How Common Are Extraribosomal Functions of Ribosomal Proteins?
Tài liệu tham khảo
Amsterdam, 2004, Many ribosomal protein genes are cancer genes in zebrafish, PLoS Biol., 2, e139, 10.1371/journal.pbio.0020139
Badis, 2004, Targeted mRNA degradation by deadenylation-independent decapping, Mol. Cell, 15, 5, 10.1016/j.molcel.2004.06.028
Baum, 2004, Asc1p, a WD40-domain containing adaptor protein, is required for the interaction of the RNA-binding protein Scp160p with polysomes, Biochem. J., 380, 823, 10.1042/bj20031962
Bhat, 2004, Essential role of ribosomal protein L11 in mediating growth inhibition-induced p53 activation, EMBO J., 23, 2402, 10.1038/sj.emboj.7600247
Blumenthal, 1979, RNA replication: function and structure of Qbeta-replicase, Annu. Rev. Biochem., 48, 525, 10.1146/annurev.bi.48.070179.002521
Carvalho, C.M., Santos, A.A., Pires, S.R., Rocha, C.S., Saraiva, D.I., Machado, J.P., Mattos, E.C., Fietto, L.G., and Fontes, E.P., (2008). Regulated nuclear trafficking of rpL10A mediated by NIK1 represents a defense strategy of plant cells against virus. PLoS Pathog. 4, e1000247.
Catic, 2005, Ubiquitin—conserved protein or selfish gene?, Trends Biochem. Sci., 30, 600, 10.1016/j.tibs.2005.09.002
Chakraborty, 2009, Loss of ribosomal protein L11 affects zebrafish embryonic development through a p53-dependent apoptotic response, PLoS ONE, 4, e4152, 10.1371/journal.pone.0004152
Chen, 2007, Ribosomal protein S7 as a novel modulator of p53-MDM2 interaction: binding to MDM2, stabilization of p53 protein, and activation of p53 function, Oncogene, 26, 5029, 10.1038/sj.onc.1210327
Colombo, 2002, Nucleophosmin regulates the stability and transcriptional activity of p53, Nat. Cell Biol., 4, 529, 10.1038/ncb814
Coyle, 2009, Direct link between RACK1 function and localization at the ribosome in vivo, Mol. Cell. Biol., 29, 1626, 10.1128/MCB.01718-08
Dai, 2004, Ribosomal protein L23 activates p53 by inhibiting MDM2 function in response to ribosomal perturbation but not to translation inhibition, Mol. Cell. Biol., 24, 7654, 10.1128/MCB.24.17.7654-7668.2004
Dai, 2006, Regulation of the MDM2-p53 pathway by ribosomal protein L11 involves a post-ubiquitination mechanism, J. Biol. Chem., 281, 24304, 10.1074/jbc.M602596200
Dai, 2007, Inhibition of c-Myc activity by ribosomal protein L11, EMBO J., 26, 3332, 10.1038/sj.emboj.7601776
Dai, 2008, Aberrant expression of nucleostemin activates p53 and induces cell cycle arrest via inhibition of MDM2, Mol. Cell. Biol., 28, 4365, 10.1128/MCB.01662-07
Daniely, 2002, Stress-dependent nucleolin mobilization mediated by p53-nucleolin complex formation, Mol. Cell. Biol., 22, 6014, 10.1128/MCB.22.16.6014-6022.2002
Danilova, 2008, Ribosomal protein S19 deficiency in zebrafish leads to developmental abnormalities and defective erythropoiesis through activation of p53 protein family, Blood, 112, 5228, 10.1182/blood-2008-01-132290
Dean, 2008, Pervasive and persistent redundancy among duplicated genes in yeast, PLoS Genet, 4, e1000113, 10.1371/journal.pgen.1000113
Degenhardt, 2008, Arabidopsis ribosomal proteins RPL23aA and RPL23aB are differentially targeted to the nucleolus and are desperately required for normal development, Plant Physiol., 147, 128, 10.1104/pp.107.111799
Dieci, 2009, Positive modulation of RNA polymerase III transcription by ribosomal proteins, Biochem. Biophys. Res. Commun., 379, 489, 10.1016/j.bbrc.2008.12.097
Draptchinskaia, 1999, The gene encoding ribosomal protein S19 is mutated in Diamond-Blackfan anaemia, Nat. Genet., 21, 169, 10.1038/5951
Ebert, 2008, Identification of RPS14 as a 5q- syndrome gene by RNA interference screen, Nature, 451, 335, 10.1038/nature06494
Elkon, 1985, Lupus autoantibodies target ribosomal P proteins, J. Exp. Med., 162, 459, 10.1084/jem.162.2.459
Eng, 1991, Structural basis for the regulation of splicing of a yeast messenger RNA, Cell, 65, 797, 10.1016/0092-8674(91)90387-E
Fatica, 2002, Making ribosomes, Curr. Opin. Cell Biol., 14, 313, 10.1016/S0955-0674(02)00336-8
Fewell, 1999, Ribosomal protein S14 of Saccharomyces cerevisiae regulates its expression by binding to RPS14B pre-mRNA and to 18S rRNA, Mol. Cell. Biol., 19, 826, 10.1128/MCB.19.1.826
Finley, 1989, The tails of ubiquitin precursors are ribosomal proteins whose fusion to ubiquitin facilitates ribosome biogenesis, Nature, 338, 394, 10.1038/338394a0
Fisher, 1990, Homologous ribosomal protein genes on the human X and Y chromosomes: escape from X inactivation and possible implications for Turner syndrome, Cell, 63, 1205, 10.1016/0092-8674(90)90416-C
Fok, 2006, Multiple domains of EBER 1, an Epstein-Barr virus noncoding RNA, recruit human ribosomal protein L22, RNA, 12, 872, 10.1261/rna.2339606
Friedman, 1981, Evidence that ribosomal protein S10 participates in control of transcription termination, Proc. Natl. Acad. Sci. USA, 78, 1115, 10.1073/pnas.78.2.1115
Gaal, 1997, Transcription regulation by initiating NTP concentration: rRNA synthesis in bacteria, Science, 278, 2092, 10.1126/science.278.5346.2092
Gavin, 2002, Functional organization of the yeast proteome by systematic analysis of protein complexes, Nature, 415, 141, 10.1038/415141a
Gazda, 2008, Ribosomal protein L5 and L11 mutations are associated with cleft palate and abnormal thumbs in Diamond-Blackfan anemia patients, Am. J. Hum. Genet., 83, 769, 10.1016/j.ajhg.2008.11.004
Haarer, 2007, Modeling complex genetic interactions in a simple eukaryotic genome: actin displays a rich spectrum of complex haploinsufficiencies, Genes Dev., 21, 148, 10.1101/gad.1477507
Hegde, 2007, Knockdown of ribosomal protein S3 protects human cells from genotoxic stress, DNA Repair (Amst.), 6, 94, 10.1016/j.dnarep.2006.09.004
Hermann-Le, 1994, Suppression of yeast RNA polymerase III mutations by the URP2 gene encoding a protein homologous to the mammalian ribosomal protein S20, J. Mol. Biol., 240, 1, 10.1006/jmbi.1994.1412
Horn, 2008, Cooperation between the ribosomal proteins L5 and L11 in the p53 pathway, Oncogene, 27, 5774, 10.1038/onc.2008.189
Imafuku, 1999, Presenilin 1 suppresses the function of c-Jun homodimers via interaction with QM/Jif-1, J. Cell Biol., 147, 121, 10.1083/jcb.147.1.121
Jin, 2004, Inhibition of HDM2 and activation of p53 by ribosomal protein L23, Mol. Cell. Biol., 24, 7669, 10.1128/MCB.24.17.7669-7680.2004
Kadrmas, 2007, Characterization of RACK1 function in Drosophila development, Dev. Dyn., 236, 2207, 10.1002/dvdy.21217
Kapasi, 2007, L13a blocks 48S assembly: role of a general initiation factor in mRNA-specific translational control, Mol. Cell, 25, 113, 10.1016/j.molcel.2006.11.028
Khanna, 2000, Differential gene expression in apoptosis: identification of ribosomal protein S29 as an apoptotic inducer, Biochem. Biophys. Res. Commun., 277, 476, 10.1006/bbrc.2000.3688
Kim, 1995, Implication of mammalian ribosomal protein S3 in the processing of DNA damage, J. Biol. Chem., 270, 13620, 10.1074/jbc.270.23.13620
Kim, 2009, PKCdelta-dependent functional switch of rpS3 between translation and DNA repair, Biochim. Biophys. Acta, 1793, 395, 10.1016/j.bbamcr.2008.10.017
Kiss, 2007, Are anti-ribosomal P protein antibodies relevant in systemic lupus erythematosus?, Clin. Rev. Allergy Immunol., 32, 37, 10.1007/BF02686080
Kleinschmidt, 2006, The yeast CPC2/ASC1 gene is regulated by the transcription factors Fhl1p and Ifh1p, Curr. Genet., 49, 218, 10.1007/s00294-005-0049-7
Ko, 2008, Human ribosomal protein S3 (hRpS3) interacts with uracil-DNA glycosylase (hUNG) and stimulates its glycosylase activity, Mutat. Res., 648, 54, 10.1016/j.mrfmmm.2008.09.013
Komili, 2007, Genetic interaction screens advance in reverse, Genes Dev., 21, 137, 10.1101/gad.1512707
Kongsuwan, 1985, A Drosophila Minute gene encodes a ribosomal protein, Nature, 317, 555, 10.1038/317555a0
Kuhn, 2002, Archaeal ribosomal protein L7 is a functional homolog of the eukaryotic 15.5kD/Snu13p snoRNP core protein, Nucleic Acids Res., 30, 931, 10.1093/nar/30.4.931
Lam, 2007, Analysis of nucleolar protein dynamics reveals the nuclear degradation of ribosomal proteins, Curr. Biol., 17, 749, 10.1016/j.cub.2007.03.064
Lecompte, 2002, Comparative analysis of ribosomal proteins in complete genomes: an example of reductive evolution at the domain scale, Nucleic Acids Res., 30, 5382, 10.1093/nar/gkf693
Lindstrom, 2009, Emerging functions of ribosomal proteins in gene-specific transcription and translation, Biochem. Biophys. Res. Commun., 379, 167, 10.1016/j.bbrc.2008.12.083
Lindstrom, 2007, Cancer-associated mutations in the MDM2 zinc finger domain disrupt ribosomal protein interaction and attenuate MDM2-induced p53 degradation, Mol. Cell. Biol., 27, 1056, 10.1128/MCB.01307-06
Link, 1999, Direct analysis of protein complexes using mass spectrometry, Nat. Biotechnol., 17, 676, 10.1038/10890
Lohrum, 2003, Regulation of HDM2 activity by the ribosomal protein L11, Cancer Cell, 3, 577, 10.1016/S1535-6108(03)00134-X
Luo, 2008, Structural and functional analysis of the E. coli NusB-S10 transcription antitermination complex, Mol. Cell, 32, 791, 10.1016/j.molcel.2008.10.028
Ma, 2007, Depletion of the nucleolar protein nucleostemin causes G1 cell cycle arrest via the p53 pathway, Mol. Biol. Cell, 18, 2630, 10.1091/mbc.E07-03-0244
MacInnes, 2008, Loss of p53 synthesis in zebrafish tumors with ribosomal protein gene mutations, Proc. Natl. Acad. Sci. USA, 105, 10408, 10.1073/pnas.0805036105
Maicas, 1988, The accumulation of three yeast ribosomal proteins under conditions of excess mRNA is determined primarily by fast protein decay, Mol. Cell. Biol., 8, 169, 10.1128/MCB.8.1.169
Malygin, 2007, Human ribosomal protein S13 regulates expression of its own gene at the splicing step by a feedback mechanism, Nucleic Acids Res., 35, 6414, 10.1093/nar/gkm701
Marechal, 1994, The ribosomal L5 protein is associated with mdm-2 and mdm-2-p53 complexes, Mol. Cell. Biol., 14, 7414, 10.1128/MCB.14.11.7414
Marygold, 2007, The ribosomal protein genes and Minute loci of Drosophila melanogaster, Genome Biol., 8, R216, 10.1186/gb-2007-8-10-r216
Mazumder, 2003, Regulated release of L13a from the 60S ribosomal subunit as a mechanism of transcript-specific translational control, Cell, 115, 187, 10.1016/S0092-8674(03)00773-6
McGowan, 2008, Ribosomal mutations cause p53-mediated dark skin and pleiotropic effects, Nat. Genet., 40, 963, 10.1038/ng.188
McIntosh, 2006, Ribosomal protein gene regulation: What about plants?, Can. J. Bot., 84, 342, 10.1139/b06-014
Mitrovich, 2000, Unproductively spliced ribosomal protein mRNAs are natural targets of mRNA surveillance in C. elegans, Genes Dev., 14, 2173, 10.1101/gad.819900
Mukhopadhyay, 2008, DAPK-ZIPK-L13a axis constitutes a negative-feedback module regulating inflammatory gene expression, Mol. Cell, 32, 371, 10.1016/j.molcel.2008.09.019
Naora, 1998, Altered cellular responses by varying expression of a ribosomal protein gene: Sequential coordination of enhancement and suppression of ribosomal protein S3a gene expression induces apoptosis, J. Cell Biol., 141, 741, 10.1083/jcb.141.3.741
Ni, 2001, A genomic study of the bipolar bud site selection pattern in Saccharomyces cerevisiae, Mol. Biol. Cell, 12, 2147, 10.1091/mbc.12.7.2147
Ni, 2006, Drosophila ribosomal proteins are associated with linker histone H1 and suppress gene transcription, Genes Dev., 20, 1959, 10.1101/gad.390106
Nomura, 1999, Regulation of ribosome biosynthesis in Escherichia coli and Saccharomyces cerevisiae: diversity and common principles, J. Bacteriol., 181, 6857, 10.1128/JB.181.22.6857-6864.1999
Ofir-Rosenfeld, 2008, Mdm2 regulates p53 mRNA translation through inhibitory interactions with ribosomal protein L26, Mol. Cell, 32, 180, 10.1016/j.molcel.2008.08.031
Panic, 2006, Ribosomal protein S6 haploinsufficiency is associated with activation of a p53-dependent checkpoint during gastrulation, Mol. Cell. Biol., 26, 8880, 10.1128/MCB.00751-06
Perry, 2007, Balanced production of ribosomal proteins, Gene, 401, 1, 10.1016/j.gene.2007.07.007
Pestov, 2001, Evidence of p53-dependent cross-talk between ribosome biogenesis and the cell cycle: effects of nucleolar protein Bop1 on G(1)/S transition, Mol. Cell. Biol., 21, 4246, 10.1128/MCB.21.13.4246-4255.2001
Presutti, 1991, The ribosomal protein L2 in S. cerevisiae controls the level of accumulation of its own mRNA, EMBO J., 10, 2215, 10.1002/j.1460-2075.1991.tb07757.x
Ray, 2007, A post-transcriptional pathway represses monocyte VEGF-A expression and angiogenic activity, EMBO J., 26, 3360, 10.1038/sj.emboj.7601774
Ray, 2007, Macromolecular complexes as depots for releasable regulatory proteins, Trends Biochem. Sci., 32, 158, 10.1016/j.tibs.2007.02.003
Roberts, 2008, RNA polymerase elongation factors, Annu. Rev. Microbiol., 62, 211, 10.1146/annurev.micro.61.080706.093422
Rossi, 2007, Deficiencies in DNA damage repair limit the function of haematopoietic stem cells with age, Nature, 447, 725, 10.1038/nature05862
Rubbi, 2003, Disruption of the nucleolus mediates stabilization of p53 in response to DNA damage and other stresses, EMBO J., 22, 6068, 10.1093/emboj/cdg579
Schadt, 2008, Mapping the genetic architecture of gene expression in human liver, PLoS Biol., 6, e107, 10.1371/journal.pbio.0060107
Sengupta, 2004, Identification of the versatile scaffold protein RACK1 on the eukaryotic ribosome by cryo-EM, Nat. Struct. Mol. Biol., 11, 957, 10.1038/nsmb822
Singh, 2009, Regulation of ribonuclease E activity by the L4 ribosomal protein of Escherichia coli, Proc. Natl. Acad. Sci. USA, 106, 864, 10.1073/pnas.0810205106
Squires, 2000, Proteins shared by the transcription and translation machines, Annu. Rev. Microbiol., 54, 775, 10.1146/annurev.micro.54.1.775
Steffen, 2008, Yeast life span extension by depletion of 60s ribosomal subunits is mediated by Gcn4, Cell, 133, 292, 10.1016/j.cell.2008.02.037
Steitz, 1988, A 5S rRNA/L5 complex is a precursor to ribosome assembly in mammalian cells, J. Cell Biol., 106, 545, 10.1083/jcb.106.3.545
Stelzl, 2003, RNA-structural mimicry in Escherichia coli ribosomal protein L4-dependent regulation of the S10 operon, J. Biol. Chem., 278, 28237, 10.1074/jbc.M302651200
Strezoska, 2002, Functional inactivation of the mouse nucleolar protein Bop1 inhibits multiple steps in pre-rRNA processing and blocks cell cycle progression, J. Biol. Chem., 277, 29617, 10.1074/jbc.M204381200
Sun, 2008, Mycophenolic acid activation of p53 requires ribosomal proteins L5 and L11, J. Biol. Chem., 283, 12387, 10.1074/jbc.M801387200
Takagi, 2005, Regulation of p53 translation and induction after DNA damage by ribosomal protein L26 and nucleolin, Cell, 123, 49, 10.1016/j.cell.2005.07.034
Torres, 2001, Ribosomal protein S4 is a transcription factor with properties remarkably similar to NusA, a protein involved in both non-ribosomal and ribosomal RNA antitermination, EMBO J., 20, 3811, 10.1093/emboj/20.14.3811
Sun, 2007, 5-fluorouracil activation of p53 involves an MDM2-ribosomal protein interaction, J. Biol. Chem., 282, 8052, 10.1074/jbc.M610621200
Uechi, 2006, Ribosomal protein gene knockdown causes developmental defects in zebrafish, PLoS ONE, 1, e37, 10.1371/journal.pone.0000037
Uechi, 2008, Deficiency of ribosomal protein S19 during early embryogenesis leads to reduction of erythrocytes in a zebrafish model of Diamond-Blackfan anemia, Hum. Mol. Genet., 17, 3204, 10.1093/hmg/ddn216
Vazquez, 2008, The genetics of the p53 pathway, apoptosis and cancer therapy, Nat. Rev. Drug Discov., 7, 979, 10.1038/nrd2656
Volarevic, 2000, Proliferation, but not growth, blocked by conditional deletion of 40S ribosomal protein S6, Science, 288, 2045, 10.1126/science.288.5473.2045
Wan, 2007, Ribosomal protein S3: a KH domain subunit in NF-kappaB complexes that mediates selective gene regulation, Cell, 131, 927, 10.1016/j.cell.2007.10.009
Wang, 2009, RPS2: a novel therapeutic target in prostate cancer, J. Exp. Clin. Cancer Res., 28, 6, 10.1186/1756-9966-28-6
Wanzel, 2008, A ribosomal protein L23-nucleophosmin circuit coordinates Miz1 function with cell growth, Nat. Cell Biol., 10, 1051, 10.1038/ncb1764
Warner, 1977, In the absence of ribosomal RNA synthesis, the ribosomal proteins of HeLa cells are synthesized normally and degraded rapidly, J. Mol. Biol., 115, 315, 10.1016/0022-2836(77)90157-7
Watson, 1992, Drosophila homolog of the human S6 ribosomal protein is required for tumor suppression in the hematopoietic system, Proc. Natl. Acad. Sci. USA, 89, 11302, 10.1073/pnas.89.23.11302
Weisberg, 2008, Transcription by moonlight: structural basis of an extraribosomal activity of ribosomal protein S10, Mol. Cell, 32, 747, 10.1016/j.molcel.2008.12.010
Wilson, 1994, Drosophila ribosomal protein S3 contains an activity that cleaves DNA at apurinic/apyrimidinic sites, J. Biol. Chem., 269, 25359, 10.1016/S0021-9258(18)47256-0
Wolfe, 1997, Molecular evidence for an ancient duplication of the entire yeast genome, Nature, 387, 708, 10.1038/42711
Wool, 1996, Extraribosomal functions of ribosomal proteins, Trends Biochem. Sci., 21, 164, 10.1016/S0968-0004(96)20011-8
Yadavilli, 2007, Translocation of human ribosomal protein S3 to sites of DNA damage is dependant on ERK-mediated phosphorylation following genotoxic stress, DNA Repair (Amst.), 6, 1453, 10.1016/j.dnarep.2007.04.009
Zengel, 1994, Diverse mechanisms for regulating ribosomal protein synthesis in Escherichia coli, Prog. Nucleic Acid Res. Mol. Biol., 47, 331, 10.1016/S0079-6603(08)60256-1
Zhang, 2003, Ribosomal protein L11 negatively regulates oncoprotein MDM2 and mediates a p53-dependent ribosomal-stress checkpoint pathway, Mol. Cell. Biol., 23, 8902, 10.1128/MCB.23.23.8902-8912.2003
Zhang, 2007, Assembly factors Rpf2 and Rrs1 recruit 5S rRNA and ribosomal proteins rpL5 and rpL11 into nascent ribosomes, Genes Dev., 21, 2580, 10.1101/gad.1569307