Interpretation of band differences to distinguish strains of Serratia marcescens by pulsed-field gel electrophoresis of XbaI DNA digests
The number of band differences in DNA macrorestriction profiles required to distinguish unrelated strains from an index strain varies in an outbreak with the species and restriction enzyme used. In order to define this difference for epidemiological studies of Serratia marcescens, we produced DNA fi...
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| creator | AUCKEN, H. M. BOQUETE, T. KAUFMANN, M. E. PITT, T. L. |
| description | The number of band differences in DNA macrorestriction profiles required to distinguish
unrelated strains from an index strain varies in an outbreak with the species and restriction
enzyme used. In order to define this difference for epidemiological studies of Serratia
marcescens, we produced DNA fingerprints from 57 isolates of the organism using the
restriction enzyme XbaI and pulsed-field gel electrophoresis (PFGE). The isolates were selected
on the basis of their epidemiology, serotype and phage-typing patterns to include 28 unrelated
strains and 29 representatives from 2 distinct outbreaks. One of the outbreaks was prolonged,
lasting for several years. Electrophoretic profiles consisting of 20 or more clearly resolved
bands were obtained for all isolates. Twenty-six of the unrelated strains had unique profiles
with over 10 band differences from all other strains, while 27 of the outbreak representatives
could be assigned to the appropriate outbreak with confidence. The majority of the outbreak
isolates had none or 2 band differences from the index profile, although 3 isolates differed by
5–7 bands. The 2 exceptions among the unrelated strains differed by 4 bands, and 3 phage
typing reactions, and were isolated from London and Berlin 3 years apart, while the 2
exceptions among the outbreak collection had clearly unique profiles with over 20 band
differences from each other and the outbreak profiles. Cluster analysis using Dice coefficient
and UPGMA gave cut-off values of 75–78% similarity overall for related isolates, while the
closest similarity for unrelated strains was 70%. The results of this study together with those
of the 6 previous reports of PFGE for S. marcescens (which used either enzymes XbaI or SpeI)
confirm that this technique is of value for this species and that with XbaI at least, most
epidemiologically related strains will only differ by 3–4 bands. However, on occasion up to 7
band differences can be found within an apparent outbreak, which may be suggestive of genetic
drift. |
| doi_str_mv | 10.1017/S0950268899004112 |
| format | Article |
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unrelated strains from an index strain varies in an outbreak with the species and restriction
enzyme used. In order to define this difference for epidemiological studies of Serratia
marcescens, we produced DNA fingerprints from 57 isolates of the organism using the
restriction enzyme XbaI and pulsed-field gel electrophoresis (PFGE). The isolates were selected
on the basis of their epidemiology, serotype and phage-typing patterns to include 28 unrelated
strains and 29 representatives from 2 distinct outbreaks. One of the outbreaks was prolonged,
lasting for several years. Electrophoretic profiles consisting of 20 or more clearly resolved
bands were obtained for all isolates. Twenty-six of the unrelated strains had unique profiles
with over 10 band differences from all other strains, while 27 of the outbreak representatives
could be assigned to the appropriate outbreak with confidence. The majority of the outbreak
isolates had none or 2 band differences from the index profile, although 3 isolates differed by
5–7 bands. The 2 exceptions among the unrelated strains differed by 4 bands, and 3 phage
typing reactions, and were isolated from London and Berlin 3 years apart, while the 2
exceptions among the outbreak collection had clearly unique profiles with over 20 band
differences from each other and the outbreak profiles. Cluster analysis using Dice coefficient
and UPGMA gave cut-off values of 75–78% similarity overall for related isolates, while the
closest similarity for unrelated strains was 70%. The results of this study together with those
of the 6 previous reports of PFGE for S. marcescens (which used either enzymes XbaI or SpeI)
confirm that this technique is of value for this species and that with XbaI at least, most
epidemiologically related strains will only differ by 3–4 bands. However, on occasion up to 7
band differences can be found within an apparent outbreak, which may be suggestive of genetic
drift.</description><identifier>ISSN: 0950-2688</identifier><identifier>EISSN: 1469-4409</identifier><identifier>DOI: 10.1017/S0950268899004112</identifier><identifier>PMID: 11057960</identifier><identifier>CODEN: EPINEU</identifier><language>eng</language><publisher>Cambridge: Cambridge University Press</publisher><subject>Bacteriology ; Bacteriophage typing ; Bacteriophages ; Berlin - epidemiology ; Biological and medical sciences ; Cluster analysis ; Cross Infection - genetics ; Deoxyribonuclease XbaI ; Deoxyribonucleases, Type II Site-Specific ; Disease Outbreaks ; DNA ; DNA Fingerprinting ; DNA, Bacterial - chemistry ; DNA, Bacterial - genetics ; Electrophoresis ; Electrophoresis, Gel, Pulsed-Field ; Enzymes ; Epidemiology ; Europe - epidemiology ; Fundamental and applied biological sciences. Psychology ; Gels ; Humans ; Infections ; Microbiology ; Restriction Mapping ; Serratia Infections - epidemiology ; Serratia Infections - microbiology ; Serratia marcescens ; Serratia marcescens - genetics ; Serratia marcescens - isolation & purification ; Spain - epidemiology ; United Kingdom - epidemiology</subject><ispartof>Epidemiology and infection, 2000-08, Vol.125 (1), p.63-70</ispartof><rights>2000 Cambridge University Press</rights><rights>Copyright 2000 Cambridge University Press</rights><rights>2001 INIST-CNRS</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.jstor.org/stable/pdf/3864984$$EPDF$$P50$$Gjstor$$H</linktopdf><linktohtml>$$Uhttps://www.jstor.org/stable/3864984$$EHTML$$P50$$Gjstor$$H</linktohtml><link.rule.ids>230,314,727,780,784,803,885,27922,27923,53789,53791,58015,58248</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=975070$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/11057960$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>AUCKEN, H. M.</creatorcontrib><creatorcontrib>BOQUETE, T.</creatorcontrib><creatorcontrib>KAUFMANN, M. E.</creatorcontrib><creatorcontrib>PITT, T. L.</creatorcontrib><title>Interpretation of band differences to distinguish strains of Serratia marcescens by pulsed-field gel electrophoresis of XbaI DNA digests</title><title>Epidemiology and infection</title><addtitle>Epidemiol. Infect</addtitle><description>The number of band differences in DNA macrorestriction profiles required to distinguish
unrelated strains from an index strain varies in an outbreak with the species and restriction
enzyme used. In order to define this difference for epidemiological studies of Serratia
marcescens, we produced DNA fingerprints from 57 isolates of the organism using the
restriction enzyme XbaI and pulsed-field gel electrophoresis (PFGE). The isolates were selected
on the basis of their epidemiology, serotype and phage-typing patterns to include 28 unrelated
strains and 29 representatives from 2 distinct outbreaks. One of the outbreaks was prolonged,
lasting for several years. Electrophoretic profiles consisting of 20 or more clearly resolved
bands were obtained for all isolates. Twenty-six of the unrelated strains had unique profiles
with over 10 band differences from all other strains, while 27 of the outbreak representatives
could be assigned to the appropriate outbreak with confidence. The majority of the outbreak
isolates had none or 2 band differences from the index profile, although 3 isolates differed by
5–7 bands. The 2 exceptions among the unrelated strains differed by 4 bands, and 3 phage
typing reactions, and were isolated from London and Berlin 3 years apart, while the 2
exceptions among the outbreak collection had clearly unique profiles with over 20 band
differences from each other and the outbreak profiles. Cluster analysis using Dice coefficient
and UPGMA gave cut-off values of 75–78% similarity overall for related isolates, while the
closest similarity for unrelated strains was 70%. The results of this study together with those
of the 6 previous reports of PFGE for S. marcescens (which used either enzymes XbaI or SpeI)
confirm that this technique is of value for this species and that with XbaI at least, most
epidemiologically related strains will only differ by 3–4 bands. However, on occasion up to 7
band differences can be found within an apparent outbreak, which may be suggestive of genetic
drift.</description><subject>Bacteriology</subject><subject>Bacteriophage typing</subject><subject>Bacteriophages</subject><subject>Berlin - epidemiology</subject><subject>Biological and medical sciences</subject><subject>Cluster analysis</subject><subject>Cross Infection - genetics</subject><subject>Deoxyribonuclease XbaI</subject><subject>Deoxyribonucleases, Type II Site-Specific</subject><subject>Disease Outbreaks</subject><subject>DNA</subject><subject>DNA Fingerprinting</subject><subject>DNA, Bacterial - chemistry</subject><subject>DNA, Bacterial - genetics</subject><subject>Electrophoresis</subject><subject>Electrophoresis, Gel, Pulsed-Field</subject><subject>Enzymes</subject><subject>Epidemiology</subject><subject>Europe - epidemiology</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Gels</subject><subject>Humans</subject><subject>Infections</subject><subject>Microbiology</subject><subject>Restriction Mapping</subject><subject>Serratia Infections - epidemiology</subject><subject>Serratia Infections - microbiology</subject><subject>Serratia marcescens</subject><subject>Serratia marcescens - genetics</subject><subject>Serratia marcescens - isolation & purification</subject><subject>Spain - epidemiology</subject><subject>United Kingdom - epidemiology</subject><issn>0950-2688</issn><issn>1469-4409</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2000</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNqFkt2KFDEQhYMo7rj6AIJIQPCuNUl35-dGWFddB1ZFZwXvQv56JmNP0ibd4r6Bj216ZxwUL4RASM5Xh1NUAfAQo2cYYfZ8hUSLCOVcCIQajMktsMANFVXTIHEbLGa5mvUTcC_nLUJIEM7ughOMUcsERQvwcxlGl4bkRjX6GGDsoFbBQuu7ziUXjMtwjOWZRx_Wk88bmMekfMgzunIplToFdyoV0rjyra_hMPXZ2arzrrdw7XroemfGFIdNTC77m9IvWi3hq_dnxXrt8pjvgzudKmUPDvcp-Pzm9dX52-ryw8Xy_OyyMg1lY6WpU0YLWhNmO9UJYWzdWEpr2qqaal2OMZoawhtssVVaYKFtZ7kjmlnD61PwYu87THrnbIlc2unlkHzp4VpG5eXfSvAbuY7fJeFUtAwVg6cHgxS_TSW63PnSed-r4OKUJSMlSyv-D2LGaMPJHOnxn5GOWX5PqQBPDoDKRvVdUsH4fOQEa9FNsEd7apvHmI5qzWkjeFPkai-XUbofR1mlr5KymrWSXnyUmNTi6tPqpXxX-HrPG7XTydu1k9s4pVCGIzGS8wLKfxaw_gV5cM3j</recordid><startdate>20000801</startdate><enddate>20000801</enddate><creator>AUCKEN, H. M.</creator><creator>BOQUETE, T.</creator><creator>KAUFMANN, M. E.</creator><creator>PITT, T. L.</creator><general>Cambridge University Press</general><scope>BSCLL</scope><scope>IQODW</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>7QL</scope><scope>7T7</scope><scope>8FD</scope><scope>C1K</scope><scope>FR3</scope><scope>P64</scope><scope>7X8</scope><scope>5PM</scope></search><sort><creationdate>20000801</creationdate><title>Interpretation of band differences to distinguish strains of Serratia marcescens by pulsed-field gel electrophoresis of XbaI DNA digests</title><author>AUCKEN, H. M. ; BOQUETE, T. ; KAUFMANN, M. E. ; PITT, T. L.</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c467t-b6eacb96327dfaf99cd34d66365a36bb6bbccb6c2841d1dab919bdfd8e2b7dc83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2000</creationdate><topic>Bacteriology</topic><topic>Bacteriophage typing</topic><topic>Bacteriophages</topic><topic>Berlin - epidemiology</topic><topic>Biological and medical sciences</topic><topic>Cluster analysis</topic><topic>Cross Infection - genetics</topic><topic>Deoxyribonuclease XbaI</topic><topic>Deoxyribonucleases, Type II Site-Specific</topic><topic>Disease Outbreaks</topic><topic>DNA</topic><topic>DNA Fingerprinting</topic><topic>DNA, Bacterial - chemistry</topic><topic>DNA, Bacterial - genetics</topic><topic>Electrophoresis</topic><topic>Electrophoresis, Gel, Pulsed-Field</topic><topic>Enzymes</topic><topic>Epidemiology</topic><topic>Europe - epidemiology</topic><topic>Fundamental and applied biological sciences. Psychology</topic><topic>Gels</topic><topic>Humans</topic><topic>Infections</topic><topic>Microbiology</topic><topic>Restriction Mapping</topic><topic>Serratia Infections - epidemiology</topic><topic>Serratia Infections - microbiology</topic><topic>Serratia marcescens</topic><topic>Serratia marcescens - genetics</topic><topic>Serratia marcescens - isolation & purification</topic><topic>Spain - epidemiology</topic><topic>United Kingdom - epidemiology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>AUCKEN, H. M.</creatorcontrib><creatorcontrib>BOQUETE, T.</creatorcontrib><creatorcontrib>KAUFMANN, M. E.</creatorcontrib><creatorcontrib>PITT, T. L.</creatorcontrib><collection>Istex</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>Bacteriology Abstracts (Microbiology B)</collection><collection>Industrial and Applied Microbiology Abstracts (Microbiology A)</collection><collection>Technology Research Database</collection><collection>Environmental Sciences and Pollution Management</collection><collection>Engineering Research Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Epidemiology and infection</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>AUCKEN, H. M.</au><au>BOQUETE, T.</au><au>KAUFMANN, M. E.</au><au>PITT, T. L.</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Interpretation of band differences to distinguish strains of Serratia marcescens by pulsed-field gel electrophoresis of XbaI DNA digests</atitle><jtitle>Epidemiology and infection</jtitle><addtitle>Epidemiol. Infect</addtitle><date>2000-08-01</date><risdate>2000</risdate><volume>125</volume><issue>1</issue><spage>63</spage><epage>70</epage><pages>63-70</pages><issn>0950-2688</issn><eissn>1469-4409</eissn><coden>EPINEU</coden><abstract>The number of band differences in DNA macrorestriction profiles required to distinguish
unrelated strains from an index strain varies in an outbreak with the species and restriction
enzyme used. In order to define this difference for epidemiological studies of Serratia
marcescens, we produced DNA fingerprints from 57 isolates of the organism using the
restriction enzyme XbaI and pulsed-field gel electrophoresis (PFGE). The isolates were selected
on the basis of their epidemiology, serotype and phage-typing patterns to include 28 unrelated
strains and 29 representatives from 2 distinct outbreaks. One of the outbreaks was prolonged,
lasting for several years. Electrophoretic profiles consisting of 20 or more clearly resolved
bands were obtained for all isolates. Twenty-six of the unrelated strains had unique profiles
with over 10 band differences from all other strains, while 27 of the outbreak representatives
could be assigned to the appropriate outbreak with confidence. The majority of the outbreak
isolates had none or 2 band differences from the index profile, although 3 isolates differed by
5–7 bands. The 2 exceptions among the unrelated strains differed by 4 bands, and 3 phage
typing reactions, and were isolated from London and Berlin 3 years apart, while the 2
exceptions among the outbreak collection had clearly unique profiles with over 20 band
differences from each other and the outbreak profiles. Cluster analysis using Dice coefficient
and UPGMA gave cut-off values of 75–78% similarity overall for related isolates, while the
closest similarity for unrelated strains was 70%. The results of this study together with those
of the 6 previous reports of PFGE for S. marcescens (which used either enzymes XbaI or SpeI)
confirm that this technique is of value for this species and that with XbaI at least, most
epidemiologically related strains will only differ by 3–4 bands. However, on occasion up to 7
band differences can be found within an apparent outbreak, which may be suggestive of genetic
drift.</abstract><cop>Cambridge</cop><pub>Cambridge University Press</pub><pmid>11057960</pmid><doi>10.1017/S0950268899004112</doi><tpages>8</tpages><oa>free_for_read</oa></addata></record> |
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| subjects | Bacteriology Bacteriophage typing Bacteriophages Berlin - epidemiology Biological and medical sciences Cluster analysis Cross Infection - genetics Deoxyribonuclease XbaI Deoxyribonucleases, Type II Site-Specific Disease Outbreaks DNA DNA Fingerprinting DNA, Bacterial - chemistry DNA, Bacterial - genetics Electrophoresis Electrophoresis, Gel, Pulsed-Field Enzymes Epidemiology Europe - epidemiology Fundamental and applied biological sciences. Psychology Gels Humans Infections Microbiology Restriction Mapping Serratia Infections - epidemiology Serratia Infections - microbiology Serratia marcescens Serratia marcescens - genetics Serratia marcescens - isolation & purification Spain - epidemiology United Kingdom - epidemiology |
| title | Interpretation of band differences to distinguish strains of Serratia marcescens by pulsed-field gel electrophoresis of XbaI DNA digests |
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