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Volumn 9, Issue 8, 2014, Pages

Target repression induced by endogenous microRNAs: Large differences, small effects

Author keywords

[No Author keywords available]

Indexed keywords

ARGONAUTE PROTEIN; MICRORNA;

EID: 84928258164     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0104286     Document Type: Article
Times cited : (27)

References (59)
  • 1
    • 0027751663 scopus 로고
    • The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14
    • DOI 10.1016/0092-8674(93)90529-Y
    • Lee RC, Feinbaum RL, Ambros V (1993) The C. elegans heterochronic gene lin-4 encodes small RNAs with antisense complementarity to lin-14. Cell 75: 843-854. (Pubitemid 24014542)
    • (1993) Cell , vol.75 , Issue.5 , pp. 843-854
    • Lee, R.C.1    Feinbaum, R.L.2    Ambros, V.3
  • 2
    • 3042767202 scopus 로고    scopus 로고
    • MicroRNAs: Small RNAs with a big role in gene regulation
    • DOI 10.1038/nrg1379
    • He L, Hannon GJ (2004) MicroRNAs: small RNAs with a big role in gene regulation. Nat Rev Genet 5: 522-531. (Pubitemid 38868508)
    • (2004) Nature Reviews Genetics , vol.5 , Issue.7 , pp. 522-531
    • He, L.1    Hannon, G.J.2
  • 4
    • 58249088751 scopus 로고    scopus 로고
    • MicroRNAs: Target recognition and regulatory functions
    • Bartel DP (2009) MicroRNAs: target recognition and regulatory functions. Cell 136: 215-233.
    • (2009) Cell , vol.136 , pp. 215-233
    • Bartel, D.P.1
  • 5
  • 6
    • 10344248903 scopus 로고    scopus 로고
    • The human DiGeorge syndrome critical region gene 8 and its D. melanogaster homolog are required for miRNA biogenesis
    • DOI 10.1016/j.cub.2004.11.001, PII S0960982204008693
    • Landthaler M, Yalcin A, Tuschl T (2004) The human DiGeorge syndrome critical region gene 8 and Its D. melanogaster homolog are required for miRNA biogenesis. Curr Biol 14: 2162-2167. (Pubitemid 39623200)
    • (2004) Current Biology , vol.14 , Issue.23 , pp. 2162-2167
    • Landthaler, M.1    Yalcin, A.2    Tuschl, T.3
  • 8
    • 0347988235 scopus 로고    scopus 로고
    • Nuclear Export of MicroRNA Precursors
    • DOI 10.1126/science.1090599
    • Lund E, Guttinger S, Calado A, Dahlberg JE, Kutay U (2004) Nuclear export of microRNA precursors. Science 303: 95-98. (Pubitemid 38055779)
    • (2004) Science , vol.303 , Issue.5654 , pp. 95-98
    • Lund, E.1    Guttinger, S.2    Calado, A.3    Dahlberg, J.E.4    Kutay, U.5
  • 10
    • 69949127421 scopus 로고    scopus 로고
    • Structural determinants of miRNAs for RISC loading and slicer-independent unwinding
    • Kawamata T, Seitz H, Tomari Y (2009) Structural determinants of miRNAs for RISC loading and slicer-independent unwinding. Nat Struct Mol Biol 16: 953-960.
    • (2009) Nat Struct Mol Biol , vol.16 , pp. 953-960
    • Kawamata, T.1    Seitz, H.2    Tomari, Y.3
  • 11
    • 70449127022 scopus 로고    scopus 로고
    • Hierarchical rules for Argonaute loading in Drosophila
    • Czech B, Zhou R, Erlich Y, Brennecke J, Binari R, et al. (2009) Hierarchical rules for Argonaute loading in Drosophila. Mol Cell 36: 445-456.
    • (2009) Mol Cell , vol.36 , pp. 445-456
    • Czech, B.1    Zhou, R.2    Erlich, Y.3    Brennecke, J.4    Binari, R.5
  • 12
    • 41649089309 scopus 로고    scopus 로고
    • The regulatory activity of microRNA*species has substantial influence on microRNA and 3′ UTR evolution
    • DOI 10.1038/nsmb.1409, PII NSMB1409
    • Okamura K, Phillips MD, Tyler DM, Duan H, Chou YT, et al. (2008) The regulatory activity of microRNA*species has substantial influence on microRNA and 3′ UTR evolution. Nat Struct Mol Biol 15: 354-363. (Pubitemid 351483397)
    • (2008) Nature Structural and Molecular Biology , vol.15 , Issue.4 , pp. 354-363
    • Okamura, K.1    Phillips, M.D.2    Tyler, D.M.3    Duan, H.4    Chou, Y.-T.5    Lai, E.C.6
  • 13
    • 0142165224 scopus 로고    scopus 로고
    • Functional siRNAs and miRNAs exhibit strand bias
    • DOI 10.1016/S0092-8674(03)00801-8
    • Khvorova A, Reynolds A, Jayasena SD (2003) Functional siRNAs and miRNAs exhibit strand bias. Cell 115: 209-216. (Pubitemid 37329584)
    • (2003) Cell , vol.115 , Issue.2 , pp. 209-216
    • Khvorova, A.1    Reynolds, A.2    Jayasena, S.D.3
  • 14
    • 10744225153 scopus 로고    scopus 로고
    • Asymmetry in the assembly of the RNAi enzyme complex
    • DOI 10.1016/S0092-8674(03)00759-1
    • Schwarz DS, Hutvagner G, Du T, Xu Z, Aronin N, et al. (2003) Asymmetry in the assembly of the RNAi enzyme complex. Cell 115: 199-208. (Pubitemid 37329583)
    • (2003) Cell , vol.115 , Issue.2 , pp. 199-208
    • Schwarz, D.S.1    Hutvagner, G.2    Du, T.3    Xu, Z.4    Aronin, N.5    Zamore, P.D.6
  • 16
    • 78751561955 scopus 로고    scopus 로고
    • Widespread regulatory activity of vertebrate microRNA*species
    • Yang JS, Phillips MD, Betel D, Mu P, Ventura A, et al. (2011) Widespread regulatory activity of vertebrate microRNA*species. Rna 17: 312-326.
    • (2011) Rna , vol.17 , pp. 312-326
    • Yang, J.S.1    Phillips, M.D.2    Betel, D.3    Mu, P.4    Ventura, A.5
  • 17
    • 77349092849 scopus 로고    scopus 로고
    • Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development
    • Jagadeeswaran G, Zheng Y, Sumathipala N, Jiang H, Arrese EL, et al. (2010) Deep sequencing of small RNA libraries reveals dynamic regulation of conserved and novel microRNAs and microRNA-stars during silkworm development. BMC Genomics 11: 52.
    • (2010) BMC Genomics , vol.11 , pp. 52
    • Jagadeeswaran, G.1    Zheng, Y.2    Sumathipala, N.3    Jiang, H.4    Arrese, E.L.5
  • 18
    • 34848860582 scopus 로고    scopus 로고
    • Tissue-dependent paired expression of miRNAs
    • DOI 10.1093/nar/gkm641
    • Ro S, Park C, Young D, Sanders KM, Yan W (2007) Tissue-dependent paired expression of miRNAs. Nucleic Acids Res 35: 5944-5953. (Pubitemid 47506308)
    • (2007) Nucleic Acids Research , vol.35 , Issue.17 , pp. 5944-5953
    • Ro, S.1    Park, C.2    Young, D.3    Sanders, K.M.4    Yan, W.5
  • 21
    • 0035955361 scopus 로고    scopus 로고
    • An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans
    • DOI 10.1126/science.1065062
    • Lau NC, Lim LP, Weinstein EG, Bartel DP (2001) An abundant class of tiny RNAs with probable regulatory roles in Caenorhabditis elegans. Science 294: 858-862. (Pubitemid 33032104)
    • (2001) Science , vol.294 , Issue.5543 , pp. 858-862
    • Lau, N.C.1    Lim, L.P.2    Weinstein, E.G.3    Bartel, D.P.4
  • 23
    • 55049135859 scopus 로고    scopus 로고
    • MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries
    • Bar M, Wyman SK, Fritz BR, Qi J, Garg KS, et al. (2008) MicroRNA discovery and profiling in human embryonic stem cells by deep sequencing of small RNA libraries. Stem Cells 26: 2496-2505.
    • (2008) Stem Cells , vol.26 , pp. 2496-2505
    • Bar, M.1    Wyman, S.K.2    Fritz, B.R.3    Qi, J.4    Garg, K.S.5
  • 24
    • 84555203278 scopus 로고    scopus 로고
    • RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star
    • Kadri S, Hinman VF, Benos PV (2011) RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star. PLoS One 6: e29217.
    • (2011) PLoS One , vol.6
    • Kadri, S.1    Hinman, V.F.2    Benos, P.V.3
  • 27
    • 47149088851 scopus 로고    scopus 로고
    • Individual mRNA expression profiles reveal the effects of specific microRNAs
    • Arora A, Simpson DA (2008) Individual mRNA expression profiles reveal the effects of specific microRNAs. Genome Biol 9: R82.
    • (2008) Genome Biol , vol.9
    • Arora, A.1    Simpson, D.A.2
  • 28
    • 80455179726 scopus 로고    scopus 로고
    • iCLIP-transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution
    • Konig J, Zarnack K, Rot G, Curk T, Kayikci M, et al. (2011) iCLIP-transcriptome-wide mapping of protein-RNA interactions with individual nucleotide resolution. J Vis Exp.
    • (2011) J Vis Exp
    • Konig, J.1    Zarnack, K.2    Rot, G.3    Curk, T.4    Kayikci, M.5
  • 29
    • 84856566561 scopus 로고    scopus 로고
    • Detection of microRNAs in color space
    • Marco A, Griffiths-Jones S (2012) Detection of microRNAs in color space. Bioinformatics 28: 318-323.
    • (2012) Bioinformatics , vol.28 , pp. 318-323
    • Marco, A.1    Griffiths-Jones, S.2
  • 30
    • 0030854739 scopus 로고    scopus 로고
    • tRNAscan-SE: A program for improved detection of transfer RNA genes in genomic sequence
    • DOI 10.1093/nar/25.5.955
    • Lowe TM, Eddy SR (1997) tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence. Nucleic Acids Res 25: 955-964. (Pubitemid 27298263)
    • (1997) Nucleic Acids Research , vol.25 , Issue.5 , pp. 955-964
    • Lowe, T.M.1    Eddy, S.R.2
  • 31
    • 84891818318 scopus 로고    scopus 로고
    • miRBase: Annotating high confidence microRNAs using deep sequencing data
    • Kozomara A, Griffiths-Jones S (2014) miRBase: annotating high confidence microRNAs using deep sequencing data. Nucleic Acids Res 42: D68-73.
    • (2014) Nucleic Acids Res , vol.42
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 32
    • 62349130698 scopus 로고    scopus 로고
    • Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
    • Langmead B, Trapnell C, Pop M, Salzberg SL (2009) Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol 10: R25.
    • (2009) Genome Biol , vol.10
    • Langmead, B.1    Trapnell, C.2    Pop, M.3    Salzberg, S.L.4
  • 33
    • 79551596885 scopus 로고    scopus 로고
    • The transcriptional diversity of 25 Drosophila cell lines
    • Cherbas L, Willingham A, Zhang D, Yang L, Zou Y, et al. (2011) The transcriptional diversity of 25 Drosophila cell lines. Genome Res 21: 301-314.
    • (2011) Genome Res , vol.21 , pp. 301-314
    • Cherbas, L.1    Willingham, A.2    Zhang, D.3    Yang, L.4    Zou, Y.5
  • 34
    • 4644237189 scopus 로고    scopus 로고
    • Fast and effective prediction of microRNA/target duplexes
    • DOI 10.1261/rna.5248604
    • Rehmsmeier M, Steffen P, Hochsmann M, Giegerich R (2004) Fast and effective prediction of microRNA/target duplexes. Rna 10: 1507-1517. (Pubitemid 39288185)
    • (2004) RNA , vol.10 , Issue.10 , pp. 1507-1517
    • Rehmsmeier, M.1    Steffen, P.2    Hochsmann, M.3    Giegerich, R.4
  • 35
    • 79952364512 scopus 로고    scopus 로고
    • Kinetic analysis reveals the fate of a microRNA following target regulation in mammalian cells
    • Baccarini A, Chauhan H, Gardner TJ, Jayaprakash AD, Sachidanandam R, et al. (2011) Kinetic analysis reveals the fate of a microRNA following target regulation in mammalian cells. Curr Biol 21: 369-376.
    • (2011) Curr Biol , vol.21 , pp. 369-376
    • Baccarini, A.1    Chauhan, H.2    Gardner, T.J.3    Jayaprakash, A.D.4    Sachidanandam, R.5
  • 37
    • 3142729150 scopus 로고    scopus 로고
    • Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways
    • DOI 10.1101/gad.1210204
    • Okamura K, Ishizuka A, Siomi H, Siomi MC (2004) Distinct roles for Argonaute proteins in small RNA-directed RNA cleavage pathways. Genes Dev 18: 1655-1666. (Pubitemid 38938183)
    • (2004) Genes and Development , vol.18 , Issue.14 , pp. 1655-1666
    • Okamura, K.1    Ishizuka, A.2    Siomi, H.3    Siomi, M.C.4
  • 38
    • 75649129754 scopus 로고    scopus 로고
    • Sorting of Drosophila small silencing RNAs partitions microRNA*strands into the RNA interference pathway
    • Ghildiyal M, Xu J, Seitz H, Weng Z, Zamore PD (2010) Sorting of Drosophila small silencing RNAs partitions microRNA*strands into the RNA interference pathway. Rna 16: 43-56.
    • (2010) Rna , vol.16 , pp. 43-56
    • Ghildiyal, M.1    Xu, J.2    Seitz, H.3    Weng, Z.4    Zamore, P.D.5
  • 39
    • 70449122099 scopus 로고    scopus 로고
    • Distinct mechanisms for microRNA strand selection by Drosophila Argonautes
    • Okamura K, Liu N, Lai EC (2009) Distinct mechanisms for microRNA strand selection by Drosophila Argonautes. Mol Cell 36: 431-444.
    • (2009) Mol Cell , vol.36 , pp. 431-444
    • Okamura, K.1    Liu, N.2    Lai, E.C.3
  • 40
    • 36849048778 scopus 로고    scopus 로고
    • Dual Role for Argonautes in MicroRNA Processing and Posttranscriptional Regulation of MicroRNA Expression
    • DOI 10.1016/j.cell.2007.10.032, PII S0092867407013517
    • Diederichs S, Haber DA (2007) Dual role for argonautes in microRNA processing and posttranscriptional regulation of microRNA expression. Cell 131: 1097-1108. (Pubitemid 350235019)
    • (2007) Cell , vol.131 , Issue.6 , pp. 1097-1108
    • Diederichs, S.1    Haber, D.A.2
  • 41
  • 42
    • 33644768174 scopus 로고    scopus 로고
    • Control of translation and mRNA degradation by miRNAs and siRNAs
    • DOI 10.1101/gad.1399806
    • Valencia-Sanchez MA, Liu J, Hannon GJ, Parker R (2006) Control of translation and mRNA degradation by miRNAs and siRNAs. Genes Dev 20: 515-524. (Pubitemid 43345317)
    • (2006) Genes and Development , vol.20 , Issue.5 , pp. 515-524
    • Valencia-Sanchez, M.A.1    Liu, J.2    Hannon, G.J.3    Parker, R.4
  • 43
    • 84864448111 scopus 로고    scopus 로고
    • High-throughput assessment of microRNA activity and function using microRNA sensor and decoy libraries
    • Mullokandov G, Baccarini A, Ruzo A, Jayaprakash AD, Tung N, et al. (2012) High-throughput assessment of microRNA activity and function using microRNA sensor and decoy libraries. Nat Methods 9: 840-846.
    • (2012) Nat Methods , vol.9 , pp. 840-846
    • Mullokandov, G.1    Baccarini, A.2    Ruzo, A.3    Jayaprakash, A.D.4    Tung, N.5
  • 44
    • 77956456653 scopus 로고    scopus 로고
    • Sequencing bias: Comparison of different protocols of microRNA library construction
    • Tian G, Yin X, Luo H, Xu X, Bolund L, et al. (2010) Sequencing bias: comparison of different protocols of microRNA library construction. BMC Biotechnol 10: 64.
    • (2010) BMC Biotechnol , vol.10 , pp. 64
    • Tian, G.1    Yin, X.2    Luo, H.3    Xu, X.4    Bolund, L.5
  • 47
    • 80053197539 scopus 로고    scopus 로고
    • Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing
    • Broderick JA, Salomon WE, Ryder SP, Aronin N, Zamore PD (2011) Argonaute protein identity and pairing geometry determine cooperativity in mammalian RNA silencing. Rna 17: 1858-1869.
    • (2011) Rna , vol.17 , pp. 1858-1869
    • Broderick, J.A.1    Salomon, W.E.2    Ryder, S.P.3    Aronin, N.4    Zamore, P.D.5
  • 48
    • 84870038812 scopus 로고    scopus 로고
    • Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties
    • Wee LM, Flores-Jasso CF, Salomon WE, Zamore PD (2012) Argonaute divides its RNA guide into domains with distinct functions and RNA-binding properties. Cell 151: 1055-1067.
    • (2012) Cell , vol.151 , pp. 1055-1067
    • Wee, L.M.1    Flores-Jasso, C.F.2    Salomon, W.E.3    Zamore, P.D.4
  • 49
    • 77950920903 scopus 로고    scopus 로고
    • Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP
    • Hafner M, Landthaler M, Burger L, Khorshid M, Hausser J, et al. (2010) Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP. Cell 141: 129-141.
    • (2010) Cell , vol.141 , pp. 129-141
    • Hafner, M.1    Landthaler, M.2    Burger, L.3    Khorshid, M.4    Hausser, J.5
  • 50
    • 0037418839 scopus 로고    scopus 로고
    • Bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila
    • DOI 10.1016/S0092-8674(03)00231-9
    • Brennecke J, Hipfner DR, Stark A, Russell RB, Cohen SM (2003) bantam encodes a developmentally regulated microRNA that controls cell proliferation and regulates the proapoptotic gene hid in Drosophila. Cell 113: 25-36. (Pubitemid 36411957)
    • (2003) Cell , vol.113 , Issue.1 , pp. 25-36
    • Brennecke, J.1    Hipfner, D.R.2    Stark, A.3    Russell, R.B.4    Cohen, S.M.5
  • 53
    • 0037144546 scopus 로고    scopus 로고
    • A microRNA in a multiple-turnover RNAi enzyme complex
    • Hutvagner G, Zamore PD (2002) A microRNA in a multiple-turnover RNAi enzyme complex. Science 297: 2056-2060.
    • (2002) Science , vol.297 , pp. 2056-2060
    • Hutvagner, G.1    Zamore, P.D.2
  • 54
    • 77951164018 scopus 로고    scopus 로고
    • Differential regulation of microRNA stability
    • Bail S, Swerdel M, Liu H, Jiao X, Goff LA, et al. (2010) Differential regulation of microRNA stability. Rna 16: 1032-1039.
    • (2010) Rna , vol.16 , pp. 1032-1039
    • Bail, S.1    Swerdel, M.2    Liu, H.3    Jiao, X.4    Goff, L.A.5
  • 55
    • 23944493378 scopus 로고    scopus 로고
    • Methylation protects miRNAs and siRNAs from a 3′-end uridylation activity in Arabidopsis
    • DOI 10.1016/j.cub.2005.07.029, PII S0960982205007736
    • Li J, Yang Z, Yu B, Liu J, Chen X (2005) Methylation protects miRNAs and siRNAs from a 3′-end uridylation activity in Arabidopsis. Curr Biol 15: 1501-1507. (Pubitemid 41187490)
    • (2005) Current Biology , vol.15 , Issue.16 , pp. 1501-1507
    • Li, J.1    Yang, Z.2    Yu, B.3    Liu, J.4    Chen, X.5
  • 56
    • 77953801618 scopus 로고    scopus 로고
    • Target RNA-directed trimming and tailing of small silencing RNAs
    • Ameres SL, Horwich MD, Hung JH, Xu J, Ghildiyal M, et al. (2010) Target RNA-directed trimming and tailing of small silencing RNAs. Science 328: 1534-1539.
    • (2010) Science , vol.328 , pp. 1534-1539
    • Ameres, S.L.1    Horwich, M.D.2    Hung, J.H.3    Xu, J.4    Ghildiyal, M.5
  • 57
    • 81355125071 scopus 로고    scopus 로고
    • The 39-to-59 exoribonuclease Nibbler shapes the 39 ends of microRNAs bound to Drosophila Argonaute1
    • Han BW, Hung JH, Weng Z, Zamore PD, Ameres SL (2011) The 39-to-59 exoribonuclease Nibbler shapes the 39 ends of microRNAs bound to Drosophila Argonaute1. Curr Biol 21: 1878-1887.
    • (2011) Curr Biol , vol.21 , pp. 1878-1887
    • Han, B.W.1    Hung, J.H.2    Weng, Z.3    Zamore, P.D.4    Ameres, S.L.5
  • 58
    • 81355129276 scopus 로고    scopus 로고
    • The exoribonuclease Nibbler controls 3 9 end processing of microRNAs in Drosophila
    • Liu N, Abe M, Sabin LR, Hendriks GJ, Naqvi AS, et al. (2011) The exoribonuclease Nibbler controls 3 9 end processing of microRNAs in Drosophila. Curr Biol 21: 1888-1893.
    • (2011) Curr Biol , vol.21 , pp. 1888-1893
    • Liu, N.1    Abe, M.2    Sabin, L.R.3    Hendriks, G.J.4    Naqvi, A.S.5
  • 59
    • 84860301401 scopus 로고    scopus 로고
    • The Arabidopsis nucleotidyl transferase HESO1 uridylates unmethylated small RNAs to trigger their degradation
    • Zhao Y, Yu Y, Zhai J, Ramachandran V, Dinh TT, et al. (2012) The Arabidopsis nucleotidyl transferase HESO1 uridylates unmethylated small RNAs to trigger their degradation. Curr Biol 22: 689-694.
    • (2012) Curr Biol , vol.22 , pp. 689-694
    • Zhao, Y.1    Yu, Y.2    Zhai, J.3    Ramachandran, V.4    Dinh, T.T.5


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