ХАРАКТЕРИСТИКИ СВЯЗЫВАНИЯ МЕЖГЕННЫХ, ИНТРОННЫХ И ЭКЗОННЫХ miRNA С mRNA ГЕНОВ, КОДИРУЮЩИХ ИНТРОННЫЕ miRNA
Keywords:
miRNA, gene,Abstract
Interaction sites of 784 intergenic miRNAs, 686 intronic miRNAs and 49 exonic miRNAs with mRNAs of 52 genes which are coded intronic miRNAs were studied. Feature interactions of miRNA with mRNA 5'UTR, CDS and 3'UTR of each gene are revealed. The raised affinity of miRNA sites to mRNA 5'UTRs in comparison with CDSs and 3'UTRs is established. mRNAs of 52 genes considerably differ on density of interaction sites and number of binding miRNAs. Various types of miRNAs interaction with mRNAs were revealed. They variously bring the contribution to interaction energy 5'- and 3'-parts miRNA were determined. Intronic miRNAs do not interact with mRNA of genes, which are coded by them. These data promotes understanding of the interaction mechanism miRNA and mRNA.References
1. Liu J., Jennings S.F., Tong W., Hong H. Next generation sequencing for profiling expression of miRNAs: technical progress and applications in drug development // J. Biomedical Science and Engineering. – 2011. – Vol. 4. – P. 666-676.
2. Grimson A., Fahr K.K., Johnston W.K., Garrett-Engele P., Lim L.P., Bartel D.P. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. // Mol. Cell. – 2007. – Vol. 27. – P. 91-105.
3. Lee I., Ajay S., Yook J. et al. New class of microRNA targets containing simultaneous 5′-UTR and 3′-UTR interaction sites. // Genome Research. – 2009. – Vol. 19. – P. 1175-1183.
4. Tay Y., Zhang J., Thompson A., Lim B. et al. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation. // Nature. – 2008. – Vol. 455. – P. 1124-1128.
5. Tsai N.-P. et al., MicroRNA mir-346 targets the 5'UTR of RIP140 mRNA and up-regulates its protein expression. // Biochem J. – 2009. – Vol. 424. – P. 411-418.
6. Shirdel E.A., Xie W., Mak T.W., Jurisica I. NAViGaTing the micronome-using multiple microRNA prediction databases to identify signaling pathway-associated microRNAs. // PLoS ONE. – 2011. – Vol. 6 (2). – e17429. doi:10.1371/journal.pone.0017429.
7. Lewis B.P., Burge C.B., Bartel1 D.P. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets // Cell. – 2005. – Vol. 120. – Р. 15-20.
8. Kowarsch A., Marr C., Schmidl D., Ruepp A., Theis F.J. Tissue-specific target analysis of disease-associated microRNAs in human signaling pathways. // PLoS ONE. – 2010. – Vol. 5 (6). – e11154. doi:10.1371/journal.pone.0011154.
9. Patel N., Sauter E.R. Body fluid micro(mi)RNAs as biomarkers for human cancer. // J. Nucl. Acids Investigation. – 2011. –Vol. 2. – e1.
10. Qiu W., Wu B., Wang X., Buchanan M.E., Regueiro M.D. et al., PUMA-mediated intestinal epithelial apoptosis contributes to ulcerative colitis in humans and mice. // J. Clin. Invest. – 2011. – Vol. 121. – Р. 1722-1732.
2. Grimson A., Fahr K.K., Johnston W.K., Garrett-Engele P., Lim L.P., Bartel D.P. MicroRNA targeting specificity in mammals: determinants beyond seed pairing. // Mol. Cell. – 2007. – Vol. 27. – P. 91-105.
3. Lee I., Ajay S., Yook J. et al. New class of microRNA targets containing simultaneous 5′-UTR and 3′-UTR interaction sites. // Genome Research. – 2009. – Vol. 19. – P. 1175-1183.
4. Tay Y., Zhang J., Thompson A., Lim B. et al. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation. // Nature. – 2008. – Vol. 455. – P. 1124-1128.
5. Tsai N.-P. et al., MicroRNA mir-346 targets the 5'UTR of RIP140 mRNA and up-regulates its protein expression. // Biochem J. – 2009. – Vol. 424. – P. 411-418.
6. Shirdel E.A., Xie W., Mak T.W., Jurisica I. NAViGaTing the micronome-using multiple microRNA prediction databases to identify signaling pathway-associated microRNAs. // PLoS ONE. – 2011. – Vol. 6 (2). – e17429. doi:10.1371/journal.pone.0017429.
7. Lewis B.P., Burge C.B., Bartel1 D.P. Conserved seed pairing, often flanked by adenosines, indicates that thousands of human genes are microRNA targets // Cell. – 2005. – Vol. 120. – Р. 15-20.
8. Kowarsch A., Marr C., Schmidl D., Ruepp A., Theis F.J. Tissue-specific target analysis of disease-associated microRNAs in human signaling pathways. // PLoS ONE. – 2010. – Vol. 5 (6). – e11154. doi:10.1371/journal.pone.0011154.
9. Patel N., Sauter E.R. Body fluid micro(mi)RNAs as biomarkers for human cancer. // J. Nucl. Acids Investigation. – 2011. –Vol. 2. – e1.
10. Qiu W., Wu B., Wang X., Buchanan M.E., Regueiro M.D. et al., PUMA-mediated intestinal epithelial apoptosis contributes to ulcerative colitis in humans and mice. // J. Clin. Invest. – 2011. – Vol. 121. – Р. 1722-1732.
Downloads
Issue
Section
Physical and chemical biology
