China Animal Husbandry and Veterinary Medicine ›› 2021, Vol. 48 ›› Issue (1): 235-247.doi: 10.16431/j.cnki.1671-7236.2021.01.026
• Genetics and Breeding • Previous Articles Next Articles
SHANG Fangzheng1, HAN Wenjing1, WU Zhihong1, HAI Erhan1, MA Rong1, ZHANG Yanjun1, LI Jinquan2,3,4
Received:
2020-07-04
Online:
2021-01-20
Published:
2021-01-15
CLC Number:
SHANG Fangzheng, HAN Wenjing, WU Zhihong, HAI Erhan, MA Rong, ZHANG Yanjun, LI Jinquan. Research Advance on Application of Non-coding RNA in Livestock and Poultry[J]. China Animal Husbandry and Veterinary Medicine, 2021, 48(1): 235-247.
[1] ZHANG P,WU W Y,CHEN Q,et al.Non-coding RNAs and their integrated networks[J].Journal of Integrative Bioinform,2019,13(10):2019-2027. [2] CARNINCI P,KASUKAWA T,KATAYAMA S.The transcriptional landscape of the mammalian genome[J].Science,2005,309(5740):1559-1563. [3] DJEBALI S,DAVIS C A,MERKEL A,et al.Landscape of transcription in human cells[J].Nature,2012,489(7414):101-108. [4] GUTTMAN M,AMIT I,GARBER M,et al.Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals[J].Nature,2009,458(7235):223-227. [5] PAVET V,PORTAL M M,MOULIN J C,et al.Towards novel paradigms for cancer therapy[J].Oncogene,2011,30(1):1-20. [6] WEI G H,WANG X.lncRNA MEG3 inhibit proliferation and metastasis of gastric cancer via p53 signaling pathway[J].European Review for Medical and Pharmacological Sciences,2017,21(17):3850-3856. [7] IACONA J R,MONTELEONE N J,LEMENZE A D,et al.Transcriptomic studies provide insights into the tumor suppressive role of miR-146a-5p in non-small cell lung cancer (NSCLC) cells[J].RNA Biology,2019,16(12):1721-1732. [8] MA M L,XU H X,LIU G,et al.Metabolism-induced tumor activator 1(MITA1),an energy stress-inducible long non-coding RNA,promotes hepatocellular carcinoma metastasis[J].Hepatology,2019,6(10):30602. [9] ZHANG G L,LI H X,SUN R M,et al.Long non-coding RNA ZEB2-AS1 promotes the proliferation,metastasis and epithelial mesenchymal transition in triple-negative breast cancer by epigenetically activating ZEB2[J].Journal of Cellular and Molecular Medicine,2019,23(5):3271-3279. [10] LI H,YANG J M,JIANG R,et al.Long non-coding RNA profiling reveals an abundant MDNCR that promotes differentiation of myoblasts by sponging miR-133a[J].Molecular Therapy Nucleic Acids,2018,12:610-625. [11] YU L F,TAI L N,ZHANG L,et al.Comparative analyses of long non-coding RNA in lean and obese pig[J].Oncotarget,2017,8(25):41440-41450. [12] YANG H Y,YANG H,SHI G Q,et al.Expression profile analysis of microRNAs during hair follicle development in the sheep foetus[J].Bioscience,Biotechnology,and Biochemistry,2019,83(6):1045-1061. [13] CECH T R,STEITZ J A.The noncoding RNA revolution-trashing old rules to forge new ones[J].Cell,2014,157(1):77-94. [14] PESCHANSKT V J,WAHLESTEDT C.Non-coding RNAs as direct and indirect modulators of epigenetic regulation[J].Epigenetics,2014,9(1):3-12. [15] PONJAVIC J,PONTING C P,LUNTER G.Functionality or transcriptional noise? Evidence for selection within long noncoding RNAs[J].Genome Research,2007,17(5):556-565. [16] CERUTTI P,HOLT J W,MILLER N.Detection and determination of 5,6-dihydrouridine and 4-thiouridine in transfer ribonucleic acid from different sources[J].Journal of Molecular Biology,1968,34(3):505-518. [17] ZIEVE G,PENMAN S.Small RNA species of the HeLa cell:Metabolism and subcellular localization[J].Cell,1976,8(1):19-31. [18] CHEN Q,MENG X W,LIAO Q,et al.Versatile interactions and bioinformatics analysis of noncoding RNAs[J].Brief Bioinform,2018,20(5):1781-1794. [19] TAFT R J,GLAZOV E A,LASSMANN T,et al.Small RNAs derived from snoRNAs[J].RNA,2009,15(7):1233-1240. [20] ONO M,SCOTT M S,YAMADA K,et al.Identification of human miRNA precursors that resemble box C/D snoRNAs[J].Nucleic Acids Research,2011,39(9):3879-3891. [21] HE X,CHEN X X,ZHANG X,et al.A lncRNA (GAS5)/SnoRNA-derived piRNA induces activation of TRAIL gene by site-specifically recruiting MLL/COMPASS-like complexes[J].Nucleic Acids Research,2015,43(7):3712-3725. [22] SCHAEFER M,POLLEX T,HANNA K,et al.RNA methylation by DNMT2 protects transfer RNAs against stress-induced cleavage[J].Genes Development,2010,24(15):1590-1595. [23] VENKATESH T,SURESH P S,TSUTSUMI R.tRFs:miRNAs in disguise[J].Gene,2016,579(2):133-138. [24] WILUSE J E,SUNWOO H,SPECTOR D L.Long noncoding RNAs:Functional surprises from the RNA world[J].Genes Development,2009,23(13):1494-1504. [25] LAGOS Q M,RAUHUT R,LENDECKEL W,et al.Identification of novel genes coding for small expressed RNAs[J].Science,2001,294(5543):853-858. [26] MCAUE A D,SLOTKIN R K.Transposable element small RNAs as regulators of gene expression[J].Trends in Genetics,2012,28(12):616-623. [27] FABIAN M R,SONENBERG N,FILIPOWICZ W.Regulation of mRNA translation and stability by microRNAs[J].Annual Review of Biochemistry,2010,79:351-379. [28] GARZON R,CALIN G A,CROCEC M.microRNAs in cancer[J].Annual Review of Medicine,2009,60:167-179. [29] SUN W,LI Y S J,HUANG H D,et al.microRNA:A master regulator of cellular processes for bioengineering systems[J].Annual Review of Biomedical Engineering,2010,12:1-27. [30] 李明勋.长链非编码RNA ADNCR通过竞争性结合miR-204抑制牛脂肪细胞分化[D].杨凌:西北农林科技大学,2016. LI M X.Long chain non-coding RNA ADNCR inhibits bovine adipocyte differentiation through competitive binding with miR-204[D].Yangling:Northwestern A&F University,2016.(in Chinese) [31] MA L N,VLADIMIR B B,ZHANG Z.On the classification of long non-coding RNAs[J].RNA Biology,2013,10(6):925-933. [32] CHEN L L,YANG L.Regulation of circRNA biogenesis[J].RNA Biology,2015,12(4):381-388. [33] RONG D,SUN H,LI Z,et al.An emerging function of circRNA-miRNAs-mRNA axis in human diseases[J].Oncotarget,2017,8(42):73271-73281. [34] SALMENA L,POLISENO L,TAY Y,et al.A ceRNA hypothesis:The rosetta stone of a hidden RNA language?[J].Cell,2011,146(3):353-358. [35] CESANA M,CACCHIARELLI D,LEGNINI I,et al.A long non-coding RNA controls muscle differentiation by functioning as a competing endogenous RNA[J].Cell,2011,147(2):358-369. [36] GAO J,YIN X B,YU X,et al.Long non-coding RNA LINC00488 functions as a ceRNA to regulate hepatocellular carcinoma cell growth and angiogenesis through miR-330-5[J].Digestive and Liver Disease,2019,51(7):1050-1059. [37] LIU Q,ZHANG X,HU X Q,et al.Circular RNA related to the chondrocyte ECM regulates MMP13 expression by functioning as a MiR-136 ‘Sponge’ in human cartilage degradation[J].Scientific Reports,2016,6:22572. [38] XIE H J,REN X L,XIN S N,et al.Emerging roles of circRNA_001569 targeting miR-145 in the proliferation and invasion of colorectal cancer[J].Oncotarget,2016,7(18):26680-26691. [39] SUN J,XIE M,HUANG Z,et al.Integrated analysis of non-coding RNA and mRNA expression profiles of 2 pig breeds differing in muscle traits[J].Journal of Animal Science,2017,95(3):1092-1103. [40] WANG J,REN Q L,HUA L S,et al.Comprehensive analysis of differentially expressed mRNA,lncRNA and circRNA and their ceRNA networks in the longissimus dorsi muscle of two different pig breeds[J].International Journal of Molecular Science,2019,20(5):1107. [41] LIU X,LIU K Q,SHAN B S,et al.A genome-wide landscape of mRNAs,lncRNAs,and circRNAs during subcutaneous adipogenesis in pigs[J].Journal of Animal Science and Biotechnology,2018,9:76. [42] SHEN L Y,GAN M L,TANG Q Z,et al.Comprehensive analysis of lncRNAs and circRNAs reveals the metabolic specialization in oxidative and glycolytic skeletal muscles[J].International Journal of Molecular Science,2019,20(12):2855. [43] LI A,HUANG W L,ZHANG X X,et al.Identification and characterization of circRNAs of two pig breeds as a new biomarker in metabolism-related diseases[J].Cellular Physiology and Biochemistry,2018,47(6):2458-2470. [44] WANG Y Y,HU T,WU L H,et al.Identification of non-coding and coding RNAs in porcine endometrium[J].Genomics,2017,109(1):43-50. [45] CHEN J N,ZOU Q,LV D J,et al.Comprehensive transcriptional profiling of aging porcine liver[J].PeerJ,2019,17(7):e6949. [46] VENO M T,HANSEN T B,VENO S T,et al.Spatio-temporal regulation of circular RNA expression during porcine embryonic brain development[J].Genome Biology,2015,16:245. [47] XI Y,LIU H J,ZHAO Y Q,et al.Comparative analyses of longissimus muscle miRNAomes reveal microRNAs associated with differential regulation of muscle fiber development between Tongcheng and Yorkshire pigs[J].PLoS One,2018,13(7):e0200445. [48] HONG L J,LIU R Z,QIAO X W,et al.Differential microRNA expression in porcine endometrium involved in remodeling and angiogenesis that contributes to embryonic implantation[J].Frontiers in Genetics, 2019,10:661. [49] DILZER A,PARK Y.Implication of conjugated linoleic acid (CLA) in human health[J].Critical Reviews Food Science and Nutrition,2012,52(6):488-513. [50] VILADOMIU M,HONTECILLAS R,BASSAGANYA-RIERA J.Modulation of inflammation and immunity by dietary conjugated linoleic acid[J].European Journal Pharmacol,2016,785:87-95. [51] LI H,WEI X F,YANG J M,et al.circFGFR4 promotes differentiation of myoblasts via binding miR-107 to relieve its inhibition of Wnt3a[J].Molecular Therapy Nucleic Acids,2018,11:272-283. [52] WEI X F,LI H,YANG J M,et al.Circular RNA profiling reveals an abundant circLMO7 that regulates myoblasts differentiation and survival by sponging miR-378a-3p[J].Cell Death Disease,2017,8(10):541. [53] LIU M,LI B,PENG W W,et al.lncRNA-MEG3 promotes bovine myoblast differentiation by sponging miR-135[J].Journal of Cellular Physiology,2019,234(10):18361-18370. [54] CHEN M M,LI X,ZHANG X J,et al.A novel long non-coding RNA,lncKBTBD10,involved in bovine skeletal muscle myogenesis[J].In Vitro Cellular Developmental Biology Animal,2019,55(1):25-35. [55] SUN H Z,CHEN Y H,GUAN L L.microRNA expression profiles across blood and different tissues in cattle[J].Scientific Data,2019,6:190013. [56] CHOI J Y,SHIN D,LEE H J,et al.Comparison of long non-coding RNA between muscles and adipose tissues in Hanwoo beef cattle[J].Animal Cells and Systerms,2018,23(1):50-58. [57] ZHENG X,NING C,ZHAO P,et al.Integrated analysis of long non-coding RNA and mRNA expression profiles reveals the potential role of long non-coding RNA in different bovine lactation stages[J].Journal of Dairy Science,2018,101(12):11061-11073. [58] GUPTA P,PETER S,JUNG M,et al.Analysis of long non-coding RNA and mRNA expression in bovine macrophages brings up novel aspects of Mycobacterium avium subspecies paratuberculosis infections[J].Scientific Reports,2019,9(1):1571. [59] WANG S H,GE W,LUO Z X,et al.Integrated analysis of coding genes and non-coding RNAs during hair follicle cycle of cashmere goat (Capra hircus)[J].BMC Genomics,2017,18(1):767. [60] ZHOU G X,KANG D J,MA S,et al.Integrative analysis reveals ncRNA-mediated molecular regulatory network driving secondary hair follicle regression in cashmere goats[J].BMC Genomics,2018,19(1):222. [61] ZHENG Y Y,WANG Z Y,ZHU Y B,et al.lncRNA-000133 from secondary hair follicle of cashmere goat:Identification,regulatory network and its effects on inductive property of dermal papilla cells[J].Animal Biotechnology,2019,11:1-13. [62] JIAO Q,WANGY R,ZGAO J Y,et al.Identification and molecular analysis of cashmere goat lncRNAs reveal their integrated regulatory network and potential roles in secondary hair follicle[J].Animal Biotechnology,2020,688:182-192. [63] ZHANG L,LIU X R,CHE S C,et al.circRNA-9119 regulates the expression of prostaglandin-endoperoxide synthase 2(PTGS2) by sponging miR-26a in the endometrial epithelial cells of dairy goat[J].Reproduction,Fertility and Development,2018,30(12):1759-1769. [64] LIU X R,ZHANG L,LIU Y X,et al.circ-8073 regulates CEP55 by sponging miR-449a to promote caprine endometrial epithelial cells proliferation via the PI3K/AKT/mTOR pathway[J].Biochimica Biophysica Acta Molecular Cell Research,2018,1865(8):1130-1147. [65] REN C F,DENG M T,FAN Y X,et al.Genome-wide analysis reveals extensive changes in lncRNAs during skeletal muscle development in Hu sheep[J].Genes,2017,8(8):191. [66] WANG J,TAN J Y,QI Q,et al.miR-487b-3p suppresses the proliferation and differentiation of myoblasts by targeting IRS1 in skeletal muscle myogenesis[J].International Journal of Biological Sciences, 2018,14(7):760-774. [67] LI G,FU S Y,CHEN Y,et al.microRNA-15a regulates the differentiation of intramuscular preadipocytes by targeting ACAA1,ACOX1 and SCP2 in chickens[J].International Journal of Molecular Sciences,2019,20(16):4063. [68] SHEN M,LI T,ZHANG G,et al.Dynamic expression and functional analysis of circRNA in granulosa cells during follicular development in chicken[J].BMC Genomics,2019,20(1):96. [69] ZHANG H,MEHMOOD K,JIANG X,et al.Identification of differentially expressed miRNAs profile in a thiram-induced tibial dyschondroplasia[J].Ecotoxicol and Environmental Safety, 2019,175:83-89. [70] GAO S,JIANG H,SUN J,et al.Integrated analysis of miRNA and mRNA expression profiles in spleen of specific pathogen-free chicken infected with avian reticuloendotheliosis virus strain SNV[J].International Journal of Molecular Sciences,2019,20(5):1041. [71] SHAO F,WANG X,YU J,et al.Expression of miR-33 from an SREBP2 intron inhibits the expression of the fatty acid oxidation-regulatory genes CROT and HADHB in chicken liver[J].British Poultry Science,2019,60(2):115-124. [72] HAN B,HE Y H,ZHANG L,et al.Long intergenic non-coding RNA GALMD3 in chicken Marek's disease[J].Scientific Reports,2017,7(1):10294. [73] CHEN F,ZHANG H,LI J J,et al.Identification of differentially expressed miRNAs in the fatty liver of Landes goose (Anser anser)[J].Scientific Reports,2017,7(1):16296. [74] ZHANG J,WANG Q,ZHAO X,et al.microRNA-122 targets genes related to goose fatty liver[J].Journal of Poultry Science,2018,97(2):643-649. [75] ZHENG Y,JIANG S B,ZHANG Y H,et al.Detection of miR-33 expression and the verification of its target genes in the fatty liver of geese[J].International Journal of Molecular Science,2015,16(6):12737-12752. [76] REN J D,DU X,ZENG T,et al.Divergently expressed gene identification and interaction pre-diction of long non-coding RNA and mRNA involved in duck reproduction[J].Animal Reproduction Science,2017,185:8-17. [77] LU C,XING Y,CAI H,et al.Identification and analysis of long non-coding RNAs in response to H5N1 influenza viruses in duck (Anas platyrhynchos)[J].BMC Genomics,2019,20(1):36. |
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