Background: Treg cells function in the immune homeostasis, these cells express high level of CD25... more Background: Treg cells function in the immune homeostasis, these cells express high level of CD25. Even though the molecular mechanisms of CD25-mediated signaling pathways has been reported, some questions are still unclear, e.g. the relationship and function of the relative lncRNA. It is known that the CD25 expression levels are various among different cancers. Thus, we intended to dissect systems biology of a lncRNA pertained to CD25 and CD25 protein interactors-targeting miRNAs. Methods: Apart from using the available RNA-seq data, the co-expression analysis of the lncRNA pertained to some cancers was performed. Our analysis was done for protein interactors of CD25 by STRING 11.0, ShinyGO v0.60 and KEGG web servers were used for enrichment and network analysis of CD25. TargetScan 7.2, miRTargetLink Human and mirDIP were applied for determining the CD25 and CD25 interactors-targeting miRNAs. To nd the lncRNA-miRNA and lncRNA-protein interactions, starBase v3.0, LncBase Predicted v.2 and SFPEL-LPI were recruited, respectively. Also, using Co-LncRNA, the coexpressed lncRNA analysis and the relative signaling pathways in some cancers including bladder, breast, head and neck, kidney, liver, lung, prostate and thyroid cancers using RNA-seq data were achieved. Results: OIP5-AS1 was shown to have the interaction with CD25 and CD25 protein interactors-targeting miRNAs. In addition, the co-expression of OIP5-AS1 in cancers and their signaling pathways was identi ed. Conclusions: Possibly, OIP5-AS1 can effect on CD25 expression in all relative signaling pathways of these cancers.
Objective Alzheimer’s disease (AD) is a type of dementia. Currently, there are not any existing a... more Objective Alzheimer’s disease (AD) is a type of dementia. Currently, there are not any existing and reliable methods for the prognosis or diagnosis of AD. Hence, finding a diagnostic/prognostic biomarker for AD helps physicians to prescribe the treatments and methods preventing disease progression. Circulating microRNAs (miRNAs) are the most promising biomarkers due to their non-invasive and easily accessible for diagnosis and prognosis of AD. The aim of current study is to evaluate expression levels of two unwell-known circulating miRNAs including hsa-miR-324-3p and hsa-miR-331-3p in serums of AD patients and to understand their roles in AD physiopathogenesis by in silico analysis. Materials and Methods In this case and control study, to get the gene targets related to these two miRNAs, TargetScan, miRTargetLink Human and mirDIP web servers were applied. In addition, gene networks and gene ontology enrichment analysis were performed by STRING 10.5, KEGG and ShinyGO v0.41. Experimen...
In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on... more In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on chromosome XII, which is in the nucleolus. There are different types of proteins in the nucleoluskeleton, silencing proteins have got important role in nucleolus. It is shown that meiotic recombination between nonsister chromatids in the rDNA genes are strongly suppressed, and suggested that silencing proteins such as SIR2 are involved in silencing state. It is also shown that nucleolus shows some changes during ageing process. It is claimed that intrachromosomal recombination within the rDNA repeated sequences; producing 3-μm rDNA circles are accumulated with old cell. This study looked at the rDNA breakage in two different types of strain ORD 1181 according to their age. The fine analysis of the rDNA array was performed using restriction endonuclease enzymes, which do not cleave within the rDNA array. The results suggest that there are only meiotic hot regions for chromosome breakage ...
The regulatory T cells function in the immune homeostasis, these cells express high level of CD25... more The regulatory T cells function in the immune homeostasis, these cells express high level of CD25. It is known that CD25 expression levels are various among different cancers. Thus, we intended to dissect systems biology of a lncRNA pertained to CD25 and CD25 protein interactors-targeting miRNAs. Using RNA-seq data, co-expression analyses of the lncRNA pertained to some cancers were performed. Our analysis was done for protein interactors of CD25 by STRING 11.0, ShinyGO v0.60 and KEGG web servers were used for enrichment and network analysis of CD25. TargetScan 7.2, miRTargetLink Human and mirDIP were applied for determining the CD25 and CD25 interactors-targeting miRNAs. To find the lncRNA-miRNA and lncRNA-protein interactions, starBase v3.0, LncBase Predicted v.2 and SFPEL-LPI were utilized, respectively. Also, using Co-LncRNA, the co-expressed lncRNA analysis and the relative signaling pathways in some cancers including bladder, breast, head and neck, kidney, liver, lung, prostate and thyroid cancers using RNA-seq data were achieved. OIP5-AS1 was shown to have the interaction with CD25 and CD25 protein interactors-targeting miRNAs. In addition, the co-expression of OIP5-AS1 in cancers and their signaling pathways was identified. In conclusion, OIP5-AS1 can effect on CD25 expression in all relative signaling pathways of these cancers.
Background and Objectives: Tumor-infiltrating regulatory T (TI-Treg) cells perform an important f... more Background and Objectives: Tumor-infiltrating regulatory T (TI-Treg) cells perform an important function in cancer immune escape. In this study, the third generation CAR construct was designed against human CD25 antigen as the cell surface biomarker of TI-Treg cells. Methods: At first, the construct of anti-CD25 CAR was designed. Using RNAfold web server, the RNA secondary structure was evaluated. Also, NK-92 cell line was transduced using lentiviral vectors. Then, the expression level of anti-CD25 CAR RNA, was assessed by qRT-PCR in NK-92 cells transduced with CAR and mock transfer vectors as well as untreated cells. Results: The RNA secondary structure was stable. Also, the expression level of anti-CD25 CAR RNA in the NK-92 cells transduced by pCDH-513B-1-anti-CD25 CAR transfer vector was significantly higher than NK-92 cells transduced by mock transfer vector and untreated cells (P˂0.0001). Conclusion: The present study on anti-CD25 CAR RNA showed that this type of CAR transcripts were stable and expressed at a high level. In fact, this type of CAR can be further studied in the future as a tool to remove the cancer immune escape in all types of solid and liquid cancers.
Yes-associated protein (YAP1), the downstream effector of the Hippo pathway, plays important role... more Yes-associated protein (YAP1), the downstream effector of the Hippo pathway, plays important roles in the regulation of tissue reconstruction, stem cell proliferation, and development of different cancers. The regulation of YAP1 phosphorylation, YAP1 expression level, and its cellular localization have been considered in cancer development. There are different experimental evidences that indicate that YAP1 activation results in tumorigenesis, tumor progression, and metastasis. YAP1 is a transcription co-activator, and its dysregulation has been suggested in various cancers including colorectal cancer (CRC). The localization of YAP1 in the nucleus results in YAP1 interactions with different transcription factors to promote the expression of genes involved in cell proliferation, metastasis, and stem cell maintenance. However, a number of studies have been reported the tumor suppressor role of YAP1 in CRC. Therefore, a better understanding of the YAP1 regulation could be helpful for prevention, diagnosis, and treatment of CRC. In this review, we will discuss different roles of YAP1 in CRC progression through the regulatory roles of long non-coding RNAs (LncRNAs), microRNAs (miRNAs) and circular RNAs (CircRNAs) in YAP1 regulation.
International Journal of Reproductive BioMedicine, 2016
Background: Some dynamic changes occurs during spermatogenesis such as histone removal and its re... more Background: Some dynamic changes occurs during spermatogenesis such as histone removal and its replacement with transition nuclear protein and protamine. These proteins are required for packing and condensation of sperm chromatin. JHDM2A is a histone demethylase that directly binds to promoter regions of Tnp1 and Prm1 genes and controls their expression by removing H3K9 at their promoters. Objective: The association between polymorphisms of exon 12 and exon 24 in JHDM2A gene and male infertility were evaluated for the first time. Materials and Methods: In this experimental study, 400 infertile men (oligospermia and azoospermia) and normal healthy fathers were evaluated (n=200). Single Strand Conformation Polymorphism (SSCP-PCR) and polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) methods were used for screening any polymorphisms that are exist in exon 12 and exon 24. Results: Exon 24 PCR products were analyzed by RFLP but no polymorphism was found in this exon at the restriction site of EcoRV enzyme. Our monitoring along the whole nucleotides of exon 12 and exon 24 were continued using SSCP method, but we found no change along these exons. Conclusion: Generally, this study evaluated the association between polymorphisms in exon 12 and exon 24 of JHDM2A gene and male infertility which suggests that polymorphisms of these exons may not be associated with the risk of male infertility.
Applied microbiology and biotechnology, Jan 21, 2018
Interferon beta (IFNβ) is transiently expressed in response to viral infections and widely used t... more Interferon beta (IFNβ) is transiently expressed in response to viral infections and widely used to treat relapsing-remitting multiple sclerosis (MS). We introduced mutations in the IFNβ gene (in the 27th and 101st codons and in the Kozak sequence, and also deletion of 3' and 5' unstable, untranslated region, UTR) with the aim of increasing the expression of IFNβ. Computational analyses of mutant and wild-type RNAs and proteins of IFNβ by RNAfold, ASAView, HOPE and Ramachandran plot, and iStable web servers showed that the mutations could decrease RNA stability, protein solvent accessibility, and protein stability but could not change correct folding. Two recombinant IFNβ101 and IFNβ101+27 constructs were designed by site-directed mutagenesis. The wild-type IFNβ gene also was used as a control. In vitro experiments by quantitative real-time PCR, dot blot, SDS-PAGE, and Western blot assays showed an increased expression level of recombinant IFNβs. 79.9-fold, 99.7-fold, and 190...
Background: Type 1 diabetes (T1D) is caused by cell-mediated autoimmune attack on pancreatic beta... more Background: Type 1 diabetes (T1D) is caused by cell-mediated autoimmune attack on pancreatic beta cells. Previous studies highlight the role of microRNAs (miRNAs) in the pathogenesis of T1D. MiRNAs are small non-coding RNAs involved in the regulation of gene expression post-transcriptionally. In this work, microRNA-18b (miR-18b) was chosen and its differential expression was measured between T1D patients and healthy controls from Isfahan population. Materials and Methods: miR-18b was selected according to bioinformatic studies using miRWalk software. 22 T1D patients and 18 healthy controls from Isfahan population were enrolled in this study. Total RNA of the peripheral blood mononuclear cell (PBMC) samples was extracted. After cDNA synthesis, the expression profile of miR-18b was quantified by means of qPCR method in patients and controls. Finally, the results were statistically analyzed. Results: In this study despite our hypothesis, the expression levels of miR-18b didn't show any significant difference between T1D patients and healthy controls (p value: 0.145). Conclusion: Due to the results of our experimental analysis, it seems that miR-18b doesn't have any association with T1D disease in Isfahan population.
Background: Urinary tract infections (UTIs) are one of the most frequent health problems and urop... more Background: Urinary tract infections (UTIs) are one of the most frequent health problems and uropathogenic Escherichia coli is the major pathogen resulting in UTIs. Sever forms of UTIs are caused by expression of a large range of virulence factors. In this study, we evaluated the allelic frequency fimH gene, in uropathogenic strains of Escherichia coli (UPECs) isolated from patients with UTIs. This study also aimed at determining the roles of C640T and T591A SNPs of the fimH gene in the ability of UPEC to cause UTIs. Materials and Methods: A total of 140 UPEC strains isolated from patients with UTIs were screened by PCR-RFLP to determine the prevalence of the fimH gene C640T and T591A SNPs in UPEC strains isolated from patients attending educational hospitals in Shahrekord. The genotyping of C640T and T591A SNPs was performed using Bme1390I and BseNI restriction enzymes, respectively through PCR-RFLP method. Results: There were no significant association between C640T and T591A SNPs of fimH gene and the ability of UPEC fimH variants to cause UTIs in the studied E.coli isolates. Conclusion: FimH is one of the major virulence factors among UPECs which is confirmed in most E.coli isolates. Further studies are required to determine the association between different fimH gene SNPs of isolated UPECs from patients with UTIs and the ability of UPEC fimH variants to cause UTIs.
Background: Colorectal cancer is the third cause of cancer death in western countries. Age, inade... more Background: Colorectal cancer is the third cause of cancer death in western countries. Age, inadequate diet, obesity, inactivity and genetic changes are some of the risk factors of colorectal cancer. Corelation of genetic diversity in homologous recombination repair system with cancer was evaluated in many recent studies. This study was done to investigate the correlation of T241M polymorphism in Xrcc3 gene and colorectal cancers. Methods: In this cross-sectional study after collecting blood samples and extraction genomic DNA, genotype distribution of the polymorphism was determined by RFLP-PCR (Restriction fragment lengh-polymerase-Polymerase chain reaction) method. Finding: A significant corelation between T241M polymorphism with colorectal cancer was seen. Age and family history were also corelated with this cancer. Although, there was no statistically relationship between smoking status and colon cancer, but it showed correlation with rectum cancer and it has been also observed ...
Skin aging is an inevitable phenomenon characterized by wrinkled skin and loss of elasticity. To ... more Skin aging is an inevitable phenomenon characterized by wrinkled skin and loss of elasticity. To date, several studies have been performed on skin aging to discover the underlying mechanisms and improve efficient preventive strategies and anti‐aging therapeutics.
Medical journal of Tabriz University of Medical Sciences and Health Services, 2016
Background and Objectives: Beta interferon (IFNβ) protein is produced as a recombinant drug and u... more Background and Objectives: Beta interferon (IFNβ) protein is produced as a recombinant drug and used in treatment of some diseases like Multiple Sclerosis. In eukaryotic cells, IFNβ mRNA is rapidly degraded and its halflife is too short. One of the contributing factors to this short half-life is presence of the AU rich element (ARE) in 3 ́UTR of this mRNA. This region has an inhibitory effect on translation too. Our aim in this research was to delete ARE from IFNβ gene in order to increase its mRNA stability and translational level. Materials and Methods: In order to delete an 18 nucleotide sequence from ARE, the Megaprimer PCR technique was used. The PCR product was digested with EcoRI and BglII enzymes. The vector was partially digested with the same enzymes. The digested PCR product was purified and cloned into the vector. Then, the recombinant vectors were transfected into CHO cell line. Results: The first PCR reaction product contained a deletion mutation and was used as megapr...
Background: Among different roles of miRNAs in AD pathogenesis, hsa-miR-494-3p and hsa-miR-661 fu... more Background: Among different roles of miRNAs in AD pathogenesis, hsa-miR-494-3p and hsa-miR-661 functions are poorly understood. Methods: To obtain the gene targets, gene networks, gene ontology, and enrichment analysis of the two miRNAs, some web servers were utilized. Furthermore, the expressions of these miRNAs were analyzed by qRT-PCR in 36 blood sera, including 18 Alzheimer's patients and 18 healthy individuals. Results: The in silico analysis demonstrated the highlighted roles of metabolic and cellular response to stress pathways engaged in circulating hsa-miR-494-3p and hsa-miR-661 in AD. The qRT-PCR analysis showed that the downregulated expression level of hsa-miR-661 was statistically significant (p < 0.05). Also, the ROC curve of hsa-miR-661 displayed the significant AUC (p = 0.01). Conclusion: Based on our findings, the metabolic and cellular responses to stress pathways are closely connected to these two miRNAs functions. Besides, the qRT-PCR and Roc curve determined hsa-miR-661 could be as a biomarker for diagnosis or prognosis of AD patients.
Cancer recurrence presents a huge challenge in cancer patient management. Immune escape is a key ... more Cancer recurrence presents a huge challenge in cancer patient management. Immune escape is a key mechanism of cancer progression and metastatic dissemination. CD25 is expressed in regulatory T (Treg) cells including tumor-infiltrating Treg cells (TI-Tregs). These cells specially activate and reinforce immune escape mechanism of cancers. The suppression of CD25/IL-2 interaction would be useful against Treg cells activation and ultimately immune escape of cancer. Here, software, web servers and databases were used, at which in silico designed small interfering RNAs (siRNAs), de novo designed peptides and virtual screened small molecules against CD25 were introduced for the prospect of eliminating cancer immune escape and obtaining successful treatment. We obtained siRNAs with low off-target effects. Further, small molecules based on the binding homology search in ligand and receptor similarity were introduced. Finally, the critical amino acids on CD25 were targeted by a de novo design...
Purpose:The overexpression of epithelial cell adhesion molecule (EpCAM) proto-oncogene affects pr... more Purpose:The overexpression of epithelial cell adhesion molecule (EpCAM) proto-oncogene affects progression, treatment, and diagnosis of many adenocarcinomas. C-myc has been shown to be a downstream target of EpCAM and is also one of the most important proto-oncogenes routinely overexpressed in breast cancer. However, co-overexpression of EpCAM and c-myc genes has not been investigated in breast cancer tissues, particularly in Iranian population. Objectives: The aim of this study was to assess the expression of EpCAMand c-myc genes in malignant breast cancer tissues using RT-qPCR, followed by analyses of the association between the outcomes. Methods: To this purpose, 122 fresh tissues including 104 malignant and 18 benign samples were disrupted by mortar and pestle and RNA was then isolated from the samples and converted to cDNA. The relative expression levels of EpCAM and c-myc genes were measured by2 method using RTqPCR method. EpCAM protein level was also assessed in 66 cases usin...
In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on... more In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on chromosome XII, which is in the nucleolus. There are different types of proteins in the nucleoluskeleton, silencing proteins have got important role in nucleolus. It is shown that meiotic recombination between nonsister chromatids in the rDNA genes are strongly suppressed, and suggested that silencing proteins such as SIR2 are involved in silencing state. It is also shown that nucleolus shows some changes during ageing process. It is claimed that intrachromosomal recombination within the rDNA repeated sequences; producing 3-µm rDNA circles are accumulated with old cell. This study looked at the rDNA breakage in two different types of strain ORD 1181 according to their age. The fine analysis of the rDNA array was performed using restriction endonuclease enzymes, which do not cleave within the rDNA array. The results suggest that there are only meiotic hot regions for chromosome breakage ...
Background: Treg cells function in the immune homeostasis, these cells express high level of CD25... more Background: Treg cells function in the immune homeostasis, these cells express high level of CD25. Even though the molecular mechanisms of CD25-mediated signaling pathways has been reported, some questions are still unclear, e.g. the relationship and function of the relative lncRNA. It is known that the CD25 expression levels are various among different cancers. Thus, we intended to dissect systems biology of a lncRNA pertained to CD25 and CD25 protein interactors-targeting miRNAs. Methods: Apart from using the available RNA-seq data, the co-expression analysis of the lncRNA pertained to some cancers was performed. Our analysis was done for protein interactors of CD25 by STRING 11.0, ShinyGO v0.60 and KEGG web servers were used for enrichment and network analysis of CD25. TargetScan 7.2, miRTargetLink Human and mirDIP were applied for determining the CD25 and CD25 interactors-targeting miRNAs. To nd the lncRNA-miRNA and lncRNA-protein interactions, starBase v3.0, LncBase Predicted v.2 and SFPEL-LPI were recruited, respectively. Also, using Co-LncRNA, the coexpressed lncRNA analysis and the relative signaling pathways in some cancers including bladder, breast, head and neck, kidney, liver, lung, prostate and thyroid cancers using RNA-seq data were achieved. Results: OIP5-AS1 was shown to have the interaction with CD25 and CD25 protein interactors-targeting miRNAs. In addition, the co-expression of OIP5-AS1 in cancers and their signaling pathways was identi ed. Conclusions: Possibly, OIP5-AS1 can effect on CD25 expression in all relative signaling pathways of these cancers.
Objective Alzheimer’s disease (AD) is a type of dementia. Currently, there are not any existing a... more Objective Alzheimer’s disease (AD) is a type of dementia. Currently, there are not any existing and reliable methods for the prognosis or diagnosis of AD. Hence, finding a diagnostic/prognostic biomarker for AD helps physicians to prescribe the treatments and methods preventing disease progression. Circulating microRNAs (miRNAs) are the most promising biomarkers due to their non-invasive and easily accessible for diagnosis and prognosis of AD. The aim of current study is to evaluate expression levels of two unwell-known circulating miRNAs including hsa-miR-324-3p and hsa-miR-331-3p in serums of AD patients and to understand their roles in AD physiopathogenesis by in silico analysis. Materials and Methods In this case and control study, to get the gene targets related to these two miRNAs, TargetScan, miRTargetLink Human and mirDIP web servers were applied. In addition, gene networks and gene ontology enrichment analysis were performed by STRING 10.5, KEGG and ShinyGO v0.41. Experimen...
In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on... more In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on chromosome XII, which is in the nucleolus. There are different types of proteins in the nucleoluskeleton, silencing proteins have got important role in nucleolus. It is shown that meiotic recombination between nonsister chromatids in the rDNA genes are strongly suppressed, and suggested that silencing proteins such as SIR2 are involved in silencing state. It is also shown that nucleolus shows some changes during ageing process. It is claimed that intrachromosomal recombination within the rDNA repeated sequences; producing 3-μm rDNA circles are accumulated with old cell. This study looked at the rDNA breakage in two different types of strain ORD 1181 according to their age. The fine analysis of the rDNA array was performed using restriction endonuclease enzymes, which do not cleave within the rDNA array. The results suggest that there are only meiotic hot regions for chromosome breakage ...
The regulatory T cells function in the immune homeostasis, these cells express high level of CD25... more The regulatory T cells function in the immune homeostasis, these cells express high level of CD25. It is known that CD25 expression levels are various among different cancers. Thus, we intended to dissect systems biology of a lncRNA pertained to CD25 and CD25 protein interactors-targeting miRNAs. Using RNA-seq data, co-expression analyses of the lncRNA pertained to some cancers were performed. Our analysis was done for protein interactors of CD25 by STRING 11.0, ShinyGO v0.60 and KEGG web servers were used for enrichment and network analysis of CD25. TargetScan 7.2, miRTargetLink Human and mirDIP were applied for determining the CD25 and CD25 interactors-targeting miRNAs. To find the lncRNA-miRNA and lncRNA-protein interactions, starBase v3.0, LncBase Predicted v.2 and SFPEL-LPI were utilized, respectively. Also, using Co-LncRNA, the co-expressed lncRNA analysis and the relative signaling pathways in some cancers including bladder, breast, head and neck, kidney, liver, lung, prostate and thyroid cancers using RNA-seq data were achieved. OIP5-AS1 was shown to have the interaction with CD25 and CD25 protein interactors-targeting miRNAs. In addition, the co-expression of OIP5-AS1 in cancers and their signaling pathways was identified. In conclusion, OIP5-AS1 can effect on CD25 expression in all relative signaling pathways of these cancers.
Background and Objectives: Tumor-infiltrating regulatory T (TI-Treg) cells perform an important f... more Background and Objectives: Tumor-infiltrating regulatory T (TI-Treg) cells perform an important function in cancer immune escape. In this study, the third generation CAR construct was designed against human CD25 antigen as the cell surface biomarker of TI-Treg cells. Methods: At first, the construct of anti-CD25 CAR was designed. Using RNAfold web server, the RNA secondary structure was evaluated. Also, NK-92 cell line was transduced using lentiviral vectors. Then, the expression level of anti-CD25 CAR RNA, was assessed by qRT-PCR in NK-92 cells transduced with CAR and mock transfer vectors as well as untreated cells. Results: The RNA secondary structure was stable. Also, the expression level of anti-CD25 CAR RNA in the NK-92 cells transduced by pCDH-513B-1-anti-CD25 CAR transfer vector was significantly higher than NK-92 cells transduced by mock transfer vector and untreated cells (P˂0.0001). Conclusion: The present study on anti-CD25 CAR RNA showed that this type of CAR transcripts were stable and expressed at a high level. In fact, this type of CAR can be further studied in the future as a tool to remove the cancer immune escape in all types of solid and liquid cancers.
Yes-associated protein (YAP1), the downstream effector of the Hippo pathway, plays important role... more Yes-associated protein (YAP1), the downstream effector of the Hippo pathway, plays important roles in the regulation of tissue reconstruction, stem cell proliferation, and development of different cancers. The regulation of YAP1 phosphorylation, YAP1 expression level, and its cellular localization have been considered in cancer development. There are different experimental evidences that indicate that YAP1 activation results in tumorigenesis, tumor progression, and metastasis. YAP1 is a transcription co-activator, and its dysregulation has been suggested in various cancers including colorectal cancer (CRC). The localization of YAP1 in the nucleus results in YAP1 interactions with different transcription factors to promote the expression of genes involved in cell proliferation, metastasis, and stem cell maintenance. However, a number of studies have been reported the tumor suppressor role of YAP1 in CRC. Therefore, a better understanding of the YAP1 regulation could be helpful for prevention, diagnosis, and treatment of CRC. In this review, we will discuss different roles of YAP1 in CRC progression through the regulatory roles of long non-coding RNAs (LncRNAs), microRNAs (miRNAs) and circular RNAs (CircRNAs) in YAP1 regulation.
International Journal of Reproductive BioMedicine, 2016
Background: Some dynamic changes occurs during spermatogenesis such as histone removal and its re... more Background: Some dynamic changes occurs during spermatogenesis such as histone removal and its replacement with transition nuclear protein and protamine. These proteins are required for packing and condensation of sperm chromatin. JHDM2A is a histone demethylase that directly binds to promoter regions of Tnp1 and Prm1 genes and controls their expression by removing H3K9 at their promoters. Objective: The association between polymorphisms of exon 12 and exon 24 in JHDM2A gene and male infertility were evaluated for the first time. Materials and Methods: In this experimental study, 400 infertile men (oligospermia and azoospermia) and normal healthy fathers were evaluated (n=200). Single Strand Conformation Polymorphism (SSCP-PCR) and polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) methods were used for screening any polymorphisms that are exist in exon 12 and exon 24. Results: Exon 24 PCR products were analyzed by RFLP but no polymorphism was found in this exon at the restriction site of EcoRV enzyme. Our monitoring along the whole nucleotides of exon 12 and exon 24 were continued using SSCP method, but we found no change along these exons. Conclusion: Generally, this study evaluated the association between polymorphisms in exon 12 and exon 24 of JHDM2A gene and male infertility which suggests that polymorphisms of these exons may not be associated with the risk of male infertility.
Applied microbiology and biotechnology, Jan 21, 2018
Interferon beta (IFNβ) is transiently expressed in response to viral infections and widely used t... more Interferon beta (IFNβ) is transiently expressed in response to viral infections and widely used to treat relapsing-remitting multiple sclerosis (MS). We introduced mutations in the IFNβ gene (in the 27th and 101st codons and in the Kozak sequence, and also deletion of 3' and 5' unstable, untranslated region, UTR) with the aim of increasing the expression of IFNβ. Computational analyses of mutant and wild-type RNAs and proteins of IFNβ by RNAfold, ASAView, HOPE and Ramachandran plot, and iStable web servers showed that the mutations could decrease RNA stability, protein solvent accessibility, and protein stability but could not change correct folding. Two recombinant IFNβ101 and IFNβ101+27 constructs were designed by site-directed mutagenesis. The wild-type IFNβ gene also was used as a control. In vitro experiments by quantitative real-time PCR, dot blot, SDS-PAGE, and Western blot assays showed an increased expression level of recombinant IFNβs. 79.9-fold, 99.7-fold, and 190...
Background: Type 1 diabetes (T1D) is caused by cell-mediated autoimmune attack on pancreatic beta... more Background: Type 1 diabetes (T1D) is caused by cell-mediated autoimmune attack on pancreatic beta cells. Previous studies highlight the role of microRNAs (miRNAs) in the pathogenesis of T1D. MiRNAs are small non-coding RNAs involved in the regulation of gene expression post-transcriptionally. In this work, microRNA-18b (miR-18b) was chosen and its differential expression was measured between T1D patients and healthy controls from Isfahan population. Materials and Methods: miR-18b was selected according to bioinformatic studies using miRWalk software. 22 T1D patients and 18 healthy controls from Isfahan population were enrolled in this study. Total RNA of the peripheral blood mononuclear cell (PBMC) samples was extracted. After cDNA synthesis, the expression profile of miR-18b was quantified by means of qPCR method in patients and controls. Finally, the results were statistically analyzed. Results: In this study despite our hypothesis, the expression levels of miR-18b didn't show any significant difference between T1D patients and healthy controls (p value: 0.145). Conclusion: Due to the results of our experimental analysis, it seems that miR-18b doesn't have any association with T1D disease in Isfahan population.
Background: Urinary tract infections (UTIs) are one of the most frequent health problems and urop... more Background: Urinary tract infections (UTIs) are one of the most frequent health problems and uropathogenic Escherichia coli is the major pathogen resulting in UTIs. Sever forms of UTIs are caused by expression of a large range of virulence factors. In this study, we evaluated the allelic frequency fimH gene, in uropathogenic strains of Escherichia coli (UPECs) isolated from patients with UTIs. This study also aimed at determining the roles of C640T and T591A SNPs of the fimH gene in the ability of UPEC to cause UTIs. Materials and Methods: A total of 140 UPEC strains isolated from patients with UTIs were screened by PCR-RFLP to determine the prevalence of the fimH gene C640T and T591A SNPs in UPEC strains isolated from patients attending educational hospitals in Shahrekord. The genotyping of C640T and T591A SNPs was performed using Bme1390I and BseNI restriction enzymes, respectively through PCR-RFLP method. Results: There were no significant association between C640T and T591A SNPs of fimH gene and the ability of UPEC fimH variants to cause UTIs in the studied E.coli isolates. Conclusion: FimH is one of the major virulence factors among UPECs which is confirmed in most E.coli isolates. Further studies are required to determine the association between different fimH gene SNPs of isolated UPECs from patients with UTIs and the ability of UPEC fimH variants to cause UTIs.
Background: Colorectal cancer is the third cause of cancer death in western countries. Age, inade... more Background: Colorectal cancer is the third cause of cancer death in western countries. Age, inadequate diet, obesity, inactivity and genetic changes are some of the risk factors of colorectal cancer. Corelation of genetic diversity in homologous recombination repair system with cancer was evaluated in many recent studies. This study was done to investigate the correlation of T241M polymorphism in Xrcc3 gene and colorectal cancers. Methods: In this cross-sectional study after collecting blood samples and extraction genomic DNA, genotype distribution of the polymorphism was determined by RFLP-PCR (Restriction fragment lengh-polymerase-Polymerase chain reaction) method. Finding: A significant corelation between T241M polymorphism with colorectal cancer was seen. Age and family history were also corelated with this cancer. Although, there was no statistically relationship between smoking status and colon cancer, but it showed correlation with rectum cancer and it has been also observed ...
Skin aging is an inevitable phenomenon characterized by wrinkled skin and loss of elasticity. To ... more Skin aging is an inevitable phenomenon characterized by wrinkled skin and loss of elasticity. To date, several studies have been performed on skin aging to discover the underlying mechanisms and improve efficient preventive strategies and anti‐aging therapeutics.
Medical journal of Tabriz University of Medical Sciences and Health Services, 2016
Background and Objectives: Beta interferon (IFNβ) protein is produced as a recombinant drug and u... more Background and Objectives: Beta interferon (IFNβ) protein is produced as a recombinant drug and used in treatment of some diseases like Multiple Sclerosis. In eukaryotic cells, IFNβ mRNA is rapidly degraded and its halflife is too short. One of the contributing factors to this short half-life is presence of the AU rich element (ARE) in 3 ́UTR of this mRNA. This region has an inhibitory effect on translation too. Our aim in this research was to delete ARE from IFNβ gene in order to increase its mRNA stability and translational level. Materials and Methods: In order to delete an 18 nucleotide sequence from ARE, the Megaprimer PCR technique was used. The PCR product was digested with EcoRI and BglII enzymes. The vector was partially digested with the same enzymes. The digested PCR product was purified and cloned into the vector. Then, the recombinant vectors were transfected into CHO cell line. Results: The first PCR reaction product contained a deletion mutation and was used as megapr...
Background: Among different roles of miRNAs in AD pathogenesis, hsa-miR-494-3p and hsa-miR-661 fu... more Background: Among different roles of miRNAs in AD pathogenesis, hsa-miR-494-3p and hsa-miR-661 functions are poorly understood. Methods: To obtain the gene targets, gene networks, gene ontology, and enrichment analysis of the two miRNAs, some web servers were utilized. Furthermore, the expressions of these miRNAs were analyzed by qRT-PCR in 36 blood sera, including 18 Alzheimer's patients and 18 healthy individuals. Results: The in silico analysis demonstrated the highlighted roles of metabolic and cellular response to stress pathways engaged in circulating hsa-miR-494-3p and hsa-miR-661 in AD. The qRT-PCR analysis showed that the downregulated expression level of hsa-miR-661 was statistically significant (p < 0.05). Also, the ROC curve of hsa-miR-661 displayed the significant AUC (p = 0.01). Conclusion: Based on our findings, the metabolic and cellular responses to stress pathways are closely connected to these two miRNAs functions. Besides, the qRT-PCR and Roc curve determined hsa-miR-661 could be as a biomarker for diagnosis or prognosis of AD patients.
Cancer recurrence presents a huge challenge in cancer patient management. Immune escape is a key ... more Cancer recurrence presents a huge challenge in cancer patient management. Immune escape is a key mechanism of cancer progression and metastatic dissemination. CD25 is expressed in regulatory T (Treg) cells including tumor-infiltrating Treg cells (TI-Tregs). These cells specially activate and reinforce immune escape mechanism of cancers. The suppression of CD25/IL-2 interaction would be useful against Treg cells activation and ultimately immune escape of cancer. Here, software, web servers and databases were used, at which in silico designed small interfering RNAs (siRNAs), de novo designed peptides and virtual screened small molecules against CD25 were introduced for the prospect of eliminating cancer immune escape and obtaining successful treatment. We obtained siRNAs with low off-target effects. Further, small molecules based on the binding homology search in ligand and receptor similarity were introduced. Finally, the critical amino acids on CD25 were targeted by a de novo design...
Purpose:The overexpression of epithelial cell adhesion molecule (EpCAM) proto-oncogene affects pr... more Purpose:The overexpression of epithelial cell adhesion molecule (EpCAM) proto-oncogene affects progression, treatment, and diagnosis of many adenocarcinomas. C-myc has been shown to be a downstream target of EpCAM and is also one of the most important proto-oncogenes routinely overexpressed in breast cancer. However, co-overexpression of EpCAM and c-myc genes has not been investigated in breast cancer tissues, particularly in Iranian population. Objectives: The aim of this study was to assess the expression of EpCAMand c-myc genes in malignant breast cancer tissues using RT-qPCR, followed by analyses of the association between the outcomes. Methods: To this purpose, 122 fresh tissues including 104 malignant and 18 benign samples were disrupted by mortar and pestle and RNA was then isolated from the samples and converted to cDNA. The relative expression levels of EpCAM and c-myc genes were measured by2 method using RTqPCR method. EpCAM protein level was also assessed in 66 cases usin...
In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on... more In the budding yeast of Saccharomyces cerevisiae the tandem repeated of rDNA genes are located on chromosome XII, which is in the nucleolus. There are different types of proteins in the nucleoluskeleton, silencing proteins have got important role in nucleolus. It is shown that meiotic recombination between nonsister chromatids in the rDNA genes are strongly suppressed, and suggested that silencing proteins such as SIR2 are involved in silencing state. It is also shown that nucleolus shows some changes during ageing process. It is claimed that intrachromosomal recombination within the rDNA repeated sequences; producing 3-µm rDNA circles are accumulated with old cell. This study looked at the rDNA breakage in two different types of strain ORD 1181 according to their age. The fine analysis of the rDNA array was performed using restriction endonuclease enzymes, which do not cleave within the rDNA array. The results suggest that there are only meiotic hot regions for chromosome breakage ...
Uploads
Papers by zohreh Hojati