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Genetic geostatistical framework for spatial analysis of fine-scale genetic heterogeneity in modern populations: Results from the KORA study.
Int. J. Genomics 2015:693193 (2015)
Aiming to investigate fine-scale patterns of genetic heterogeneity in modern humans from a geographic perspective, a genetic geostatistical approach framed within a geographic information system is presented. A sample collected for prospective studies in a small area of southern Germany was analyzed. None indication of genetic heterogeneity was detected in previous analysis. Socio-demographic and genotypic data of German citizens were analyzed (212 SNPs; n = 728). Genetic heterogeneity was evaluated with observed heterozygosity (H O). Best-fitting spatial autoregressive models were identified, using socio-demographic variables as covariates. Spatial analysis included surface interpolation and geostatistics of observed and predicted patterns. Prediction accuracy was quantified. Spatial autocorrelation was detected for both socio-demographic and genetic variables. Augsburg City and eastern suburban areas showed higher H O values. The selected model gave best predictions in suburban areas. Fine-scale patterns of genetic heterogeneity were observed. In accordance to literature, more urbanized areas showed higher levels of admixture. This approach showed efficacy for detecting and analyzing subtle patterns of genetic heterogeneity within small areas. It is scalable in number of loci, even up to whole-genome analysis. It may be suggested that this approach may be applicable to investigate the underlying genetic history that is, at least partially, embedded in geographic data.
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Publication type
Article: Journal article
Document type
Scientific Article
Keywords
Association; Stratification; Inference; Diversity; Distance; Impact
Language
english
Publication Year
2015
HGF-reported in Year
2015
ISSN (print) / ISBN
2314-436X
e-ISSN
2314-4378
Quellenangaben
Volume: 2015,
Article Number: 693193
Publisher
Hindawi
Publishing Place
New York, NY
Reviewing status
Peer reviewed
Institute(s)
Institute of Epidemiology (EPI)
POF-Topic(s)
30202 - Environmental Health
Research field(s)
Genetics and Epidemiology
PSP Element(s)
G-504091-004
G-504000-007
G-504090-001
G-504000-007
G-504090-001
PubMed ID
26258132
WOS ID
WOS:000358513600001
Scopus ID
84938150760
Erfassungsdatum
2015-08-08