Mikroarray veritabanlarının doku spesifik genlerin belirlenmesindeki potansiyeli]

Tissue specific genes play important roles in development and metabolism. Currently, GenBank has 3363628 GEO Profiles and 397988 microarray data related to various tissues. To evaluate the huge amounts of data and identify tissue specific genes, it is necessary to develop and use new strategies. To that end, this study discusses if microarray and microarray related GEO Profiles are a useful tool to identify new tissue specific genes. In the current study, adipose tissue sellected as a target tissue in order to find new tissue specific genes. Therefore, the human and mouse microarray data were analyzed comparatively. To support the microarray data, adipose tissue related GEO Profiles were selected from PubMed. Subsequently, adipose tissue related microarray and GEO Profiles were analysed simultaneously. According to analysis of microarray and GEO Profiles, Chrdl1 (Chordin-like 1) gene was hypothesized as a novel adipose specific gene. In order to test the hypothesis, RT-PCR analysis were performed for the bovine tissue distribution. As a result, the hypothesis was successfully tested and Chrdl1 gene was found highly specific in bovine adipose tissue than in various other tissues. Thus, it is concluded that microarray and microarray related GEO Profiles are a useful tool to identify new tissue specific genes

The effects of Juglone-Selenium combination on invasion and metastasis in pancreatic cancer cell lines

Background: Pancreatic cancer does not show any symptoms in the early period and metastatic process is already passed when the diagnosis is done. Therefore, in the battle with pancreatic cancer, novel treatment strategies, particularly antiinvasive and antimetastatic strategies, are needed. The cytotoxic and anticancer effects of juglone and sodium selenite (NaSe) have been showed in various cancer cells. Objectives: In this study, it is aimed to investigate the synergistic effects of juglone and selenium on PANC-1 and BxPC-3 pancreatic cancer cells. Methods: Antimetastatic effects of juglone-NaSe were carried out by adhesion and invasion assays and the genes and protein expressions. Expression analysis of the CDH1, ITGB3 and COL4A3 genes and their proteins E-cadherin, β3 integrin and tumstatin which play role in metastasis and angiogenesis processes, were done by qPCR and immunohistochemical analysis, respectively. Results: Study findings have provided evidences that the juglone-selenium has a cytotoxic and dose dependent suppressive effect on invasion and metastasis in PANC-1 and BxPC-3 cells. Conclusion: The juglone-NaSe has the potential to be a promising agent especially to inhibit invasion and metastasis in pancreatic cancer treatment. However, more in depth studies are needed to more clearly demonstrate the effects of juglone-selenium. Keywords: Pancreatic cancer cell lines; juglone-selenium; invasion; metastasis

PPARG genindeki Pro12Ala polimorfizmi, Türk populasyonunda insülin direnci ve tip 2 diyabet ile ilişkili değildir: Bir vaka-kontrol çalışması

Amaç: Tip 2 diyabet (T2D), diyabetin en sık görülen türüdür ve tüm dünyada olduğu gibi ülkemizde de ciddi bir halk sağlığı sorunu haline gelmiştir. İnsülin sekresyonunun azalması ve/veya insülin direnci (İR) gelişimi, T2D patogenezinde yer alan iki ana bozukluktur. Kromozom 3p25'te yer alan peroksizom proliferatör aktive reseptör gama (PPARG) geni tarafından kodlanan ve esas olarak adipositlerde eksprese edilen PPARG2, glikoz ve lipid metabolizmasının düzenlenmesinde yer alan çok sayıda anahtar geni düzenler. Fonksiyonel önemi dolayısıyla, T2D gelişimi ile ilişkisi ilk rapor edilen aday gen PPARG2 (Pro12Ala varyantı)’dir. Çalışmamızda, PPARG genindeki Pro12Ala'nın IR gelişimi ve T2D riski üzerine etkilerini Konya bölgesinde yaşayan 387 (181 non-obez/ 206 obez) T2D ve 264 (137 non-obez/127 obez) sağlıklı birey olmak üzere toplam 650 kişide değerlendirmeyi amaçladık. Yöntem: Bireylerden alınan kan örneklerinden, T2D ilişkili biyokimyasal parametreler analiz edildi ve sonrasında HOMA-IR (HOMA indeksi) hesaplandı. HOMAIR indeksi 2.5'ten yüksek olan kişiler insüline dirençli olarak kabul edildi. İzole edilen DNA örneklerinde, Pro12Ala genotiplendirmesi RT-PCR tekniği ile yapıldı. İstatistiksel analiz için SPSS18.0 programı kullanıldı. P<0.05 istatistiksel olarak anlamlı kabul edildi. Bulgular: Obez hasta grubu dışında diğer hasta ve ve kontrol grupları Hardy-Weinberg dengesinde değildi (p<0.05). Dominant, resesif ve aditif modeller kurularak yapılan ilişkilendirme analizine göre Pro12Ala polimorfizminin T2D riski ve ilişkili biyokimyasal parametreler üzerine bir etkisi bulunmadı (p>0.05). Sonuç: Hastalığın poligenik doğası ve çevresel faktörlerin karmaşıklığı, genlerin T2D patogenezindeki etkisinin anlaşılmasını zorlaştırmaktadır. Bu nedenle, PPARG'nin hastalığın genetik zeminindeki olası rolünü ortaya çıkarmak için daha büyük popülasyonlarda daha fazla çalışmaya ihtiyaç vardır. Çalışma Türk toplumunda PPARG ve T2D ilişkisi bakımından sunulan ilk rapordur

The Effect of Grape Seed Extract on the Pancreatic Weight in Diabetic Rats

Objective: The pancreas is a vital organ that produces metabolic hormones and enzymes. Type II diabetes either arises from defective insulin secretion from pancreatic beta-cell cells or a diminished pancreatic beta-cell mass. The possible effects of grape seed extract on various metabolic diseases have been investigated in recent years. This study was designed to determine the effect of grape seed extract therapy on pancreatic mass

The effects of ankaferd blood stopper on DNA damage and enzymes with paranchymal damaged rabbits

Ankaferd blood stopper (ABS) is a medical product that is used in several injuries, dental operations, prevention of minor or major bleeding after spontaneous or surgerical operations and have anti-microbial, anti-inflamatory, anti-thrombin, anti-platelet, anti-atherosclerotic, anti-oxidants effects. The present study is aimed to evaluate the effects of ABS on 8-hydroxy-2ˈ-deoxyguanosine (8-OHdG), superoxide dismutase (SOD), myeloperoxidase (MPO) levels over pleural adhesions in rabbits with pulmonary parenchymal damage.16 New Zelland species rabbits were divided in two groups such as control (n=7) and study group (n=7). One rabbit in each group died during anesthesia. In both groups, we performed wedge resections in equal size to the left lower lobes of all rabbits. No interventions were made on control group, whereas 5 puffs (1 cc) ABS was performed to the resection area at study group. Tube thoracostomy that performed both groups were terminated postoperatively at 6th hour after drainage and air leakages follow up. Rabbits were sacrificed with anesthetics at postoperative 8th day. Lung tissues were collected for analyzing of 8-OHdG, SOD, MPO. The 8-OHdG levels were respectively 2.01±0.39 ng/ml in control group and, 0.38±0.12 ng/ml in study. The differences between study and control group were statistically important group (p [Med-Science 2017; 6(1.000): 5-10

The effects of ankaferd blood stopper on DNA damage and enzymes with paranchymal damaged rabbits

Ankaferd blood stopper (ABS) is a medical product that is used in several injuries, dental operations, prevention of minor or major bleeding after spontaneous or surgerical operations and have anti-microbial, anti-inflamatory, anti-thrombin, anti-platelet, anti-atherosclerotic, anti-oxidants effects. The present study is aimed to evaluate the effects of ABS on 8-hydroxy-2?-deoxyguanosine (8-OHdG), superoxide dismutase (SOD), myeloperoxidase (MPO) levels over pleural adhesions in rabbits with pulmonary parenchymal damage.16 New Zelland species rabbits were divided in two groups such as control (n7) and study group (n7). One rabbit in each group died during anesthesia. In both groups, we performed wedge resections in equal size to the left lower lobes of all rabbits. No interventions were made on control group, whereas 5 puff’s (1 cc) ABS was performed to the resection area at study group. Tube thoracostomy that performed both groups were terminated postoperatively at 6th hour after drainage and air leakages follow up. Rabbits were sacrificed with anesthetics at postoperative 8th day. Lung tissues were collected for analyzing of 8-OHdG, SOD, MPO. The 8-OHdG levels were respectively 2.010.39 ng/ml in control group and, 0.380.12 ng/ml in study. The differences between study and control group were statistically important group (p0.001). SOD and MPO levels did not show any statistically importance in the groups. As a conclusion, we can say that oxidative DNA damage prevented by AB

Genetic Risk Analysis of Gestational Diabetes Mellitus in a Turkish Population

Background: Gestational diabetes mellitus (GDM) is a type of clinical diabetes characterized by insulin resistance and impaired insulin secretion because of environmental and genetic factors. The high risk of developing type 2 diabetes (T2D) in women with GDM and the high risk of developing GDM in women with a family history of T2D suggests that both diseases may have the same genetic basis. Therefore, genes and risk variants associated with the genetic architecture of T2D are being investigated for their effects on the development of GDM. In this study, we aim to investigate ABCC8, TCF7L2, Adiponectin, IRS1, and PPARG genes, which are known as T2D risk genes, to understand the genetic basis of GDM in a Turkish population. Materials and Methods: In our study, 74 pregnant women diagnosed with GDM according to the American Diabetes Association criteria and 49 healthy pregnant women were included. DNA isolations were made from peripheral blood cells collected from pregnant women and regions of targeted genes were scanned by the Polimerase Chain Reaction-Restriction fragment length polymorphism (PCR-RFLP) technique. The homeostatic model assessment for insulin resistance (HOMA-IR), which is an indicator of insulin resistance, was calculated for each individual in the biochemical examinations. The associations of genotypes detected in the target gene regions with the disease and their effects on the biochemical phenotypes were analyzed by establishing the dominant, recessive, and additive models along with calculating odd ratios. The P<0.05 was considered statistically significant in all analyses. Results: A statistically significant association was found between R1273R substitution in the ABCC8 gene and GDM under dominant and additive models. No statistically significant correlation was found between the A1369S and e16/-3t→c variants in the ABCC8 gene and the screened variants in other genes and GDM. When the genotype-phenotype association data was evaluated, no association was detected between all the scanned variants and fasting blood sugar while a weak correlation was found between e16/-3t→c in the ABCC8 gene and fasting insulin (P=0.075) and HOMA-IR (P=0.067). Conclusion: ABCC8 (R1273R and e16/-3t→c) gene variants may be a risk factor for the development of GDM in the Turkish population

PIK3R1 gene polymorphisms are associated with type 2 diabetes and related features in the Turkish population

WOS: 000440357400009PubMed ID: 29893513Background. The phosphatidylinositol 3-kinase p85 alpha regulator subunit 1 gene (PIK3R1) encodes the PIK3R1 protein, which plays a direct role in insulin signaling. PIK3R1 (p85 regulatory subunit) connects firmly with the p110 catalytic subunit, and together these proteins form the phosphatidylinositol 3-kinase (PI3K) protein. PI3K is a key protein in the Akt signaling pathway, which regulates cell survival, growth, differentiation, glucose trafficking, and utilization. Defects in the insulin signaling cascade play an important role in the development of insulin resistance, which shares a common genetic basis for metabolic diseases such as type 2 diabetes (T2D), obesity and cardiovascular diseases. Objectives. In our study, we investigated the effect of single nucleotide polymorphisms (SNPs) rs3756668 in 3'UTR region, rs706713 and rs3730089 in exons 1 and 6, respectively, rs7713645 and rs7709243 in intron 1, and rs1550805 in intron 6 of PIK3R1 gene on T2D. Material and methods. This study enrolled a total of 840 individuals, including 427 diabetic individuals (206 obese and 221 non-obese) and 413 nondiabetic individuals (138 obese and 275 non-obese). The target SNPs were analyzed using real-time polymerase chain reaction (RT-PCR). Statistical analysis was performed using SPSS18.0 (IBM Corp., Armonk, USA). The p-values >= 0.05 were consideied statistically significant. Results. The SNPs rs706713 (Tyr73Tyr) and rs3730089 (Met326lle) located in exons, and rS7713645, rs7709243 and rs1550805 located in introns were determined to be significantly associated with T2D and phenotypic features such as obesity, insulin resistance and the lipid parameters. The association with SNP rs3756668, which is located in the 3'UTR, was not significant. Conclusions. Our study supports the role of PIK3R1, an important candidate gene due to its critical role in insulin signal transduction, in T2D development.Selcuk University Research FoundationSelcuk University [13202033]This study was supported by the Selcuk University Research Foundation (13202033)

Transcription factor 7-like 2 (TCF7L2) gene polymorphisms are strong predictors of type 2 diabetes among nonobese diabetics in the Turkish population

WOS: 000395632600003PubMed ID: 28263491Background/aim: Type 2 diabetes (T2D) is a multifactorial disease, determined by environmental and genetic factors. Currently, the transcription factor 7-like 2 (TCF7L2) gene shows the strongest association with T2D. In this study, we investigated whether TCF7L2 gene polymorphisms are associated with T2D in a Turkish population. Materials and methods: Using PCR-RFLP and PCR-SSCP, we genotyped six intronic polymorphisms in the TCF7L2 gene, commonly associated with T2D, in 169 individuals with diabetes and 119 healthy controls. Results: We found that rs7903146 C -> T substitution in intron 3 (OR: 1.9, P = 0.005) and rs12255372 G -> T substitution in intron 4 (OR: 2.1, P = 0.002) were significantly associated with T2D while other SNPs were not associated (P > 0.05). We determined no association between TCF7L2 gene polymorphisms and fasting glucose, fasting insulin, HbA1c, or HOMA-IR levels (P > 0.05), except for rs7903146 C -> T substitution, which was significantly associated with the fasting glucose level (P = 0.003). Conclusion: Our results indicate that, in the Turkish population, the T allele of the rs7903146 (C -> T) and rs12255372 (G -> T) polymorphisms in the TCF7L2 gene is an independent risk factor for the development of T2D.Selcuk University Research Foundation [09202048]We would like to thank Dr Hulya Ozdemir and Dr Suleyman Hilmi Ipekci for their assistance in this study. This study was supported by the Selcuk University Research Foundation (09202048)

The Adiponectin variants contribute to the genetic background of type 2 diabetes in Turkish population

Adiponectin, an adipose tissue specific protein encoded by the Adiponectin gene, modulates insulin sensitivity and plays an important role in regulating energy homeostasis. Many studies have shown that single nucleotide polymorphisms (SNPs) in the Adiponectin gene are associated with low plasma Adiponectin levels, insulin resistance and an increased risk of type 2 diabetes mellitus. The aim of the present study was to evaluate the contribution of the Adiponectin gene polymorphisms in genetic background of type 2 diabetes in a Turkish population. In total, 169 unrelated and non-obese diabetic patients and 119 age- and BMI-matched nondiabetic individuals with no family history of diabetes were enrolled in this study. We detected a significant association between type 2 diabetes and two SNPs: SNP - 11391G>A. which is located in the promoter region of the Adiponectin gene, and SNP + 276G > T, which is found in intron 2 of the gene (P G) in exon 1 and SNP + 349A > G in intron 2 also showed a weak association with type 2 diabetes (P = 0.06 and P = 0.07, respectively), while SNPs - 3971A>G in intron 1 and Y111H, R112C and H241P in exon 3 showed no association (P > 0.05). In conclusion, these findings suggest that Adiponectin gene polymorphisms might be effective on susceptibility for type 2 diabetes development which emerged from the interactions between multiple genes, variants and environmental factors. (C) 2013 Elsevier B.V. All rights reserved