Взаимодействие miR-5p и miR-3p с мРНК ортологичных генов

Yurikova, O.Yu.; Aisina, Dana; Niyazova, Raigul; Atambayeva, Shara; Labeit, Siegfried; Иващенко, А. Т.

doi:10.1134/s0026898419040189

Cited by 10 publications

(8 citation statements)

References 30 publications

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“…For all miR2102-5p, miR2919, and miR5075-3p binding sites, nucleotide conservation is present compared to the flanking nucleotides of mRNA target genes. With the complete complementarity of the nucleotides miRNA and mRNA (ΔG/ΔGm = 100%) of the target genes, absolute conservatism of the site along the entire binding site should be observed, as previously shown (Atambayeva et al, 2017; Bari, Orazova & Ivashchenko, 2013; Bari et al, 2014; Yurikova et al, 2019). When the ΔG/ΔGm value changes from 94% to 100% (Table 1), the basis for the interaction of the nucleotides miR2102-5p, miR2919 and miR5075-3p and mRNA are G-С pairs.…”

Section: Resultssupporting

confidence: 57%

“…2). The conservatism of such bonds between miRNAs and their target genes was established by us for many associations of miRNAs and their target genes in animals and plants (Atambayeva et al, 2017; Bari, Orazova & Ivashchenko, 2013; Bari et al, 2014; Yurikova et al, 2019). These bonds have persisted over tens of millions of years of evolution and indicate the early emergence of the process of regulation by miRNA molecules of target gene expression in animals and plants.…”

Section: Resultsmentioning

confidence: 99%

“…One form of evidence for the reliability of miRNA interaction with mRNA is the establishment of a conservative nucleotide sequence of binding sites in mRNA of target genes (Atambayeva et al, 2017; Bari, Orazova & Ivashchenko, 2013; Bari et al, 2014; Yurikova et al, 2019). The results of the analysis of the similarity of the nucleotide sequences of the binding sites in mRNA of the target genes miR2102-5p, miR2919 and miR5075-3p are shown in Fig.…”

Section: Resultsmentioning

confidence: 99%

See 2 more Smart Citations

Human Genes AreIn SilicoPotential Targets For Rice miRNA

Rakhmetullina

Pyrkova

Aisina

et al. 2020

Preprint

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16Exogenous miRNAs enter the human body through food, and their effects on metabolic 17 processes can be considerable. It is important to determine which miRNAs from plants 18 affect the expression of human genes and the extent of their influence. The binding sites of 19 738 osa-miRNAs that interact with 17508 mRNAs of human genes were determined using 20 the MirTarget program. The characteristics of the binding of 46 single osa-miRNAs to 86 21 mRNAs of human genes with a value of free energy (ΔG) interaction equal 94% to 100% 22 from maximum ΔG were established. The findings showed that osa-miR2102-5p, osa-23 miR5075-3p, osa-miR2097-5p, osa-miR2919 targeted the largest number of genes at 38, 36, 24 23, 19 sites, respectively. mRNAs of 86 human genes were identified as targets for 93 osa-25 miRNAs of all family osa-miRNAs with ΔG values equal 94% to 98% from maximum ΔG. 26Each miRNA of the osa-miR156-5p, osa-miR164-5p, osa-miR168-5p, osa-miR395-3p, osa-27 miR396-3p, osa-miR396-5p, osa-miR444-3p, osa-miR529-3p, osa-miR1846-3p, osa-28 miR2907-3p families had binding sites in mRNAs of several human target genes. The 29 binding sites of osa-miRNAs in mRNAs of the target genes for each family of osa-miRNAs 30 were conserved when compared to flanking nucleotide sequences. mRNA human genes of 31 osa-miRNAs are candidate genes of cancer, cardiovascular and neurodegenerative diseases.32 33 104genes. Each of the 35 miRNAs could bind to mRNAs of one target gene, six miRNAs had targets 105 with two genes, and four miRNAs had three target genes with a value ΔG/ΔGm equal to 94-106 98%. miR2102-5p had 11 target genes with a value ΔG/ΔGm of 94-100%, and the free energy of 107 the interaction of the miRNAs with the mRNAs of these genes varied from -115 kJ/mole to -121 108 4 kJ/mole. The miR2102-5p binding sites were located mainly in the 5'UTR, which suggests that 109 they have a role in the early inhibition of the translation process. However, this property of 110 miR2102-5p indicates the need to control its plant food-derived concentration in the human 111 body. 19 target genes were associated with miR2919. miR5075-3p could bind to three mRNAs at 112 binding sites located in the coding domain sequence and the 5'-untranslated region. The high-113 affinity binding sites were located in the 5'UTR and CDS of the mRNAs with the ΔG/ΔGm value 114 was 94-98%. 17 miRNA binding sites were located in 5'UTR, 39 in CDS and 33 in 3'-115 untranslated region. Therefore, monitoring the concentrations of miR2102-5p, miR2919 and 116 miR5075-3p in human biological fluids is also necessary. 117 118 122 development of cancer of various types: ENAH, MAPT, PRKCE, PRRT2, RBMS2, RHOBTB2, 123 RPS6KA5 and ZFHX3 -breast cancer (Aisina et al., 2019); ADAMTS5, PRAPRGG1A, PVR, 124 SPRY4 -colorectal cancer; CHSY1 -colorectal cancer and hepatocellular carcinoma; PPM1F, 125 FXYD6, DUT, FAM83H -hepatocellular carcinoma; HK2 -gallbladder cancer and leukaemia; 126 C19orf6 -ovarian carcinoma; AFAP1 -oesophageal adenocarcinoma; IOGAP1 -pancreatic 127 6 ductal adenoca...

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Section: Resultssupporting

confidence: 57%

Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

See 1 more Smart Citation

Human Genes AreIn SilicoPotential Targets For Rice miRNA

Rakhmetullina

Pyrkova

Aisina

et al. 2020

Preprint

View full text Add to dashboard Cite

show abstract

“…In addition, miRNAs can bind to other regions of target mRNAs, including the 5 -untranslated regions (5 UTR) and coding sequence (CDS) (Orom et al, 2008;Forman and Coller, 2010;Ivashchenko et al, 2013;Zhou and Rigoutsos, 2014;Niyazova et al, 2015;Kondybayeva et al, 2018;Yurikova et al, 2019). We used a program that effectively determines the quantitative characteristics of the interaction of miRNA with mRNA and allows us to identify fundamentally new properties of the binding of miRNA to mRNA.…”

Section: Introductionmentioning

confidence: 99%

In silico Prediction of miRNA Interactions With Candidate Atherosclerosis Gene mRNAs

et al. 2020

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The involvement of genes and miRNAs in the development of atherosclerosis is a challenging problem discussed in recent publications. It is necessary to establish which miRNAs affect the expression of candidate genes. We used known candidate atherosclerosis genes to predict associations. The quantitative characteristics of interactions of miRNAs with mRNA candidate genes were determined using the program, which identifies the localization of miRNA binding sites in mRNA, the free energy interaction of miRNA with mRNA. In mRNAs of GAS6 and NFE2L2 candidate genes, binding sites of 21 miRNAs and of 15 miRNAs, respectively, were identified. In IRS2 mRNA binding sites of 25 miRNAs were located in a cluster of 41 nt. In ADRB3, CD36, FASLG, FLT1, PLA2G7 , and PPARGC1A mRNAs, clusters of miR-466, ID00436.3p-miR, and ID01030.3p-miR BS were identified. The organization of overlapping miRNA binding sites in clusters led to their compaction and caused competition among the miRNAs. The binding of 53 miRNAs to the mRNAs of 14 candidate genes with free energy interactions greater than −130 kJ/mole was determined. The miR-619-5p was fully complementary to ADAM17 and CD36 mRNAs, ID01593.5p-miR to ANGPTL4 mRNA, ID01935.5p-miR to NFE2L2 , and miR-5096 to IL18 mRNA. Associations of miRNAs and candidate atherosclerosis genes are proposed for the early diagnosis of this disease.

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“…Based on the above considerations, the concentrations of miRNA and mRNA should be comparable. Therefore, there is a conserved relationship between the nucleotide sequences of miRNAs and miRNA BSs in the mRNA (Davis et al, 2005;Wang et al, 2016;Yurikova et al, 2019). While recommending the association of miRNAs and potential target genes for disease diagnosis, we emphasize that miRNA and mRNA concentrations must be simultaneously recorded.…”

Section: Discussionmentioning

confidence: 99%

Evolutionary Changes in the Interaction of miRNA With mRNA of Candidate Genes for Parkinson’s Disease

et al. 2021

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Parkinson’s disease (PD) exhibits the second-highest rate of mortality among neurodegenerative diseases. PD is difficult to diagnose and treat due to its polygenic nature. In recent years, numerous studies have established a correlation between this disease and miRNA expression; however, it remains necessary to determine the quantitative characteristics of the interactions between miRNAs and their target genes. In this study, using novel bioinformatics approaches, the quantitative characteristics of the interactions between miRNAs and the mRNAs of candidate PD genes were established. Of the 6,756 miRNAs studied, more than one hundred efficiently bound to mRNA of 61 candidate PD genes. The miRNA binding sites (BS) were located in the 5′-untranslated region (5′UTR), coding sequence (CDS) and 3′-untranslated region (3′UTR) of the mRNAs. In the mRNAs of many genes, the locations of miRNA BS with overlapping nucleotide sequences (clusters) were identified. Such clusters substantially reduced the proportion of nucleotide sequences of miRNA BS in the 5′UTRs, CDSs, and 3′UTRs. The organization of miRNA BS into clusters leads to competition among miRNAs to bind mRNAs. Differences in the binding characteristics of miRNAs to the mRNAs of genes expressed at different rates were identified. Single miRNA BS, polysites for the binding for one miRNA, and multiple BS for two or more miRNAs in one mRNA were identified. Evolutionary changes in the BS of miRNAs and their clusters in 5′UTRs, CDSs and 3′UTRs of mRNA of orthologous candidate PD genes were established. Based on the quantitative characteristics of the interactions between miRNAs and mRNAs candidate PD genes, several associations recommended as markers for the diagnosis of PD.

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Взаимодействие miR-5p и miR-3p с мРНК ортологичных генов

Cited by 10 publications

References 30 publications

Human Genes AreIn SilicoPotential Targets For Rice miRNA

Human Genes AreIn SilicoPotential Targets For Rice miRNA

In silico Prediction of miRNA Interactions With Candidate Atherosclerosis Gene mRNAs

Evolutionary Changes in the Interaction of miRNA With mRNA of Candidate Genes for Parkinson’s Disease

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