{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,17]],"date-time":"2026-10-17T21:09:58Z","timestamp":1792271398226,"version":"4.4.0"},"update-to":[{"DOI":"10.1371\/journal.pntd.0007727","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2019,9,17]],"date-time":"2019-09-17T00:00:00Z","timestamp":1568678400000}}],"reference-count":84,"publisher":"Public Library of Science (PLoS)","issue":"9","license":[{"start":{"date-parts":[[2019,9,5]],"date-time":"2019-09-05T00:00:00Z","timestamp":1567641600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/creativecommons.org\/publicdomain\/zero\/1.0\/"}],"funder":[{"DOI":"10.13039\/100000030","name":"Centers for Disease Control and Prevention","doi-asserted-by":"crossref","award":["NU50CK000480"],"award-info":[{"award-number":["NU50CK000480"]}],"id":[{"id":"10.13039\/100000030","id-type":"DOI","asserted-by":"crossref"}]}],"content-domain":{"domain":["www.plosntds.org"],"crossmark-restriction":false},"short-container-title":["PLoS Negl Trop Dis"],"DOI":"10.1371\/journal.pntd.0007727","type":"journal-article","created":{"date-parts":[[2019,9,5]],"date-time":"2019-09-05T13:31:11Z","timestamp":1567690271000},"page":"e0007727","update-policy":"https:\/\/doi.org\/10.1371\/journal.pntd.corrections_policy","source":"Crossref","is-referenced-by-count":47,"title":["Burkholderia pseudomallei, the causative agent of melioidosis, is rare but ecologically established and widely dispersed in the environment in Puerto Rico"],"prefix":"10.1371","volume":"13","author":[{"given":"Carina M.","family":"Hall","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sierra","family":"Jaramillo","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rebecca","family":"Jimenez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nathan E.","family":"Stone","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Heather","family":"Centner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Joseph D.","family":"Busch","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nicole","family":"Bratsch","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Chandler C.","family":"Roe","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jay E.","family":"Gee","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Alex R.","family":"Hoffmaster","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Sarai","family":"Rivera-Garcia","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fred","family":"Soltero","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-9698-0212","authenticated-orcid":true,"given":"Kyle","family":"Ryff","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Janice","family":"Perez-Padilla","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Paul","family":"Keim","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason W.","family":"Sahl","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2684-6007","authenticated-orcid":true,"given":"David M.","family":"Wagner","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"340","published-online":{"date-parts":[[2019,9,5]]},"reference":[{"issue":"6","key":"pntd.0007727.ref001","doi-asserted-by":"crossref","first-page":"1503","DOI":"10.1111\/1462-2920.12211","article-title":"Genus-wide acid tolerance accounts for the biogeographical distribution of soil Burkholderia populations","volume":"16","author":"N Stopnisek","year":"2014","journal-title":"Environmental microbiology"},{"issue":"1","key":"pntd.0007727.ref002","doi-asserted-by":"crossref","first-page":"111","DOI":"10.1055\/s-0034-1398389","article-title":"Melioidosis: evolving concepts in epidemiology, pathogenesis, and treatment","volume":"36","author":"BJ Currie","year":"2015","journal-title":"Seminars in respiratory and critical care medicine"},{"issue":"1","key":"pntd.0007727.ref003","doi-asserted-by":"crossref","first-page":"14","DOI":"10.1099\/ijsem.0.002293","article-title":"Burkholderia puraquae sp. nov., a novel species of the Burkholderia cepacia complex isolated from hospital settings and agricultural soils","volume":"68","author":"P Martina","year":"2018","journal-title":"International journal of systematic and evolutionary microbiology"},{"issue":"5","key":"pntd.0007727.ref004","doi-asserted-by":"crossref","DOI":"10.1128\/AEM.02802-16","article-title":"Burkholderia humptydooensis sp. nov., a New Species Related to Burkholderia thailandensis and the Fifth Member of the Burkholderia pseudomallei Complex","volume":"83","author":"A Tuanyok","year":"2017","journal-title":"Applied and environmental microbiology"},{"key":"pntd.0007727.ref005","doi-asserted-by":"crossref","first-page":"1679","DOI":"10.3389\/fmicb.2017.01679","article-title":"Comparative Genomics of Burkholderia singularis sp. nov., a Low G+C Content, Free-Living Bacterium That Defies Taxonomic Dissection of the Genus Burkholderia","volume":"8","author":"P Vandamme","year":"2017","journal-title":"Frontiers in microbiology"},{"issue":"5","key":"pntd.0007727.ref006","article-title":"The Effects of Signal Erosion and Core Genome Reduction on the Identification of Diagnostic Markers","volume":"7","author":"JW Sahl","year":"2016","journal-title":"mBio"},{"issue":"2","key":"pntd.0007727.ref007","doi-asserted-by":"crossref","first-page":"299","DOI":"10.1128\/CMR.00068-09","article-title":"The Changing Microbial Epidemiology in Cystic Fibrosis","volume":"23","author":"JJ LiPuma","year":"2010","journal-title":"Clin Microbiol Rev"},{"issue":"1","key":"pntd.0007727.ref008","doi-asserted-by":"crossref","first-page":"92","DOI":"10.1164\/ajrccm.164.1.2011153","article-title":"Disproportionate distribution of Burkholderia cepacia complex species and transmissibility markers in cystic fibrosis","volume":"164","author":"JJ LiPuma","year":"2001","journal-title":"Am J Resp Crit Care"},{"issue":"4","key":"pntd.0007727.ref009","doi-asserted-by":"crossref","first-page":"329","DOI":"10.1111\/j.1364-3703.2010.00676.x","article-title":"Burkholderia glumae: next major pathogen of rice?","volume":"12","author":"JH Ham","year":"2011","journal-title":"Molecular plant pathology"},{"key":"pntd.0007727.ref010","doi-asserted-by":"crossref","first-page":"17107","DOI":"10.1038\/nrdp.2017.107","article-title":"Melioidosis","volume":"4","author":"WJ Wiersinga","year":"2018","journal-title":"Nature reviews Disease primers"},{"issue":"5","key":"pntd.0007727.ref011","first-page":"249","article-title":"Melioidosis, the great mimicker: a report of 10 cases from Malaysia","volume":"91","author":"KC Yee","year":"1988","journal-title":"The Journal of tropical medicine and hygiene"},{"issue":"4","key":"pntd.0007727.ref012","doi-asserted-by":"crossref","first-page":"743","DOI":"10.4269\/ajtmh.14-0172","article-title":"Fatal Burkholderia pseudomallei infection initially reported as a Bacillus species, Ohio, 2013","volume":"91","author":"TJ Doker","year":"2014","journal-title":"The American journal of tropical medicine and hygiene"},{"issue":"12","key":"pntd.0007727.ref013","doi-asserted-by":"crossref","first-page":"1389","DOI":"10.2217\/fmb.12.116","article-title":"Mechanisms of antibiotic resistance in Burkholderia pseudomallei: implications for treatment of melioidosis","volume":"7","author":"HP Schweizer","year":"2012","journal-title":"Future microbiology"},{"issue":"9","key":"pntd.0007727.ref014","doi-asserted-by":"crossref","first-page":"e0005928","DOI":"10.1371\/journal.pntd.0005928","article-title":"Phylogeographic, genomic, and meropenem susceptibility analysis of Burkholderia ubonensis","volume":"11","author":"EP Price","year":"2017","journal-title":"PLoS neglected tropical diseases"},{"key":"pntd.0007727.ref015","doi-asserted-by":"crossref","DOI":"10.1186\/1741-7007-7-78","article-title":"Phylogeographic reconstruction of a bacterial species with high levels of lateral gene transfer","volume":"7","author":"T Pearson","year":"2009","journal-title":"Bmc Biol"},{"key":"pntd.0007727.ref016","doi-asserted-by":"crossref","first-page":"566","DOI":"10.1186\/1471-2164-9-566","article-title":"Genomic islands from five strains of Burkholderia pseudomallei","volume":"9","author":"A Tuanyok","year":"2008","journal-title":"BMC genomics"},{"issue":"3","key":"pntd.0007727.ref017","doi-asserted-by":"crossref","first-page":"95","DOI":"10.1007\/s40475-017-0111-9","article-title":"Genomic Insights Into the Melioidosis Pathogen, Burkholderia pseudomallei","volume":"4","author":"EP Price","year":"2017","journal-title":"Current Tropical Medicine Reports"},{"issue":"12","key":"pntd.0007727.ref018","doi-asserted-by":"crossref","first-page":"1169","DOI":"10.1097\/01.inf.0000145548.79395.da","article-title":"Transmission of Burkholderia pseudomallei via breast milk in northern Australia","volume":"23","author":"A Ralph","year":"2004","journal-title":"The Pediatric infectious disease journal"},{"issue":"1","key":"pntd.0007727.ref019","doi-asserted-by":"crossref","DOI":"10.1038\/nmicrobiol.2015.8","article-title":"Predicted global distribution of Burkholderia pseudomallei and burden of melioidosis","volume":"1","author":"D Limmathurotsakul","year":"2016","journal-title":"Nature microbiology"},{"issue":"2","key":"pntd.0007727.ref020","doi-asserted-by":"crossref","first-page":"243","DOI":"10.1093\/cid\/ciu764","article-title":"Contact investigation of melioidosis cases reveals regional endemicity in Puerto Rico","volume":"60","author":"TJ Doker","year":"2015","journal-title":"Clinical infectious diseases: an official publication of the Infectious Diseases Society of America"},{"issue":"1","key":"pntd.0007727.ref021","doi-asserted-by":"crossref","DOI":"10.3390\/tropicalmed3010024","article-title":"Melioidosis in Mexico, Central America, and the Caribbean","volume":"3","author":"JI Sanchez-Villamil","year":"2018","journal-title":"Tropical medicine and infectious disease"},{"issue":"3","key":"pntd.0007727.ref022","doi-asserted-by":"crossref","first-page":"e2105","DOI":"10.1371\/journal.pntd.0002105","article-title":"Systematic review and consensus guidelines for environmental sampling of Burkholderia pseudomallei","volume":"7","author":"D Limmathurotsakul","year":"2013","journal-title":"PLoS Negl Trop Dis"},{"issue":"21","key":"pntd.0007727.ref023","doi-asserted-by":"crossref","first-page":"6891","DOI":"10.1128\/AEM.01038-07","article-title":"Sensitive and specific molecular detection of Burkholderia pseudomallei, the causative agent of melioidosis, in the soil of tropical northern Australia","volume":"73","author":"M Kaestli","year":"2007","journal-title":"Applied and environmental microbiology"},{"key":"pntd.0007727.ref024","unstructured":"NOAA. March 2017 Climate Review for Puerto Rico and U.S. Virgin Islands. weather.gov: National Oceanic and Atmospheric Administration; 2017 [cited 2019 6\/28\/2019]. https:\/\/www.weather.gov\/media\/sju\/climo\/monthly_reports\/2017\/Mar2017.pdf."},{"key":"pntd.0007727.ref025","unstructured":"NOAA. April 2017 Climate Review for Puerto Rico and U.S. Virgin Islands. weather.gov: National Oceanic and Atmospheric Administration; 2017 [cited 2019 6\/28\/2019]. https:\/\/www.weather.gov\/media\/sju\/climo\/monthly_reports\/2017\/Apr2017.pdf."},{"issue":"6","key":"pntd.0007727.ref026","doi-asserted-by":"crossref","first-page":"687","DOI":"10.1016\/j.jinf.2016.02.015","article-title":"The association of melioidosis with climatic factors in Darwin, Australia: A 23-year time-series analysis","volume":"72","author":"M Kaestli","year":"2016","journal-title":"The Journal of infection"},{"issue":"2","key":"pntd.0007727.ref027","doi-asserted-by":"crossref","first-page":"532","DOI":"10.1128\/AEM.01822-10","article-title":"Randomized soil survey of the distribution of Burkholderia pseudomallei in rice fields in Laos","volume":"77","author":"S Rattanavong","year":"2011","journal-title":"Applied and environmental microbiology"},{"issue":"8","key":"pntd.0007727.ref028","doi-asserted-by":"crossref","first-page":"7828","DOI":"10.1007\/s11356-015-5943-z","article-title":"Land use and soil type determine the presence of the pathogen Burkholderia pseudomallei in tropical rivers","volume":"23","author":"O Ribolzi","year":"2016","journal-title":"Environmental science and pollution research international"},{"issue":"1","key":"pntd.0007727.ref029","doi-asserted-by":"crossref","first-page":"e364","DOI":"10.1371\/journal.pntd.0000364","article-title":"Landscape changes influence the occurrence of the melioidosis bacterium Burkholderia pseudomallei in soil in northern Australia","volume":"3","author":"M Kaestli","year":"2009","journal-title":"PLoS Negl Trop Dis"},{"issue":"1","key":"pntd.0007727.ref030","doi-asserted-by":"crossref","first-page":"3031","DOI":"10.1038\/s41598-017-02946-z","article-title":"Burkholderia pseudomallei in a lowland rice paddy: seasonal changes and influence of soil depth and physico-chemical properties","volume":"7","author":"L Manivanh","year":"2017","journal-title":"Scientific reports"},{"issue":"2","key":"pntd.0007727.ref031","doi-asserted-by":"crossref","first-page":"e182","DOI":"10.1371\/journal.pntd.0000182","article-title":"Genetic diversity and microevolution of Burkholderia pseudomallei in the environment","volume":"2","author":"N Chantratita","year":"2008","journal-title":"PLoS neglected tropical diseases"},{"issue":"4","key":"pntd.0007727.ref032","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pntd.0007348","article-title":"Prevalence and genetic diversity of Burkholderia pseudomallei isolates in the environment near a patient\u2019s residence in Northeast Thailand","volume":"13","author":"R Seng","year":"2019","journal-title":"PLoS neglected tropical diseases"},{"issue":"2","key":"pntd.0007727.ref033","doi-asserted-by":"crossref","first-page":"251","DOI":"10.1093\/cid\/ciu768","article-title":"Editorial commentary: melioidosis in Puerto Rico: the iceberg slowly emerges","volume":"60","author":"DA Dance","year":"2015","journal-title":"Clinical infectious diseases: an official publication of the Infectious Diseases Society of America"},{"issue":"11","key":"pntd.0007727.ref034","doi-asserted-by":"crossref","first-page":"e0143254","DOI":"10.1371\/journal.pone.0143254","article-title":"Diverse Burkholderia Species Isolated from Soils in the Southern United States with No Evidence of B. pseudomallei","volume":"10","author":"CM Hall","year":"2015","journal-title":"PLoS One"},{"issue":"6","key":"pntd.0007727.ref035","doi-asserted-by":"crossref","first-page":"e0003892","DOI":"10.1371\/journal.pntd.0003892","article-title":"Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia","volume":"9","author":"JL Ginther","year":"2015","journal-title":"PLoS Negl Trop Dis"},{"issue":"8","key":"pntd.0007727.ref036","doi-asserted-by":"crossref","first-page":"e71647","DOI":"10.1371\/journal.pone.0071647","article-title":"Accurate and rapid identification of the Burkholderia pseudomallei near-neighbour, Burkholderia ubonensis, using real-time PCR","volume":"8","author":"EP Price","year":"2013","journal-title":"PLoS One"},{"issue":"18","key":"pntd.0007727.ref037","doi-asserted-by":"crossref","first-page":"6486","DOI":"10.1128\/AEM.00735-11","article-title":"Highly sensitive direct detection and quantification of Burkholderia pseudomallei bacteria in environmental soil samples by using real-time PCR","volume":"77","author":"TT Trung","year":"2011","journal-title":"Applied and environmental microbiology"},{"issue":"1","key":"pntd.0007727.ref038","doi-asserted-by":"crossref","first-page":"85","DOI":"10.1128\/JCM.44.1.85-90.2006","article-title":"Development and evaluation of a real-time PCR assay targeting the type III secretion system of Burkholderia pseudomallei","volume":"44","author":"RT Novak","year":"2006","journal-title":"J Clin Microbiol"},{"issue":"10","key":"pntd.0007727.ref039","doi-asserted-by":"crossref","first-page":"e0164504","DOI":"10.1371\/journal.pone.0164504","article-title":"More than 50% of Clostridium difficile Isolates from Pet Dogs in Flagstaff, USA, Carry Toxigenic Genotypes","volume":"11","author":"NE Stone","year":"2016","journal-title":"PloS one"},{"key":"pntd.0007727.ref040","doi-asserted-by":"crossref","first-page":"56","DOI":"10.1186\/1471-2180-12-56","article-title":"BactQuant: An enhanced broad-coverage bacterial quantitative real-time PCR assay","volume":"12","author":"CM Liu","year":"2012","journal-title":"BMC Microbiol"},{"issue":"8","key":"pntd.0007727.ref041","doi-asserted-by":"crossref","first-page":"785","DOI":"10.1016\/0923-2508(92)90107-Y","article-title":"A One-Step Microbial DNA Extraction Method Using Chelex-100 Suitable for Gene Amplification","volume":"143","author":"X Delamballerie","year":"1992","journal-title":"Research in microbiology"},{"issue":"2","key":"pntd.0007727.ref042","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0030789","article-title":"Characterization of Ceftazidime Resistance Mechanisms in Clinical Isolates of Burkholderia pseudomallei from Australia","volume":"7","author":"DS Sarovich","year":"2012","journal-title":"PloS one"},{"issue":"7","key":"pntd.0007727.ref043","doi-asserted-by":"crossref","first-page":"3917","DOI":"10.1128\/AEM.71.7.3917-3927.2005","article-title":"Development of a recA gene-based identification approach for the entire Burkholderia genus","volume":"71","author":"GW Payne","year":"2005","journal-title":"Appl Environ Microbiol"},{"key":"pntd.0007727.ref044","doi-asserted-by":"crossref","first-page":"279","DOI":"10.1007\/978-1-61779-089-8_20","article-title":"96-plex molecular barcoding for the Illumina Genome Analyzer","volume":"733","author":"I Kozarewa","year":"2011","journal-title":"Methods Mol Biol"},{"issue":"5","key":"pntd.0007727.ref045","doi-asserted-by":"crossref","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":"A Bankevich","year":"2012","journal-title":"Journal of computational biology: a journal of computational molecular cell biology"},{"issue":"3","key":"pntd.0007727.ref046","doi-asserted-by":"crossref","first-page":"403","DOI":"10.1016\/S0022-2836(05)80360-2","article-title":"Basic local alignment search tool","volume":"215","author":"SF Altschul","year":"1990","journal-title":"Journal of molecular biology"},{"issue":"Database issue","key":"pntd.0007727.ref047","doi-asserted-by":"crossref","first-page":"D48","DOI":"10.1093\/nar\/gkr1202","article-title":"GenBank","volume":"40","author":"DA Benson","year":"2012","journal-title":"Nucleic acids research"},{"issue":"5","key":"pntd.0007727.ref048","doi-asserted-by":"crossref","first-page":"2068","DOI":"10.1128\/JCM.41.5.2068-2079.2003","article-title":"Multilocus sequence typing and evolutionary relationships among the causative agents of melioidosis and glanders, Burkholderia pseudomallei and Burkholderia mallei","volume":"41","author":"D Godoy","year":"2003","journal-title":"Journal of clinical microbiology"},{"issue":"9","key":"pntd.0007727.ref049","doi-asserted-by":"crossref","first-page":"4665","DOI":"10.1128\/JCM.43.9.4665-4673.2005","article-title":"Multilocus sequence typing scheme that provides both species and strain differentiation for the Burkholderia cepacia complex","volume":"43","author":"A Baldwin","year":"2005","journal-title":"Journal of clinical microbiology"},{"key":"pntd.0007727.ref050","doi-asserted-by":"crossref","first-page":"595","DOI":"10.1186\/1471-2105-11-595","article-title":"BIGSdb: Scalable analysis of bacterial genome variation at the population level","volume":"11","author":"KA Jolley","year":"2010","journal-title":"BMC bioinformatics"},{"issue":"39","key":"pntd.0007727.ref051","doi-asserted-by":"crossref","first-page":"14240","DOI":"10.1073\/pnas.0403302101","article-title":"Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei","volume":"101","author":"MT Holden","year":"2004","journal-title":"Proceedings of the National Academy of Sciences of the United States of America"},{"issue":"11","key":"pntd.0007727.ref052","doi-asserted-by":"crossref","first-page":"2478","DOI":"10.1093\/nar\/30.11.2478","article-title":"Fast algorithms for large-scale genome alignment and comparison","volume":"30","author":"AL Delcher","year":"2002","journal-title":"Nucleic acids research"},{"issue":"8","key":"pntd.0007727.ref053","first-page":"e000074","article-title":"NASP: an accurate, rapid method for the identification of SNPs in WGS datasets that supports flexible input and output formats","volume":"2","author":"JW Sahl","year":"2016","journal-title":"Microbial genomics"},{"key":"pntd.0007727.ref054","unstructured":"Li H. Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM. arXivorg. 2013;arXiv:1303.3997 [q-bio.GN]."},{"issue":"5","key":"pntd.0007727.ref055","doi-asserted-by":"crossref","first-page":"491","DOI":"10.1038\/ng.806","article-title":"A framework for variation discovery and genotyping using next-generation DNA sequencing data","volume":"43","author":"MA DePristo","year":"2011","journal-title":"Nature genetics"},{"issue":"1","key":"pntd.0007727.ref056","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1093\/molbev\/msu300","article-title":"IQ-TREE: a fast and effective stochastic algorithm for estimating maximum-likelihood phylogenies","volume":"32","author":"LT Nguyen","year":"2015","journal-title":"Molecular biology and evolution"},{"key":"pntd.0007727.ref057","doi-asserted-by":"crossref","first-page":"e332","DOI":"10.7717\/peerj.332","article-title":"The large-scale blast score ratio (LS-BSR) pipeline: a method to rapidly compare genetic content between bacterial genomes","volume":"2","author":"JW Sahl","year":"2014","journal-title":"PeerJ"},{"issue":"4","key":"pntd.0007727.ref058","doi-asserted-by":"crossref","first-page":"656","DOI":"10.1101\/gr.229202","article-title":"BLAT\u2014the BLAST-like alignment tool","volume":"12","author":"WJ Kent","year":"2002","journal-title":"Genome research"},{"issue":"1","key":"pntd.0007727.ref059","doi-asserted-by":"crossref","first-page":"127","DOI":"10.1093\/bioinformatics\/btl529","article-title":"Interactive Tree Of Life (iTOL): an online tool for phylogenetic tree display and annotation","volume":"23","author":"I Letunic","year":"2007","journal-title":"Bioinformatics"},{"issue":"18","key":"pntd.0007727.ref060","doi-asserted-by":"crossref","first-page":"2334","DOI":"10.1093\/bioinformatics\/btq413","article-title":"genoPlotR: comparative gene and genome visualization in R","volume":"26","author":"L Guy","year":"2010","journal-title":"Bioinformatics"},{"issue":"3","key":"pntd.0007727.ref061","doi-asserted-by":"crossref","first-page":"e15","DOI":"10.1093\/nar\/gku1196","article-title":"Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins","volume":"43","author":"NJ Croucher","year":"2015","journal-title":"Nucleic acids research"},{"issue":"1","key":"pntd.0007727.ref062","doi-asserted-by":"crossref","first-page":"vew007","DOI":"10.1093\/ve\/vew007","article-title":"Exploring the temporal structure of heterochronous sequences using TempEst (formerly Path-O-Gen)","volume":"2","author":"A Rambaut","year":"2016","journal-title":"Virus evolution"},{"issue":"1","key":"pntd.0007727.ref063","doi-asserted-by":"crossref","first-page":"80","DOI":"10.1111\/2041-210X.12466","article-title":"The effect of genetic structure on molecular dating and tests for temporal signal","volume":"7","author":"GG Murray","year":"2016","journal-title":"Methods in ecology and evolution"},{"issue":"8","key":"pntd.0007727.ref064","doi-asserted-by":"crossref","first-page":"1969","DOI":"10.1093\/molbev\/mss075","article-title":"Bayesian phylogenetics with BEAUti and the BEAST 1.7","volume":"29","author":"AJ Drummond","year":"2012","journal-title":"Molecular biology and evolution"},{"issue":"7","key":"pntd.0007727.ref065","doi-asserted-by":"crossref","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets","volume":"33","author":"S Kumar","year":"2016","journal-title":"Molecular biology and evolution"},{"issue":"9","key":"pntd.0007727.ref066","doi-asserted-by":"crossref","first-page":"2157","DOI":"10.1093\/molbev\/mss084","article-title":"Improving the accuracy of demographic and molecular clock model comparison while accommodating phylogenetic uncertainty","volume":"29","author":"G Baele","year":"2012","journal-title":"Molecular biology and evolution"},{"key":"pntd.0007727.ref067","unstructured":"Rambaut A, Suchard M, Drummond A. Tracer version 1.6.0 2013 [23 Jan 2019]. http:\/\/tree.bio.ed.ac.uk\/software\/tracer\/."},{"issue":"24","key":"pntd.0007727.ref068","doi-asserted-by":"crossref","first-page":"9044","DOI":"10.1128\/JB.01264-07","article-title":"A horizontal gene transfer event defines two distinct groups within Burkholderia pseudomallei that have dissimilar geographic distributions","volume":"189","author":"A Tuanyok","year":"2007","journal-title":"Journal of bacteriology"},{"issue":"12","key":"pntd.0007727.ref069","doi-asserted-by":"crossref","first-page":"e29323","DOI":"10.1371\/journal.pone.0029323","article-title":"Diversity of 16S-23S rDNA internal transcribed spacer (ITS) reveals phylogenetic relationships in Burkholderia pseudomallei and its near-neighbors","volume":"6","author":"AP Liguori","year":"2011","journal-title":"PLoS ONE"},{"issue":"11","key":"pntd.0007727.ref070","doi-asserted-by":"crossref","first-page":"e000094","DOI":"10.1099\/mgen.0.000094","article-title":"Genome-scale rates of evolutionary change in bacteria","volume":"2","author":"S Duchene","year":"2016","journal-title":"Microbial genomics"},{"key":"pntd.0007727.ref071","doi-asserted-by":"crossref","first-page":"16263","DOI":"10.1038\/nmicrobiol.2016.263","article-title":"Global and regional dissemination and evolution of Burkholderia pseudomallei","volume":"2","author":"C Chewapreecha","year":"2017","journal-title":"Nat Microbiol"},{"issue":"6","key":"pntd.0007727.ref072","doi-asserted-by":"crossref","first-page":"e694","DOI":"10.1371\/journal.pntd.0000694","article-title":"Burkholderia pseudomallei is spatially distributed in soil in northeast Thailand","volume":"4","author":"D Limmathurotsakul","year":"2010","journal-title":"PLoS neglected tropical diseases"},{"issue":"3","key":"pntd.0007727.ref073","doi-asserted-by":"crossref","first-page":"e0003635","DOI":"10.1371\/journal.pntd.0003635","article-title":"What drives the occurrence of the melioidosis bacterium Burkholderia pseudomallei in domestic gardens?","volume":"9","author":"M Kaestli","year":"2015","journal-title":"PLoS neglected tropical diseases"},{"issue":"8","key":"pntd.0007727.ref074","doi-asserted-by":"crossref","first-page":"e496","DOI":"10.1371\/journal.pntd.0000496","article-title":"Burkholderia Pseudomallei is genetically diverse in agricultural land in Northeast Thailand","volume":"3","author":"V Wuthiekanun","year":"2009","journal-title":"PLoS neglected tropical diseases"},{"issue":"7","key":"pntd.0007727.ref075","doi-asserted-by":"crossref","first-page":"1133","DOI":"10.3201\/eid2307.161978","article-title":"Phylogeography of Burkholderia pseudomallei Isolates, Western Hemisphere","volume":"23","author":"JE Gee","year":"2017","journal-title":"Emerging infectious diseases"},{"issue":"2","key":"pntd.0007727.ref076","doi-asserted-by":"crossref","DOI":"10.1128\/mSphere.00089-15","article-title":"Phylogenomic Analysis Reveals an Asian Origin for African Burkholderia pseudomallei and Further Supports Melioidosis Endemicity in Africa","volume":"1","author":"DS Sarovich","year":"2016","journal-title":"mSphere"},{"issue":"20","key":"pntd.0007727.ref077","doi-asserted-by":"crossref","first-page":"6678","DOI":"10.1128\/AEM.00986-07","article-title":"Fine-scale genetic diversity among Burkholderia pseudomallei soil isolates in northeast Thailand","volume":"73","author":"J M U\u2019Ren","year":"2007","journal-title":"Appl Environ Microbiol"},{"issue":"5","key":"pntd.0007727.ref078","doi-asserted-by":"crossref","first-page":"e2877","DOI":"10.1371\/journal.pntd.0002877","article-title":"The concentrations of ambient Burkholderia pseudomallei during typhoon season in endemic area of melioidosis in Taiwan","volume":"8","author":"YL Chen","year":"2014","journal-title":"PLoS neglected tropical diseases"},{"issue":"2","key":"pntd.0007727.ref079","doi-asserted-by":"crossref","first-page":"323","DOI":"10.1093\/ije\/dyi271","article-title":"Extreme weather events and environmental contamination are associated with case-clusters of melioidosis in the Northern Territory of Australia","volume":"35","author":"AC Cheng","year":"2006","journal-title":"International journal of epidemiology"},{"issue":"11","key":"pntd.0007727.ref080","doi-asserted-by":"crossref","first-page":"2052","DOI":"10.3201\/eid2111.141802","article-title":"Use of Whole-Genome Sequencing to Link Burkholderia pseudomallei from Air Sampling to Mediastinal Melioidosis, Australia","volume":"21","author":"BJ Currie","year":"2015","journal-title":"Emerging infectious diseases"},{"key":"pntd.0007727.ref081","unstructured":"NOAA. Tropical Cyclone Climatology: National Oceanic and Atmospheric Administration, National Hurrican Center; 2018 [cited 2018 November 1, 2018]. https:\/\/www.nhc.noaa.gov\/climo\/."},{"key":"pntd.0007727.ref082","unstructured":"Stewart S. 2012 Atlantic Hurricane Season. In: NOAA, editor. National Weather Service: NOAA; 2014."},{"key":"pntd.0007727.ref083","article-title":"Bacteria occurring in onion (Allium cepa L.) foliage in Puerto Rico","volume":"21","author":"J Calle-Bellido","year":"2012","journal-title":"The Journal of Agriculture of the University of Puerto Rico"},{"key":"pntd.0007727.ref084","unstructured":"International Diabetes Federation2017 [November 1, 2018]. https:\/\/www.idf.org\/our-network\/regions-members\/south-and-central-america\/members\/90-puerto-rico.html."}],"updated-by":[{"DOI":"10.1371\/journal.pntd.0007727","type":"new_version","label":"New version","source":"publisher","updated":{"date-parts":[[2019,9,17]],"date-time":"2019-09-17T00:00:00Z","timestamp":1568678400000}}],"container-title":["PLOS Neglected Tropical Diseases"],"original-title":[],"language":"en","link":[{"URL":"http:\/\/dx.plos.org\/10.1371\/journal.pntd.0007727","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2022,9,27]],"date-time":"2022-09-27T13:17:11Z","timestamp":1664284631000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pntd.0007727"}},"subtitle":[],"editor":[{"given":"Alfredo G","family":"Torres","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2019,9,5]]},"references-count":84,"journal-issue":{"issue":"9","published-online":{"date-parts":[[2019,9,5]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pntd.0007727","relation":{},"ISSN":["1935-2735"],"issn-type":[{"value":"1935-2735","type":"electronic"}],"subject":[],"published":{"date-parts":[[2019,9,5]]}}}