{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,21]],"date-time":"2026-01-21T06:11:35Z","timestamp":1768975895732,"version":"3.49.0"},"reference-count":44,"publisher":"Frontiers Media SA","content-domain":{"domain":["frontiersin.org"],"crossmark-restriction":true},"short-container-title":["Front. Microbiol."],"DOI":"10.3389\/fmicb.2016.01138","type":"journal-article","created":{"date-parts":[[2016,7,21]],"date-time":"2016-07-21T23:03:12Z","timestamp":1469142192000},"update-policy":"https:\/\/doi.org\/10.3389\/crossmark-policy","source":"Crossref","is-referenced-by-count":15,"title":["Evolution and Diversity of Listeria monocytogenes from Clinical and Food Samples in Shanghai, China"],"prefix":"10.3389","volume":"7","author":[{"given":"Jianmin","family":"Zhang","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Guojie","family":"Cao","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xuebin","family":"Xu","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Marc","family":"Allard","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Peng","family":"Li","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Eric","family":"Brown","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xiaowei","family":"Yang","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Haijian","family":"Pan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jianghong","family":"Meng","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"1965","published-online":{"date-parts":[[2016,7,22]]},"reference":[{"key":"B1","doi-asserted-by":"publisher","first-page":"402","DOI":"10.1186\/1471-2164-12-402","article-title":"BLAST Ring Image Generator (BRIG): simple prokaryote genome comparisons","volume":"12","author":"Alikhan","year":"2011","journal-title":"BMC Genomics"},{"key":"B2","doi-asserted-by":"publisher","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"Altschul","year":"1990","journal-title":"J. Mol. Biol."},{"key":"B3","doi-asserted-by":"publisher","first-page":"e00969","DOI":"10.1128\/mBio.00969-14","article-title":"Comparison of widely used Listeria monocytogenes strains EGD, 10403S, and EGD-e highlights genomic variations underlying differences in pathogenicity","volume":"5","author":"Becavin","year":"2014","journal-title":"MBio"},{"key":"B4","doi-asserted-by":"publisher","first-page":"90","DOI":"10.1186\/1471-2180-13-90","article-title":"Influence of internalin A murinisation on host resistance to orally acquired listeriosis in mice","volume":"13","author":"Bergmann","year":"2013","journal-title":"BMC Microbiol."},{"key":"B5","doi-asserted-by":"publisher","first-page":"1156","DOI":"10.1016\/j.micinf.2007.05.003","article-title":"Internalins: a complex family of leucine-rich repeat-containing proteins in Listeria monocytogenes","volume":"9","author":"Bierne","year":"2007","journal-title":"Microbes Infect."},{"key":"B6","doi-asserted-by":"publisher","first-page":"3770","DOI":"10.1128\/JCM.01874-13","article-title":"Epidemic clones of Listeria monocytogenes are widespread and ancient clonal groups","volume":"51","author":"Cantinelli","year":"2013","journal-title":"J. Clin. Microbiol."},{"key":"B7","doi-asserted-by":"publisher","first-page":"e55687","DOI":"10.1371\/journal.pone.0055687","article-title":"Phylogenetics and differentiation of Salmonella Newport lineages by whole genome sequencing","volume":"8","author":"Cao","year":"2013","journal-title":"PLoS ONE"},{"key":"B8","doi-asserted-by":"publisher","first-page":"58","DOI":"10.1186\/1471-2180-14-58","article-title":"Atypical Listeria innocua strains possess an intact LIPI-3","volume":"14","author":"Clayton","year":"2014","journal-title":"BMC Microbiol."},{"key":"B9","doi-asserted-by":"publisher","first-page":"e1000144","DOI":"10.1371\/journal.ppat.1000144","article-title":"Listeriolysin S, a novel peptide haemolysin associated with a subset of lineage I Listeria monocytogenes","volume":"4","author":"Cotter","year":"2008","journal-title":"PLoS Pathog"},{"key":"B10","doi-asserted-by":"publisher","first-page":"e11147","DOI":"10.1371\/journal.pone.0011147","article-title":"progressiveMauve: multiple genome alignment with gene gain, loss and rearrangement","volume":"5","author":"Darling","year":"2010","journal-title":"PLoS ONE"},{"key":"B11","doi-asserted-by":"publisher","first-page":"e67511","DOI":"10.1371\/journal.pone.0067511","article-title":"Evolutionary dynamics of the accessory genome of Listeria monocytogenes","volume":"8","author":"den Bakker","year":"2013","journal-title":"PLoS ONE"},{"key":"B12","doi-asserted-by":"publisher","first-page":"500","DOI":"10.1186\/1471-2164-11-500","article-title":"Probing the pan-genome of Listeria monocytogenes: new insights into intraspecific niche expansion and genomic diversification","volume":"11","author":"Deng","year":"2010","journal-title":"BMC Genomics"},{"key":"B13","doi-asserted-by":"publisher","first-page":"774","DOI":"10.1111\/j.1574-6976.2006.00035.x","article-title":"The protein secretion systems in Listeria: inside out bacterial virulence","volume":"30","author":"Desvaux","year":"2006","journal-title":"FEMS Microbiol. Rev."},{"key":"B14","doi-asserted-by":"publisher","first-page":"587","DOI":"10.1146\/annurev.micro.57.030502.090934","article-title":"Molecular determinants of Listeria monocytogenes virulence","volume":"58","author":"Dussurget","year":"2004","journal-title":"Annu. Rev. Microbiol."},{"key":"B15","doi-asserted-by":"publisher","first-page":"2460","DOI":"10.1093\/bioinformatics\/btq461","article-title":"Search and clustering orders of magnitude faster than BLAST","volume":"26","author":"Edgar","year":"2010","journal-title":"Bioinformatics"},{"key":"B16","doi-asserted-by":"publisher","first-page":"120","DOI":"10.1186\/1471-2164-11-120","article-title":"High-throughput genome sequencing of two Listeria monocytogenes clinical isolates during a large foodborne outbreak","volume":"11","author":"Gilmour","year":"2010","journal-title":"BMC Genomics"},{"key":"B17","doi-asserted-by":"publisher","first-page":"369","DOI":"10.1016\/S1438-4221(00)80044-2","article-title":"SmcL, a novel membrane-damaging virulence factor in Listeria","volume":"290","author":"Gonzalez-Zorn","year":"2000","journal-title":"Int. J. Med. Microbiol."},{"key":"B18","doi-asserted-by":"publisher","first-page":"W52","DOI":"10.1093\/nar\/gkm360","article-title":"CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats","volume":"35","author":"Grissa","year":"2007","journal-title":"Nucleic Acids Res."},{"key":"B19","doi-asserted-by":"publisher","first-page":"144","DOI":"10.1186\/1471-2164-13-144","article-title":"Comparative genomics and transcriptomics of lineages I, II, and III strains of Listeria monocytogenes","volume":"13","author":"Hain","year":"2012","journal-title":"BMC Genomics"},{"key":"B20","doi-asserted-by":"publisher","first-page":"2169","DOI":"10.1128\/AEM.02159-10","article-title":"Stress survival islet 1 (SSI-1) survey in Listeria monocytogenes reveals an insert common to listeria innocua in sequence type 121 L. monocytogenes strains","volume":"77","author":"Hein","year":"2011","journal-title":"Appl. Environ. Microbiol."},{"key":"B21","doi-asserted-by":"publisher","first-page":"5070","DOI":"10.3390\/ijms12085070","article-title":"Identification and role of regulatory non-coding RNAs in Listeria monocytogenes","volume":"12","author":"Izar","year":"2011","journal-title":"Int. J. Mol. Sci."},{"key":"B22","doi-asserted-by":"publisher","first-page":"949","DOI":"10.4315\/0362-028X.JFP-10-536","article-title":"Multistate outbreak of Listeria monocytogenes associated with Mexican-style cheese made from pasteurized milk among pregnant, Hispanic women","volume":"74","author":"Jackson","year":"2011","journal-title":"J. Food Prot."},{"key":"B23","doi-asserted-by":"publisher","first-page":"342","DOI":"10.1089\/fpd.2013.1696","article-title":"Pathogenicity islands in Shiga toxin-producing Escherichia coli O26, O103, and O111 isolates from humans and animals","volume":"11","author":"Ju","year":"2014","journal-title":"Foodborne Pathog. Dis."},{"key":"B24","doi-asserted-by":"publisher","first-page":"D216","DOI":"10.1093\/nar\/gkn734","article-title":"The national center for biotechnology information's protein clusters database","volume":"37","author":"Klimke","year":"2009","journal-title":"Nucleic Acids Res."},{"key":"B25","doi-asserted-by":"publisher","first-page":"47","DOI":"10.1186\/1471-2164-14-47","article-title":"Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome","volume":"14","author":"Kuenne","year":"2013","journal-title":"BMC Genomics"},{"key":"B26","doi-asserted-by":"publisher","first-page":"e42448","DOI":"10.1371\/journal.pone.0042448","article-title":"Genomic characterization of Listeria monocytogenes strains involved in a multistate listeriosis outbreak associated with cantaloupe in US","volume":"7","author":"Laksanalamai","year":"2012","journal-title":"PLoS ONE"},{"key":"B27","doi-asserted-by":"publisher","first-page":"1334","DOI":"10.1128\/IAI.01377-12","article-title":"Impact of the Listeria monocytogenes protein InlC on infection in mice","volume":"81","author":"Leung","year":"2013","journal-title":"Infect. Immun."},{"key":"B28","doi-asserted-by":"publisher","first-page":"4235","DOI":"10.1093\/nar\/gkr033","article-title":"The intracellular sRNA transcriptome of Listeria monocytogenes during growth in macrophages","volume":"39","author":"Mraheil","year":"2011","journal-title":"Nucleic Acids Res."},{"key":"B29","doi-asserted-by":"publisher","first-page":"4520","DOI":"10.1016\/j.jmb.2013.08.010","article-title":"Structure of internalin InlK from the human pathogen Listeria monocytogenes","volume":"425","author":"Neves","year":"2013","journal-title":"J. Mol. Biol."},{"key":"B30","doi-asserted-by":"publisher","first-page":"e00227","DOI":"10.1128\/mBio.00227-10","article-title":"Multidrug-resistant enterococci lack CRISPR-cas","volume":"1","author":"Palmer","year":"2010","journal-title":"MBio"},{"key":"B31","doi-asserted-by":"publisher","first-page":"e1000146","DOI":"10.1371\/journal.ppat.1000146","article-title":"A new perspective on Listeria monocytogenes evolution","volume":"4","author":"Ragon","year":"2008","journal-title":"PLoS Pathog."},{"key":"B32","doi-asserted-by":"publisher","first-page":"984","DOI":"10.1111\/j.1365-2672.2010.04726.x","article-title":"A five-gene stress survival islet (SSI-1) that contributes to the growth of Listeria monocytogenes in suboptimal conditions","volume":"109","author":"Ryan","year":"2010","journal-title":"J. Appl. Microbiol."},{"key":"B33","doi-asserted-by":"publisher","first-page":"e89964","DOI":"10.1371\/journal.pone.0089964","article-title":"Genome sequencing of Listeria monocytogenes Quargel listeriosis outbreak strains reveals two different strains with distinct in vitro virulence potential","volume":"9","author":"Rychli","year":"2014","journal-title":"PLoS ONE"},{"key":"B34","doi-asserted-by":"publisher","first-page":"6912","DOI":"10.1128\/IAI.73.10.6912-6922.2005","article-title":"LPXTG protein InlJ, a newly identified internalin involved in Listeria monocytogenes virulence","volume":"73","author":"Sabet","year":"2005","journal-title":"Infect. Immun."},{"key":"B35","doi-asserted-by":"publisher","first-page":"68","DOI":"10.1016\/j.fm.2013.11.006","article-title":"Population diversity of Listeria monocytogenes in quargel (acid curd cheese) lots recalled during the multinational listeriosis outbreak 2009\/2010","volume":"39","author":"Schoder","year":"2014","journal-title":"Food Microbiol."},{"key":"B36","doi-asserted-by":"publisher","first-page":"1167","DOI":"10.1016\/j.micinf.2007.05.004","article-title":"Molecular mechanisms exploited by Listeria monocytogenes during host cell invasion","volume":"9","author":"Seveau","year":"2007","journal-title":"Microbes Infect."},{"key":"B37","doi-asserted-by":"publisher","first-page":"50","DOI":"10.1111\/j.1469-0691.2010.03200.x","article-title":"Outbreak of listeriosis caused by infected beef meat from a meals-on-wheels delivery in Denmark 2009","volume":"17","author":"Smith","year":"2011","journal-title":"Clin. Microbiol. Infect."},{"key":"B38","doi-asserted-by":"publisher","first-page":"1236","DOI":"10.1016\/j.micinf.2007.05.011","article-title":"The epidemiology of human listeriosis","volume":"9","author":"Swaminathan","year":"2007","journal-title":"Microbes Infect."},{"key":"B39","doi-asserted-by":"publisher","first-page":"2731","DOI":"10.1093\/molbev\/msr121","article-title":"MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods","volume":"28","author":"Tamura","year":"2011","journal-title":"Mol. Biol. Evol."},{"key":"B40","doi-asserted-by":"publisher","first-page":"950","DOI":"10.1038\/nature08080","article-title":"The Listeria transcriptional landscape from saprophytism to virulence","volume":"459","author":"Toledo-Arana","year":"2009","journal-title":"Nature"},{"key":"B41","doi-asserted-by":"publisher","first-page":"e11126","DOI":"10.1371\/journal.pone.0011126","article-title":"The small, slow and specialized CRISPR and anti-CRISPR of Escherichia and Salmonella","volume":"5","author":"Touchon","year":"2010","journal-title":"PLoS ONE"},{"key":"B42","doi-asserted-by":"publisher","first-page":"3279","DOI":"10.1128\/AEM.00546-11","article-title":"comK prophage junction fragments as markers for Listeria monocytogenes genotypes unique to individual meat and poultry processing plants and a model for rapid niche-specific adaptation, biofilm formation, and persistence","volume":"77","author":"Verghese","year":"2011","journal-title":"Appl. Environ. Microbiol."},{"key":"B43","doi-asserted-by":"publisher","first-page":"119","DOI":"10.1186\/1471-2180-12-119","article-title":"Genetic diversity and molecular typing of Listeria monocytogenes in China","volume":"12","author":"Wang","year":"2012","journal-title":"BMC Microbiol."},{"key":"B44","volume-title":"Genetic Algorithm Approaches for the Phylogenetic Analysis of Large Biological Sequence Datasets under the Maximum Likelihood Criterion","author":"Zwickl","year":"2006"}],"container-title":["Frontiers in Microbiology"],"original-title":[],"deposited":{"date-parts":[[2016,8,12]],"date-time":"2016-08-12T08:48:01Z","timestamp":1470991681000},"score":1,"resource":{"primary":{"URL":"http:\/\/journal.frontiersin.org\/Article\/10.3389\/fmicb.2016.01138\/abstract"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2016,7,22]]},"references-count":44,"URL":"https:\/\/doi.org\/10.3389\/fmicb.2016.01138","relation":{},"ISSN":["1664-302X"],"issn-type":[{"value":"1664-302X","type":"electronic"}],"subject":[],"published":{"date-parts":[[2016,7,22]]}}}