Novel Virulence Gene and Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Multilocus Sequence Typing Scheme for Subtyping of the Major Serovars of Salmonella enterica subsp. enterica
Salmonella enterica subsp. enterica is the leading cause of bacterial food-borne disease in the United States. Molecular subtyping methods are powerful tools for tracking the farm-to-fork spread of food-borne pathogens during outbreaks. In order to develop a novel multilocus sequence typing (MLST) s...
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| Veröffentlicht in: | Applied and Environmental Microbiology 2011-03, Vol.77 (6), p.1946-1956 |
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| creator | Liu, Fenyun Barrangou, Rodolphe Gerner-Smidt, Peter Ribot, Efrain M Knabel, Stephen J Dudley, Edward G |
| description | Salmonella enterica subsp. enterica is the leading cause of bacterial food-borne disease in the United States. Molecular subtyping methods are powerful tools for tracking the farm-to-fork spread of food-borne pathogens during outbreaks. In order to develop a novel multilocus sequence typing (MLST) scheme for subtyping the major serovars of S. enterica subsp. enterica, the virulence genes sseL and fimH and clustered regularly interspaced short palindromic repeat (CRISPR) loci were sequenced from 171 clinical isolates from nine Salmonella serovars, Salmonella serovars Typhimurium, Enteritidis, Newport, Heidelberg, Javiana, I 4,[5],12:i:-, Montevideo, Muenchen, and Saintpaul. The MLST scheme using only virulence genes was congruent with serotyping and identified epidemic clones but could not differentiate outbreaks. The addition of CRISPR sequences dramatically improved discriminatory power by differentiating individual outbreak strains/clones. Of particular note, the present MLST scheme provided better discrimination of Salmonella serovar Enteritidis strains than pulsed-field gel electrophoresis (PFGE). This method showed high epidemiologic concordance for all serovars screened except for Salmonella serovar Muenchen. In conclusion, the novel MLST scheme described in the present study accurately differentiated outbreak strains/clones of the major serovars of Salmonella, and therefore, it shows promise for subtyping this important food-borne pathogen during investigations of outbreaks. |
| doi_str_mv | 10.1128/AEM.02625-10 |
| format | Article |
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Molecular subtyping methods are powerful tools for tracking the farm-to-fork spread of food-borne pathogens during outbreaks. In order to develop a novel multilocus sequence typing (MLST) scheme for subtyping the major serovars of S. enterica subsp. enterica, the virulence genes sseL and fimH and clustered regularly interspaced short palindromic repeat (CRISPR) loci were sequenced from 171 clinical isolates from nine Salmonella serovars, Salmonella serovars Typhimurium, Enteritidis, Newport, Heidelberg, Javiana, I 4,[5],12:i:-, Montevideo, Muenchen, and Saintpaul. The MLST scheme using only virulence genes was congruent with serotyping and identified epidemic clones but could not differentiate outbreaks. The addition of CRISPR sequences dramatically improved discriminatory power by differentiating individual outbreak strains/clones. Of particular note, the present MLST scheme provided better discrimination of Salmonella serovar Enteritidis strains than pulsed-field gel electrophoresis (PFGE). This method showed high epidemiologic concordance for all serovars screened except for Salmonella serovar Muenchen. In conclusion, the novel MLST scheme described in the present study accurately differentiated outbreak strains/clones of the major serovars of Salmonella, and therefore, it shows promise for subtyping this important food-borne pathogen during investigations of outbreaks.</description><identifier>ISSN: 0099-2240</identifier><identifier>EISSN: 1098-5336</identifier><identifier>EISSN: 1098-6596</identifier><identifier>DOI: 10.1128/AEM.02625-10</identifier><identifier>PMID: 21278266</identifier><identifier>CODEN: AEMIDF</identifier><language>eng</language><publisher>United States: American Society for Microbiology</publisher><subject>Alleles ; Clinical isolates ; Cluster Analysis ; DNA, Bacterial - genetics ; Electrophoresis, Gel, Pulsed-Field ; Epidemics ; Epidemiology ; Food contamination & poisoning ; Gene loci ; Genes ; Methods ; Molecular biology ; Molecular Sequence Data ; Multilocus Sequence Typing - methods ; Polymerase Chain Reaction ; Polymorphism, Genetic - genetics ; Salmonella ; Salmonella enterica ; Salmonella enterica - classification ; Salmonella enterica - genetics ; Studies ; Virulence - genetics</subject><ispartof>Applied and Environmental Microbiology, 2011-03, Vol.77 (6), p.1946-1956</ispartof><rights>Copyright American Society for Microbiology Mar 2011</rights><rights>Copyright © 2011, American Society for Microbiology 2011</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c492t-622245bc16590b509cc8188fec7928a5dd1a249e93e5ee6559720af0189997cd3</citedby><cites>FETCH-LOGICAL-c492t-622245bc16590b509cc8188fec7928a5dd1a249e93e5ee6559720af0189997cd3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3067318/pdf/$$EPDF$$P50$$Gpubmedcentral$$H</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC3067318/$$EHTML$$P50$$Gpubmedcentral$$H</linktohtml><link.rule.ids>230,315,728,781,785,886,3189,3190,27929,27930,53796,53798</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/21278266$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Liu, Fenyun</creatorcontrib><creatorcontrib>Barrangou, Rodolphe</creatorcontrib><creatorcontrib>Gerner-Smidt, Peter</creatorcontrib><creatorcontrib>Ribot, Efrain M</creatorcontrib><creatorcontrib>Knabel, Stephen J</creatorcontrib><creatorcontrib>Dudley, Edward G</creatorcontrib><title>Novel Virulence Gene and Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Multilocus Sequence Typing Scheme for Subtyping of the Major Serovars of Salmonella enterica subsp. enterica</title><title>Applied and Environmental Microbiology</title><addtitle>Appl Environ Microbiol</addtitle><description>Salmonella enterica subsp. enterica is the leading cause of bacterial food-borne disease in the United States. Molecular subtyping methods are powerful tools for tracking the farm-to-fork spread of food-borne pathogens during outbreaks. In order to develop a novel multilocus sequence typing (MLST) scheme for subtyping the major serovars of S. enterica subsp. enterica, the virulence genes sseL and fimH and clustered regularly interspaced short palindromic repeat (CRISPR) loci were sequenced from 171 clinical isolates from nine Salmonella serovars, Salmonella serovars Typhimurium, Enteritidis, Newport, Heidelberg, Javiana, I 4,[5],12:i:-, Montevideo, Muenchen, and Saintpaul. The MLST scheme using only virulence genes was congruent with serotyping and identified epidemic clones but could not differentiate outbreaks. The addition of CRISPR sequences dramatically improved discriminatory power by differentiating individual outbreak strains/clones. Of particular note, the present MLST scheme provided better discrimination of Salmonella serovar Enteritidis strains than pulsed-field gel electrophoresis (PFGE). This method showed high epidemiologic concordance for all serovars screened except for Salmonella serovar Muenchen. In conclusion, the novel MLST scheme described in the present study accurately differentiated outbreak strains/clones of the major serovars of Salmonella, and therefore, it shows promise for subtyping this important food-borne pathogen during investigations of outbreaks.</description><subject>Alleles</subject><subject>Clinical isolates</subject><subject>Cluster Analysis</subject><subject>DNA, Bacterial - genetics</subject><subject>Electrophoresis, Gel, Pulsed-Field</subject><subject>Epidemics</subject><subject>Epidemiology</subject><subject>Food contamination & poisoning</subject><subject>Gene loci</subject><subject>Genes</subject><subject>Methods</subject><subject>Molecular biology</subject><subject>Molecular Sequence Data</subject><subject>Multilocus Sequence Typing - methods</subject><subject>Polymerase Chain Reaction</subject><subject>Polymorphism, Genetic - genetics</subject><subject>Salmonella</subject><subject>Salmonella enterica</subject><subject>Salmonella enterica - classification</subject><subject>Salmonella enterica - genetics</subject><subject>Studies</subject><subject>Virulence - genetics</subject><issn>0099-2240</issn><issn>1098-5336</issn><issn>1098-6596</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2011</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkk9v0zAYxiMEYmVw4wyGCyCRYjuNY1-QpmqMSitMzcbVcp03rSsnDnZS1E_I18JtRwVc8MXy45-e94-eJHlO8JgQyj9cXM7HmDKapwQ_SEYEC57mWcYeJiOMhUgpneCz5EkIG4zxBDP-ODmjhBacMjZKfn5xW7Dom_GDhVYDuoIWkGorNLVD6MFDhRawGqzydodmbVRCp3RUy7XzPbpR1rSVd43RketA9ejtdDErbxbv0HywvbFODwGV8H042N_uOtOuUKnX0ACqnUflsOyPoqtRvwY0V5u9DN5tlQ97tVS2cS1YqxDsOzBaoTAsQzc-vZ8mj2plAzy7v8-Tu0-Xt9PP6fXXq9n04jrVE0H7lNG4jnypCcsFXuZYaM0J5zXoQlCu8qoiik4EiAxyAJbnoqBY1ZhwIUShq-w8-Xj07YZlA5WO9b2ysvOmUX4nnTLy75_WrOXKbWWGWZERHg3e3Bt4F3cSetmYoPezteCGIAUuCKOZ-D_Jc1bwggkcydf_kBs3-DbuIUKcTOJhEXp_hLR3IXioT00TLPdJkjFJ8pCkqET8xZ-DnuDf0YnAqyOwNqv1D-NBqtBIBY0sCskkEYeaL49MrZxUK2-CvCspJhkmIqe4yLNfCVLa9w</recordid><startdate>20110301</startdate><enddate>20110301</enddate><creator>Liu, Fenyun</creator><creator>Barrangou, Rodolphe</creator><creator>Gerner-Smidt, Peter</creator><creator>Ribot, Efrain M</creator><creator>Knabel, Stephen J</creator><creator>Dudley, Edward G</creator><general>American Society for Microbiology</general><general>American Society for Microbiology (ASM)</general><scope>FBQ</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7QL</scope><scope>7QO</scope><scope>7SN</scope><scope>7SS</scope><scope>7ST</scope><scope>7T7</scope><scope>7TM</scope><scope>7U9</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>H94</scope><scope>M7N</scope><scope>P64</scope><scope>RC3</scope><scope>SOI</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20110301</creationdate><title>Novel Virulence Gene and Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Multilocus Sequence Typing Scheme for Subtyping of the Major Serovars of Salmonella enterica subsp. enterica</title><author>Liu, Fenyun ; Barrangou, Rodolphe ; Gerner-Smidt, Peter ; Ribot, Efrain M ; Knabel, Stephen J ; Dudley, Edward G</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c492t-622245bc16590b509cc8188fec7928a5dd1a249e93e5ee6559720af0189997cd3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2011</creationdate><topic>Alleles</topic><topic>Clinical isolates</topic><topic>Cluster Analysis</topic><topic>DNA, Bacterial - genetics</topic><topic>Electrophoresis, Gel, Pulsed-Field</topic><topic>Epidemics</topic><topic>Epidemiology</topic><topic>Food contamination & poisoning</topic><topic>Gene loci</topic><topic>Genes</topic><topic>Methods</topic><topic>Molecular biology</topic><topic>Molecular Sequence Data</topic><topic>Multilocus Sequence Typing - methods</topic><topic>Polymerase Chain Reaction</topic><topic>Polymorphism, Genetic - genetics</topic><topic>Salmonella</topic><topic>Salmonella enterica</topic><topic>Salmonella enterica - classification</topic><topic>Salmonella enterica - genetics</topic><topic>Studies</topic><topic>Virulence - genetics</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Liu, Fenyun</creatorcontrib><creatorcontrib>Barrangou, Rodolphe</creatorcontrib><creatorcontrib>Gerner-Smidt, Peter</creatorcontrib><creatorcontrib>Ribot, Efrain M</creatorcontrib><creatorcontrib>Knabel, Stephen J</creatorcontrib><creatorcontrib>Dudley, Edward G</creatorcontrib><collection>AGRIS</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Biotechnology Research Abstracts</collection><collection>Ecology Abstracts</collection><collection>Entomology Abstracts (Full archive)</collection><collection>Environment Abstracts</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Genetics Abstracts</collection><collection>Environment Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Applied and Environmental Microbiology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Liu, Fenyun</au><au>Barrangou, Rodolphe</au><au>Gerner-Smidt, Peter</au><au>Ribot, Efrain M</au><au>Knabel, Stephen J</au><au>Dudley, Edward G</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Novel Virulence Gene and Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Multilocus Sequence Typing Scheme for Subtyping of the Major Serovars of Salmonella enterica subsp. enterica</atitle><jtitle>Applied and Environmental Microbiology</jtitle><addtitle>Appl Environ Microbiol</addtitle><date>2011-03-01</date><risdate>2011</risdate><volume>77</volume><issue>6</issue><spage>1946</spage><epage>1956</epage><pages>1946-1956</pages><issn>0099-2240</issn><eissn>1098-5336</eissn><eissn>1098-6596</eissn><coden>AEMIDF</coden><abstract>Salmonella enterica subsp. enterica is the leading cause of bacterial food-borne disease in the United States. Molecular subtyping methods are powerful tools for tracking the farm-to-fork spread of food-borne pathogens during outbreaks. In order to develop a novel multilocus sequence typing (MLST) scheme for subtyping the major serovars of S. enterica subsp. enterica, the virulence genes sseL and fimH and clustered regularly interspaced short palindromic repeat (CRISPR) loci were sequenced from 171 clinical isolates from nine Salmonella serovars, Salmonella serovars Typhimurium, Enteritidis, Newport, Heidelberg, Javiana, I 4,[5],12:i:-, Montevideo, Muenchen, and Saintpaul. The MLST scheme using only virulence genes was congruent with serotyping and identified epidemic clones but could not differentiate outbreaks. The addition of CRISPR sequences dramatically improved discriminatory power by differentiating individual outbreak strains/clones. Of particular note, the present MLST scheme provided better discrimination of Salmonella serovar Enteritidis strains than pulsed-field gel electrophoresis (PFGE). This method showed high epidemiologic concordance for all serovars screened except for Salmonella serovar Muenchen. In conclusion, the novel MLST scheme described in the present study accurately differentiated outbreak strains/clones of the major serovars of Salmonella, and therefore, it shows promise for subtyping this important food-borne pathogen during investigations of outbreaks.</abstract><cop>United States</cop><pub>American Society for Microbiology</pub><pmid>21278266</pmid><doi>10.1128/AEM.02625-10</doi><tpages>11</tpages><oa>free_for_read</oa></addata></record> |
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| source | PubMed (Medline); MEDLINE; ASM_美国微生物学会期刊; Alma/SFX Local Collection; EZB Electronic Journals Library |
| subjects | Alleles Clinical isolates Cluster Analysis DNA, Bacterial - genetics Electrophoresis, Gel, Pulsed-Field Epidemics Epidemiology Food contamination & poisoning Gene loci Genes Methods Molecular biology Molecular Sequence Data Multilocus Sequence Typing - methods Polymerase Chain Reaction Polymorphism, Genetic - genetics Salmonella Salmonella enterica Salmonella enterica - classification Salmonella enterica - genetics Studies Virulence - genetics |
| title | Novel Virulence Gene and Clustered Regularly Interspaced Short Palindromic Repeat (CRISPR) Multilocus Sequence Typing Scheme for Subtyping of the Major Serovars of Salmonella enterica subsp. enterica |
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