Analysis of Long Noncoding RNA and MRNA Expression Profiles of Testes with High and Low Sperm Motility in Domestic Pigeons

Overview

Journal Genes (Basel)

Publisher MDPI

Date 2020 Mar 29

PMID 32218174

Citations 4

Authors

Xiuli Xu

Yuge Tan

Haiguang Mao

Honghua Liu

Xinyang Dong

Zhaozheng Yin

Affiliations

Soon will be listed here.

Abstract

Sperm motility is one of the most important indicators in assessing semen quality, and it is used to evaluate poultry fertility. Many long noncoding RNAs (lncRNAs) and mRNAs are involved in regulating testis development and spermatogenesis. In this study, we employed RNA sequencing to analyse the testis transcriptome (lncRNA and mRNA) of ten pigeons with high and low sperm motility. In total, 46,117 mRNAs and 17,463 lncRNAs were identified, of which 2673 mRNAs and 229 lncRNAs ( < 0.05) were significantly differentially expressed (DE) between the high and low sperm motility groups. Gene ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) annotation analysis showed that target genes of DE lncRNAs and DE mRNAs were related to calcium ion binding, ATP binding, and spermatogenesis. Moreover, we found that UBB, a target gene of lncRNA MSTRG.7787.5, was involved in germ cell development. Our study provided a catalogue of lncRNAs and mRNAs associated with sperm motility, and they deserve further study to deepen the understanding of biological processes in the pigeon testis.

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References

Wang Y, Gao L, Li J, Zhu B, Zhu H, Luo Y . Analysis of long-non-coding RNAs associated with ethylene in tomato. Gene. 2018; 674:151-160. DOI: 10.1016/j.gene.2018.06.089. View

Li H, Liang Z, Yang J, Wang D, Wang H, Zhu M . DAZL is a master translational regulator of murine spermatogenesis. Natl Sci Rev. 2019; 6(3):455-468. PMC: 6660020. DOI: 10.1093/nsr/nwy163. View

Liu K, Li T, Ton H, Mao X, Chen Y . Advances of Long Noncoding RNAs-mediated Regulation in Reproduction. Chin Med J (Engl). 2018; 131(2):226-234. PMC: 5776855. DOI: 10.4103/0366-6999.222337. View

Hou C, Yang W . New insights to the ubiquitin-proteasome pathway (UPP) mechanism during spermatogenesis. Mol Biol Rep. 2012; 40(4):3213-30. DOI: 10.1007/s11033-012-2397-y. View

Song X, Kyi-Tha-Thu C, Takizawa T, Naing B, Takizawa T . 1700108J01Rik and 1700101O22Rik are mouse testis-specific long non-coding RNAs. Histochem Cell Biol. 2018; 149(5):517-527. DOI: 10.1007/s00418-018-1642-4. View

Derrien T, Johnson R, Bussotti G, Tanzer A, Djebali S, Tilgner H . The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res. 2012; 22(9):1775-89. PMC: 3431493. DOI: 10.1101/gr.132159.111. View

Zhang C, Gao L, Xu E . LncRNA, a new component of expanding RNA-protein regulatory network important for animal sperm development. Semin Cell Dev Biol. 2016; 59:110-117. DOI: 10.1016/j.semcdb.2016.06.013. View

Langmead B, Salzberg S . Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012; 9(4):357-9. PMC: 3322381. DOI: 10.1038/nmeth.1923. View

Conesa A, Gotz S, Garcia-Gomez J, Terol J, Talon M, Robles M . Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics. 2005; 21(18):3674-6. DOI: 10.1093/bioinformatics/bti610. View

10.

Froman D, Pizzari T, Feltmann A, Castillo-Juarez H, Birkhead T . Sperm mobility: mechanisms of fertilizing efficiency, genetic variation and phenotypic relationship with male status in the domestic fowl, Gallus gallus domesticus. Proc Biol Sci. 2002; 269(1491):607-12. PMC: 1690926. DOI: 10.1098/rspb.2001.1925. View

11.

Sun L, Luo H, Bu D, Zhao G, Yu K, Zhang C . Utilizing sequence intrinsic composition to classify protein-coding and long non-coding transcripts. Nucleic Acids Res. 2013; 41(17):e166. PMC: 3783192. DOI: 10.1093/nar/gkt646. View

12.

Ponting C, Oliver P, Reik W . Evolution and functions of long noncoding RNAs. Cell. 2009; 136(4):629-41. DOI: 10.1016/j.cell.2009.02.006. View

13.

Kim D, Langmead B, Salzberg S . HISAT: a fast spliced aligner with low memory requirements. Nat Methods. 2015; 12(4):357-60. PMC: 4655817. DOI: 10.1038/nmeth.3317. View

14.

Hershko A, Ciechanover A . The ubiquitin system. Annu Rev Biochem. 1998; 67:425-79. DOI: 10.1146/annurev.biochem.67.1.425. View

15.

Hu K, Li L, Liao Y, Liang M . LncRNA Gm2044 highly expresses in spermatocyte and inhibits Utf1 translation by interacting with Utf1 mRNA. Genes Genomics. 2018; 40(7):781-787. DOI: 10.1007/s13258-018-0690-4. View

16.

Liu Y, Sun Y, Li Y, Bai H, Xue F, Xu S . Analyses of Long Non-Coding RNA and mRNA profiling using RNA sequencing in chicken testis with extreme sperm motility. Sci Rep. 2017; 7(1):9055. PMC: 5567338. DOI: 10.1038/s41598-017-08738-9. View

17.

Saunders P, Cooke H, de Rooij D . Nature of the spermatogenic arrest in Dazl -/- mice. Biol Reprod. 2001; 65(3):771-6. DOI: 10.1095/biolreprod65.3.771. View

18.

Pereira R, Sa R, Barros A, Sousa M . Major regulatory mechanisms involved in sperm motility. Asian J Androl. 2015; 19(1):5-14. PMC: 5227674. DOI: 10.4103/1008-682X.167716. View

19.

Piprek R, Kolasa M, Podkowa D, Kloc M, Kubiak J . Tissue-specific knockout of E-cadherin (Cdh1) in developing mouse gonads causes germ cells loss. Reproduction. 2019; 158(2):147-157. DOI: 10.1530/REP-18-0621. View

20.

Mercer T, Dinger M, Mattick J . Long non-coding RNAs: insights into functions. Nat Rev Genet. 2009; 10(3):155-9. DOI: 10.1038/nrg2521. View