miR-1322 Binding Sites in Paralogous and Orthologous Genes

Niyazova, Raigul; Berillo, Olga; Atambayeva, Shara; Pyrkova, Anna; Alybayeva, Aigul; Иващенко, А. Т.

doi:10.1155/2015/962637

Cited by 13 publications

(13 citation statements)

References 20 publications

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“…For this reason, the miR-5-15733-3p and miR-17-39416-3p binding sites in the region encoded polyAla, and in the mRNA region from 11193 nt to 11264 nt -polyGly. The assumption that a single nucleotide sequence of binding polysites can encode the oligopeptide in the three reading frames has been confirmed in the study of miR-1322-3p binding with the mRNA of 48 human genes that demonstrated the way of polyGln, polySer and polyAla were encoded by miR-1322-3p (Niyazova et al, 2015;Atam bayeva et al, 2017). Synonymic codons of the miRNA binding sites in the mRNAs of Hsa, Csa and Pab were used in the ratios GGC 18 GGU 2 AGU 1 , GGC 15 GGU 5 AGU 1 and GGC 16 GGU 2 AGU 1 , respectively.…”

Section: Molecular and Cell Biology Vavilov Journal Of Genetics And Bmentioning

confidence: 93%

The Characteristics of Mirna Binding Sites in Mrna of Zfhx3 Gene and Its Orthologs

Kondybaeva¹,

Акимниязова²,

Kamenova³

et al. 2018

Vestn. VOGiS

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Transcription factor gene ZFHX3 is one of the candidate genes involved in stroke development. The ZFHX3 protein contains oligopeptides encoded by trinucleotide repeats (TNRs). TNR variability is considered to be one of the causes of the disease, but their biological function has not yet been established. We assume that TNRs are the binding sites of miRNA to mRNA and are involved in regulation of ZFHX3 gene expression. The characteristics of miRNA–mRNA interaction were determined using MirTarget software. It has been shown that the first TNR in mRNA of the human ZFHX3 gene consists of the seven consecutive miR-12-32603-3p binding encoding polyGlu. The ZFHX3 protein of human polyGlu contains 30 Glu. In the orthologous proteins of 36 animal species the length of polyGlu varied from 27 Glu to 33 Glu. Negatively charged polyGlu of the ZFHX3 transcription factor probably interacted with positive DNA-binding proteins. The following mRNA region of the ZFHX3 gene contained the binding sites for miR-17-39416-3p, miR-5-15733-3p, miR-9-20317-3 encoding polyAla by 15 Ala lengths. In the 33 ZFHX3 orthologous proteins polyAla had the same length. The mRNA region of the human ZFHX3 gene with binding polysite of miR-1322-3p encoded polyGln consisting of 19 Gln. In the 41 orthologs of the ZFHX3 protein the length of polyGln varied from seven Gln to 23 Gln. The binding sites of miR-2-6184-3p, miR-5-14114-5p and miR-19-43437-5p were located with overlapping nucleotides sequences, and encode polyPro. In ZFHX3 human polyPro consisted of 12 Pro. In the orthologs, polyPro contained from 10 Pro to 14 Pro. The binding sites of miR-17-39416-3p, miR-9-20317-3p, miR-1-1819-3p, miR-5-15733-3p, miR-6-17815-3p, miR-18-39953-5p, miR-26862-5p, miR-1260b and miR-X-48174-3p in human ZFHX3 encoded polyGly by 22 Gly length. In the 28 orthologs of ZFHX3 the length of polyGly decreased to 11 Gly. The TNR regions could simultaneously bind several miRNAs, which increased the dependence of gene expression on miRNA. The oligopeptides encoded by the binding polysites of miRNA in mRNA in the orthologous ZFHX3 proteins were flanked by conserved oligopeptides.

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Section: Molecular and Cell Biology Vavilov Journal Of Genetics And Bmentioning

confidence: 93%

The Characteristics of Mirna Binding Sites in Mrna of Zfhx3 Gene and Its Orthologs

Kondybaeva¹,

Акимниязова²,

Kamenova³

et al. 2018

Vestn. VOGiS

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“…Binding sites encode a polyglutamine oligopeptide ranging from six to 47 amino acids in length. Data indicated the importance of conserve� n�cleoti�e seq�ences of miR-1322 binding sites and not only the amino acid seq�ence correspon�ing to oligopepti�es of the enco�e� protein [24]. miR-1281 bin�s in mRNA of CACNA1I, PVRL1 and EGR1, genes.…”

Section: Resultsmentioning

confidence: 97%

The prediction of miRNAs binding sites in CDS mRNA genes having trinucleotide repeats

Belkozhayev¹,

Niyazova²,

Иващенко³

2019

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In human diseases and physiology, the function of miRNAs is expanding; however, especially nucleotide repeats disorder the majority of miRNA-driven regulatory structure is remaining uncertain. The aim of this work is to reveal which candidate genes of nucleotide repeat diseases and in which degrees can interact with miRNA. We present results on the interaction of 2567 miRNAs with mRNA 102 candidate genes of having nucleotide repeats using the MirTarget program. miRNAs binding sites in the CDS mRNAs of 36 genes from 102 candidate genes with nucleotide repeats have been shown. Among miRNAs that bind with high energy to mRNA genes with nucleotide repeats, we choose five miRNAs that have binding sites for two or more genes: miR-3656 (ARX, EP400, HTT, NCOR2); miR-3960 (ARX, CACNA1I, HTT); miR-1322 (ATN, EP400, GIGYF2, HTT, NCOR2); miR-1281 (CACNA1I, HRC, HTT); miR-4279 (CACNA1I, NCOR2). It was determined that considering miRNAs binding sites are located mainly in regions with CAG, GCG, GAG repeats. Neurological disorders are known to be caused by an increased number of CAG, GCG, GAG repeats, typically in coding regions of otherwise unrelated proteins. Better understanding of interaction specificity of miRNAs and genes promises to offer further in sights into the pathogenic pathways of trinucleotide repeats expansion disorders.

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“…The miR-1322 binding sites has arranged binding sites were arranged in the CDSs of the orthologous genes MAMLD1, MAML2, and MAML3 genes. These sites encode a polyglutamine oligopeptide ranging from six 6 to 47 amino acids in length [1,10].…”

Section: Results and Their Discussionmentioning

confidence: 99%

“…Numerous microRNAs (miRNAs) that regulate the expression of several hundred genes by binding to their mRNAs have been identified [1][2][3][4]. These miRNAs play key roles in the regulation of many biological processes and changes in their concentrations are observed in various pathologies in humans and other animals [5][6][7].…”

Section: Introductionmentioning

confidence: 99%