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Genome-Wide Association Study of Periodontal Health Measured by Probing Depth in Adults Ages 18−49 years

Identifieur interne : 000550 ( Pmc/Curation ); précédent : 000549; suivant : 000551

Genome-Wide Association Study of Periodontal Health Measured by Probing Depth in Adults Ages 18−49 years

Auteurs : John R. Shaffer [États-Unis] ; Deborah E. Polk [États-Unis] ; Xiaojing Wang [États-Unis] ; Eleanor Feingold [États-Unis] ; Daniel E. Weeks [États-Unis] ; Myoung-Keun Lee [États-Unis] ; Karen T. Cuenco [États-Unis] ; Robert J. Weyant [États-Unis] ; Richard J. Crout [États-Unis] ; Daniel W. Mcneil [États-Unis] ; Mary L. Marazita [États-Unis]

Source :

RBID : PMC:3931564

Abstract

The etiology of chronic periodontitis clearly includes a heritable component. Our purpose was to perform a small exploratory genome-wide association study in adults ages 18–49 years to nominate genes associated with periodontal disease−related phenotypes for future consideration. Full-mouth periodontal pocket depth probing was performed on participants (N = 673), with affected status defined as two or more sextants with probing depths of 5.5 mm or greater. Two variations of this phenotype that differed in how missing teeth were treated were used in analysis. More than 1.2 million genetic markers across the genome were genotyped or imputed and tested for genetic association. We identified ten suggestive loci (p-value ≤ 1E-5), including genes/loci that have been previously implicated in chronic periodontitis: LAMA2, HAS2, CDH2, ESR1, and the genomic region on chromosome 14q21-22 between SOS2 and NIN. Moreover, we nominated novel loci not previously implicated in chronic periodontitis or related pathways, including the regions 3p22 near OSBPL10 (a lipid receptor implicated in hyperlipidemia), 4p15 near HSP90AB2P (a heat shock pseudogene), 11p15 near GVINP1 (a GTPase pseudogene), 14q31 near SEL1L (an intracellular transporter), and 18q12 in FHOD3 (an actin cytoskeleton regulator). Replication of these results in additional samples is needed. This is one of the first research efforts to identify genetic polymorphisms associated with chronic periodontitis-related phenotypes by the genome-wide association study approach. Though small, efforts such this are needed in order to nominate novel genes and generate new hypotheses for exploration and testing in future studies.


Url:
DOI: 10.1534/g3.113.008755
PubMed: 24347629
PubMed Central: 3931564

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PMC:3931564

Le document en format XML

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<title xml:lang="en" level="a" type="main">Genome-Wide Association Study of Periodontal Health Measured by Probing Depth in Adults Ages 18−49 years</title>
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<name sortKey="Wang, Xiaojing" sort="Wang, Xiaojing" uniqKey="Wang X" first="Xiaojing" last="Wang">Xiaojing Wang</name>
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<name sortKey="Crout, Richard J" sort="Crout, Richard J" uniqKey="Crout R" first="Richard J." last="Crout">Richard J. Crout</name>
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<name sortKey="Marazita, Mary L" sort="Marazita, Mary L" uniqKey="Marazita M" first="Mary L." last="Marazita">Mary L. Marazita</name>
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</affiliation>
<affiliation wicri:level="2">
<nlm:aff id="aff9">Clinical and Translational Science Institute, and Department of Psychiatry, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15213</nlm:aff>
<country xml:lang="fr">États-Unis</country>
<placeName>
<region type="state">Pennsylvanie</region>
</placeName>
<wicri:cityArea>Clinical and Translational Science Institute, and Department of Psychiatry, School of Medicine, University of Pittsburgh, Pittsburgh</wicri:cityArea>
</affiliation>
</author>
</analytic>
<series>
<title level="j">G3: Genes|Genomes|Genetics</title>
<idno type="eISSN">2160-1836</idno>
<imprint>
<date when="2013">2013</date>
</imprint>
</series>
</biblStruct>
</sourceDesc>
</fileDesc>
<profileDesc>
<textClass></textClass>
</profileDesc>
</teiHeader>
<front>
<div type="abstract" xml:lang="en">
<p>The etiology of chronic periodontitis clearly includes a heritable component. Our purpose was to perform a small exploratory genome-wide association study in adults ages 18–49 years to nominate genes associated with periodontal disease−related phenotypes for future consideration. Full-mouth periodontal pocket depth probing was performed on participants (N = 673), with affected status defined as two or more sextants with probing depths of 5.5 mm or greater. Two variations of this phenotype that differed in how missing teeth were treated were used in analysis. More than 1.2 million genetic markers across the genome were genotyped or imputed and tested for genetic association. We identified ten suggestive loci (
<italic>p</italic>
-value ≤ 1E-5), including genes/loci that have been previously implicated in chronic periodontitis:
<italic>LAMA2</italic>
,
<italic>HAS2</italic>
,
<italic>CDH2</italic>
,
<italic>ESR1</italic>
, and the genomic region on chromosome 14q21-22 between
<italic>SOS2</italic>
and
<italic>NIN</italic>
. Moreover, we nominated novel loci not previously implicated in chronic periodontitis or related pathways, including the regions 3p22 near
<italic>OSBPL10</italic>
(a lipid receptor implicated in hyperlipidemia), 4p15 near
<italic>HSP90AB2P</italic>
(a heat shock pseudogene), 11p15 near
<italic>GVINP1</italic>
(a GTPase pseudogene), 14q31 near
<italic>SEL1L</italic>
(an intracellular transporter), and 18q12 in
<italic>FHOD3</italic>
(an actin cytoskeleton regulator). Replication of these results in additional samples is needed. This is one of the first research efforts to identify genetic polymorphisms associated with chronic periodontitis-related phenotypes by the genome-wide association study approach. Though small, efforts such this are needed in order to nominate novel genes and generate new hypotheses for exploration and testing in future studies.</p>
</div>
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</back>
</TEI>
<pmc article-type="research-article">
<pmc-dir>properties open_access</pmc-dir>
<front>
<journal-meta>
<journal-id journal-id-type="nlm-ta">G3 (Bethesda)</journal-id>
<journal-id journal-id-type="iso-abbrev">Genetics</journal-id>
<journal-id journal-id-type="hwp">G3: Genes, Genomes, Genetics</journal-id>
<journal-id journal-id-type="pmc">G3: Genes, Genomes, Genetics</journal-id>
<journal-id journal-id-type="publisher-id">G3: Genes, Genomes, Genetics</journal-id>
<journal-title-group>
<journal-title>G3: Genes|Genomes|Genetics</journal-title>
</journal-title-group>
<issn pub-type="epub">2160-1836</issn>
<publisher>
<publisher-name>Genetics Society of America</publisher-name>
</publisher>
</journal-meta>
<article-meta>
<article-id pub-id-type="pmid">24347629</article-id>
<article-id pub-id-type="pmc">3931564</article-id>
<article-id pub-id-type="publisher-id">GGG_008755</article-id>
<article-id pub-id-type="doi">10.1534/g3.113.008755</article-id>
<article-categories>
<subj-group subj-group-type="heading">
<subject>Investigations</subject>
</subj-group>
</article-categories>
<title-group>
<article-title>Genome-Wide Association Study of Periodontal Health Measured by Probing Depth in Adults Ages 18−49 years</article-title>
</title-group>
<contrib-group>
<contrib contrib-type="author">
<name>
<surname>Shaffer</surname>
<given-names>John R.</given-names>
</name>
<xref ref-type="aff" rid="aff1">*</xref>
<xref ref-type="author-notes" rid="afn2">
<sup>1</sup>
</xref>
<xref ref-type="corresp" rid="cor1">
<sup>2</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Polk</surname>
<given-names>Deborah E.</given-names>
</name>
<xref ref-type="aff" rid="aff2">
<sup></sup>
</xref>
<xref ref-type="aff" rid="aff3">
<sup></sup>
</xref>
<xref ref-type="author-notes" rid="afn2">
<sup>1</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Wang</surname>
<given-names>Xiaojing</given-names>
</name>
<xref ref-type="aff" rid="aff4">
<sup>§</sup>
</xref>
<xref ref-type="aff" rid="aff5">**</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Feingold</surname>
<given-names>Eleanor</given-names>
</name>
<xref ref-type="aff" rid="aff1">*</xref>
<xref ref-type="aff" rid="aff6">
<sup>††</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Weeks</surname>
<given-names>Daniel E.</given-names>
</name>
<xref ref-type="aff" rid="aff1">*</xref>
<xref ref-type="aff" rid="aff6">
<sup>††</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Lee</surname>
<given-names>Myoung-Keun</given-names>
</name>
<xref ref-type="aff" rid="aff4">
<sup>§</sup>
</xref>
<xref ref-type="aff" rid="aff5">**</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Cuenco</surname>
<given-names>Karen T.</given-names>
</name>
<xref ref-type="aff" rid="aff1">*</xref>
<xref ref-type="aff" rid="aff4">
<sup>§</sup>
</xref>
<xref ref-type="aff" rid="aff5">**</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Weyant</surname>
<given-names>Robert J.</given-names>
</name>
<xref ref-type="aff" rid="aff2">
<sup></sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Crout</surname>
<given-names>Richard J.</given-names>
</name>
<xref ref-type="aff" rid="aff7">
<sup>‡‡</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>McNeil</surname>
<given-names>Daniel W.</given-names>
</name>
<xref ref-type="aff" rid="aff8">
<sup>§§</sup>
</xref>
</contrib>
<contrib contrib-type="author">
<name>
<surname>Marazita</surname>
<given-names>Mary L.</given-names>
</name>
<xref ref-type="aff" rid="aff1">*</xref>
<xref ref-type="aff" rid="aff4">
<sup>§</sup>
</xref>
<xref ref-type="aff" rid="aff5">**</xref>
<xref ref-type="aff" rid="aff9">***</xref>
</contrib>
<aff id="aff1">
<label>*</label>
Department of Human Genetics, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania 15261</aff>
<aff id="aff2">
<label></label>
Department of Dental Public Health and Information Management, University of Pittsburgh, School of Dental Medicine, Pittsburgh, Pennsylvania 15261</aff>
<aff id="aff3">
<label></label>
Department of Behavioral and Community Health Sciences, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania 15261</aff>
<aff id="aff4">
<label>§</label>
Center for Craniofacial and Dental Genetics, School of Dental Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15219</aff>
<aff id="aff5">
<label>**</label>
Department of Oral Biology, School of Dental Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15261</aff>
<aff id="aff6">
<label>††</label>
Department of Biostatistics, Graduate School of Public Health, University of Pittsburgh, Pittsburgh, Pennsylvania 15261</aff>
<aff id="aff7">
<label>‡‡</label>
Department of Periodontics, School of Dentistry, West Virginia University, Morgantown, West Virginia 26506</aff>
<aff id="aff8">
<label>§§</label>
Dental Practice and Rural Health, West Virginia University, Morgantown, West Virginia 26506</aff>
<aff id="aff9">
<label>***</label>
Clinical and Translational Science Institute, and Department of Psychiatry, School of Medicine, University of Pittsburgh, Pittsburgh, Pennsylvania 15213</aff>
</contrib-group>
<author-notes>
<fn id="afn2" fn-type="equal">
<label>1</label>
<p>These authors contributed equally to this work.</p>
</fn>
<fn id="afn3">
<p>dbGaP accession number: phs000095.v1.p1.</p>
</fn>
<fn id="afn4">
<p>University of Pittsburgh IRB number: MOD11010337-02 / PRO11010337.</p>
</fn>
<corresp id="cor1">
<label>2</label>
Corresponding author: Department of Human Genetics, Graduate School of Public Health, University of Pittsburgh, A300 Crabtree Hall, 130 De Soto Street, Pittsburgh, PA 15261. E-mail:
<email>jrs51@pitt.edu</email>
</corresp>
</author-notes>
<pub-date pub-type="epub">
<day>17</day>
<month>12</month>
<year>2013</year>
</pub-date>
<pub-date pub-type="collection">
<month>2</month>
<year>2014</year>
</pub-date>
<volume>4</volume>
<issue>2</issue>
<fpage>307</fpage>
<lpage>314</lpage>
<history>
<date date-type="received">
<day>02</day>
<month>10</month>
<year>2013</year>
</date>
<date date-type="accepted">
<day>10</day>
<month>12</month>
<year>2013</year>
</date>
</history>
<permissions>
<copyright-statement>Copyright © 2014 Shaffer
<italic>et al.</italic>
</copyright-statement>
<copyright-year>2014</copyright-year>
<license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by/3.0/">
<license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution Unported License (
<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by/3.0/">http://creativecommons.org/licenses/by/3.0/</ext-link>
), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p>
</license>
</permissions>
<self-uri xlink:title="pdf" xlink:type="simple" xlink:href="307.pdf"></self-uri>
<abstract>
<p>The etiology of chronic periodontitis clearly includes a heritable component. Our purpose was to perform a small exploratory genome-wide association study in adults ages 18–49 years to nominate genes associated with periodontal disease−related phenotypes for future consideration. Full-mouth periodontal pocket depth probing was performed on participants (N = 673), with affected status defined as two or more sextants with probing depths of 5.5 mm or greater. Two variations of this phenotype that differed in how missing teeth were treated were used in analysis. More than 1.2 million genetic markers across the genome were genotyped or imputed and tested for genetic association. We identified ten suggestive loci (
<italic>p</italic>
-value ≤ 1E-5), including genes/loci that have been previously implicated in chronic periodontitis:
<italic>LAMA2</italic>
,
<italic>HAS2</italic>
,
<italic>CDH2</italic>
,
<italic>ESR1</italic>
, and the genomic region on chromosome 14q21-22 between
<italic>SOS2</italic>
and
<italic>NIN</italic>
. Moreover, we nominated novel loci not previously implicated in chronic periodontitis or related pathways, including the regions 3p22 near
<italic>OSBPL10</italic>
(a lipid receptor implicated in hyperlipidemia), 4p15 near
<italic>HSP90AB2P</italic>
(a heat shock pseudogene), 11p15 near
<italic>GVINP1</italic>
(a GTPase pseudogene), 14q31 near
<italic>SEL1L</italic>
(an intracellular transporter), and 18q12 in
<italic>FHOD3</italic>
(an actin cytoskeleton regulator). Replication of these results in additional samples is needed. This is one of the first research efforts to identify genetic polymorphisms associated with chronic periodontitis-related phenotypes by the genome-wide association study approach. Though small, efforts such this are needed in order to nominate novel genes and generate new hypotheses for exploration and testing in future studies.</p>
</abstract>
<kwd-group>
<kwd>GWAS</kwd>
<kwd>chronic periodontitis</kwd>
</kwd-group>
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<page-count count="8"></page-count>
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<meta-value>v1</meta-value>
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</front>
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