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The objective of this study was to use whole-genome sequencing to compare antimicrobial-resistant (AMR)\n            <jats:named-content content-type=\"genus-species\">Salmonella enterica<\/jats:named-content>\n            serovars Typhimurium, Newport, and Dublin isolated from dairy cattle and humans in Washington State and New York State at the genotypic and phenotypic levels. A total of 90 isolates were selected for the study (37\n            <jats:italic>S<\/jats:italic>\n            . Typhimurium, 32\n            <jats:italic>S<\/jats:italic>\n            . Newport, and 21\n            <jats:italic>S<\/jats:italic>\n            . Dublin isolates). All isolates were tested for phenotypic antibiotic resistance to 12 drugs using Kirby-Bauer disk diffusion. AMR genes were detected in the assembled genome of each isolate using nucleotide BLAST and ARG-ANNOT. Genotypic prediction of phenotypic resistance resulted in a mean sensitivity of 97.2 and specificity of 85.2. Sulfamethoxazole-trimethoprim resistance was observed only in human isolates (\n            <jats:italic>P<\/jats:italic>\n            &lt; 0.05), while resistance to quinolones and fluoroquinolones was observed only in 6\n            <jats:italic>S<\/jats:italic>\n            . Typhimurium isolates from humans in Washington State.\n            <jats:italic>S<\/jats:italic>\n            . Newport isolates showed a high degree of AMR profile similarity, regardless of source.\n            <jats:italic>S<\/jats:italic>\n            . Dublin isolates from New York State differed from those from Washington State based on the presence\/absence of plasmid replicons, as well as phenotypic AMR susceptibility\/nonsusceptibility (\n            <jats:italic>P<\/jats:italic>\n            &lt; 0.05). The results of this study suggest that distinct factors may contribute to the emergence and dispersal of AMR\n            <jats:named-content content-type=\"genus-species\">S. enterica<\/jats:named-content>\n            in humans and farm animals in different regions.\n          <\/jats:p>\n          <jats:p>\n            <jats:bold>IMPORTANCE<\/jats:bold>\n            The use of antibiotics in food-producing animals has been hypothesized to select for AMR\n            <jats:named-content content-type=\"genus-species\">Salmonella enterica<\/jats:named-content>\n            and associated AMR determinants, which can be transferred to humans through different routes. Previous studies have sought to assess the degree to which AMR livestock- and human-associated\n            <jats:named-content content-type=\"genus-species\">Salmonella<\/jats:named-content>\n            strains overlap, as well as the spatial distribution of\n            <jats:named-content content-type=\"genus-species\">Salmonella<\/jats:named-content>\n            's associated AMR determinants, but have often been limited by the degree of resolution at which isolates can be compared. Here, a comparative genomics study of livestock- and human-associated\n            <jats:named-content content-type=\"genus-species\">Salmonella<\/jats:named-content>\n            strains from different regions of the United States shows that while many AMR genes and phenotypes were confined to human isolates, overlaps between the resistomes of bovine and human-associated\n            <jats:named-content content-type=\"genus-species\">Salmonella<\/jats:named-content>\n            isolates were observed on numerous occasions, particularly for\n            <jats:italic>S<\/jats:italic>\n            . Newport. We have also shown that whole-genome sequencing can be used to reliably predict phenotypic resistance across\n            <jats:named-content content-type=\"genus-species\">Salmonella<\/jats:named-content>\n            isolated from bovine sources.\n          <\/jats:p>","DOI":"10.1128\/aem.00140-17","type":"journal-article","created":{"date-parts":[[2017,4,8]],"date-time":"2017-04-08T00:45:25Z","timestamp":1491612325000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":95,"title":["Whole-Genome Sequencing of Drug-Resistant Salmonella enterica Isolates from Dairy Cattle and Humans in New York and Washington States Reveals Source and Geographic Associations"],"prefix":"10.1128","volume":"83","author":[{"given":"Laura M.","family":"Carroll","sequence":"first","affiliation":[{"name":"Department of Food Science, Cornell University, Ithaca, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Martin","family":"Wiedmann","sequence":"additional","affiliation":[{"name":"Department of Food Science, Cornell University, Ithaca, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Henk","family":"den Bakker","sequence":"additional","affiliation":[{"name":"Department of Animal and Food Sciences, Texas Tech University, Lubbock, Texas, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Julie","family":"Siler","sequence":"additional","affiliation":[{"name":"Department of Food Science, Cornell University, Ithaca, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Steven","family":"Warchocki","sequence":"additional","affiliation":[{"name":"Department of Food Science, Cornell University, Ithaca, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"David","family":"Kent","sequence":"additional","affiliation":[{"name":"Department of Food Science, Cornell University, Ithaca, New York, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Svetlana","family":"Lyalina","sequence":"additional","affiliation":[{"name":"J. 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