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Karaca S.,Aksaray University | Karaca S.,GENAR Institute for Public Health and Genomics Research | Erge S.,GENAR Institute for Public Health and Genomics Research | Erge S.,Zirve University | And 3 more authors.
Nutrition | Year: 2016

Objectives: Cardiovascular and metabolic traits (CMT) are influenced by complex interactive processes including diet, lifestyle, and genetic predisposition. The present study investigated the interactions of these risk factors in relation to CMTs in the Turkish population. Methods: We applied bootstrap agglomerative hierarchical clustering and Bayesian network learning algorithms to identify the causative relationships among genes involved in different biological mechanisms (i.e., lipid metabolism, hormone metabolism, cellular detoxification, aging, and energy metabolism), lifestyle (i.e., physical activity, smoking behavior, and metropolitan residency), anthropometric traits (i.e., body mass index, body fat ratio, and waist-to-hip ratio), and dietary habits (i.e., daily intakes of macro- and micronutrients) in relation to CMTs (i.e., health conditions and blood parameters). Results: We identified significant correlations between dietary habits (soybean and vitamin B12 intakes) and different cardiometabolic diseases that were confirmed by the Bayesian network-learning algorithm. Genetic factors contributed to these disease risks also through the pleiotropy of some genetic variants (i.e., F5 rs6025 and MTR rs180508). However, we also observed that certain genetic associations are indirect since they are due to the causative relationships among the CMTs (e.g., APOC3 rs5128 is associated with low-density lipoproteins cholesterol and, by extension, total cholesterol). Conclusions: Our study applied a novel approach to integrate various sources of information and dissect the complex interactive processes related to CMTs. Our data indicated that complex causative networks are present: causative relationships exist among CMTs and are affected by genetic factors (with pleiotropic and non-pleiotropic effects) and dietary habits. © 2016 Elsevier Inc.

Karaca S.,Aksaray University | Karaca S.,GENAR Institute for Public Health and Genomics Research | Karaca M.,Aksaray University | Cesuroglu T.,GENAR Institute for Public Health and Genomics Research | And 4 more authors.
American Journal of Human Biology | Year: 2015

Objective: Glutathione S-transferase (GST) variants have been widely investigated to better understand their role in several pathologic conditions. To our knowledge, no data about these genetic polymorphisms within the Turkish population are currently available. The aim of this study was to analyze GSTM1 positive/null, GSTT1 positive/null, GSTP1*I105V (rs1695), and GSTP1*A114V (rs1138272) variants in the general Turkish population, to provide information about its genetic diversity, and predisposition to GST-related diseases. Methods: Genotyping was performed in 500 Turkish individuals using the Sequenom MassARRAY platform. A comparative analysis was executed using the data from the HapMap and Human Genome Diversity Projects (HGDP). Sequence variation was deeply explored using the Phase 1 data of the 1,000 Genomes Project. Results: The variability of GSTM1, GSTT1, and GSTP1 polymorphisms in the Turkish population was similar to that observed in Central Asian, European, and Middle Eastern populations. The high linkage disequilibrium between GSTP1*I105V and GSTP1*A114V in these populations may have a confounding effect on GSTP1 genetic association studies. In analyzing GSTM1, GSTT1, and GSTP1 sequence variation, we observed other common functional variants that may be candidates for associated studies of diseases related to GST genes (e.g., cancer, cardiovascular disease, and allergy). Conclusions: This study provides novel data about GSTM1 positive/null, GSTT1 positive/null, GSTP1*I105V, and GSTP1*A114V variants in the Turkish population, and other functional variants that may affect GSTM1, GSTT1, and GSTP1 functions among worldwide populations. This information can assist in the design of future genetic association studies investigating oxidative stress-related diseases. Am. J. Hum. Biol. 27:310-316, 2015. © 2014 Wiley Periodicals, Inc.

Karaca S.,GENAR Institute for Public Health and Genomics Research | Karaca S.,Aksaray University | Karaca M.,Aksaray University | Kaymaz A.,GENAR Institute for Public Health and Genomics Research | Kaymaz A.,Hacettepe University
Journal of Applied Biological Sciences | Year: 2013

The major burden of cancer in the general population is results from the complex interactions of multiple genetic and environmental factors over time. Population based studies support the involvement of GSTM1 and GSTT1 deletion in susceptibility to commonly occurring forms of cancer. The aim of this study was to determine frequency of GSTM1 and GSTT1 deletion variants in Turkish population. Deletion polymorphisms were screened in a collection of samples n=507 for GSTM1 and n=464 for GSTT1. After isolation of DNAs from whole blood, sequences of interest were amplified and then analyzed by electrophoretic methods in the presence of positive and negative controls. Allele frequencies were detected as 52% for GSTM1 and 24% for GSTT1 deletion polymorphisms. The obtained frequencies were consistent with the values that reported for different populations. Cancer is a disease of the genome and identification of the genetic characteristics of healthy individuals is important in determining of current risks, developing of preventive health care models and medical follow-up programs to reducing risk of diseases. However, during the treatment process it allows the selection of optimal therapy.

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