{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,30]],"date-time":"2026-04-30T19:02:25Z","timestamp":1777575745243,"version":"3.51.4"},"reference-count":34,"publisher":"Frontiers Media SA","license":[{"start":{"date-parts":[[2020,9,18]],"date-time":"2020-09-18T00:00:00Z","timestamp":1600387200000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100003196","name":"Ministero della Salute","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003196","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Public Health"],"DOI":"10.3389\/fpubh.2020.519293","type":"journal-article","created":{"date-parts":[[2020,9,18]],"date-time":"2020-09-18T11:54:13Z","timestamp":1600430053000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":11,"title":["Population Structure of Listeria monocytogenes in Emilia-Romagna (Italy) and Implications on Whole Genome Sequencing Surveillance of Listeriosis"],"prefix":"10.3389","volume":"8","author":[{"given":"Erika","family":"Scaltriti","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Luca","family":"Bolzoni","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Caterina","family":"Vocale","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marina","family":"Morganti","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Ilaria","family":"Menozzi","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Maria Carla","family":"Re","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Stefano","family":"Pongolini","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1965","published-online":{"date-parts":[[2020,9,18]]},"reference":[{"key":"B1","article-title":"WHO Estimates of the Global Burden of Foodborne Diseases: Foodborne Disease Burden Epidemiology Reference Group 2007-2015","year":""},{"key":"B2","doi-asserted-by":"publisher","first-page":"380","DOI":"10.1093\/cid\/ciw242","article-title":"Implementation of nationwide real-time whole-genome sequencing to enhance listeriosis outbreak detection and investigation","volume":"63","author":"Jackson","year":"2016","journal-title":"Clin Infect Dis."},{"key":"B3","doi-asserted-by":"publisher","first-page":"e00633","DOI":"10.1128\/AEM.00633-17","article-title":"Whole genome and core genome multilocus sequence typing and single nucleotide polymorphism analyses of Listeria monocytogenes isolates associated with an outbreak linked to Cheese, United States, 2013","volume":"83","author":"Chen","year":"2017","journal-title":"Appl Environ Microbiol."},{"key":"B4","doi-asserted-by":"publisher","first-page":"16185","DOI":"10.1038\/nmicrobiol.2016.185","article-title":"Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes","volume":"2","author":"Moura","year":"2016","journal-title":"Nat Microbiol"},{"key":"B5","doi-asserted-by":"publisher","DOI":"10.2903\/sp.efsa.2017.EN-1151","article-title":"Closing Gaps for Performing a Risk Assessment on Listeria monocytogenes in Ready-to-Eat (RTE) Foods: Activity 3, the Comparison of Isolates From Different Compartments Along the Food Chain, and From Humans Using Whole Genome Sequencing (WGS) Analysis","author":"Nielsen","year":"2017"},{"key":"B6","doi-asserted-by":"publisher","first-page":"1482","DOI":"10.3389\/fmicb.2018.01482","article-title":"Interpreting whole-genome sequence analyses of foodborne bacteria for regulatory applications and outbreak investigations","volume":"9","author":"Pightling","year":"2018","journal-title":"Front Microbiol."},{"key":"B7","doi-asserted-by":"publisher","first-page":"2869","DOI":"10.1128\/JCM.01193-15","article-title":"Defining and evaluating a core genome multilocus sequence typing scheme for whole-genome sequence-based typing of Listeria monocytogenes","volume":"53","author":"Ruppitsch","year":"2015","journal-title":"J Clin Microbiol"},{"key":"B8","doi-asserted-by":"publisher","first-page":"1700798","DOI":"10.2807\/1560-7917.ES.2018.23.33.1700798","article-title":"Retrospective validation of whole genome sequencing-enhanced surveillance of listeriosis in Europe, 2010 to 2015","volume":"23","author":"Van Walle","year":"2018","journal-title":"Euro Surveill"},{"key":"B9","doi-asserted-by":"publisher","first-page":"5077","DOI":"10.2903\/j.efsa.2017.5077","article-title":"The European Union summary report on trends and sources of zoonoses, zoonotic agents and food-borne outbreaks in 2016","volume":"15","year":"2017","journal-title":"EFSA J."},{"key":"B10","doi-asserted-by":"publisher","first-page":"5926","DOI":"10.2903\/j.efsa.2019.5926","article-title":"Scientific report on the European Union one health 2018. Zoonoses report","volume":"17","year":"2019","journal-title":"EFSA J."},{"key":"B11","doi-asserted-by":"publisher","first-page":"ecurrents","DOI":"10.1371\/currents.outbreaks.633fd8994e9f06f31b3494567c7e504c","article-title":"Genomic characterization helps dissecting an outbreak of listeriosis in Northern Italy","volume":"9","author":"Comandatore","year":"2017","journal-title":"PLoS Curr"},{"key":"B12","doi-asserted-by":"publisher","first-page":"e01276","DOI":"10.1128\/genomeA.01276-17","article-title":"Draft genome sequences of Listeria monocytogenes strains from food isolates and human listeriosis cases from northern Italy","volume":"6","author":"Lomonaco","year":"2018","journal-title":"Genome Announc."},{"key":"B13","doi-asserted-by":"publisher","first-page":"e00236","DOI":"10.1128\/genomeA.00236-18","article-title":"Whole-genome sequences of two Listeria monocytogenes serovar 1\/2a strains responsible for a severe listeriosis outbreak in central Italy","volume":"6","author":"Orsini","year":"2018","journal-title":"Genome Announc."},{"key":"B14","doi-asserted-by":"publisher","first-page":"e01069","DOI":"10.1128\/MRA.01069-18","article-title":"Whole-genome sequence of a reemerging Listeria monocytogenes serovar 1\/2a strain in Central Italy","volume":"7","author":"Orsini","year":"2018","journal-title":"Microbiol Resour Announc."},{"key":"B15","unstructured":"FastQC: A Quality Control Tool for High Throughput Sequence Data\n            BabrahamB\n          2010"},{"key":"B16","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2014-15-3-r46","article-title":"Kraken: ultrafast metagenomic sequence classification using exact alignments","author":"Wood","year":"2014","journal-title":"Genome Biol"},{"key":"B17","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: a flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics."},{"key":"B18","doi-asserted-by":"publisher","first-page":"455","DOI":"10.1089\/cmb.2012.0021","article-title":"SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing","volume":"19","author":"Bankevich","year":"2012","journal-title":"J Comput Biol."},{"key":"B19","doi-asserted-by":"publisher","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics."},{"key":"B20","doi-asserted-by":"publisher","first-page":"73","DOI":"10.1007\/978-1-4939-0703-8_6","article-title":"Multilocus sequence typing (MLST) of Listeria monocytogenes","volume":"1157","author":"Stessl","year":"2014","journal-title":"Methods Mol Biol"},{"key":"B21","doi-asserted-by":"publisher","first-page":"e620","DOI":"10.7717\/peerj.620","article-title":"An evaluation of alternative methods for constructing phylogenies from whole genome sequence data: a case study with Salmonella","volume":"2","author":"Pettengill","year":"2014","journal-title":"PeerJ."},{"key":"B22","doi-asserted-by":"publisher","first-page":"1312","DOI":"10.1093\/bioinformatics\/btu033","article-title":"RAxML version 8: a tool for phylogenetic analysis and post-analysis of large phylogenies","volume":"30","author":"Stamatakis","year":"2014","journal-title":"Bioinformatics."},{"key":"B23","doi-asserted-by":"publisher","first-page":"1462","DOI":"10.3201\/eid2309.170336","article-title":"Real-time whole-genome sequencing for surveillance of Listeria monocytogenes, France","volume":"23","author":"Moura","year":"2017","journal-title":"Emerging Infect Dis."},{"key":"B24","doi-asserted-by":"publisher","first-page":"3028","DOI":"10.1093\/bioinformatics\/bty212","article-title":"SnapperDB: a database solution for routine sequencing analysis of bacterial isolates","volume":"34","author":"Dallman","year":"2018","journal-title":"Bioinformatics."},{"key":"B25","doi-asserted-by":"publisher","first-page":"1351","DOI":"10.1099\/jmm.0.000785","article-title":"A severe outbreak of listeriosis in central Italy with a rare pulsotype associated with processed pork products","volume":"67","author":"Duranti","year":"2018","journal-title":"J Med Microbiol."},{"key":"B26","doi-asserted-by":"publisher","first-page":"1678","DOI":"10.3201\/eid1611.100368","article-title":"Salmonella enterica pulsed-field gel electrophoresis clusters, Minnesota, USA, 2001\u20132007","volume":"16","author":"Rounds","year":"2010","journal-title":"Emerging Infect Dis."},{"key":"B27","doi-asserted-by":"publisher","first-page":"1430","DOI":"10.1017\/S0950268811002330","article-title":"Dynamics of Escherichia coli O157:H7 outbreak detection and investigation, Minnesota 2000\u20132008","volume":"140","author":"Rounds","year":"2012","journal-title":"Epidemiol Infect."},{"key":"B28","article-title":"Multi-Country Outbreak of Listeria Monocytogenes Sequence Type 8 Infections Linked to Consumption of Salmon Products","year":"2018"},{"key":"B29","article-title":"Multi Country Outbreak of Listeria monocytogenes Serogroup IVb, Multi-Locus Sequence Type 6, Infections Probably Linked to Frozen corn","volume-title":"oint ECDC \u2013 EFSA Rapid Outbreak Assessment","year":"2018"},{"key":"B30","doi-asserted-by":"publisher","first-page":"17","DOI":"10.2807\/1560-7917.ES.2017.22.50.17-00762","article-title":"Cross-border outbreak of listeriosis caused by cold-smoked salmon, revealed by integrated surveillance and whole genome sequencing (WGS), Denmark and France, 2015 to 2017","volume":"22","author":"Schjorring","year":"2017","journal-title":"Euro Surveill"},{"key":"B31","doi-asserted-by":"publisher","first-page":"822","DOI":"10.1128\/AEM.03103-15","article-title":"Processing-dependent and clonal contamination patterns of Listeria monocytogenes in the cured ham food chain revealed by genetic analysis","volume":"82","author":"Morganti","year":"2015","journal-title":"Appl Environ Microbiol."},{"key":"B32","doi-asserted-by":"publisher","first-page":"539","DOI":"10.1186\/1471-2164-9-539","article-title":"Short-term genome evolution of Listeria monocytogenes in a non-controlled environment","volume":"9","author":"Orsi","year":"2008","journal-title":"BMC Genomics"},{"key":"B33","doi-asserted-by":"publisher","first-page":"38","DOI":"10.1016\/j.fm.2013.02.012","article-title":"Persistent Listeria monocytogenes subtypes isolated from a smoked fish processing facility included both phage susceptible and resistant isolates","volume":"35","author":"Vongkamjan","year":"2013","journal-title":"Food Microbiol."},{"key":"B34","doi-asserted-by":"publisher","first-page":"350","DOI":"10.1016\/j.cmi.2017.12.016","article-title":"Whole genome sequencing options for bacterial strain typing and epidemiologic analysis based on single nucleotide polymorphism versus gene-by-gene-based approaches","volume":"24","author":"Schurch","year":"2018","journal-title":"Clin Microbiol Infect."}],"container-title":["Frontiers in Public Health"],"original-title":[],"link":[{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fpubh.2020.519293\/full","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,9,18]],"date-time":"2020-09-18T11:54:20Z","timestamp":1600430060000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.frontiersin.org\/article\/10.3389\/fpubh.2020.519293\/full"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,9,18]]},"references-count":34,"alternative-id":["10.3389\/fpubh.2020.519293"],"URL":"https:\/\/doi.org\/10.3389\/fpubh.2020.519293","relation":{},"ISSN":["2296-2565"],"issn-type":[{"value":"2296-2565","type":"electronic"}],"subject":[],"published":{"date-parts":[[2020,9,18]]},"article-number":"519293"}}