PandemieGrippaleV1, Hal, Corpus, bibRecord, 000410

Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.

Identifieur interne : 000410 ( Hal/Corpus ); précédent : 000409; suivant : 000411

Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.

Auteurs : Erika Harth-Chu ; Romilio T. Espejo ; Richard Christen ; Carlos A. Guzmán ; Manfred G. Höfle

Source :

Applied and Environmental Microbiology [ 0099-2240 ] ; 2009-06.

RBID : Hal:hal-00484171

Abstract

Epidemics of Vibrio parahaemolyticus in Chile have occurred since 1998. Direct genome restriction enzyme analysis (DGREA) using conventional gel electrophoresis permitted discrimination of different V. parahaemolyticus isolates obtained from these outbreaks and showed that this species consists of a highly diverse population. A multiple-locus variable-number tandem-repeat (VNTR) analysis (MLVA) approach was developed and applied to 22 clinical and 91 environmental V. parahaemolyticus isolates from Chile to understand their clonal structures. To this end, an advanced molecular technique was developed by applying multiplex PCR, fluorescent primers, and capillary electrophoresis, resulting in a high-resolution and high-throughput (HRHT) genotyping method. The genomic basis of this HRHT method was eight VNTR loci described previously by Kimura et al. (J. Microbiol. Methods 72:313-320, 2008) and two new loci which were identified by a detailed molecular study of 24 potential VNTR loci on both chromosomes. The isolates of V. parahaemolyticus belonging to the same DGREA pattern were distinguishable by the size variations in the indicative 10 VNTRs. This assay showed that these 10 VNTR loci were useful for distinguishing isolates of V. parahaemolyticus that had different DGREA patterns and also isolates that belong to the same group. Isolates that differed in their DGREA patterns showed polymorphism in their VNTR profiles. A total of 81 isolates was associated with 59 MLVA groups, providing fine-scale differentiation, even among very closely related isolates. The developed approach enables rapid and high-resolution analysis of V. parahaemolyticus with pandemic potential and provides a new surveillance tool for food-borne pathogens.

Url:

https://hal.archives-ouvertes.fr/hal-00484171

DOI: 10.1128/AEM.02729-08

Links to Exploration step

Hal:hal-00484171

Le document en format XML

<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.</title>
<author><name sortKey="Harth Chu, Erika" sort="Harth Chu, Erika" uniqKey="Harth Chu E" first="Erika" last="Harth-Chu">Erika Harth-Chu</name>
</author>
<author><name sortKey="Espejo, Romilio T" sort="Espejo, Romilio T" uniqKey="Espejo R" first="Romilio T" last="Espejo">Romilio T. Espejo</name>
</author>
<author><name sortKey="Christen, Richard" sort="Christen, Richard" uniqKey="Christen R" first="Richard" last="Christen">Richard Christen</name>
<affiliation><hal:affiliation type="laboratory" xml:id="struct-922" status="VALID">          <orgName>Institut de signalisation, biologie du développement et cancer</orgName>
          <orgName type="acronym">ISBDC</orgName>
          <desc>            <address>              <addrLine>Centre Antoine lacassagne 33 Avenue de volombrose 06189 NICE CEDEX 2</addrLine>
              <country key="FR"></country>
            </address>
          </desc>
          <listRelation>            <relation active="#struct-117617" type="direct"></relation>
            <relation active="#struct-523042" type="indirect"></relation>
            <relation name="UMR6543" active="#struct-441569" type="direct"></relation>
          </listRelation>
        <tutelles><tutelle active="#struct-117617" type="direct"><org type="institution" xml:id="struct-117617" status="VALID">          <orgName>Université Nice Sophia Antipolis (... - 2019)</orgName>
          <orgName type="acronym">UNS</orgName>
          <desc>            <address>              <addrLine>Parc Valrose - BP 2135 - 06103 Nice cedex 2</addrLine>
              <country key="FR"></country>
            </address>
            <ref type="url">http://unice.fr/</ref>
          </desc>
          <listRelation>            <relation active="#struct-523042" type="direct"></relation>
          </listRelation>
        </org>
</tutelle>
<tutelle active="#struct-523042" type="indirect"><org type="regroupinstitution" xml:id="struct-523042" status="VALID">          <orgName>COMUE Université Côte d'Azur (2015 - 2019)</orgName>
          <orgName type="acronym">COMUE UCA</orgName>
          <date type="start">2015-03-01</date>
          <desc>            <address>              <addrLine>Parc Valrose, 28 avenue Valrose 06108 Nice Cedex 2 </addrLine>
              <country key="FR"></country>
            </address>
          </desc>
        </org>
</tutelle>
<tutelle name="UMR6543" active="#struct-441569" type="direct"><org type="institution" xml:id="struct-441569" status="VALID">          <idno type="IdRef">02636817X</idno>
          <idno type="ISNI">0000000122597504</idno>
          <orgName>Centre National de la Recherche Scientifique</orgName>
          <orgName type="acronym">CNRS</orgName>
          <date type="start">1939-10-19</date>
          <desc>            <address>              <country key="FR"></country>
            </address>
            <ref type="url">http://www.cnrs.fr/</ref>
          </desc>
        </org>
</tutelle>
</tutelles>
</hal:affiliation>
</affiliation>
</author>
<author><name sortKey="Guzman, Carlos A" sort="Guzman, Carlos A" uniqKey="Guzman C" first="Carlos A" last="Guzmán">Carlos A. Guzmán</name>
</author>
<author><name sortKey="Hofle, Manfred G" sort="Hofle, Manfred G" uniqKey="Hofle M" first="Manfred G" last="Höfle">Manfred G. Höfle</name>
<affiliation><hal:affiliation type="laboratory" xml:id="struct-73176" status="INCOMING">          <orgName>Department of Vaccinology</orgName>
          <desc>            <address>              <addrLine>Inhoffenstrasse 7 D-38124 Braunschweig</addrLine>
              <country key="DE"></country>
            </address>
          </desc>
          <listRelation>            <relation active="#struct-361160" type="direct"></relation>
          </listRelation>
        <tutelles><tutelle active="#struct-361160" type="direct"><org type="institution" xml:id="struct-361160" status="VALID">          <orgName>Helmholtz Centre for Infection Research</orgName>
          <orgName type="acronym">HZI</orgName>
          <desc>            <address>              <addrLine>Inhoffenstraße 7, 38124 Braunschweig</addrLine>
              <country key="DE"></country>
            </address>
            <ref type="url">https://www.helmholtz-hzi.de/en/</ref>
          </desc>
        </org>
</tutelle>
</tutelles>
</hal:affiliation>
</affiliation>
</author>
</titleStmt>
<publicationStmt><idno type="wicri:source">HAL</idno>
<idno type="RBID">Hal:hal-00484171</idno>
<idno type="halId">hal-00484171</idno>
<idno type="halUri">https://hal.archives-ouvertes.fr/hal-00484171</idno>
<idno type="url">https://hal.archives-ouvertes.fr/hal-00484171</idno>
<idno type="doi">10.1128/AEM.02729-08</idno>
<date when="2009-06">2009-06</date>
<idno type="wicri:Area/Hal/Corpus">000410</idno>
</publicationStmt>
<sourceDesc><biblStruct><analytic><title xml:lang="en">Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.</title>
<author><name sortKey="Harth Chu, Erika" sort="Harth Chu, Erika" uniqKey="Harth Chu E" first="Erika" last="Harth-Chu">Erika Harth-Chu</name>
</author>
<author><name sortKey="Espejo, Romilio T" sort="Espejo, Romilio T" uniqKey="Espejo R" first="Romilio T" last="Espejo">Romilio T. Espejo</name>
</author>
<author><name sortKey="Christen, Richard" sort="Christen, Richard" uniqKey="Christen R" first="Richard" last="Christen">Richard Christen</name>
<affiliation><hal:affiliation type="laboratory" xml:id="struct-922" status="VALID">          <orgName>Institut de signalisation, biologie du développement et cancer</orgName>
          <orgName type="acronym">ISBDC</orgName>
          <desc>            <address>              <addrLine>Centre Antoine lacassagne 33 Avenue de volombrose 06189 NICE CEDEX 2</addrLine>
              <country key="FR"></country>
            </address>
          </desc>
          <listRelation>            <relation active="#struct-117617" type="direct"></relation>
            <relation active="#struct-523042" type="indirect"></relation>
            <relation name="UMR6543" active="#struct-441569" type="direct"></relation>
          </listRelation>
        <tutelles><tutelle active="#struct-117617" type="direct"><org type="institution" xml:id="struct-117617" status="VALID">          <orgName>Université Nice Sophia Antipolis (... - 2019)</orgName>
          <orgName type="acronym">UNS</orgName>
          <desc>            <address>              <addrLine>Parc Valrose - BP 2135 - 06103 Nice cedex 2</addrLine>
              <country key="FR"></country>
            </address>
            <ref type="url">http://unice.fr/</ref>
          </desc>
          <listRelation>            <relation active="#struct-523042" type="direct"></relation>
          </listRelation>
        </org>
</tutelle>
<tutelle active="#struct-523042" type="indirect"><org type="regroupinstitution" xml:id="struct-523042" status="VALID">          <orgName>COMUE Université Côte d'Azur (2015 - 2019)</orgName>
          <orgName type="acronym">COMUE UCA</orgName>
          <date type="start">2015-03-01</date>
          <desc>            <address>              <addrLine>Parc Valrose, 28 avenue Valrose 06108 Nice Cedex 2 </addrLine>
              <country key="FR"></country>
            </address>
          </desc>
        </org>
</tutelle>
<tutelle name="UMR6543" active="#struct-441569" type="direct"><org type="institution" xml:id="struct-441569" status="VALID">          <idno type="IdRef">02636817X</idno>
          <idno type="ISNI">0000000122597504</idno>
          <orgName>Centre National de la Recherche Scientifique</orgName>
          <orgName type="acronym">CNRS</orgName>
          <date type="start">1939-10-19</date>
          <desc>            <address>              <country key="FR"></country>
            </address>
            <ref type="url">http://www.cnrs.fr/</ref>
          </desc>
        </org>
</tutelle>
</tutelles>
</hal:affiliation>
</affiliation>
</author>
<author><name sortKey="Guzman, Carlos A" sort="Guzman, Carlos A" uniqKey="Guzman C" first="Carlos A" last="Guzmán">Carlos A. Guzmán</name>
</author>
<author><name sortKey="Hofle, Manfred G" sort="Hofle, Manfred G" uniqKey="Hofle M" first="Manfred G" last="Höfle">Manfred G. Höfle</name>
<affiliation><hal:affiliation type="laboratory" xml:id="struct-73176" status="INCOMING">          <orgName>Department of Vaccinology</orgName>
          <desc>            <address>              <addrLine>Inhoffenstrasse 7 D-38124 Braunschweig</addrLine>
              <country key="DE"></country>
            </address>
          </desc>
          <listRelation>            <relation active="#struct-361160" type="direct"></relation>
          </listRelation>
        <tutelles><tutelle active="#struct-361160" type="direct"><org type="institution" xml:id="struct-361160" status="VALID">          <orgName>Helmholtz Centre for Infection Research</orgName>
          <orgName type="acronym">HZI</orgName>
          <desc>            <address>              <addrLine>Inhoffenstraße 7, 38124 Braunschweig</addrLine>
              <country key="DE"></country>
            </address>
            <ref type="url">https://www.helmholtz-hzi.de/en/</ref>
          </desc>
        </org>
</tutelle>
</tutelles>
</hal:affiliation>
</affiliation>
</author>
</analytic>
<idno type="DOI">10.1128/AEM.02729-08</idno>
<series><title level="j">Applied and Environmental Microbiology</title>
<idno type="ISSN">0099-2240</idno>
<imprint><date type="datePub">2009-06</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc><textClass></textClass>
</profileDesc>
</teiHeader>
<front><div type="abstract" xml:lang="en">              <p>Epidemics of Vibrio parahaemolyticus in Chile have occurred since 1998. Direct genome restriction enzyme analysis (DGREA) using conventional gel electrophoresis permitted discrimination of different V. parahaemolyticus isolates obtained from these outbreaks and showed that this species consists of a highly diverse population. A multiple-locus variable-number tandem-repeat (VNTR) analysis (MLVA) approach was developed and applied to 22 clinical and 91 environmental V. parahaemolyticus isolates from Chile to understand their clonal structures. To this end, an advanced molecular technique was developed by applying multiplex PCR, fluorescent primers, and capillary electrophoresis, resulting in a high-resolution and high-throughput (HRHT) genotyping method. The genomic basis of this HRHT method was eight VNTR loci described previously by Kimura et al. (J. Microbiol. Methods 72:313-320, 2008) and two new loci which were identified by a detailed molecular study of 24 potential VNTR loci on both chromosomes. The isolates of V. parahaemolyticus belonging to the same DGREA pattern were distinguishable by the size variations in the indicative 10 VNTRs. This assay showed that these 10 VNTR loci were useful for distinguishing isolates of V. parahaemolyticus that had different DGREA patterns and also isolates that belong to the same group. Isolates that differed in their DGREA patterns showed polymorphism in their VNTR profiles. A total of 81 isolates was associated with 59 MLVA groups, providing fine-scale differentiation, even among very closely related isolates. The developed approach enables rapid and high-resolution analysis of V. parahaemolyticus with pandemic potential and provides a new surveillance tool for food-borne pathogens.</p>
            </div>
</front>
</TEI>
<hal api="V3">          <titleStmt>            <title xml:lang="en">Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.</title>
            <author role="aut">              <persName>                <forename type="first">Erika</forename>
                <surname>Harth-Chu</surname>
              </persName>
              <idno type="halauthorid">493472</idno>
            </author>
            <author role="aut">              <persName>                <forename type="first">Romilio T</forename>
                <surname>Espejo</surname>
              </persName>
              <idno type="halauthorid">493473</idno>
            </author>
            <author role="aut">              <persName>                <forename type="first">Richard</forename>
                <surname>Christen</surname>
              </persName>
              <idno type="halauthorid">91094</idno>
              <affiliation ref="#struct-922"></affiliation>
            </author>
            <author role="aut">              <persName>                <forename type="first">Carlos A</forename>
                <surname>Guzmán</surname>
              </persName>
              <idno type="halauthorid">493474</idno>
            </author>
            <author role="aut">              <persName>                <forename type="first">Manfred G</forename>
                <surname>Höfle</surname>
              </persName>
              <idno type="halauthorid">348785</idno>
              <affiliation ref="#struct-73176"></affiliation>
            </author>
            <editor role="depositor">              <persName>                <forename>Yvette</forename>
                <surname>Benhamou</surname>
              </persName>
              <email type="md5">410632d60fb056e24eae7e9537c0d711</email>
              <email type="domain">unice.fr</email>
            </editor>
          </titleStmt>
          <editionStmt>            <edition n="v1" type="current">              <date type="whenSubmitted">2010-05-18 09:26:18</date>
              <date type="whenModified">2020-05-26 18:50:19</date>
              <date type="whenReleased">2010-05-18 09:26:18</date>
              <date type="whenProduced">2009-06</date>
              <ref type="externalLink" target="https://aem.asm.org/content/75/12/4079.full.pdf"></ref>
            </edition>
            <respStmt>              <resp>contributor</resp>
              <name key="129157">                <persName>                  <forename>Yvette</forename>
                  <surname>Benhamou</surname>
                </persName>
                <email type="md5">410632d60fb056e24eae7e9537c0d711</email>
                <email type="domain">unice.fr</email>
              </name>
            </respStmt>
          </editionStmt>
          <publicationStmt>            <distributor>CCSD</distributor>
            <idno type="halId">hal-00484171</idno>
            <idno type="halUri">https://hal.archives-ouvertes.fr/hal-00484171</idno>
            <idno type="halBibtex">harthchu:hal-00484171</idno>
            <idno type="halRefHtml">Applied and Environmental Microbiology, American Society for Microbiology, 2009, 75 (12), pp.4079-88. ⟨10.1128/AEM.02729-08⟩</idno>
            <idno type="halRef">Applied and Environmental Microbiology, American Society for Microbiology, 2009, 75 (12), pp.4079-88. ⟨10.1128/AEM.02729-08⟩</idno>
          </publicationStmt>
          <seriesStmt>            <idno type="stamp" n="UNICE">Université Nice Sophia Antipolis</idno>
            <idno type="stamp" n="CNRS">CNRS - Centre national de la recherche scientifique</idno>
            <idno type="stamp" n="UCA-TEST">UCA-TEST</idno>
            <idno type="stamp" n="UNIV-COTEDAZUR">Université Côte d'Azur</idno>
          </seriesStmt>
          <notesStmt>            <note type="audience" n="2">International</note>
            <note type="popular" n="0">No</note>
            <note type="peer" n="1">Yes</note>
          </notesStmt>
          <sourceDesc>            <biblStruct>              <analytic>                <title xml:lang="en">Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.</title>
                <author role="aut">                  <persName>                    <forename type="first">Erika</forename>
                    <surname>Harth-Chu</surname>
                  </persName>
                  <idno type="halauthorid">493472</idno>
                </author>
                <author role="aut">                  <persName>                    <forename type="first">Romilio T</forename>
                    <surname>Espejo</surname>
                  </persName>
                  <idno type="halauthorid">493473</idno>
                </author>
                <author role="aut">                  <persName>                    <forename type="first">Richard</forename>
                    <surname>Christen</surname>
                  </persName>
                  <idno type="halauthorid">91094</idno>
                  <affiliation ref="#struct-922"></affiliation>
                </author>
                <author role="aut">                  <persName>                    <forename type="first">Carlos A</forename>
                    <surname>Guzmán</surname>
                  </persName>
                  <idno type="halauthorid">493474</idno>
                </author>
                <author role="aut">                  <persName>                    <forename type="first">Manfred G</forename>
                    <surname>Höfle</surname>
                  </persName>
                  <idno type="halauthorid">348785</idno>
                  <affiliation ref="#struct-73176"></affiliation>
                </author>
              </analytic>
              <monogr>                <idno type="halJournalId" status="VALID">3064</idno>
                <idno type="issn">0099-2240</idno>
                <idno type="eissn">1098-5336</idno>
                <title level="j">Applied and Environmental Microbiology</title>
                <imprint>                  <publisher>American Society for Microbiology</publisher>
                  <biblScope unit="volume">75</biblScope>
                  <biblScope unit="issue">12</biblScope>
                  <biblScope unit="pp">4079-88</biblScope>
                  <date type="datePub">2009-06</date>
                  <date type="dateEpub">2009-04-17</date>
                </imprint>
              </monogr>
              <idno type="doi">10.1128/AEM.02729-08</idno>
              <idno type="pubmed">19376898</idno>
            </biblStruct>
          </sourceDesc>
          <profileDesc>            <langUsage>              <language ident="en">English</language>
            </langUsage>
            <textClass>              <classCode scheme="mesh">Bacterial Typing Techniques</classCode>
              <classCode scheme="mesh">Chile</classCode>
              <classCode scheme="mesh">Polymorphism, Genetic</classCode>
              <classCode scheme="mesh">Sensitivity and Specificity</classCode>
              <classCode scheme="mesh">Vibrio Infections</classCode>
              <classCode scheme="mesh">Vibrio parahaemolyticus</classCode>
              <classCode scheme="mesh">Cluster Analysis</classCode>
              <classCode scheme="mesh">DNA Fingerprinting</classCode>
              <classCode scheme="mesh">DNA, Bacterial</classCode>
              <classCode scheme="mesh">Electrophoresis, Capillary</classCode>
              <classCode scheme="mesh">Genotype</classCode>
              <classCode scheme="mesh">Humans</classCode>
              <classCode scheme="mesh">Minisatellite Repeats</classCode>
              <classCode scheme="mesh">Molecular Epidemiology</classCode>
              <classCode scheme="halDomain" n="sdv.bdd">Life Sciences [q-bio]/Development Biology</classCode>
              <classCode scheme="halTypology" n="ART">Journal articles</classCode>
            </textClass>
            <abstract xml:lang="en">              <p>Epidemics of Vibrio parahaemolyticus in Chile have occurred since 1998. Direct genome restriction enzyme analysis (DGREA) using conventional gel electrophoresis permitted discrimination of different V. parahaemolyticus isolates obtained from these outbreaks and showed that this species consists of a highly diverse population. A multiple-locus variable-number tandem-repeat (VNTR) analysis (MLVA) approach was developed and applied to 22 clinical and 91 environmental V. parahaemolyticus isolates from Chile to understand their clonal structures. To this end, an advanced molecular technique was developed by applying multiplex PCR, fluorescent primers, and capillary electrophoresis, resulting in a high-resolution and high-throughput (HRHT) genotyping method. The genomic basis of this HRHT method was eight VNTR loci described previously by Kimura et al. (J. Microbiol. Methods 72:313-320, 2008) and two new loci which were identified by a detailed molecular study of 24 potential VNTR loci on both chromosomes. The isolates of V. parahaemolyticus belonging to the same DGREA pattern were distinguishable by the size variations in the indicative 10 VNTRs. This assay showed that these 10 VNTR loci were useful for distinguishing isolates of V. parahaemolyticus that had different DGREA patterns and also isolates that belong to the same group. Isolates that differed in their DGREA patterns showed polymorphism in their VNTR profiles. A total of 81 isolates was associated with 59 MLVA groups, providing fine-scale differentiation, even among very closely related isolates. The developed approach enables rapid and high-resolution analysis of V. parahaemolyticus with pandemic potential and provides a new surveillance tool for food-borne pathogens.</p>
            </abstract>
          </profileDesc>
        </hal>
</record>

Pour manipuler ce document sous Unix (Dilib)

EXPLOR_STEP=$WICRI_ROOT/Sante/explor/PandemieGrippaleV1/Data/Hal/Corpus

HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000410 | SxmlIndent | more

HfdSelect -h $EXPLOR_AREA/Data/Hal/Corpus/biblio.hfd -nk 000410 | SxmlIndent | more

Pour mettre un lien sur cette page dans le réseau Wicri

{{Explor lien
   |wiki=    Sante
   |area=    PandemieGrippaleV1
   |flux=    Hal
   |étape=   Corpus
   |type=    RBID
   |clé=     Hal:hal-00484171
   |texte=   Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.
}}

This area was generated with Dilib version V0.6.34.
Data generation: Wed Jun 10 11:04:28 2020. Site generation: Sun Mar 28 09:10:28 2021

	Serveur d'exploration sur les pandémies grippales
	Attention, ce site est en cours de développement ! Attention, site généré par des moyens informatiques à partir de corpus bruts. Les informations ne sont donc pas validées.

Serveur d'exploration sur les pandémies grippales

Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.

Multiple-locus variable-number tandem-repeat analysis for clonal identification of Vibrio parahaemolyticus isolates by using capillary electrophoresis.

Source :

Abstract

Links to Exploration step

Le document en format XML

Pour manipuler ce document sous Unix (Dilib)

Pour mettre un lien sur cette page dans le réseau Wicri