens"},{"key":"10.1016\/j.scitotenv.2026.181588_bb0400","article-title":"Dietary supplementation with Cyberlindnera jadinii improved growth performance, serum biochemical indices, antioxidant status, and intestinal health in growing raccoon dogs (Nyctereutes procyonoides)","volume":"13","author":"Zhao","year":"2022","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0405","doi-asserted-by":"crossref","DOI":"10.1016\/j.scitotenv.2021.152263","article-title":"Metagenomic profiles of the resistome in subtropical estuaries: co-occurrence patterns, indicative genes, and driving factors","volume":"810","author":"Zhou","year":"2022","journal-title":"Sci. Total Environ."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0410","article-title":"Wild and captive environments drive the convergence of gut microbiota and impact health in threatened equids","volume":"13","author":"Zhou","year":"2022","journal-title":"Front. Microbiol."},{"key":"10.1016\/j.scitotenv.2026.181588_bb0415","doi-asserted-by":"crossref","first-page":"D871","DOI":"10.1093\/nar\/gkae968","article-title":"VFDB 2025: an integrated resource for exploring anti-virulence compounds","volume":"53","author":"Zhou","year":"2025","journal-title":"Nucleic Acids Res."}],"container-title":["Science of The Total Environment"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0048969726002482?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S0048969726002482?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,4,29]],"date-time":"2026-04-29T14:21:30Z","timestamp":1777472490000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S0048969726002482"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,3]]},"references-count":83,"alternative-id":["S0048969726002482"],"URL":"https:\/\/doi.org\/10.1016\/j.scitotenv.2026.181588","relation":{},"ISSN":["0048-9697"],"issn-type":[{"value":"0048-9697","type":"print"}],"subject":[],"published":{"date-parts":[[2026,3]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Whole-genome shotgun metagenomics reveals environmental perturbations in the gut microbiome and resistome of wild raccoon dogs rescued at a wildlife center","name":"articletitle","label":"Article Title"},{"value":"Science of The Total Environment","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.scitotenv.2026.181588","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2026 Elsevier B.V. All rights are reserved, including those for text and data mining, AI training, and similar technologies.","name":"copyright","label":"Copyright"}],"article-number":"181588"}}