鳜不同孵化时期miRNA转录组分析及生长相关miRNA鉴定
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摘要
MicroRNA是一类20-24 nt核苷酸长度的参与基因转录后水平调控的非编码小分子RNA。利用高通量测序技术获得鳜(Siniperca chuatsi)孵化后第3天、第17天和第28天全鱼miRNA转录组,共鉴定出1 084个miRNAs,其中432个已知、624个保守、28个新发现。第17天时鉴定出的miRNA个数最多,为926个。在3个发育时期都表达的有628个miRNAs,只在各时期中特异表达的分别有71、104和70个miRNAs。一些与鳜发育相关的miRNAs在上述3个时期呈现持续上调或下调的表达特点。进一步的实验表明,miR-199-5p和miR-203可能与鳜生长发育相关,相应的靶基因分别是WnT和MyoD。
MicroRNA(miRNA)is a kind of non-coding small RNA molecules with the length of about 20-22 nt,and they are involved in regulating the expression of target genes at the post-transcriptional level.High-throughput sequencing technology was employed to analyze the miRNA transcriptome of the whole larvae of Siniperca chuatsi at day3,day17 and day28 after hatching.A total of1084 miRNAs were identified,including 432 known,624 conserved,and 28 new miRNAs.miRNAs of the 17-day larvae were identified the most with 926.The 628 miRNAs were ubiquitously expressed at all the days sampled,while 71,104 and 70 miRNAs were specially expressed at day3,day17 and day28,respectively.Several miRNAs that were involved in development showed sustained up or down regulation patterns.Further results suggested that miR-199-5 p/miR-203 were correlated with the growth and development of mandarin fish,and the corresponding target genes were WnT and MyoD,respectively.
MicroRNA(miRNA)is a kind of non-coding small RNA molecules with the length of about 20-22 nt,and they are involved in regulating the expression of target genes at the post-transcriptional level.High-throughput sequencing technology was employed to analyze the miRNA transcriptome of the whole larvae of Siniperca chuatsi at day3,day17 and day28 after hatching.A total of1084 miRNAs were identified,including 432 known,624 conserved,and 28 new miRNAs.miRNAs of the 17-day larvae were identified the most with 926.The 628 miRNAs were ubiquitously expressed at all the days sampled,while 71,104 and 70 miRNAs were specially expressed at day3,day17 and day28,respectively.Several miRNAs that were involved in development showed sustained up or down regulation patterns.Further results suggested that miR-199-5 p/miR-203 were correlated with the growth and development of mandarin fish,and the corresponding target genes were WnT and MyoD,respectively.
引文
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[29]Hashemi GA,Burkhard FC,Rehrauer H,et al.Micro RNA mi R-199a-5p regulates smooth muscle cell proliferation and morphologyby targeting Wnt2 signaling pathway.[J].Journal of BiologicalChemistry,2015,290(11):7067-7086.
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[31]罗文,聂庆华,张细权.mi R-203的短暂表达及其对鸡骨骼肌细胞增殖和分化的抑制作用[J].中国家禽,2014,36(17):1.
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[33]Yan B,Guo JT,Zhu CD,et al.mi R-203b:a novel regulator ofMyo D expression in tilapia skeletal muscle[J].Journal ofExperimental Biology,2013,216(3):447-451.
[2]徐艳珺.mi RNA-375在胃癌中的功能及作用机制[D].杭州:浙江大学,2010.
[3]范文涛,钟杨生,陈芳艳,等.mi RNA在动物胚胎形成、发育中的研究进展[J].生物学杂志,2016,33(2):91-94.
[4]李法君,李明爽,付春鹏,等.micro RNA在水产动物中的研究进展[J].水产学报,2016,40(6):976-992.
[5]Chu WY,Liu LS,Li YL,et al.Systematic identification anddifferential expression profiling of Micro RNAs from white and redmuscles of Siniperca chuatsi[J].Current Molecular Medicine,2013,13(8):1397-1407.
[6]Tu J,Tian C,Zhao P,et al.Identification and profiling of growthrelated micro RNAs in Chinese perch(Siniperca chuatsi)[J].BMC Genomics,2017,18(489):1-9.
[7]王博,田园园,孙成飞,等.翘嘴鳜micro RNA转录组分析及生长相关mi RNA鉴定[J].基因组学与应用生物学,2017,36(2):603-613.
[8]Chu WY,Liu LS,Chen L,et al.Rapid muscle relaxation in Siniperca chuatsi is coordinated by parvalbumin(PVALB)and Mi R-181a[J].Current Molecular Medicine,2015,15(8):772-779.
[9]Chen L,Wu P,Guo XH,et al.mi R-143:a novel regulator of Myo Dexpression in fast and slow muscles of Siniperca chuatsi[J].Current Molecular Medicine,2014,14(3):370-375.
[10]Zhu X,Chen D,Hu Y,et al.The micro RNA signature in responseto nutrient restriction and refeeding in skeletal muscle of chineseperch(Siniperca chuatsi)[J].Marine Biotechnology,2015,17(2):180-189.
[11]朱鑫,胡毅,王开卓,等.翘嘴鳜mi R-222的表达特征[J].水生生物学报,2015,39(2):315-320.
[12]朱鑫,易潭,陈琳,等.翘嘴鳜mi R-146a在胚胎发育过程中的表达及温度对其表达的影响[J].湖南师范大学自然科学学报,2015,38(5):21-26.
[13]Lund AH.mi R-10 in development and cancer[J].Cell Death&Differentiation,2010,17(2):209-214.
[14]Leeper NJ,Raiesdana A,Kojima Y,et al.Micro RNA-26a is a novelregulator of vascular smooth muscle cell function[J].Journal ofCellular Physiology,2011,226(4):1035-1043.
[15]Dill H,Linder B,Fehr A,et al.Intronic mi R-26b controls neuronaldifferentiation by repressing its host transcript,ctdsp2[J].Genes&Development,2012,26(1):25-30.
[16]Vasilatou D,Papageorgiou S,Pappa V,et al.The role of micro RNAsin normal and malignant hematopoiesis[J].European Journal ofHaematology,2010,84(1):1-16.
[17]Nicoli S,Knyphausen CP,Zhu LJ,et al.mi R-221 is required forendothelial tip cell behaviors during vascular development[J].Developmental Cell,2012,22(2):418-429.
[18]周欣亮,张雪,刘巍.mi R-200家族在上皮-间质转化中的研究进展[J].肿瘤防治研究,2013,40(10):993-997.
[19]Du J,Zhang X,Cao H,et al.Mi R-194 is involved in morphogenesisof spiral ganglion neurons in inner ear by rearranging actincytoskeleton via targeting Rho B[J].International Journal ofDevelopmental Neuroscience,2017,63:16-26.
[20]Georges SA,Biery MC,Kim SY,et al.Coordinated regulation ofcell cycle transcripts by p53-Inducible micro RNAs,mi R-192 andmi R-215[J].Cancer Research,2008,68(24):10105-10112.
[21]Qian Z,Ye K,Wang HY,et al.Expression profiling and functionalcharacterization of mi R-192 throughout sheep skeletal muscledevelopment[J].Scientific Reports,2016,6(30281):1-12.
[22]Xu Q,Cai C,Hu X,et al.Evolutionary suppression of erythropoiesisvia the modulation of TGF-βsignalling in an Antarctic icefish[J].Molecular Ecology,2015,24(18):4664-4678.
[23]Mishima Y,Stahlhut C,Giraldez AJ.mi R-1-2 gets to the heart ofthe matter[J].Cell,2007,129(2):247-249.
[24]Roush S,Slack FJ.The let-7 family of micro RNAs[J].Trends inCell Biology,2008,18(10):505-516.
[25]Chang J,Nicolas E,Marks D,et al.mi R-122,a mammalianliver-specific micro RNA,is processed from hcr m RNA and maydownregulate the high affinity cationic amino acid transporter CAT-1[J].RNA Biology,2004,1(2):106-113.
[26]贾龙.Mi R-199a-3p在C2C12成肌细胞分化过程中的作用及机制研究[D].杨凌:西北农林科技大学,2014.
[27]Shen G,Chan WY.Flexible and versatile as a chameleonsophisticated functions of micro RNA-199a[J].Int J Mol Sci,2012,13(7):8449-8466.
[28]张灼,朱杰宁,肖珍,等.微小RNA-199a-5p通过靶向SIRT1促进心肌纤维化相关基因表达[J].中国病理生理杂志,2017,33(10):1781-1787.
[29]Hashemi GA,Burkhard FC,Rehrauer H,et al.Micro RNA mi R-199a-5p regulates smooth muscle cell proliferation and morphologyby targeting Wnt2 signaling pathway.[J].Journal of BiologicalChemistry,2015,290(11):7067-7086.
[30]Cisternas P,Henriquez JP,Brandan E,et al.Wnt signaling inskeletal muscle dynamics:myogenesis,neuromuscular synapseand fibrosis[J].Molecular Neurobiology,2014,49(1):574-589.
[31]罗文,聂庆华,张细权.mi R-203的短暂表达及其对鸡骨骼肌细胞增殖和分化的抑制作用[J].中国家禽,2014,36(17):1.
[32]罗文,聂庆华,张细权.mi R-203在鸡成肌细胞中靶向抑制EIF4E基因表达的研究[J].中国家禽,2015,37(8):6-11.
[33]Yan B,Guo JT,Zhu CD,et al.mi R-203b:a novel regulator ofMyo D expression in tilapia skeletal muscle[J].Journal ofExperimental Biology,2013,216(3):447-451.