Analyzing the Interactions of MRNAs, MiRNAs and LncRNAs to Predict CeRNA Networks in Bovine Cystic Follicular Granulosa Cells

Overview

Journal Front Vet Sci

Specialty Veterinary Medicine

Date 2022 Oct 31

PMID 36311668

Authors

Kai Wang

Ying Cheng

Tong Guo

Xiangqian Guo

Hongzhi Zhang

Xiaoyan Ma

Yangyang Pan

Ermias Kebreab

Dong Wang

Lihua Lyu

Affiliations

Soon will be listed here.

Abstract

Cross-talk between competitive endogenous RNAs (ceRNAs) may play a critical role in revealing potential mechanism of bovine follicular cysts. Ovarian cyst has always been an intractable scientific problem and has led to considerable economic losses to bovine breeding industry. However, its pathogenesis and molecular mechanisms are still not well understood. Here, this study aimed to investigate the role of non-coding RNAs (ncRNAs) and the ceRNA networks in bovine follicular cyst. Whole transcriptome sequencing of bovine follicular granulosa cells (GCs) was conducted to obtain the expression profiles of mRNAs, lncRNAs and miRNAs. The results for the identified expressions of 8,003 mRNAs, 579 lncRNAs and 205 miRNAs were often altered between cystic and normal follicular GCs. Gene Ontology and Kyoto Encyclopedia of Genes and Genomes pathway analyses were performed on these differentially expressed mRNAs. Furthermore, the ceRNA network combining mRNAs, miRNAs, and lncRNAs using several bioinformatics methods based on co-expression analysis between the differentially expressed RNAs was conducted. Finally, the lncRNA NONBTAT027373.1-miR-664b- pathway was verified by dual-luciferase reporting assay and RNA binding protein immunoprecipitation (RIP) assay. LncRNA NONBTAT027373.1 sponged miR-664b in GCs and prevented miR-664b from binding to the 3'-UTR. These results indicated that genes and lncRNAs related to steroid hormone synthesis and energy metabolism could play important roles in the formation of bovine cystic follicles through the ceRNA mechanism and represent candidate targets for further research. This can be used as a practical guideline for promoting healthy and highly efficient development in the bovine industry.

Citing Articles

The functional role of lncRNAs as ceRNAs in both ovarian processes and associated diseases.

Usman M, Li A, Wu D, Qinyan Y, Yi L, He G Noncoding RNA Res. 2023; 9(1):165-177.

PMID: 38075201 PMC: 10709095. DOI: 10.1016/j.ncrna.2023.11.008.

References

Cortes V, Busso D, Maiz A, Arteaga A, Nervi F, Rigotti A . Physiological and pathological implications of cholesterol. Front Biosci (Landmark Ed). 2014; 19(3):416-28. DOI: 10.2741/4216. View

Li W, Notani D, Rosenfeld M . Enhancers as non-coding RNA transcription units: recent insights and future perspectives. Nat Rev Genet. 2016; 17(4):207-23. DOI: 10.1038/nrg.2016.4. View

Jeffcoate I, Ayliffe T . An ultrasonographic study of bovine cystic ovarian disease and its treatment. Vet Rec. 1995; 136(16):406-10. DOI: 10.1136/vr.136.16.406. View

Lucy M . Reproductive loss in high-producing dairy cattle: where will it end?. J Dairy Sci. 2001; 84(6):1277-93. DOI: 10.3168/jds.S0022-0302(01)70158-0. View

Zhou M, Liu X, Qiukai E, Shang Y, Zhang X, Liu S . Long non-coding RNA Xist regulates oocyte loss via suppressing miR-23b-3p/miR-29a-3p maturation and upregulating STX17 in perinatal mouse ovaries. Cell Death Dis. 2021; 12(6):540. PMC: 8149765. DOI: 10.1038/s41419-021-03831-4. View

Diaz P, Stangaferro M, Gareis N, Silvia W, Matiller V, Salvetti N . Characterization of persistent follicles induced by prolonged treatment with progesterone in dairy cows: an experimental model for the study of ovarian follicular cysts. Theriogenology. 2015; 84(7):1149-60. DOI: 10.1016/j.theriogenology.2015.06.015. View

Hudson N, Reverter A, Griffiths W, Yutuc E, Wang Y, Jeanes A . Gene expression identifies metabolic and functional differences between intramuscular and subcutaneous adipocytes in cattle. BMC Genomics. 2020; 21(1):77. PMC: 6986065. DOI: 10.1186/s12864-020-6505-4. View

Rodriguez F, Salvetti N, Colombero M, Stangaferro M, Barbeito C, Ortega H . Interaction between IGF1 and IGFBPs in bovine cystic ovarian disease. Anim Reprod Sci. 2013; 140(1-2):14-25. DOI: 10.1016/j.anireprosci.2013.04.012. View

Yu L, Tai L, Zhang L, Chu Y, Li Y, Zhou L . Comparative analyses of long non-coding RNA in lean and obese pig. Oncotarget. 2017; 8(25):41440-41450. PMC: 5522191. DOI: 10.18632/oncotarget.18269. View

10.

Enright A, John B, Gaul U, Tuschl T, Sander C, Marks D . MicroRNA targets in Drosophila. Genome Biol. 2004; 5(1):R1. PMC: 395733. DOI: 10.1186/gb-2003-5-1-r1. View

11.

Huang R, Chen H, Zhong C, Kim J, Zhang Y . High-Throughput Screening of Coenzyme Preference Change of Thermophilic 6-Phosphogluconate Dehydrogenase from NADP(+) to NAD(.). Sci Rep. 2016; 6:32644. PMC: 5009329. DOI: 10.1038/srep32644. View

12.

Li H, Yang J, Jiang R, Wei X, Song C, Huang Y . Long Non-coding RNA Profiling Reveals an Abundant MDNCR that Promotes Differentiation of Myoblasts by Sponging miR-133a. Mol Ther Nucleic Acids. 2018; 12:610-625. PMC: 6078111. DOI: 10.1016/j.omtn.2018.07.003. View

13.

Stassi A, Gasser F, Velazquez M, Belotti E, Gareis N, Rey F . Contribution of the VEGF system to the follicular persistence associated with bovine cystic ovaries. Theriogenology. 2019; 138:52-65. DOI: 10.1016/j.theriogenology.2019.07.002. View

14.

Bhardwaj J, Paliwal A, Saraf P, Sachdeva S . Role of autophagy in follicular development and maintenance of primordial follicular pool in the ovary. J Cell Physiol. 2021; 237(2):1157-1170. DOI: 10.1002/jcp.30613. View

15.

Jamieson P, Chapman K, Edwards C, Seckl J . 11 beta-hydroxysteroid dehydrogenase is an exclusive 11 beta- reductase in primary cultures of rat hepatocytes: effect of physicochemical and hormonal manipulations. Endocrinology. 1995; 136(11):4754-61. DOI: 10.1210/endo.136.11.7588203. View

16.

Beam S, Butler W . Effects of energy balance on follicular development and first ovulation in postpartum dairy cows. J Reprod Fertil Suppl. 2000; 54:411-24. View

17.

Colakoglu H, Kuplulu S, Polat I, Pekcan M, Ozenc E, Baklaci C . Association among lipopolysaccharide, the transforming growth factor-beta superfamily, follicular growth, and transcription factors in spontaneous bovine ovarian cysts. Domest Anim Endocrinol. 2019; 70:106398. DOI: 10.1016/j.domaniend.2019.106398. View

18.

Huang X, Pan J, Wu B, Teng X . Construction and analysis of a lncRNA (PWRN2)-mediated ceRNA network reveal its potential roles in oocyte nuclear maturation of patients with PCOS. Reprod Biol Endocrinol. 2018; 16(1):73. PMC: 6091030. DOI: 10.1186/s12958-018-0392-4. View

19.

Dozmorov M . GitHub Statistics as a Measure of the Impact of Open-Source Bioinformatics Software. Front Bioeng Biotechnol. 2019; 6:198. PMC: 6306043. DOI: 10.3389/fbioe.2018.00198. View

20.

Li N, Liu X, Zhang F, Tian Y, Zhu M, Meng L . Whole-transcriptome analysis of the toxic effects of zearalenone exposure on ceRNA networks in porcine granulosa cells. Environ Pollut. 2020; 261:114007. DOI: 10.1016/j.envpol.2020.114007. View