犏牛雄性不育相关lncRNA的鉴定与分析

doi:10.11843/j.issn.0366-6964.2019.03.010

Abstract

Abstract:

The objective of this study was to explore the link between lncRNAs and the mechanism of male infertility of cattle-yak by analyzing the gene expression profile about lncRNA in testis tissue of adult healthy yak and cattle-yak (3-4 years old). This study provided the base for further interpreting the mechanism of male infertility of cattle-yak.Testis tissues of 3 adult healthy yaks and 3 adult healthy cattle-yaks were collected to construct the cDNA libraries. And, the structure and function of genes were analyzed by using high-throughput sequencing and differentially expressed lncRNAs (DElncRNAs) were screened between yak and cattle-yak. Then the cis-targeted and tran-targeted genes of DElncRNAs were predicted by exploring the positional relation and binding energy between lncRNA and mRNA, and the GO and KEGG pathway enrichment analysis was also made. The results displayed that 20 363 and 24 133 candidate lncRNA transcripts of yak and cattle-yak were respectively obtained, 6 178 DElncRNAs of which were selected.Compared with yak, there were 2 470 up-regulated and 3 708 down-regulated lncRNAs in cattle-yak. Meanwhile 2 676 candidate target genes of DElncRNAs were obtained. The analytical results indicated that these genes participated in 58 functional classifications and participated in 306 signal pathways. And, they were mainly involved in such signal pathways as axon guidance, endocytosis and hedgehog. In conclusion, these findings inferred that some lncRNA-mediated target genes (PTGDS, IGF2, MEST, GLIS3, NTOCH2, HOXA10, HOXA11) were associated with male infertility of cattle-yak, and lncRNA may played an important role in the reproductive development of cattle-yak. Moreover, the gap analysis of lncRNA was made by using RNA-Seq technology,which provided more complete data for further exploring the mechanisms of male infertility of cattle-yak on transcriptome.

CLC Number:

S823.8⁺5.2

A GUO Yueda, XIONG Xianrong, WANG Yan, YANG Xianying, HAN Jie, WANG Bin, LI Jian. Identification and Analysis of Long Non-coding RNA Associated with Cattle-yak Male Infertility[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2019, 50(3): 551-561.

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References

[1] WANG S,PAN Z,ZHANG Q,et al.Differential mRNA expression and promoter methylation status of SYCP3 gene in testes of yaks and cattle-yaks[J].Reprod Domest Anim,2012,47(3):455-462.
[2] WANG Z,GERSTEIN M,SNYDER M.RNA-seq:a revolutionary tool for transcriptomics[J].Nat Rev Genet,2009,10(1):57-63.
[3] ZHAN S Y,DONG Y,ZHAO W,et al.Genome-wide identification and characterization of long non-coding RNAs in developmental skeletal muscle of fetal goat[J].BMC Genomics,2016,17(1):666.
[4] CHEN X,YAN G Y.Novel human lncRNA-disease association inference based on lncRNA expression profiles[J].Bioinformatics,2013,29(20):2617-2624.
[5] ZHANG C W,GAO L Z,XU E Y.LncRNA,a new component of expanding RNA-protein regulatory network important for animal sperm development[J].Semin Cell Dev Biol,2016,59:110-117.
[6] BAO J Q,WU J W,SCHUSTER A S,et al.Expression profiling reveals developmentally regulated lncRNA repertoire in the mouse male germline[J].Biol Reprod,2013,89(5):107.
[7] PONTING C P,OLIVER P L,REIK W.Evolution and functions of long noncoding RNAs[J].Cell,2009,136(4):629-641.
[8] LIANG M,LI W Q,HUI T,et al.Sequential expression of long noncoding RNA as mRNA gene expression in specific stages of mouse spermatogenesis[J].Sci Rep,2014,4:5966.
[9] 曾贤彬,柴志欣,王永,等.犏牛精子发生阻滞的比较转录组研究[J].中国科学:生命科学,2014,44(6):584-601.
ZENG X B,CHAI Z X,WANG Y,et al.Comparative transcriptome analysis of spermatogenesis arrest in cattle-yak[J].Scientia Sinica Vitae,2014,44:584-601.(in Chinese)
[10] XU C F,WU S X,ZHAO W S,et al.Differentially expressed microRNAs between cattleyak and yak testis[J].Sci Rep,2018,8(1):592.
[11] 卢建远,字向东.F1代犏牛睾丸的解剖组织结构研究[J].畜牧与兽医,2014,46(12):61-63.
LU J Y,ZI X D.Study on anatomical structure of F1 generation cattle-yak testicles[J].Animal Husbandry and Veterinary Medicine,2014,46(12):61-63.(in Chinese)
[12] 钟金城.犏牛雄性不育的多基因遗传不平衡假说[J].西南民族大学学报:自然科学版,1997,23(1):90-92.
ZHONG J C.Polygenic inheritance unbalance hypothesis about sterility of the male yak-cattle[J].Journal of Southwest Nationalities College:Natural Science Edition,1997,23(1):90-92.(in Chinese)
[13] 屈旭光,李齐发,刘振山,等.牦牛、犏牛睾丸组织中SYCP3基因mRNA表达水平研究[J].畜牧兽医学报,2008,39(8):1132-1136.
QU X G,LI Q F,LIU Z S,et al.The study on the expression level of SYCP3 mRNA in yak and cattle-yak testis[J].Acta Veterinaria et Zootechnica Sinica,2008,39(8):1132-1136.(in Chinese)
[14] ZAMANIGHOMI M,LIN Z X,WANG Y,et al.Predicting transcription factor binding motifs from DNA-binding domains,chromatin accessibility and gene expression data[J].Nucleic Acids Res,2017,45(10):5666-5677.
[15] DICKSON B J.Molecular mechanisms of axon guidance[J].Science,2002,298(5600):1959-1964.
[16] FU M F,WANG C G,LI Z P,et al.Minireview:cyclin D1:normal and abnormal functions[J].Endocrinology,2004,145(12):5439-5447.
[17] HUANG Y Z,WANG K Y,HE H,et al.Haplotype distribution in the GLI3 gene and their associations with growth traits in cattle[J].Gene,2013,513(1):141-146.
[18] MIDDENDORFF R,DAVIDOFF M S,BEHRENDS S,et al.Multiple roles of the messenger molecule cGMP in testicular function[J].Andrologia,2000,32(1):55-59.
[19] MACDONALD B T,TAMAI K,HE X.Wnt/β-catenin signaling:components,Mechanisms,and Diseases[J].Dev Cell,2009,17(1):9-26.
[20] CLEVERS H.Wnt/β-catenin signaling in development and disease[J].Cell,2006,127(3):469-480.
[21] KERR G E,YOUNG J C,HORVAY K,et al.Regulated wnt/beta-catenin signaling sustains adult spermatogenesis in mice[J].Biol Reprod,2014,90(1):3.
[22] BERRIDGE M J.Calcium signalling remodelling and disease[J].Biochem Soc Trans,2012,40(2):297-309.
[23] LOSS E S,JACOBUS A P,WASSERMANN G F.Rapid signaling responses in Sertoli cell membranes induced by follicle stimulating hormone and testosterone:calcium inflow and electrophysiological changes[J].Life Sci,2011,89(15-16):577-583.
[24] 廖珂.牦牛、普通牛和犏牛睾丸组织microRNA的比较研究[D].成都:西南民族大学,2016:6-13.
LIAO K.Comparative analysis of micro RNA in yak,ordinary cattle and catttle-yak testis tissue[D].Chengdu:Southwest Minzu University,2016:6-13.(in Chinese)
[25] KUMAR A,DUMASIA K,DESHPANDE S,et al.Direct regulation of genes involved in sperm release by estrogen and androgen through their receptors and coregulators[J].J Steroid Biochem Mol Biol,2017,171:66-74.
[26] COTTON L,GIBBS G M,SANCHEZ-PARTIDA L G,et al.FGFR-1 signaling is involved in spermiogenesis and sperm capacitation[J].J Cell Sci,2006,119(1):75-84.
[27] RUHAYEL Y,GIWERCMAN A,ULMERT D,et al.Male infertility and prostate cancer risk:a nested case-control study[J].Cancer Causes Control,2010,21(10):1635-1643.
[28] SOLAKIDI S,PSARRA A M G,NIKOLAROPOULOS S,et al.Estrogen receptors α and β (ERα and ERβ) and androgen receptor (AR) in human sperm:localization of ERβ and AR in mitochondria of the Midpiece[J].Human Reprod,2005,20(12):3481-3487.
[29] ALVES-PEREIRA J L,FRANTZ E D,DA FONTE RAMOS C.Beneficial effects of Renin-Angiotensin system blockers on testicular steroidogenesis[J].J Urol,2014,192(6):1878-1883.
[30] 富丽,孙研研,薛夫光,等.公鸡弱精症相关候选基因的表达分析[J].畜牧兽医学报,2015,46(6):889-895.
FU L,SUN Y Y,XUE F G,et al.The expression of the six candidate genes for asthenospermia of the rooster[J].Acta Veterinaria et Zootechnica Sinica,2015,46(6):889-895.(in Chinese)
[31] WEI Q,ZHOU W,WANG W N,et al.Tumor-suppressive functions of leucine zipper transcription factor-like 1[J].Cancer Res,2010,70(7):2942-2950.
[32] WU C W,CHEN J H,KAO H L,et al.PTPN3 and PTPN4 tyrosine phosphatase expression in human gastric adenocarcinoma[J].Anticancer Res,2006,26(2B):1643-1649.
[33] YUE Y J,GUO T T,LIU J B,et al.Exploring differentially expressed genes and natural antisense transcripts in sheep (Ovis aries) skin with different wool fiber diameters by digital gene expression profiling[J].PLoS One,2015,10(6):e0129249.
[34] POPLINSKI A,TVTTELMANN F,KANBER D,et al.Idiopathic male infertility is strongly associated with aberrant methylation of MEST and IGF2/H19 ICR1[J].Int J Androl,2010,33(4):642-649.
[35] KANG H S,CHEN L Y,LICHTI-KAISER K,et al.Transcription factor GLIS3:a new and critical regulator of postnatal stages of mouse spermatogenesis[J].Stem Cells,2016,34(11):2772-2783.
[36] QUINONEZ S C,INNIS J W.Human HOX gene disorders[J].Mol Genet Metab,2014,111(1):4-15.
[37] HSIEH-LI H M,WITTE D P,WEINSTEIN M,et al.Hoxa 11 structure,extensive antisense transcription,and function in male and female fertility[J].Development,1995,121(5):1373-1385.
[38] HUANG Z H,RIVAS B,AGOULNIK A I.NOTCH1 gain of function in germ cells causes failure of spermatogenesis in male mice[J].PLoS One,2013,8(7):e71213.

Identification and Analysis of Long Non-coding RNA Associated with Cattle-yak Male Infertility

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