The search of CAR, AhR, ESRs binding sites in promoters of intronic and intergenic microRNAs. / Ovchinnikov, Vladimir Y.; Antonets, Denis V.; Gulyaeva, Lyudmila F.
In: Journal of Bioinformatics and Computational Biology, Vol. 16, No. 1, 1750029, 01.02.2018.Research output: Contribution to journal › Article › peer-review
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TY - JOUR
T1 - The search of CAR, AhR, ESRs binding sites in promoters of intronic and intergenic microRNAs
AU - Ovchinnikov, Vladimir Y.
AU - Antonets, Denis V.
AU - Gulyaeva, Lyudmila F.
PY - 2018/2/1
Y1 - 2018/2/1
N2 - MicroRNAs (miRNAs) play important roles in the regulation of gene expression at the post-transcriptional level. Many exogenous compounds or xenobiotics may affect microRNA expression. It is a well-established fact that xenobiotics with planar structure like TCDD, benzo(a)pyrene (BP) can bind aryl hydrocarbon receptor (AhR) followed by its nuclear translocation and transcriptional activation of target genes. Another chemically diverse group of xenobiotics including phenobarbital, DDT, can activate the nuclear receptor CAR and in some cases estrogen receptors ESR1 and ESR2. We hypothesized that such chemicals can affect miRNA expression through the activation of AHR, CAR, and ESRs. To prove this statement, we used in silico methods to find DRE, PBEM, ERE potential binding sites for these receptors, respectively. We have predicted AhR, CAR, and ESRs binding sites in 224 rat, 201 mouse, and 232 human promoters of miRNA-coding genes. In addition, we have identified a number of miRNAs with predicted AhR, CAR, and ESRs binding sites that are known as oncogenes and as tumor suppressors. Our results, obtained in silico, open a new strategy for ongoing experimental studies and will contribute to further investigation of epigenetic mechanisms of carcinogenesis.
AB - MicroRNAs (miRNAs) play important roles in the regulation of gene expression at the post-transcriptional level. Many exogenous compounds or xenobiotics may affect microRNA expression. It is a well-established fact that xenobiotics with planar structure like TCDD, benzo(a)pyrene (BP) can bind aryl hydrocarbon receptor (AhR) followed by its nuclear translocation and transcriptional activation of target genes. Another chemically diverse group of xenobiotics including phenobarbital, DDT, can activate the nuclear receptor CAR and in some cases estrogen receptors ESR1 and ESR2. We hypothesized that such chemicals can affect miRNA expression through the activation of AHR, CAR, and ESRs. To prove this statement, we used in silico methods to find DRE, PBEM, ERE potential binding sites for these receptors, respectively. We have predicted AhR, CAR, and ESRs binding sites in 224 rat, 201 mouse, and 232 human promoters of miRNA-coding genes. In addition, we have identified a number of miRNAs with predicted AhR, CAR, and ESRs binding sites that are known as oncogenes and as tumor suppressors. Our results, obtained in silico, open a new strategy for ongoing experimental studies and will contribute to further investigation of epigenetic mechanisms of carcinogenesis.
KW - cancer
KW - miRNA
KW - xenobiotics; nuclear receptors
KW - nuclear receptors
KW - xenobiotics
KW - APOPTOSIS
KW - MOUSE
KW - RECEPTOR
KW - PROLIFERATION
KW - CANCER
KW - GENE
KW - GROWTH
KW - TUMOR-SUPPRESSOR
KW - EXPRESSION
KW - MicroRNAs/genetics
KW - Computational Biology/methods
KW - Estrogen Receptor beta/metabolism
KW - Computer Simulation
KW - Binding Sites
KW - Promoter Regions, Genetic
KW - Response Elements
KW - Introns
KW - Estrogen Receptor alpha/metabolism
KW - Rats
KW - Receptors, Aryl Hydrocarbon/metabolism
KW - Receptors, Cytoplasmic and Nuclear/metabolism
KW - Animals
KW - Xenobiotics/metabolism
KW - Mice
KW - Software
UR - http://www.scopus.com/inward/record.url?scp=85040044472&partnerID=8YFLogxK
U2 - 10.1142/S0219720017500299
DO - 10.1142/S0219720017500299
M3 - Article
C2 - 29301444
AN - SCOPUS:85040044472
VL - 16
JO - Journal of Bioinformatics and Computational Biology
JF - Journal of Bioinformatics and Computational Biology
SN - 0219-7200
IS - 1
M1 - 1750029
ER -
ID: 12081120