Indian Journal of Animal Research

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Research Article

Indian Journal of Animal Research, volume 52 issue 8 (august 2018) : 1155-1161

Discovery of two novel miRNAs from the Ovis aries by a combinatorial approach of experiments and bioinformatics

Weihua Chang, Juanhong Wang, Yong Zhang, Junyuan Wu
1College of Animal Science, Tarim University, Alar City, Xinjiang 843300, China
Cite article:- Chang Weihua, Wang Juanhong, Zhang Yong, Wu Junyuan (2017). Discovery of two novel miRNAs from the Ovis aries by a combinatorial approach of experiments and bioinformatics. Indian Journal of Animal Research. 52(8): 1155-1161. doi: 10.18805/ijar.B-721.

ABSTRACT

n the study, we successful constructed a library from the ovine testis using next-generation sequencing technology, and identified 219 novel miRNAs by bioinformatics. Two of the novel miRNAs (ovis_aries_testis-m0052_5p and ovis_aries_testis-m0165_5p), which were expressed in the sheep testis and ovary, and were confirmed by real-time PCR and northern blotting. Ovis_aries_testis-m0052_5p was 23 nucleotides in length, was located on chromosome 15, and had 100% similarity to mmu-miR-34c-5p, hsa-miR-34c-5p, gga-miR-34c-5p, and cfa-miR-34c. Ovis_aries_testis-m0165_5p was 21 nucleotides in length, located on chromosome 5, and had 100% similarity to mmu-miR-145a-5p, hsa-miR-145-5p, ssc-miR-145-5p, and bta-miR-145. The pre-miRNAs for Ovis_aries_testis-m0052_5p and Ovis_aries_testis-m0165_5p were 75 and 81 nucleotides in length, and both had a standard hairpin stem-loop structure. From the consistency of the sequence and structure, we speculated that ovis_aries_testis-m0052_5p had a function similar to hsa-miR-34c-5p, mmu-miR-34c-5p, and ovis_aries_testis-m0165_5p had a function similar to hsa-miR-145-5p, which were involved in the fine regulation of cell survival, spermatozoon generate, breeding activities. Therefore, we defined the identified miRNAs as oar-miR-34c-5p and oar-miR-145-5p. The results will enrich the miRNA database, and provide the basis for research into the regulatory mechanisms of miRNA in relation to breeding activities.

REFERENCES

  1. Agostini, M. and Knight, R.A. (2014). miR-34: from bench to bedside. Oncotarget. 5: 872-881.
  2. Ambros, V., Bartel, B., David, P.B., Christopher, B.B., James, C.C. and Chen, X. M. (2003). A uniform system for microRNA annotation. RNA. 9: 277-279.
  3. Bruce, W., IIho, H. and Gary, R. (1993). Posttranscriptional regulation of the heterochronic gene lin-14 by lin-4 mediates temporal pattern formation in C.elegans. Cell. 75: 855-862.
  4. Chang, W.H., Wang, J.H., Tao, D.Y., Zhang, Y., He, J.Z. and Shi, C.Q. (2015). Identification of a novel miRNA from the ovine ovary by a combinatorial approach of bioinformatics and experiments. The Journal of Veterinary Medical Science. 77: 1617-1624.
  5. Doberstein, K., Steinmeyer, N., Hartmetz, A.K., Eberhardt, W. and Mittelbronn, M. (2013). MicroRNA-145 targets the metalloprotease adam17 and is suppressed in renal cell carcinoma patients. Neoplasia. 15: 218-230.
  6. Hu, X.W., Feng, Y., Hu, Z.Y., Zhang, Y.Y., Yuan, C.X. and Xu, X.W. (2016). Detection of long Non-coding RNA expression by nonradioactive northern blots. Methods Mol Biol. 1402: 177–188.
  7. Ji, Z.B., Wang, G.Z., Xie Z.J., Wang, J.M., Zhang, C.L. and Dong, F. (2012). Identification of novel and differentially expressed micrornas of dairy goat mammary gland tissues using solexa sequencing and bioinformatics. PLoS ONE. 7: doi: 10.1371/    journal.pone.0049463. 
  8. Lei, L., Jin, S.Y., Gabriel, G., Richard, R.B. and Teresa, K. (2010). Woodruff. The regulatory role of Dicer in folliculogenesis in mice. Molecular and Cellular Endocrinology. 15: 63-73. 
  9. Lishenq, D., Chon-Hwa, T.M., Hisashi, S., Joaquin, V., Jung-Hoon, K. and Zhang, J.B. (2011).Testis-specific miRNA-469 up-regulated in gonadotropin-regulated testicular RNA helicase (GRTH/DDX25)-null mice silences transitionprotein 2 and protamine 2 messages at sites within coding region: implications of its role in germ cell development. Journal of Biological Chemistry. 286: 44306-44318. 
  10. Li, Y., Zhang, Z., Liu, F., Wanwipa, V., Jing, Q. and Bairong, S. (2012). Performance comparison and evaluation of software tools for microRNA deep-sequencing data analysis. Nucleic Acids Research. 40: 4298-4305. 
  11. Liu, W.M., Ronald, Pang, T.K., Philip, Chiu, C.N., Benancy, P.C. (2012). Sperm-borne microRNA-34c is required for the first cleavage division in mouse. PNAS. 109: 490-494. 
  12. Masood, A.H., Christina, B., Petra, L., Andreas, K., Abdel, M.L. and Mohamad, H. (2014). MicroRNA expression profiles in human testicular tissues of infertile men with different histopathologic patterns. Fertility and Sterility. 101: 78-86. 
  13. Motoyuki, O., Zheng, M., Masaaki, H., Jing-Dwan, L. and Lin, S.C. (2008). Impaired microRNA processing causes corpus luteum insufficiency and infertility in mice. J. Clin. Invest. 118: 1944-1954. 
  14. Michael, Z. and Jacobson, A.B. (1998). Using reliability information to annotate RNA secondary structures. RNA. 4: 669-679. 
  15. Massimiliano, A., Paola, T., Joern, R.S., Ruby, S.F. and Daniel, A. (2011). microRNA-34a regulates neurite outgrowth, spinal morphology, and function. PNAS. 108: 21099-21104. 
  16. Meenakshi J., Surender K., Pushpa K., Parveen B. and Vijay K. C.(2017). Determination of Cry1Ac copy number in transgenic pigeonpea plants using quantitative real time PCR. Legume Research An International Journal. 40: 643-648.
  17. Ostenfeld, M.S., Bramsen, J.B., Lamy, P., Villadsen, S.B., Fristrup, N. and Srensen, K.D. (2010). miR-145 induces caspase-dependent and-independent cell death in urothelial cancer cell lines with targeting of an expression signature present in Ta bladder tumors. Oncogene. 29: 1073-1084. 
  18. Ramu C., Hideaki S., Tadashi K., Rodrigo L., Toby J.G. and Desmond G.H. (2003). Multiple sequence alignment with the Clustal series of programs. Nucleic Acids Res. 31: 3497-3500. 
  19. Raja P., Prabhakar T., Maneshkumar P., Vijay I., Nitin K. and Dewananad K.(2016). Evaluation of function of RICTOR gene in gga-    mir-142-3p knockdowned developing chicken embryo. Indian Journal Of Animal Research. 51: 807-812(DOI: 10.18805/    ijar.10983
  20. Seungil, R., Chanjae, P., Kenton, M.S., John, R.M. and Yan, W. (2007). Cloning and expression profling of testis-expressed microRNAs. Devopmental Biology. 311: 592-602. 
  21. Takuya, M., Takami, T., Luo, S.S., Osamu, I., Yutaka, K. and Yoshiaki, M. (2008). MicroRNA(miRNA) cloning analysis reveals sex differences in miRNA expression profiles betweenadult mouse testis and ovary. Reproduction. 136: 811-822. 
  22. Teshome, T.B., Birgitta, N., Jorge, F. and Igor, B. (2012). Sex-Biased miRNA expression in Atlantic Halibut (Hippoglossus hippoglossus) brain and gonads. Sexual Development. 6: 257-266.
  23. Wang, L. and Xu, C. (2015). Role of microRNAs in mammalian spermatogenesis and testicular germ cell tumors. Reproduction. 149: R127-R137.
  24. Wang, L., Fu, C., Hongbo, F., Du, T.T., Dong, M. and Chen, Y. (2013). miR-34b regulates multiciliogenesis during organ formation in zebrafish. Development. 140: 2755-2764.
  25. Yamina B., Farida B.A., Zoubir B., Charefeddine M. and Amal D.(2017). Seasonal variations in reproductive parameters of Ouled Djellal rams in the East of Algeria. Indian Journal Of Animal Research. DOI: 10.18805/ijar.v0iOF.7266
  26. Zhong, S.L., Li, W.J., Chen, Z.Y., Xu, J.J. and Zhao, J.H. (2013). miR-222 and miR-29a contribute to the drug-resistance of breast cancer cells. Gene. 531: 8-14.
  27. Zhang, B.H., Edmund, J.S. and Pan, X.P. (2009). Large-scale genome analysis reveals unique features of microRNAs. Gene. 443: 100-109.
  28. Zhang, B.H., Pan, X.P., Wang, Q.L., George, P.C. and Todd, A.A. (2006). Computational identification of microRNAs and their targets. Comput. Biol. Chem. 30: 395-407. 
  29. Zhang, BH, Pan, XP, Cox, SB, Cobb, GP and Anderson, A (2006) Evidence that miRNAs are different from other RNAs. Cell and Molecular Life Sciences 63: 246-254.
  30. Zhang, H.H., Wang, X.J., Li, G.X., Yang, E. and Yang, N.M. (2007). Detection of let-7a microRNA by real-time PCR in gastric carcinoma. World Journal of Gastroenterology. 13: 2883-2888. 
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