메뉴 건너뛰기




Volumn 29, Issue 10, 2012, Pages 3037-3044

Selection on synonymous sites for increased accessibility around mirna binding sites in plants

Author keywords

microRNA function; site accessibility; synonymous selection

Indexed keywords

CYTOSINE; GUANINE; MICRORNA;

EID: 84866952755     PISSN: 07374038     EISSN: 15371719     Source Type: Journal    
DOI: 10.1093/molbev/mss109     Document Type: Article
Times cited : (53)

References (64)
  • 2
    • 43449118038 scopus 로고    scopus 로고
    • Evolution of plant microRNAs and their targets
    • Axtell MJ, Bowman JL. 2008. Evolution of plant microRNAs and their targets. Trends Plant Sci. 13:343-349.
    • (2008) Trends Plant Sci , vol.13 , pp. 343-349
    • Axtell, M.J.1    Bowman, J.L.2
  • 3
    • 79955379930 scopus 로고    scopus 로고
    • Vive la difference: Biogenesis and evolution of microRNAs in plants and animals
    • Axtell MJ, Westholm JO, Lai EC. 2011. Vive la difference: biogenesis and evolution of microRNAs in plants and animals. Genome Biol. 12:221.
    • (2011) Genome Biol , vol.12 , pp. 221
    • Axtell, M.J.1    Westholm, J.O.2    Lai, E.C.3
  • 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
    • 34147103538 scopus 로고    scopus 로고
    • Evolution and multilevel optimization of the genetic code
    • DOI 10.1101/gr.6144007
    • Bollenbach T, Vetsigian K, Kishony R. 2007. Evolution and multilevel optimization of the genetic code. Genome Res. 17:401-404. (Pubitemid 46556443)
    • (2007) Genome Research , vol.17 , Issue.4 , pp. 401-404
    • Bollenbach, T.1    Vetsigian, K.2    Kishony, R.3
  • 6
    • 79952134938 scopus 로고    scopus 로고
    • A synonymous variant in IRGM alters a binding site for miR-196 and causes deregulation of IRGM-dependent xenophagy in Crohn's disease
    • (14 co-authors)
    • Brest P, Lapaquette P, Souidi M, et al. (14 co-authors). 2011. A synonymous variant in IRGM alters a binding site for miR-196 and causes deregulation of IRGM-dependent xenophagy in Crohn's disease. Nat Genet. 43:242-245.
    • (2011) Nat Genet , vol.43 , pp. 242-245
    • Brest, P.1    Lapaquette, P.2    Souidi, M.3
  • 7
    • 58849093262 scopus 로고    scopus 로고
    • Revisiting the principles of microRNA target recognition and mode of action
    • Brodersen P, Voinnet O. 2009. Revisiting the principles of microRNA target recognition and mode of action. Nat Rev Mol Cell Biol. 10:141-148.
    • (2009) Nat Rev Mol Cell Biol , vol.10 , pp. 141-148
    • Brodersen, P.1    Voinnet, O.2
  • 8
    • 17644370601 scopus 로고    scopus 로고
    • Biased codon usage near intron-exon junctions: Selection on splicing enhancers, splice-site recognition or something else?
    • DOI 10.1016/j.tig.2005.03.001
    • Chamary JV, Hurst LD. 2005a. Biased codon usage near intron-exon junctions: selection on splicing enhancers, splice-site recognition or something else? Trends Genet. 21:256-259. (Pubitemid 40558928)
    • (2005) Trends in Genetics , vol.21 , Issue.5 , pp. 256-259
    • Chamary, J.-V.1    Hurst, L.D.2
  • 9
    • 30744432134 scopus 로고    scopus 로고
    • Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals
    • Chamary JV, Hurst LD. 2005b. Evidence for selection on synonymous mutations affecting stability of mRNA secondary structure in mammals. Genome Biol. 6:R75.
    • (2005) Genome Biol , vol.6
    • Chamary, J.V.1    Hurst, L.D.2
  • 10
    • 31144465926 scopus 로고    scopus 로고
    • Hearing silence: Non-neutral evolution at synonymous sites in mammals
    • DOI 10.1038/nrg1770, PII NRG1770
    • Chamary JV, Parmley JL, Hurst LD. 2006. Hearing silence: non-neutral evolution at synonymous sites in mammals. Nat Rev Genet. 7:98-108. (Pubitemid 43128905)
    • (2006) Nature Reviews Genetics , vol.7 , Issue.2 , pp. 98-108
    • Chamary, J.V.1    Parmley, J.L.2    Hurst, L.D.3
  • 11
    • 0030944349 scopus 로고    scopus 로고
    • Translational regulation of gene expression in plants
    • DOI 10.1016/S0958-1669(97)80101-2
    • Cohen A, Mayfield SP. 1997. Translational regulation of gene expression in plants. Curr Opin Biotechnol. 8:189-194. (Pubitemid 27154078)
    • (1997) Current Opinion in Biotechnology , vol.8 , Issue.2 , pp. 189-194
    • Cohen, A.1    Mayfield, S.P.2
  • 12
    • 79953086307 scopus 로고    scopus 로고
    • Evolution and functional diversification of MIRNA genes
    • Cuperus JT, Fahlgren N, Carrington JC. 2011. Evolution and functional diversification of MIRNA genes. Plant Cell 23:431-442.
    • (2011) Plant Cell , vol.23 , pp. 431-442
    • Cuperus, J.T.1    Fahlgren, N.2    Carrington, J.C.3
  • 13
    • 79959967431 scopus 로고    scopus 로고
    • PsRNATarget: A plant small RNA target analysis server
    • Dai X, Zhao PX. 2011. psRNATarget: a plant small RNA target analysis server. Nucleic Acids Res. 39:W155-W159.
    • (2011) Nucleic Acids Res , vol.39
    • Dai, X.1    Zhao, P.X.2
  • 14
    • 79953137130 scopus 로고    scopus 로고
    • Computational analysis of miRNA targets in plants: Current status and challenges
    • Dai X, Zhuang Z, Zhao PX. 2011. Computational analysis of miRNA targets in plants: current status and challenges. Brief Bioinform. 12:115-121.
    • (2011) Brief Bioinform , vol.12 , pp. 115-121
    • Dai, X.1    Zhuang, Z.2    Zhao, P.X.3
  • 15
    • 0036889468 scopus 로고    scopus 로고
    • Evolution of synonymous codon usage in metazoans
    • DOI 10.1016/S0959-437X(02)00353-2
    • Duret L. 2002. Evolution of synonymous codon usage in metazoans. Curr Opin Genet Dev. 12:640-649. (Pubitemid 35335981)
    • (2002) Current Opinion in Genetics and Development , vol.12 , Issue.6 , pp. 640-649
    • Duret, L.1
  • 16
    • 77953629046 scopus 로고    scopus 로고
    • Regulation of mRNA translation and stability by microRNAs
    • Fabian MR, Sonenberg N, Filipowicz W. 2010. Regulation of mRNA translation and stability by microRNAs. Annu Rev Biochem. 79:351-379.
    • (2010) Annu Rev Biochem , vol.79 , pp. 351-379
    • Fabian, M.R.1    Sonenberg, N.2    Filipowicz, W.3
  • 17
    • 77953214518 scopus 로고    scopus 로고
    • MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana
    • (11 co-authors)
    • Fahlgren N, Jogdeo S, Kasschau KD, et al. 2010. (11 co-authors). MicroRNA gene evolution in Arabidopsis lyrata and Arabidopsis thaliana. Plant Cell 22:1074-1089.
    • (2010) Plant Cell , vol.22 , pp. 1074-1089
    • Fahlgren, N.1    Jogdeo, S.2    Kasschau, K.D.3
  • 18
    • 77953563697 scopus 로고    scopus 로고
    • The code within the code: MicroRNAs target coding regions
    • Forman JJ, Coller HA. 2010. The code within the code: microRNAs target coding regions. Cell Cycle 9:1533-1541.
    • (2010) Cell Cycle , vol.9 , pp. 1533-1541
    • Forman, J.J.1    Coller, H.A.2
  • 19
    • 54449097149 scopus 로고    scopus 로고
    • A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence
    • Forman JJ, Legesse-Miller A, Coller HA. 2008. A search for conserved sequences in coding regions reveals that the let-7 microRNA targets Dicer within its coding sequence. Proc Natl Acad Sci USA. 105:14879-14884.
    • (2008) Proc Natl Acad Sci USA , vol.105 , pp. 14879-14884
    • Forman, J.J.1    Legesse-Miller, A.2    Coller, H.A.3
  • 20
    • 59649125888 scopus 로고    scopus 로고
    • Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs
    • Gu S, Jin L, Zhang F, Sarnow P, Kay MA, et al. 2009. Biological basis for restriction of microRNA targets to the 3' untranslated region in mammalian mRNAs. Nat Struct Mol Biol. 16:144-150.
    • (2009) Nat Struct Mol Biol , vol.16 , pp. 144-150
    • Gu, S.1    Jin, L.2    Zhang, F.3    Sarnow, P.4    Kay, M.A.5
  • 21
    • 77649198142 scopus 로고    scopus 로고
    • A universal trend of reduced mRNA stability near the translation- initiation site in prokaryotes and eukaryotes
    • Gu W, Zhou T, Wilke CO. 2010. A universal trend of reduced mRNA stability near the translation-initiation site in prokaryotes and eukaryotes. PLoS Comput Biol. 6:e1000664.
    • (2010) PLoS Comput Biol , vol.6
    • Gu, W.1    Zhou, T.2    Wilke, C.O.3
  • 23
    • 70350707749 scopus 로고    scopus 로고
    • Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets
    • Hausser J, Landthaler M, Jaskiewicz L, Gaidatzis D, Zavolan M. 2009. Relative contribution of sequence and structure features to the mRNA binding of Argonaute/EIF2C-miRNA complexes and the degradation of miRNA targets. Genome Res. 19:2009-2020.
    • (2009) Genome Res , vol.19 , pp. 2009-2020
    • Hausser, J.1    Landthaler, M.2    Jaskiewicz, L.3    Gaidatzis, D.4    Zavolan, M.5
  • 24
    • 0043123153 scopus 로고    scopus 로고
    • Vienna RNA secondary structure server
    • DOI 10.1093/nar/gkg599
    • Hofacker IL. 2003. Vienna RNA secondary structure server. Nucleic Acids Res. 31:3429-3431. (Pubitemid 37442172)
    • (2003) Nucleic Acids Research , vol.31 , Issue.13 , pp. 3429-3431
    • Hofacker, I.L.1
  • 25
    • 33746435693 scopus 로고    scopus 로고
    • Preliminary assessment of the impact of microrna-mediated regulation on coding sequence evolution in mammals
    • DOI 10.1007/s00239-005-0273-2
    • Hurst LD. 2006. Preliminary assessment of the impact of microRNAmediated regulation on coding sequence evolution in mammals. J Mol Evol. 63:174-182. (Pubitemid 44126973)
    • (2006) Journal of Molecular Evolution , vol.63 , Issue.2 , pp. 174-182
    • Hurst, L.D.1
  • 26
    • 79953233933 scopus 로고    scopus 로고
    • Molecular genetics: The sound of silence
    • Hurst LD. 2011. Molecular genetics: the sound of silence. Nature 471:582-583.
    • (2011) Nature , vol.471 , pp. 582-583
    • Hurst, L.D.1
  • 27
    • 0021958933 scopus 로고
    • Codon usage and tRNA content in unicellular and multicellular organisms
    • Ikemura T. 1985. Codon usage and tRNA content in unicellular and multicellular organisms. Mol Biol Evol. 2:13-34. (Pubitemid 15152046)
    • (1985) Molecular Biology and Evolution , vol.2 , Issue.1 , pp. 13-34
    • Ikemura, T.1
  • 28
    • 77958082013 scopus 로고    scopus 로고
    • Overlapping codes within proteincoding sequences
    • Itzkovitz S, Hodis E, Segal E. 2010. Overlapping codes within proteincoding sequences. Genome Res. 20:1582-1589.
    • (2010) Genome Res , vol.20 , pp. 1582-1589
    • Itzkovitz, S.1    Hodis, E.2    Segal, E.3
  • 29
    • 2942672580 scopus 로고    scopus 로고
    • Computational identification of plant MicroRNAs and their targets, including a stress-induced miRNA
    • DOI 10.1016/j.molcel.2004.05.027, PII S1097276504003284
    • Jones-Rhoades MW, Bartel DP. 2004. Computational identification of plant microRNAs and their targets, including a stress-induced miRNA. Mol Cell. 14:787-799. (Pubitemid 38780852)
    • (2004) Molecular Cell , vol.14 , Issue.6 , pp. 787-799
    • Jones-Rhoades, M.W.1    Bartel, D.P.2
  • 31
    • 34748821761 scopus 로고    scopus 로고
    • The role of site accessibility in microRNA target recognition
    • DOI 10.1038/ng2135, PII NG2135
    • Kertesz M, Iovino N, Unnerstall U, Gaul U, Segal E. 2007. The role of site accessibility in microRNA target recognition. Nat Genet. 39:1278-1284. (Pubitemid 47482690)
    • (2007) Nature Genetics , vol.39 , Issue.10 , pp. 1278-1284
    • Kertesz, M.1    Iovino, N.2    Unnerstall, U.3    Gaul, U.4    Segal, E.5
  • 32
    • 0032699491 scopus 로고    scopus 로고
    • Synonymous codon substitutions affect ribosome traffic and protein folding during in vitro translation
    • Komar AA, Lesnik T, Reiss C. 1999. Synonymous codon substitutions affect ribosome traffic and protein folding during in vitro translation. FEBS Lett. 462:387-391.
    • (1999) FEBS Lett , vol.462 , pp. 387-391
    • Komar, A.A.1    Lesnik, T.2    Reiss, C.3
  • 33
    • 78651293534 scopus 로고    scopus 로고
    • MiRBase: Integrating microRNA annotation and deep-sequencing data
    • Kozomara A, Griffiths-Jones S. 2011. miRBase: integrating microRNA annotation and deep-sequencing data. Nucleic Acids Res. 39: D152-D157.
    • (2011) Nucleic Acids Res , vol.39
    • Kozomara, A.1    Griffiths-Jones, S.2
  • 34
    • 64849114915 scopus 로고    scopus 로고
    • Codingsequence determinants of gene expression in Escherichia coli
    • Kudla G, Murray AW, Tollervey D, Plotkin JB. 2009. Codingsequence determinants of gene expression in Escherichia coli. Science 324:255-258.
    • (2009) Science , vol.324 , pp. 255-258
    • Kudla, G.1    Murray, A.W.2    Tollervey, D.3    Plotkin, J.B.4
  • 35
    • 79955096237 scopus 로고    scopus 로고
    • Viral microRNA target allows insight into the role of translation in governing microRNA target accessibility
    • Lin HR, Ganem D. 2011. Viral microRNA target allows insight into the role of translation in governing microRNA target accessibility. Proc Natl Acad Sci USA. 108:5148-5153.
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 5148-5153
    • Lin, H.R.1    Ganem, D.2
  • 37
    • 39149106448 scopus 로고    scopus 로고
    • Efficient siRNA selection using hybridization thermodynamics
    • DOI 10.1093/nar/gkm920
    • Lu ZJ, Mathews DH. 2008. Efficient siRNA selection using hybridization thermodynamics. Nucleic Acids Res. 36:640-647. (Pubitemid 351250454)
    • (2008) Nucleic Acids Research , vol.36 , Issue.2 , pp. 640-647
    • Lu, Z.J.1    Mathews, D.H.2
  • 39
    • 33748587841 scopus 로고    scopus 로고
    • A Pattern-Based Method for the Identification of MicroRNA Binding Sites and Their Corresponding Heteroduplexes
    • DOI 10.1016/j.cell.2006.07.031, PII S0092867406010993
    • Miranda KC, Huynh T, Tay Y, Ang YS, Tam WL, Thomson AM, Lim B, Rigoutsos I. 2006. A pattern-based method for the identification of MicroRNA binding sites and their corresponding heteroduplexes. Cell 126:1203-1217. (Pubitemid 44380294)
    • (2006) Cell , vol.126 , Issue.6 , pp. 1203-1217
    • Miranda, K.C.1    Huynh, T.2    Tay, Y.3    Ang, Y.-S.4    Tam, W.-L.5    Thomson, A.M.6    Lim, B.7    Rigoutsos, I.8
  • 40
    • 33845873056 scopus 로고    scopus 로고
    • Selective constraints on codon usage of nuclear genes from Arabidopsis thaliana
    • DOI 10.1093/molbev/msl139
    • Morton BR, Wright SI. 2007. Selective constraints on codon usage of nuclear genes from Arabidopsis thaliana. Mol Biol Evol. 24: 122-129. (Pubitemid 46026287)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.1 , pp. 122-129
    • Morton, B.R.1    Wright, S.I.2
  • 41
    • 33845898825 scopus 로고    scopus 로고
    • Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila
    • DOI 10.1093/molbev/msl146
    • Nielsen R, Bauer DuMont VL, Hubisz MJ, Aquadro CF. 2007. Maximum likelihood estimation of ancestral codon usage bias parameters in Drosophila. Mol Biol Evol. 24:228-235. (Pubitemid 46026297)
    • (2007) Molecular Biology and Evolution , vol.24 , Issue.1 , pp. 228-235
    • Nielsen, R.1    Bauer DuMont, V.L.2    Hubisz, M.J.3    Aquadro, C.F.4
  • 42
    • 30744469841 scopus 로고    scopus 로고
    • Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers
    • DOI 10.1093/molbev/msj035
    • Parmley JL, Chamary JV, Hurst LD. 2006. Evidence for purifying selection against synonymous mutations in mammalian exonic splicing enhancers. Mol Biol Evol. 23:301-309. (Pubitemid 43100044)
    • (2006) Molecular Biology and Evolution , vol.23 , Issue.2 , pp. 301-309
    • Parmley, J.L.1    Chamary, J.V.2    Hurst, L.D.3
  • 43
    • 75249107453 scopus 로고    scopus 로고
    • Seed-based INTARNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1
    • Richter AS, Schleberger C, Backofen R, Steglich C. 2010. Seed-based INTARNA prediction combined with GFP-reporter system identifies mRNA targets of the small RNA Yfr1. Bioinformatics 26:1-5.
    • (2010) Bioinformatics , vol.26 , pp. 1-5
    • Richter, A.S.1    Schleberger, C.2    Backofen, R.3    Steglich, C.4
  • 44
    • 65949121645 scopus 로고    scopus 로고
    • New tricks for animal microRNAS: Targeting of amino acid coding regions at conserved and nonconserved sites
    • Rigoutsos I. 2009. New tricks for animal microRNAS: targeting of amino acid coding regions at conserved and nonconserved sites. Cancer Res. 69:3245-3248.
    • (2009) Cancer Res , vol.69 , pp. 3245-3248
    • Rigoutsos, I.1
  • 46
    • 77957662209 scopus 로고    scopus 로고
    • Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs
    • Schnall-Levin M, Zhao Y, Perrimon N, Berger B. 2010. Conserved microRNA targeting in Drosophila is as widespread in coding regions as in 3'UTRs. Proc Natl Acad Sci USA. 107: 15751-15756.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 15751-15756
    • Schnall-Levin, M.1    Zhao, Y.2    Perrimon, N.3    Berger, B.4
  • 47
    • 0033119454 scopus 로고    scopus 로고
    • MRNAs have greater negative folding free energies than shuffled or codon choice randomized sequences
    • DOI 10.1093/nar/27.7.1578
    • Seffens W, Digby D. 1999. mRNAs have greater negative folding free energies than shuffled or codon choice randomized sequences. Nucleic Acids Res. 27:1578-1584. (Pubitemid 29209532)
    • (1999) Nucleic Acids Research , vol.27 , Issue.7 , pp. 1578-1584
    • Seffens, W.1    Digby, D.2
  • 48
    • 51649116095 scopus 로고    scopus 로고
    • Conflicting selection pressures on synonymous codon use in yeast suggest selection on mRNA secondary structures
    • Stoletzki N. 2008. Conflicting selection pressures on synonymous codon use in yeast suggest selection on mRNA secondary structures. BMC Evol Biol. 8:224.
    • (2008) BMC Evol Biol , vol.8 , pp. 224
    • Stoletzki, N.1
  • 49
    • 75649129058 scopus 로고    scopus 로고
    • Sequence context outside the target region influences the effectiveness of miR-223 target sites in the RhoB 3'UTR
    • Sun G, Li H, Rossi JJ. 2010. Sequence context outside the target region influences the effectiveness of miR-223 target sites in the RhoB 3'UTR. Nucleic Acids Res. 38:239-252.
    • (2010) Nucleic Acids Res , vol.38 , pp. 239-252
    • Sun, G.1    Li, H.2    Rossi, J.J.3
  • 50
    • 54549108798 scopus 로고    scopus 로고
    • MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation
    • Tay Y, Zhang J, Thomson AM, Lim B, Rigoutsos I. 2008. MicroRNAs to Nanog, Oct4 and Sox2 coding regions modulate embryonic stem cell differentiation. Nature 455:1124-1128.
    • (2008) Nature , vol.455 , pp. 1124-1128
    • Tay, Y.1    Zhang, J.2    Thomson, A.M.3    Lim, B.4    Rigoutsos, I.5
  • 51
    • 0030018101 scopus 로고    scopus 로고
    • Ribosome-mediated translational pause and protein domain organization
    • Thanaraj TA, Argos P. 1996. Ribosome-mediated translational pause and protein domain organization. Protein Sci. 5:1594-1612. (Pubitemid 26257223)
    • (1996) Protein Science , vol.5 , Issue.8 , pp. 1594-1612
    • Thanaraj, T.A.1    Argos, P.2
  • 52
    • 77649245858 scopus 로고    scopus 로고
    • Translation efficiency is determined by both codon bias and folding energy
    • Tuller T, Waldman YY, Kupiec M, Ruppin E. 2010. Translation efficiency is determined by both codon bias and folding energy. Proc Natl Acad Sci USA. 107:3645-3650.
    • (2010) Proc Natl Acad Sci USA , vol.107 , pp. 3645-3650
    • Tuller, T.1    Waldman, Y.Y.2    Kupiec, M.3    Ruppin, E.4
  • 53
    • 0037388031 scopus 로고    scopus 로고
    • DNA helix: The importance of being GC-rich
    • DOI 10.1093/nar/gkg296
    • Vinogradov AE. 2003. DNA helix: the importance of being GC-rich. Nucleic Acids Res. 31:1838-1844. (Pubitemid 36432690)
    • (2003) Nucleic Acids Research , vol.31 , Issue.7 , pp. 1838-1844
    • Vinogradov, A.E.1
  • 54
    • 57149100569 scopus 로고    scopus 로고
    • The impact of the nucleosome code on protein-coding sequence evolution in yeast
    • Warnecke T, Batada NN, Hurst LD. 2008. The impact of the nucleosome code on protein-coding sequence evolution in yeast. PLoS Genet. 4:e1000250.
    • (2008) PLoS Genet , vol.4
    • Warnecke, T.1    Batada, N.N.2    Hurst, L.D.3
  • 55
    • 37549008368 scopus 로고    scopus 로고
    • Evidence for a trade-off between translational efficiency and splicing regulation in determining synonymous codon usage in Drosophila melanogaster
    • Warnecke T, Hurst LD. 2007. Evidence for a trade-off between translational efficiency and splicing regulation in determining synonymous codon usage in Drosophila melanogaster. Mol Biol Evol. 24:2755-2762.
    • (2007) Mol Biol Evol , vol.24 , pp. 2755-2762
    • Warnecke, T.1    Hurst, L.D.2
  • 56
    • 0025318864 scopus 로고
    • The 'effective number of codons' used in a gene
    • DOI 10.1016/0378-1119(90)90491-9
    • Wright F. 1990. The 'effective number of codons' used in a gene. Gene 87:23-29. (Pubitemid 20139850)
    • (1990) Gene , vol.87 , Issue.1 , pp. 23-29
    • Wright, F.1
  • 57
    • 4143122090 scopus 로고    scopus 로고
    • Effects of gene expression on molecular evolution in Arabidopsis thaliana and Arabidopsis lyrata
    • DOI 10.1093/molbev/msh191
    • Wright SI, Yau CB, Looseley M, Meyers BC. 2004. Effects of gene expression on molecular evolution in Arabidopsis thaliana and Arabidopsis lyrata. Mol Biol Evol. 21:1719-1726. (Pubitemid 39096888)
    • (2004) Molecular Biology and Evolution , vol.21 , Issue.9 , pp. 1719-1726
    • Wright, S.I.1    Yau, C.B.K.2    Looseley, M.3    Meyers, B.C.4
  • 58
    • 0033639150 scopus 로고    scopus 로고
    • Statistical methods for detecting molecular adaptation
    • Yang Z, Bielawski JP. 2000. Statistical methods for detecting molecular adaptation. Trends Ecol Evol. 15:496-503.
    • (2000) Trends Ecol Evol , vol.15 , pp. 496-503
    • Yang, Z.1    Bielawski, J.P.2
  • 59
    • 0033979433 scopus 로고    scopus 로고
    • Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models
    • Yang Z, Nielsen R. 2000. Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol Biol Evol. 17:32-43. (Pubitemid 30056990)
    • (2000) Molecular Biology and Evolution , vol.17 , Issue.1 , pp. 32-43
    • Yang, Z.1    Nielsen, R.2
  • 60
    • 39749161509 scopus 로고    scopus 로고
    • Mutation-selection models of codon substitution and their use to estimate selective strengths on codon usage
    • DOI 10.1093/molbev/msm284
    • Yang Z, Nielsen R. 2008. Mutation-selection models of codon substitution and their use to estimate selective strengths on codon usage. Mol Biol Evol. 25:568-579. (Pubitemid 351301912)
    • (2008) Molecular Biology and Evolution , vol.25 , Issue.3 , pp. 568-579
    • Yang, Z.1    Nielsen, R.2
  • 61
    • 79960694944 scopus 로고    scopus 로고
    • STarPicker: A method for efficient prediction of bacterial sRNA targets based on a twostep model for hybridization
    • Ying X, Cao Y, Wu J, Liu Q, Cha L, Li W. 2011. sTarPicker: a method for efficient prediction of bacterial sRNA targets based on a twostep model for hybridization. PLoS One 6:e22705.
    • (2011) PLoS One , vol.6
    • Ying, X.1    Cao, Y.2    Wu, J.3    Liu, Q.4    Cha, L.5    Li, W.6
  • 62
    • 22444437609 scopus 로고    scopus 로고
    • Serum response factor regulates a muscle-specific microRNA that targets Hand2 during cardiogenesis
    • DOI 10.1038/nature03817
    • Zhao Y, Samal E, Srivastava D. 2005. Serum response factor regulates a muscle-specific microRNA that targets Hand2 during cardiogenesis. Nature 436:214-220. (Pubitemid 41021266)
    • (2005) Nature , vol.436 , Issue.7048 , pp. 214-220
    • Zhao, Y.1    Samal, E.2    Srivastava, D.3
  • 63
    • 77954988795 scopus 로고    scopus 로고
    • Detecting positive and purifying selection at synonymous sites in yeast and worm
    • Zhou T, Gu W, Wilke CO. 2010.Detecting positive and purifying selection at synonymous sites in yeast and worm. Mol Biol Evol. 27:1912-1922.
    • (2010) Mol Biol Evol , vol.27 , pp. 1912-1922
    • Zhou, T.1    Gu, W.2    Wilke, C.O.3
  • 64
    • 67649356943 scopus 로고    scopus 로고
    • Translationally optimal codons associate with structurally sensitive sites in proteins
    • Zhou T, Weems M, Wilke CO. 2009. Translationally optimal codons associate with structurally sensitive sites in proteins. Mol Biol Evol. 26:1571-1580.
    • (2009) Mol Biol Evol , vol.26 , pp. 1571-1580
    • Zhou, T.1    Weems, M.2    Wilke, C.O.3


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.