长链非编码RNA顺式调节作用机制的研究进展
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摘要
长链非编码RNA (long non-coding RNA, lncRNA)种类众多,生物学功能复杂,与不同的分子相互作用,实现其特有的基因调控功能。可参与细胞核染色质结构的调控、m RNA的转录及转录后的加工运输、蛋白质的翻译等过程。此外,lncRNAs在邻近基因或靶基因的顺式调节机制中也发挥了重要作用,本综述主要对近年来lncRNAs通过顺式调节作用影响基因表达的机制进行综述。
Long non-coding RNA has a wide variety of categories and complex biological functions. It interacts with different molecules to achieve its unique gene regulatory function. lncRNA can involve in many process,including the regulation of chromatin structure, mRNA transcription, post-transcriptional process, and protein translation. In addition, the lncRNAs play an important role in cis-regulatory mechanism of adjacent genes or target genes. This review mainly discussed how the lncRNAs effect gene expression by cis-acting in recent research.
Long non-coding RNA has a wide variety of categories and complex biological functions. It interacts with different molecules to achieve its unique gene regulatory function. lncRNA can involve in many process,including the regulation of chromatin structure, mRNA transcription, post-transcriptional process, and protein translation. In addition, the lncRNAs play an important role in cis-regulatory mechanism of adjacent genes or target genes. This review mainly discussed how the lncRNAs effect gene expression by cis-acting in recent research.
引文
Barlow D.P.,and Bartolomei M.S.,2014,Genomic imprinting in mammals,Cold Spring Harbor Perspectives in Biology,6(2):a18382
Chery J.,and Larschan E.,2014,X-marks the spot:X-chromosome identification during dosage compensation,Biochimica.et Biophysica.Acta.(BBA)-Gene Regulatory Mechanisms1839(3):234-240
Colak D.,Zaninovic N.,Cohen M.S.,Rosenwaks Z.,Yang W.Y.Gerhardt J.,Disney M.D.,and Jaffrey S.R.,2014,Promoterbound trinucleotide repeat m RNA drives epigenetic silencing in fragile X syndrome,Science,343(6174):1002-1015
Grant J.,Mahadevaiah S.K.,Khil P.,Sangrithi M.N.,Royo H.Duckworth J.,Mccarrey J.R.,Vandeberg J.L.,Renfree M.B.Taylor W.,Elgar G.,Camerini-Otero R.D.,Gilchrist M.J.and Turner J.M.,2012,Rsx is a metatherian RNA with Xist-like properties in X-chromosome inactivation,Nature487(7406):254-268
Guttman M.,and Rinn J.L.,2012,Modular regulatory principles of large non-coding RNAs,Nature,482(7385):339-346
He J.H.,Han Z.P.,and Li Y.G.,2014,Association between long non-coding RNA and human rare diseases(Review),Biomed Rep.,2(1):19-23
Hu L.,Hou G.,and Huang D.N.,2016,Long non-coding RNAs and epigenetic regulation,Jiyinzuxue Yu Yingyong Shengwuxue(Genomics and Applied Biology),35(12):3319-3324(胡亮,侯敢,黄迪南,2016,长链非编码RNA与表观遗传调控,基因组学与应用生物学,35(12):3319-3324)
Ip J.Y.,and Nakagawa S.,2012,Long non-coding RNAs in nuclear bodies,Development Growth&Differentiation,54(1):44-54
Kim Y.W.,Lee S.,Yun J.,and Kim A.,2015,Chromatin looping and eRNA transcription precede the transcriptional activation of gene in theβ-globin locus,Bioscience Reports,35(2):1-8
King M.C.,and Wilson A.C.,1975,Evolution at two levels in humans and chimpanzees,Science,188(4184):107-116
Kornienko A.E.,Guenzl P.M.,Barlow D.P.,and Pauler F.M.,2013,Gene regulation by the act of long non-coding RNAtranscription,BMC Biology,11(1):59-73
Lai F.,Orom U.A.,Cesaroni M.,Beringer M.,Taatjes D.J.,Blobel G.A.,and Shiekhattar R,2013,Activating RNAs associate with mediator to enhance chromatin architecture and transcription,Nature,494(7438):497-501
Lai F.,and Shiekhattar R.,2014,Enhancer RNAs:the new molecules of transcription,Current Opinion in Genetics&Development,25(4):38-42
Lam M.T.,Cho H.,Lesch H.P.,Gosselin D.,Heinz S.,Tanaka-Oishi Y.,Benner C.,Kaikkonen M.U.,Kim A.S.,Kosaka M.,Lee C.Y.,Watt A.,Grossman T.R.,Rosenfeld M.G.,E-vans R.M.,and Glass C.K.,2013,Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription,Nature,498(7455):511-528
Latos P.A.,Pauler F.M.,Koerner M.V.,Senergin H.B.,Hudson Q.J.,Stocsits R.R.,Allhoff W.,Stricker S.H.,Klement R.M.,Warczok K.E.,Aumayr K.,Pasierbek P.,and Barlow D.P.,2012,Airn transcriptional overlap,but not its lncRNA products,Induces Imprinted Igf2r Silencing,Science,338(6113):1469-1472
Lee J.T.,and Bartolomei M.S.,2013,X-inactivation,imprinting,and long noncoding RNAs in health and disease,Cell,152(6):1308-1323
Lee J.T.,and Jaenisch R.,1997,Long-range cis effects of ectopic X-inactivation centres on a mouse autosome,Nature,386(6622):275-279
Nordin M.,Bergman D.,Halje M.,Engstr?m W.,and Ward A.,2014,Epigenetic regulation of the Igf2/H19 gene cluster,Cell Proliferation,47(3):189-199
Pelechano V.,and Steinmetz L.M.,2013,Gene regulation by antisense transcription,Nature Reviews Genetics,14(12):880-893
Qureshi I.A.,and Mehler M.F.,2012,Emerging roles of non-coding RNAs in brain evolution,development,plasticity and disease,Nature Reviews Neuroscience,13(8):528-541
Rinn J.L.,2014,lncRNAs:linking RNA to chromatin,Cold Spring Harbor Perspectives in Biology,6(8):a18614
Shibayama Y.,Fanucchi S.,Magagula L.,and Mhlanga M.M.2014,lncRNA and gene looping What's the connection?Transcription,5(3):e28658
Sleutels F.,Zwart R.,and Barlow D.P.,2002,The non-coding Air RNA is required for silencing autosomal imprinted genes Nature,415(6873):810-813
Trimarchi T.,Bilal E.,Ntziachristos P.,Fabbri G.,Dalla-Favera R.,Tsirigos A.,and Aifantis I.,2014,Genome-wide mapping and characterization of notch-regulated long noncoding RNAs in acute leukemia,Cell,158(3):593-606
Ulveling D.,Francastel C.,and Hube F.,2011,When one is better than two:RNA with dual functions,Biochimie,93(4):633-644
van Werven F.J.,Neuert G.,Hendrick N.,Lardenois A.,Buratowski S.,van Oudenaarden A.,Primig M.,and Amon A.2012,Transcription of two long noncoding RNAs mediates mating-type control of gametogenesis in budding yeast,Cell,150(6):1170-1181
Wang K.C.,Yang Y.W.,Liu B.,Sanyal A.,Corces-Zimmerman R.,Chen Y.,Lajoie B.R.,Protacio A.,Flynn R.A.,Gupta R.A.,Wysocka J.,Lei M.,Dekker J.,Helms J.A.,and Chang H.Y.,2011,A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression,Nature,472(7341):120-124
Weaver J.R.,and Bartolomei M.S.,2014,Chromatin regulators of genomic imprinting,Biochimica et Biophysica Acta(BBA)-Gene Regulatory Mechanisms,1839(3):169-177
Yap K.L.,Li S.,Mu觡oz-Cabello A.M.,Raguz S.,Zeng L.,Mujtaba S.,Gil J.,Walsh M.J.,and Zhou M.,2010,Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a,Molecular Cell,38(5):662-674
Chery J.,and Larschan E.,2014,X-marks the spot:X-chromosome identification during dosage compensation,Biochimica.et Biophysica.Acta.(BBA)-Gene Regulatory Mechanisms1839(3):234-240
Colak D.,Zaninovic N.,Cohen M.S.,Rosenwaks Z.,Yang W.Y.Gerhardt J.,Disney M.D.,and Jaffrey S.R.,2014,Promoterbound trinucleotide repeat m RNA drives epigenetic silencing in fragile X syndrome,Science,343(6174):1002-1015
Grant J.,Mahadevaiah S.K.,Khil P.,Sangrithi M.N.,Royo H.Duckworth J.,Mccarrey J.R.,Vandeberg J.L.,Renfree M.B.Taylor W.,Elgar G.,Camerini-Otero R.D.,Gilchrist M.J.and Turner J.M.,2012,Rsx is a metatherian RNA with Xist-like properties in X-chromosome inactivation,Nature487(7406):254-268
Guttman M.,and Rinn J.L.,2012,Modular regulatory principles of large non-coding RNAs,Nature,482(7385):339-346
He J.H.,Han Z.P.,and Li Y.G.,2014,Association between long non-coding RNA and human rare diseases(Review),Biomed Rep.,2(1):19-23
Hu L.,Hou G.,and Huang D.N.,2016,Long non-coding RNAs and epigenetic regulation,Jiyinzuxue Yu Yingyong Shengwuxue(Genomics and Applied Biology),35(12):3319-3324(胡亮,侯敢,黄迪南,2016,长链非编码RNA与表观遗传调控,基因组学与应用生物学,35(12):3319-3324)
Ip J.Y.,and Nakagawa S.,2012,Long non-coding RNAs in nuclear bodies,Development Growth&Differentiation,54(1):44-54
Kim Y.W.,Lee S.,Yun J.,and Kim A.,2015,Chromatin looping and eRNA transcription precede the transcriptional activation of gene in theβ-globin locus,Bioscience Reports,35(2):1-8
King M.C.,and Wilson A.C.,1975,Evolution at two levels in humans and chimpanzees,Science,188(4184):107-116
Kornienko A.E.,Guenzl P.M.,Barlow D.P.,and Pauler F.M.,2013,Gene regulation by the act of long non-coding RNAtranscription,BMC Biology,11(1):59-73
Lai F.,Orom U.A.,Cesaroni M.,Beringer M.,Taatjes D.J.,Blobel G.A.,and Shiekhattar R,2013,Activating RNAs associate with mediator to enhance chromatin architecture and transcription,Nature,494(7438):497-501
Lai F.,and Shiekhattar R.,2014,Enhancer RNAs:the new molecules of transcription,Current Opinion in Genetics&Development,25(4):38-42
Lam M.T.,Cho H.,Lesch H.P.,Gosselin D.,Heinz S.,Tanaka-Oishi Y.,Benner C.,Kaikkonen M.U.,Kim A.S.,Kosaka M.,Lee C.Y.,Watt A.,Grossman T.R.,Rosenfeld M.G.,E-vans R.M.,and Glass C.K.,2013,Rev-Erbs repress macrophage gene expression by inhibiting enhancer-directed transcription,Nature,498(7455):511-528
Latos P.A.,Pauler F.M.,Koerner M.V.,Senergin H.B.,Hudson Q.J.,Stocsits R.R.,Allhoff W.,Stricker S.H.,Klement R.M.,Warczok K.E.,Aumayr K.,Pasierbek P.,and Barlow D.P.,2012,Airn transcriptional overlap,but not its lncRNA products,Induces Imprinted Igf2r Silencing,Science,338(6113):1469-1472
Lee J.T.,and Bartolomei M.S.,2013,X-inactivation,imprinting,and long noncoding RNAs in health and disease,Cell,152(6):1308-1323
Lee J.T.,and Jaenisch R.,1997,Long-range cis effects of ectopic X-inactivation centres on a mouse autosome,Nature,386(6622):275-279
Nordin M.,Bergman D.,Halje M.,Engstr?m W.,and Ward A.,2014,Epigenetic regulation of the Igf2/H19 gene cluster,Cell Proliferation,47(3):189-199
Pelechano V.,and Steinmetz L.M.,2013,Gene regulation by antisense transcription,Nature Reviews Genetics,14(12):880-893
Qureshi I.A.,and Mehler M.F.,2012,Emerging roles of non-coding RNAs in brain evolution,development,plasticity and disease,Nature Reviews Neuroscience,13(8):528-541
Rinn J.L.,2014,lncRNAs:linking RNA to chromatin,Cold Spring Harbor Perspectives in Biology,6(8):a18614
Shibayama Y.,Fanucchi S.,Magagula L.,and Mhlanga M.M.2014,lncRNA and gene looping What's the connection?Transcription,5(3):e28658
Sleutels F.,Zwart R.,and Barlow D.P.,2002,The non-coding Air RNA is required for silencing autosomal imprinted genes Nature,415(6873):810-813
Trimarchi T.,Bilal E.,Ntziachristos P.,Fabbri G.,Dalla-Favera R.,Tsirigos A.,and Aifantis I.,2014,Genome-wide mapping and characterization of notch-regulated long noncoding RNAs in acute leukemia,Cell,158(3):593-606
Ulveling D.,Francastel C.,and Hube F.,2011,When one is better than two:RNA with dual functions,Biochimie,93(4):633-644
van Werven F.J.,Neuert G.,Hendrick N.,Lardenois A.,Buratowski S.,van Oudenaarden A.,Primig M.,and Amon A.2012,Transcription of two long noncoding RNAs mediates mating-type control of gametogenesis in budding yeast,Cell,150(6):1170-1181
Wang K.C.,Yang Y.W.,Liu B.,Sanyal A.,Corces-Zimmerman R.,Chen Y.,Lajoie B.R.,Protacio A.,Flynn R.A.,Gupta R.A.,Wysocka J.,Lei M.,Dekker J.,Helms J.A.,and Chang H.Y.,2011,A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression,Nature,472(7341):120-124
Weaver J.R.,and Bartolomei M.S.,2014,Chromatin regulators of genomic imprinting,Biochimica et Biophysica Acta(BBA)-Gene Regulatory Mechanisms,1839(3):169-177
Yap K.L.,Li S.,Mu觡oz-Cabello A.M.,Raguz S.,Zeng L.,Mujtaba S.,Gil J.,Walsh M.J.,and Zhou M.,2010,Molecular interplay of the noncoding RNA ANRIL and methylated histone H3 lysine 27 by polycomb CBX7 in transcriptional silencing of INK4a,Molecular Cell,38(5):662-674