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Abstract Background and objectives: Paraffin-embedded tissues and clinical samples are a valuable resource for molecular genetic studies, but the extraction of high-quality genomic DNA from this tissues is still a problematic issue. In the Present study, the efficiency of two DNA extraction protocols, a commercial kit and a traditional method based on heating and K Proteinase was compared. Material and Methods: Fifty paraffin-embedded blocks of colon cancer tissues (more than 5 years old) were used to compare two methods of DNA extraction. DNA was extracted by traditional method using heat and commercial DNA extraction (Qiagen kit) method. Then the purity and concentration of extracted DNA were measured by Spectrophotometer. Two sequences of TLR4 “The most important receptors in innate immunity” were amplified by polymerase chain reaction. SH-1 ‘188bp’ and SH-2 ‘124bp’ were amplified and then the products were separated on a 2% agarose gel. Results: The results show that the yield of DNA by traditional method (297 mg/ml) is significantly (p<0.01) higher than Commercial kit (176mg/ ml). But traditional method has the lower OD ratio (1.2) Compared to Commercial method. The Amplification of the TLR4 gene sequences is more successful by the traditional method (p<0.01) compared with commercial method. The length of the sequence affects on the results of PCR in that short sequence is amplified more successful compared to the long sequence. Conclusion: The traditional method is more successful in PCR amplification and also simple and cheap. Therefore, we recommend using this method for DNA extraction taken from the paraffin-embedded blocks with more than 5 years old and selecting shorter sequence for better amplification in PCR. Key words: DNA Extraction, paraffin embedded tissue, PCR

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Abstract Background and Objective: Celiac is an autoimmune disease that is characterized by an immune-system-related damage in the intestinal tissue after consumption of gluten. There is not any general agreement for gold standard. The Purpose of this study was the evaluation of specificity and sensitivity of anti-endomysial (EMA) and anti-tissue transglutaminase (TTG) serological test compared to small-bowel biopsy. Material and Methods: In the cross sectional study, we took blood specimen from 1825 patients with gastrointestinal disease. All the samples were tested by TTG and EMA kits using ELISA. The patients were studied in two groups. First, the individuals whom their serologic test was positive but their tissue condition was normal and second, those with positive serologic test with pathologic tissue results that show they have celiac disorder. Results: The mean of EMA and TTG shows that the level of antibodies in group 2 is significantly higher than that of the first group (P ≤0.001). There is positive correlation between modified marsh criteria of small-bowel biopsy and the two tests. The Sensitivity of EMA and TTG tests for celiac diagnosis is 92%. The specificity of EMA, TTG tests are 100% and 98.5%, respectively. Conclusion: EMA-IgA serology with cut-off point of more than 66 together with TTG-IgA serology with cut-off point of above 30 can be helpful to distinguish a wide range of patients who need small-bowel biopsy. Keywords: Celiac Anti-tissue Transglutaminase (TTG) Anti-endomysial (EMA)

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Background and objectives: It has been suggested that irisin and fibronectin type III domain-containing protein 5 (FNDC5) can increase energy expenditure, promote weight loss and improve insulin resistance in diabetic patients by affecting white and brown adipose tissues. In this study, we investigate effect of adipose tissue-derived stem cell transplantation and six weeks of aerobic exercise on FNDC5 and irisin levels in streptozotocin-induced diabetic rats.
Methods: Forty-eight rats (weighing 220-240 g and aged nine weeks) were divided into six groups of control, sham, diabetes control, diabetes + exercise, diabetes + stem cell and diabetes+ exercise + stem cell. The exercise group ran on running wheel at intensity of 60-70% VO₂max, five days a week for six weeks. Next, 1.56 × 10⁶ stem cells extracted from human adipose tissue were injected into the tail vein of streptozotocin-induced diabetic rats. Finally, FNDC5 and irisin plasma levels of the mice were measured using enzyme-linked immunosorbent assay kits.  
Results: FNDC5 and irisin levels reduced significantly in the diabetes control group (P=0.0001). FNDC5 levels in the diabetes + exercise + stem cell and the exercise group increased significantly compared to the diabetes control group (P=0.0001). The irisin level in the diabetes + stem cell + exercise group, exercise group and stem cell group increased significantly compared to the diabetes control group (P=0.0001).  
Conclusion: The results indicate that aerobic exercise program and stem cell therapy alone and combined can significantly increase plasma irisin levels. Given the favorable effects of adipose tissue-derived stem cell injection and aerobic exercise on FNDC5 and irisin levels, this strategy could be further evaluated in coping with the adverse effects of diabetes on metabolism and aging

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Background and objectives: Developing scaffolds is important for tissue engineering and repairing damaged tissues. The present study aimed to investigate effects of pre-incubation of an electrospun silk fibroin scaffold in complete and serum-free media on proliferation and survival of cells seeded on the scaffold.
Methods: After removing sericin from the silk cocoon and preparing the fibroin solution (3% w/v), the electrospun silk fibroin scaffold was fabricated and its morphology was evaluated by scanning electron microscopy. The scaffolds were pre-incubated in complete and serum-free Dulbecco's Modified Eagle media for one hour (short-term) and 10 days (long-term), and the hydrophilicity of scaffolds was evaluated by measuring the water contact angle. Rat bone marrow mesenchymal stem cells were seeded onto the scaffolds, and cell survival and genomic DNA concentration were evaluated after 21 days.
Results: The short-time pre-incubation of electrospun silk fibroin scaffolds in the complete medium increased the proliferation of seeded cells because of serum protein adsorption. In addition, long-term pre-incubation of the scaffolds in the complete and serum-free media increased cell proliferation due to the increased hydrophilicity of the scaffold (p<0.05). However, only long-term pre-incubation of the scaffolds in the complete medium had a significant effect on cell survival.
Conclusion: The results demonstrated that long-term pre-incubation of the scaffolds in the complete medium have more profound positive effects on cell survival and proliferation compared to short-term pre-incubation.

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Background and objectives: Soft tissue is a non-epithelial extraskeletal tissue of the body. Soft tissue tumors (STTs) are the most commonly diagnosed neoplasms. Fine needle aspiration cytology (FNAC) is minimally invasive, quick, and a definitive diagnostic modality. Biopsy for histopathology is the gold standard method for diagnosis but is invasive. The aims of this study were to determine the utility of FNAC in the diagnosis of STTs and correlate it with histopathology and to evaluate factors that cause discrepancies between FNAC and histopathology.
Methods: This retrospective, record-based study was done on STTs received for FNAC and histopathology examinations at the Department of Pathology, MIMS, Mandya from January 2018 to June 2021.
Results: A total of 74 cases of FNAC with histopathological correlation were available. Seventy one cases (95.9%) were benign and three (4%) were malignant according to FNAC. Discordance was seen in one case of low grade myxofibrosarcoma, which was diagnosed as benign spindle cell tumor on FNAC. The sensitivity, specificity, positive predictive value, and accuracy of FNAC in diagnosing malignancy were 75%, 100%, 100%, and 98.6%, respectively.
Conclusion: Our findings indicate that FNAC is beneficial preoperatively as it differentiates between benign and malignant lesions in most cases. In the case of low grade myxofibrosarcoma, bland tumor cells led to a benign diagnosis on FNAC, but histopathology allowed sampling of a larger area of the tumor and the right diagnosis was made. Biopsy is the gold standard, but FNAC has high specificity in diagnosing malignant tumors and prevents unnecessary extensive, radical surgery for benign lesions.

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Background and objectives: Lead (Pb) is among the most toxic pollutants that affect health of both humans and animals. Finding a way to prevent Pb accumulation in animals’ bodies seems necessary. Bacterial cellulose nanofiber (BCNF) can remove heavy metals from aqueous solutions. This study investigates effects of oral consumption of BCNF, as a chelator, on Pb concentration in the kidney and liver tissues of rats.
Methods: Sixteen Wistar rats (aged 6-8 weeks) were divided into four groups: 1. control, 2. fed with Pb, 3. fed with Pb (50 μg/g) and BCNF (16 μg/g) simultaneously, and 4. fed with Pb and BCNF with 4 hours interval. The rats were euthanized, and the kidney and liver tissues were separated. After acidic digestion of the tissue samples, Pb concentration was measured by atomic absorption spectrometry.
Results: The mean concentration of Pb in the kidney and liver tissues of rats fed with Pb and BCNF were significantly lower than that of rats fed only with Pb. In addition, the mean Pb concentration in rats of group 3 was lower than that of group 4.
Conclusion: The results of this study showed the favorable effects of BCNF on prevention of Pb accumulation in the kidney and liver tissues of rats. Moreover, removal of Pb may be related to binding of BCNF with Pb in the gut or blood. More studies are necessary to determine the exact mechanisms through which BCNF can reduce Pb accumulation.