{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,19]],"date-time":"2026-08-19T18:02:28Z","timestamp":1787162548711,"version":"build-2736575974"},"reference-count":65,"publisher":"American Society for Microbiology","issue":"5","license":[{"start":{"date-parts":[[2022,3,8]],"date-time":"2022-03-08T00:00:00Z","timestamp":1646697600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"},{"start":{"date-parts":[[2022,3,8]],"date-time":"2022-03-08T00:00:00Z","timestamp":1646697600000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"funder":[{"DOI":"10.13039\/100000038","name":"HHS | U.S. Food and Drug Administration","doi-asserted-by":"publisher","award":["U01FD001418"],"award-info":[{"award-number":["U01FD001418"]}],"id":[{"id":"10.13039\/100000038","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2022,3,8]]},"abstract":"<jats:p>Surface waters are heavily used in food production worldwide. Several human pathogens can survive in these waters for long periods and disseminate to food production environments, contaminating our food supply.<\/jats:p>","DOI":"10.1128\/aem.02149-21","type":"journal-article","created":{"date-parts":[[2022,1,12]],"date-time":"2022-01-12T15:16:31Z","timestamp":1642000591000},"update-policy":"https:\/\/doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":24,"title":["Genomic Epidemiology of Salmonella enterica Circulating in Surface Waters Used in Agriculture and Aquaculture in Central Mexico"],"prefix":"10.1128","volume":"88","author":[{"given":"N. E.","family":"Ballesteros-Nova","sequence":"first","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"S.","family":"S\u00e1nchez","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"J. L.","family":"Steffani","sequence":"additional","affiliation":[{"name":"Evolution of Metabolic Diversity Laboratory, CINVESTAV-IPN, Irapuato, Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"L. C.","family":"Sierra","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1784-167X","authenticated-orcid":true,"given":"Z.","family":"Chen","sequence":"additional","affiliation":[{"name":"Joint Institute for Food Safety &amp; Applied Nutrition \u2013 Food and Drug Administration Center of Excellence and Center for Food Safety &amp; Security Systems (CFS3), University of Maryland, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"F. A.","family":"Ru\u00edz-L\u00f3pez","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"R. L.","family":"Bell","sequence":"additional","affiliation":[{"name":"Office of Regulatory Science, Center for Food Safety and Applied Nutrition, U. S. Food and Drug Administration, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7767-9435","authenticated-orcid":true,"given":"E. A.","family":"Reed","sequence":"additional","affiliation":[{"name":"Office of Regulatory Science, Center for Food Safety and Applied Nutrition, U. S. Food and Drug Administration, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"M.","family":"Balkey","sequence":"additional","affiliation":[{"name":"Office of Regulatory Science, Center for Food Safety and Applied Nutrition, U. S. Food and Drug Administration, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"M. S.","family":"Rubio-Lozano","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"O.","family":"Soberanis-Ramos","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"F.","family":"Barona-G\u00f3mez","sequence":"additional","affiliation":[{"name":"Evolution of Metabolic Diversity Laboratory, CINVESTAV-IPN, Irapuato, Mexico"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"E. W.","family":"Brown","sequence":"additional","affiliation":[{"name":"Office of Regulatory Science, Center for Food Safety and Applied Nutrition, U. S. Food and Drug Administration, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"M. W.","family":"Allard","sequence":"additional","affiliation":[{"name":"Office of Regulatory Science, Center for Food Safety and Applied Nutrition, U. S. Food and Drug Administration, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"J.","family":"Meng","sequence":"additional","affiliation":[{"name":"Joint Institute for Food Safety &amp; Applied Nutrition \u2013 Food and Drug Administration Center of Excellence and Center for Food Safety &amp; Security Systems (CFS3), University of Maryland, College Park, Maryland, USA"},{"name":"Department of Nutrition and Food Science, University of Maryland, College Park, Maryland, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-5380-8095","authenticated-orcid":true,"given":"E. J.","family":"Delgado-Su\u00e1rez","sequence":"additional","affiliation":[{"name":"Facultad de Medicina Veterinaria y Zootecnia, Universidad Nacional Aut\u00f3noma de M\u00e9xico, Mexico City, M\u00e9xico"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"235","reference":[{"key":"e_1_3_3_2_2","unstructured":"Foodborne Disease Burden Epidemiology Reference Group 2007\u20132015. 2015. WHO estimates of the global burden of foodborne diseases. World Health Organization Geneva Switzerland."},{"key":"e_1_3_3_3_2","doi-asserted-by":"publisher","DOI":"10.1089\/fpd.2019.2627"},{"key":"e_1_3_3_4_2","doi-asserted-by":"publisher","DOI":"10.3389\/fpubh.2018.00159"},{"key":"e_1_3_3_5_2","doi-asserted-by":"publisher","DOI":"10.20937\/RICA.2018.34.02.01"},{"key":"e_1_3_3_6_2","doi-asserted-by":"publisher","DOI":"10.4315\/0362-028x-72.6.1279"},{"key":"e_1_3_3_7_2","doi-asserted-by":"publisher","DOI":"10.3201\/eid1903.111866"},{"key":"e_1_3_3_8_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00835-14"},{"key":"e_1_3_3_9_2","doi-asserted-by":"publisher","DOI":"10.2807\/1560-7917.ES2014.19.31.20866"},{"key":"e_1_3_3_10_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.01012-14"},{"key":"e_1_3_3_11_2","first-page":"144","article-title":"Outbreak of Salmonella Newport infections linked to cucumbers \u2013 United States, 2014","volume":"64","author":"Angelo KM","year":"2015","unstructured":"Angelo KM, Chu A, Anand M, Nguyen T-A, Bottichio L, Wise M, Williams I, Seelman S, Bell R, Fatica M, Lance S, Baldwin D, Shannon K, Lee H, Trees E, Strain E, Gieraltowski L, Centers for Disease Control and Prevention. 2015. Outbreak of Salmonella Newport infections linked to cucumbers \u2013 United States, 2014. MMWR Morb Mortal Wkly Rep 64:144\u2013147.","journal-title":"MMWR Morb Mortal Wkly Rep"},{"key":"e_1_3_3_12_2","doi-asserted-by":"publisher","DOI":"10.1089\/fpd.2014.1821"},{"key":"e_1_3_3_13_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0001657"},{"key":"e_1_3_3_14_2","doi-asserted-by":"publisher","DOI":"10.1088\/1748-9326\/ac286d"},{"key":"e_1_3_3_15_2","unstructured":"Food and Agriculture Organization of the United Nations. 2020. FAOSTAT. Statistics Division. https:\/\/www.fao.org\/faostat\/en\/#data. Accessed 8 December 2021."},{"key":"e_1_3_3_16_2","unstructured":"Servicio de Informaci\u00f3n Agroalimentaria y Pesquera. 2021. Panorama Agroalimentario 2021 on Secretar\u00eda de Agricultura y Desarrollo Rural. Accessed 8 December 2021. https:\/\/nube.siap.gob.mx\/cierreagricola."},{"key":"e_1_3_3_17_2","doi-asserted-by":"publisher","DOI":"10.35196\/rfm.2009.2.119-126"},{"key":"e_1_3_3_18_2","doi-asserted-by":"publisher","DOI":"10.2166\/wh.2014.051"},{"key":"e_1_3_3_19_2","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.45.1.38-43.2001"},{"key":"e_1_3_3_20_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pntd.0007868"},{"key":"e_1_3_3_21_2","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkv410"},{"key":"e_1_3_3_22_2","doi-asserted-by":"publisher","DOI":"10.2174\/157018011794183770"},{"key":"e_1_3_3_23_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.ijantimicag.2016.06.023"},{"key":"e_1_3_3_24_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.micres.2017.09.010"},{"key":"e_1_3_3_25_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-018-5352-z"},{"key":"e_1_3_3_26_2","doi-asserted-by":"publisher","DOI":"10.1128\/MRA.00683-20"},{"key":"e_1_3_3_27_2","doi-asserted-by":"publisher","DOI":"10.1128\/ecosalplus.ESP-0008-2020"},{"key":"e_1_3_3_28_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2014.00791"},{"key":"e_1_3_3_29_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.00777-13"},{"key":"e_1_3_3_30_2","article-title":"The last 50 years of Salmonella in Mexico: sources of isolation and factors that influence its prevalence and diversity","volume":"6","author":"Contreras-Soto BM","year":"2019","unstructured":"Contreras-Soto BM, Medrano-F\u00e9lix JA, Ibarra-Rodr\u00edguez JR, Mart\u00ednez-Urtaza JM, Chaidez QC, Castro-del Campo N. 2019. The last 50 years of Salmonella in Mexico: sources of isolation and factors that influence its prevalence and diversity. Revista Bio Ciencias 6:e540.","journal-title":"Revista Bio Ciencias"},{"key":"e_1_3_3_31_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.foodres.2011.06.037"},{"key":"e_1_3_3_32_2","doi-asserted-by":"publisher","DOI":"10.4067\/S0716-10182016000500010"},{"key":"e_1_3_3_33_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.watres.2017.06.058"},{"key":"e_1_3_3_34_2","doi-asserted-by":"publisher","DOI":"10.1080\/20477724.2019.1574112"},{"key":"e_1_3_3_35_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-9-131"},{"key":"e_1_3_3_36_2","doi-asserted-by":"publisher","DOI":"10.1093\/jac\/dkm168"},{"key":"e_1_3_3_37_2","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2180-11-9"},{"key":"e_1_3_3_38_2","doi-asserted-by":"publisher","DOI":"10.1186\/s12866-016-0633-7"},{"key":"e_1_3_3_39_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0223975"},{"key":"e_1_3_3_40_2","doi-asserted-by":"publisher","DOI":"10.3389\/fmicb.2018.01482"},{"key":"e_1_3_3_41_2","doi-asserted-by":"publisher","DOI":"10.1155\/2011\/461321"},{"key":"e_1_3_3_42_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.02063-14"},{"key":"e_1_3_3_43_2","doi-asserted-by":"publisher","DOI":"10.3390\/ijerph120403535"},{"key":"e_1_3_3_44_2","doi-asserted-by":"publisher","DOI":"10.1111\/zph.12311"},{"key":"e_1_3_3_45_2","doi-asserted-by":"publisher","DOI":"10.1089\/fpd.2014.1802"},{"key":"e_1_3_3_46_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.envint.2015.06.006"},{"key":"e_1_3_3_47_2","doi-asserted-by":"publisher","DOI":"10.31914\/aak.2492"},{"key":"e_1_3_3_48_2","unstructured":"Centers for Disease Control and Prevention. Reports of Selected Salmonella Outbreak Investigations. cdc.gov\/salmonella\/outbreaks.html. Accessed 8 December 2021."},{"key":"e_1_3_3_49_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.foodres.2013.01.011"},{"key":"e_1_3_3_50_2","first-page":"248","article-title":"Epicollect5: a free, fully customizable mobile-based application for data collection in clinical research","volume":"54","author":"Gohil R","year":"2020","unstructured":"Gohil R, Sharma S, Sachdeva S, Saurabh G, Mandeep SD. 2020. Epicollect5: a free, fully customizable mobile-based application for data collection in clinical research. J Postgrad Med Educ Res 54:248\u2013251.","journal-title":"J Postgrad Med Educ Res"},{"key":"e_1_3_3_51_2","doi-asserted-by":"publisher","DOI":"10.1016\/j.mimet.2012.10.001"},{"key":"e_1_3_3_52_2","unstructured":"Food and Drug Administration. 2021. Food and Drug Administration\u2019s Bacteriological Analytical Manual (BAM). BAM Chapter 5: Salmonella . https:\/\/www.fda.gov\/food\/laboratory-methods-food\/bam-chapter-5-salmonella. Accessed 8 July 2021."},{"key":"e_1_3_3_53_2","doi-asserted-by":"publisher","DOI":"10.1016\/0890-8508(92)90002-f"},{"key":"e_1_3_3_54_2","unstructured":"Andrews S. 2010. FastQC: a quality control tool for high throughput sequence data. http:\/\/www.bioinformatics.babraham.ac.uk\/projects\/fastqc. Accessed 8 September 2021."},{"key":"e_1_3_3_55_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu170"},{"key":"e_1_3_3_56_2","doi-asserted-by":"publisher","DOI":"10.1089\/cmb.2012.0021"},{"key":"e_1_3_3_57_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt086"},{"key":"e_1_3_3_58_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0147101"},{"key":"e_1_3_3_59_2","doi-asserted-by":"publisher","DOI":"10.1128\/AAC.00483-19"},{"key":"e_1_3_3_60_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1469-0691.2011.03570.x"},{"key":"e_1_3_3_61_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.06094-11"},{"key":"e_1_3_3_62_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0104984"},{"key":"e_1_3_3_63_2","first-page":"1","article-title":"Creating the CIPRES Science Gateway for inference of large phylogenetic trees","author":"Miller MA","year":"2010","unstructured":"Miller MA, Pfeiffer W, Schwartz T. 2010. Creating the CIPRES Science Gateway for inference of large phylogenetic trees, p 1\u20138. In Proceedings of the Gateway Computing Environments Workshop 14 Nov 2010, New Orleans, LA.","journal-title":"Proceedings of the Gateway Computing Environments Workshop"},{"key":"e_1_3_3_64_2","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gkab301"},{"key":"e_1_3_3_65_2","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btz646"},{"key":"e_1_3_3_66_2","unstructured":"Madisson WP Madisson DR. 2021. Mesquite: a modular system for evolutionary analysis. http:\/\/www.mesquiteproject.org. Accessed 8 December 2021."}],"container-title":["Applied and Environmental Microbiology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/aem.02149-21","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/journals.asm.org\/doi\/pdf\/10.1128\/aem.02149-21","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,3,8]],"date-time":"2022-03-08T11:23:56Z","timestamp":1646738636000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.asm.org\/doi\/10.1128\/aem.02149-21"}},"subtitle":[],"editor":[{"given":"Edward G.","family":"Dudley","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2022,3,8]]},"references-count":65,"journal-issue":{"issue":"5","published-print":{"date-parts":[[2022,3,8]]}},"alternative-id":["10.1128\/aem.02149-21"],"URL":"https:\/\/doi.org\/10.1128\/aem.02149-21","relation":{},"ISSN":["0099-2240","1098-5336"],"issn-type":[{"value":"0099-2240","type":"print"},{"value":"1098-5336","type":"electronic"}],"subject":[],"published":{"date-parts":[[2022,3,8]]},"assertion":[{"value":"2021-10-29","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-01-10","order":1,"name":"accepted","label":"Accepted","group":{"name":"publication_history","label":"Publication History"}},{"value":"2022-03-08","order":2,"name":"published","label":"Published","group":{"name":"publication_history","label":"Publication History"}}],"article-number":"e02149-21"}}