{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,11,5]],"date-time":"2025-11-05T05:42:41Z","timestamp":1762321361744},"reference-count":38,"publisher":"American Society for Microbiology","issue":"17","license":[{"start":{"date-parts":[[2008,9,1]],"date-time":"2008-09-01T00:00:00Z","timestamp":1220227200000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/journals.asm.org\/non-commercial-tdm-license"}],"content-domain":{"domain":["journals.asm.org"],"crossmark-restriction":true},"short-container-title":["Appl Environ Microbiol"],"published-print":{"date-parts":[[2008,9]]},"abstract":"<jats:title>ABSTRACT<\/jats:title>\n          <jats:p>\n            A high-throughput method which is applicable for rapid screening, identification, and delineation of isolates of\n            <jats:italic>Vibrio cholerae<\/jats:italic>\n            , sensitive to genome variation, and capable of providing phylogenetic inferences enhances environmental monitoring of this bacterium. We have developed and optimized a method for genomic fingerprinting of\n            <jats:italic>V. cholerae<\/jats:italic>\n            based on long-range PCR. The method uses a primer set directed to enterobacterial repetitive intergenic consensus sequences, a high-fidelity DNA polymerase, and analysis via conventional agarose gel electrophoresis. Long (\u223c10 kb), highly reproducible amplicons were generated from\n            <jats:italic>V. cholerae<\/jats:italic>\n            isolates, including those from different geographical locations and historical strains isolated during the period 1931-2000. The amplicons yielded reduced variability in their densitometric band patterns to \u226410% and clonal distinction at &lt;90% similarity. Rapid band-matching analysis was accomplished for fingerprints with \u226590% similarity, discriminating O serotypes and biotypes (classical versus El Tor) as well as pathogenic and nonpathogenic strains. Compared to genome similarity measured by DNA-DNA hybridization, the results showed good correlation (\n            <jats:italic>r<\/jats:italic>\n            = 0.7;\n            <jats:italic>P<\/jats:italic>\n            &lt; 0.001), with five times less measurement error and without bias. The method permits both phylogenetic inference and clonal differentiation of individual\n            <jats:italic>V. cholerae<\/jats:italic>\n            strains, enables robust, high-throughput analysis, and does not require specialized equipment to perform. With access to a curated public database furnished with appropriate analytical software applications, the method should prove useful in large-scale multilaboratory surveys, especially those designed to detect specific pathogens in the natural environment.\n          <\/jats:p>","DOI":"10.1128\/aem.00151-08","type":"journal-article","created":{"date-parts":[[2008,7,8]],"date-time":"2008-07-08T00:34:15Z","timestamp":1215477255000},"page":"5392-5401","update-policy":"http:\/\/dx.doi.org\/10.1128\/asmj-crossmark-policy-page","source":"Crossref","is-referenced-by-count":16,"title":["Determination of Clonality and Relatedness of\n            <i>Vibrio cholerae<\/i>\n            Isolates by Genomic Fingerprinting, Using Long-Range Repetitive Element Sequence-Based PCR"],"prefix":"10.1128","volume":"74","author":[{"given":"Nipa","family":"Chokesajjawatee","sequence":"first","affiliation":[{"name":"Center of Marine Biotechnology, University of Maryland Biotechnology Institute, 701 E. Pratt Street, Baltimore, Maryland 21202"},{"name":"National Center for Genetic Engineering and Biotechnology, 113 Phahonyothin Road, Klong 1, Klong Luang, Pathumthani 12120, Thailand"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Young-Gun","family":"Zo","sequence":"additional","affiliation":[{"name":"Center of Marine Biotechnology, University of Maryland Biotechnology Institute, 701 E. Pratt Street, Baltimore, Maryland 21202"},{"name":"Center of Bioinformatics and Computational Biology, University of Maryland Institute of Advanced Computer Studies, University of Maryland College Park, College Park, Maryland 20742"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Rita R.","family":"Colwell","sequence":"additional","affiliation":[{"name":"Center of Marine Biotechnology, University of Maryland Biotechnology Institute, 701 E. Pratt Street, Baltimore, Maryland 21202"},{"name":"Center of Bioinformatics and Computational Biology, University of Maryland Institute of Advanced Computer Studies, University of Maryland College Park, College Park, Maryland 20742"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"235","reference":[{"key":"e_1_3_2_2_2","doi-asserted-by":"publisher","DOI":"10.1093\/infdis\/118.1.25"},{"key":"e_1_3_2_3_2","doi-asserted-by":"publisher","DOI":"10.1086\/302449"},{"key":"e_1_3_2_4_2","doi-asserted-by":"publisher","DOI":"10.1128\/JCM.37.3.581-590.1999"},{"key":"e_1_3_2_5_2","doi-asserted-by":"publisher","DOI":"10.1128\/jcm.34.6.1453-1461.1996"},{"key":"e_1_3_2_6_2","doi-asserted-by":"publisher","DOI":"10.1371\/journal.ppat.0030081"},{"key":"e_1_3_2_7_2","doi-asserted-by":"publisher","DOI":"10.1128\/jcm.26.8.1524-1534.1988"},{"key":"e_1_3_2_8_2","unstructured":"Bacterial genomes. 1997"},{"key":"e_1_3_2_9_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.67.7.3021-3028.2001"},{"key":"e_1_3_2_10_2","doi-asserted-by":"publisher","DOI":"10.1128\/AEM.71.5.2209-2213.2005"},{"key":"e_1_3_2_11_2","doi-asserted-by":"publisher","DOI":"10.1111\/j.1574-695X.1997.tb01070.x"},{"key":"e_1_3_2_12_2","doi-asserted-by":"publisher","DOI":"10.1126\/science.274.5295.2025"},{"key":"e_1_3_2_13_2","doi-asserted-by":"publisher","DOI":"10.1089\/fpd.2006.3.51"},{"key":"e_1_3_2_14_2","first-page":"A108","volume":"65","year":"1999","unstructured":"Dabora, S. L., D. Franz, S. Jozwiak, and D. J. Kwiatkowski. 1999. Identification and characterization of 4 large (1.4 kb-34 kb) deletions in TSC2 using long range PCR suggests diverse deletion mechanisms. Am. J. Hum. Genet.65:A108.","journal-title":"Am. J. Hum. Genet."},{"key":"e_1_3_2_15_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0308485100"},{"key":"e_1_3_2_16_2","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.0337468100"},{"key":"e_1_3_2_17_2","unstructured":"Abstr. 98th Gen. Meet. Am. Soc. 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