Genome-wide association study of chronic periodontitis in a general German population

J Clin Periodontol. 2013 Nov;40(11):977-85. doi: 10.1111/jcpe.12154. Epub 2013 Sep 11.


Aim: To identify loci associated with chronic periodontitis through a genome-wide association study (GWAS).

Materials and methods: A GWAS was performed in 4032 individuals of two independent cross-sectional studies of West Pomerania (SHIP n = 3365 and SHIP-TREND n = 667) with different periodontal case definitions. Samples were genotyped with the Affymetrix Genome-Wide Human SNP Array 6.0 or the Illumina Human Omni 2.5 array. Imputation of the HapMap as well as the 1000 Genome-based autosomal and X-chromosomal genotypes and short insertions and deletions (INDELs) was performed in both cohorts. Finally, more than 17 million SNPs and short INDELs were analysed.

Results: No genome-wide significant associations were found for any periodontitis case definition, regardless of whether individuals aged >60 years where excluded or not. Despite no single SNP association reached genome-wide significance, the proportion of variance explained by additive effects of all common SNPs was around 23% for mean proximal attachment loss. Excluding subjects aged >60 years increased the explained variance to 34%.

Conclusions: No single SNPs were found to be genome-wide significantly associated with chronic periodontitis in this study.

Keywords: Study of Health in Pomerania; attachment loss; genome-wide association studies; periodontitis.

MeSH terms

  • Adenine
  • Adult
  • Age Factors
  • Aged
  • Aged, 80 and over
  • Chromosomes, Human, X / genetics
  • Chronic Periodontitis / genetics*
  • Cohort Studies
  • Cross-Sectional Studies
  • Cytosine
  • Female
  • Follow-Up Studies
  • Genetic Variation / genetics
  • Genome-Wide Association Study*
  • Genotype
  • Germany
  • HapMap Project
  • Humans
  • INDEL Mutation / genetics
  • Male
  • Middle Aged
  • Periodontal Attachment Loss / genetics
  • Periodontal Pocket / genetics
  • Polymorphism, Single Nucleotide / genetics
  • Population Surveillance
  • Thymine
  • Young Adult


  • Cytosine
  • Adenine
  • Thymine