Najafi Olya, Z. (bsc), Tadayon, K. (phd), Ghaderi, R. (bsc),
Volume 9, Issue 1 (4-2015)
Abstract
Abstract
SNP typing is now a well-established genotyping system in Bacillus anthracis studies. In the original standard method of Van Erth, SNPs at 13 loci of the B. anthracis genome were analyzed. In order to simplify and make appropriate this expensive method to low-budget laboratory settings, 13 primer pairs targeting the 13 corresponding SNPs were designed. Besides, a universal PCR protocol was developed to enable simultaneous amplification of all loci by conventional PCR machines. The efficiency of this approach was approved by applying on nine isolates of B. anthracis. We recommend using this modified procedure as an efficient alternative to Van Erth method until developing newer and affordable techniques.
Keywords: Bacillus Anthracis, Genotyping, SNPs, PCR
Semira Kheiri , Azadeh Aliarab, Hamid Haghighatfard, Seyed Hossein Sadeghi ,
Volume 12, Issue 3 (5-2018)
Abstract
ABSTRACT
Background and objectives: 3' untranslated region (3'UTR) single nucleotide polymorphisms (SNPs) represent genetic variations that may potentially affect binding of miRNA to coding genes, potentially leading to complex disorders. We aimed to perform in silico analysis of the potential phenotypic effect of 3'UTR SNPs on human astrocyte elevated gene-1 (AEG-1), a newly identified candidate cancer gene.
Methods: We gathered a list of all 3'UTR SNPs located in the human AEG-1 gene from the SNP database. Analysis of the potential effects was done using MirSNP and MicroSNiper.
Results: Analysis by the MirSNP estimated that rs187728237 might increase the affinity of two miRNAs and decrease the affinity of 10 other miRNAs to the AEG-1 transcript. Moreover, MicroSNiPer showed that rs80320514 might affect 24 putative miRNA binding sites in the 3'UTR of AEG-1.
Conclusion: Based on our findings, it can be concluded that the 3'UTR SNPs located in the human AEG-1 gene may be within the miRNA targets of the transcript, therefore affecting the stability of putative miRNA-target interactions.
Keywords: AEG-1, miRNA, SNPs, 3' Untranslated Region.
