Specialization from synthesis: How ribosome diversity can customize protein function
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[1] V. Ramakrishnan,et al. How mutations in tRNA distant from the anticodon affect the fidelity of decoding , 2010, Nature Structural &Molecular Biology.
[2] Peter G Schultz,et al. An Expanded Eukaryotic Genetic Code , 2003, Science.
[3] Shifeng Xue,et al. Ribosome-Mediated Specificity in Hox mRNA Translation and Vertebrate Tissue Patterning , 2011, Cell.
[4] R. Agrawal,et al. Structural aspects of mitochondrial translational apparatus. , 2012, Current opinion in structural biology.
[5] The structure of the 80S ribosome from Trypanosoma cruzi reveals unique rRNA components. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[6] L. Chavatte,et al. Ribosomal protein L30 is a component of the UGA-selenocysteine recoding machinery in eukaryotes , 2005, Nature Structural &Molecular Biology.
[7] J. Chin,et al. Functional epitopes at the ribosome subunit interface , 2006, Nature chemical biology.
[8] E. Enerly,et al. Silencing the Drosophila ribosomal protein L14 gene using targeted RNA interference causes distinct somatic anomalies. , 2003, Gene.
[9] F. Rodríguez-Valera,et al. Intragenomic 16S rDNA Divergence in Haloarcula marismortui Is an Adaptation to Different Temperatures , 2007, Journal of Molecular Evolution.
[10] Peter G Schultz,et al. An expanded genetic code with a functional quadruplet codon. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[11] A. Böck,et al. Selenocysteine tRNA‐specific elongation factor SelB is a structural chimaera of elongation and initiation factors , 2005, The EMBO journal.
[12] N. Ban,et al. Atomic structures of the eukaryotic ribosome. , 2012, Trends in biochemical sciences.
[13] M. Huynen,et al. C7orf30 specifically associates with the large subunit of the mitochondrial ribosome and is involved in translation , 2012, Nucleic acids research.
[14] Bernd Bukau,et al. The ribosome as a platform for co-translational processing, folding and targeting of newly synthesized proteins , 2009, Nature Structural &Molecular Biology.
[15] I. Moll,et al. An unexpected type of ribosomes induced by kasugamycin: a look into ancestral times of protein synthesis? , 2009, Molecular cell.
[16] S. Carr,et al. A Mitochondrial Protein Compendium Elucidates Complex I Disease Biology , 2008, Cell.
[17] T. Glaser,et al. Ribosomal protein L24 defect in Belly spot and tail (Bst), a mouse Minute , 2004, Development.
[18] M. Ibba,et al. Aminoacyl-tRNA synthesis and translational quality control. , 2009, Annual review of microbiology.
[19] Pohl Milón,et al. Kinetic control of translation initiation in bacteria , 2012, Critical reviews in biochemistry and molecular biology.
[20] H. Wittmann,et al. Biological Sciences: Ribosomal Proteins: Variation of the Protein Composition in Escherichia coli Ribosomes as Function of Growth Rate , 1972, Nature.
[21] E. Salmon,et al. Localization and anchoring of mRNA in budding yeast , 1999, Current Biology.
[22] J. Sengupta,et al. Structural Diversity in Bacterial Ribosomes: Mycobacterial 70S Ribosome Structure Reveals Novel Features , 2012, PloS one.
[23] Jason R. Swedlow,et al. Actin-dependent localization of an RNA encoding a cell-fate determinant in yeast , 1997, Nature.
[24] J. Donovan,et al. Threading the needle: getting selenocysteine into proteins. , 2010, Antioxidants & redox signaling.
[25] Satoru Kobayashi,et al. Presence of mitochondria-type ribosomes outside mitochondria in germ plasm of Drosophila embryos , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[26] Jon R Lorsch,et al. A mechanistic overview of translation initiation in eukaryotes , 2012, Nature Structural &Molecular Biology.
[27] W. Gilbert,et al. Functional specialization of ribosomes? , 2011, Trends in biochemical sciences.
[28] Shifeng Xue,et al. Specialized ribosomes: a new frontier in gene regulation and organismal biology , 2012, Nature Reviews Molecular Cell Biology.
[29] W. Leinfelder,et al. Gene for a novel tRNA species that accepts L-serine and cotranslationally inserts selenocysteine , 1988, Nature.
[30] S. Whelan,et al. A ribosome-specialized translation initiation pathway is required for cap-dependent translation of vesicular stomatitis virus mRNAs , 2012, Proceedings of the National Academy of Sciences.
[31] J. Chin,et al. Evolved orthogonal ribosomes enhance the efficiency of synthetic genetic code expansion , 2007, Nature Biotechnology.
[32] S W Liebman,et al. Chimeric rRNAs containing the GTPase centers of the developmentally regulated ribosomal rRNAs of Plasmodium falciparum are functionally distinct. , 1998, RNA.
[33] J. Whelan,et al. MRPS27 is a pentatricopeptide repeat domain protein required for the translation of mitochondrially encoded proteins , 2012, FEBS letters.
[34] Pamela A. Silver,et al. Functional Specificity among Ribosomal Proteins Regulates Gene Expression , 2007, Cell.
[35] H. Engelberg-Kulka,et al. Escherichia coli MazF Leads to the Simultaneous Selective Synthesis of Both “Death Proteins” and “Survival Proteins” , 2009, PLoS genetics.
[36] N. Nakashima,et al. Eukaryotic ribosomal protein RPS25 interacts with the conserved loop region in a dicistroviral intergenic internal ribosome entry site , 2007, Nucleic acids research.
[37] N. Ban,et al. Structural insights into eukaryotic ribosomes and the initiation of translation. , 2012, Current opinion in structural biology.
[38] M. Byrne. A role for the ribosome in development. , 2009, Trends in plant science.
[39] Dieter Söll,et al. Natural expansion of the genetic code. , 2007, Nature chemical biology.
[40] F. Briani,et al. S1 ribosomal protein and the interplay between translation and mRNA decay , 2011, Nucleic acids research.
[41] P. Klimov,et al. Repeated parallel evolution of minimal rRNAs revealed from detailed comparative analysis. , 2011, The Journal of heredity.
[42] Junjie Zhang,et al. Characterization of the Interactions within the mazEF Addiction Module of Escherichia coli* , 2003, Journal of Biological Chemistry.
[43] Wayne A. Decatur,et al. rRNA modifications and ribosome function. , 2002, Trends in biochemical sciences.
[44] N. Brot,et al. The enzymatic acetylation of E. coli ribosomal protein L 12 . , 1972, Biochemical and biophysical research communications.
[45] S Ramagopal,et al. Induction of cell-specific ribosomal proteins in aggregation-competent nonmorphogenetic Dictyostelium discoideum. , 1990, Biochemistry and cell biology = Biochimie et biologie cellulaire.
[46] Kim Nasmyth,et al. ASH1 mRNA localization in yeast involves multiple secondary structural elementsand Ash1 protein translation , 1999, Current Biology.
[47] G. Edelman,et al. The Ribosome Filter Redux , 2007, Cell cycle.
[48] G. Edelman,et al. Isolation and identification of short nucleotide sequences that affect translation initiation in Saccharomyces cerevisiae , 2003, Proceedings of the National Academy of Sciences of the United States of America.
[49] Michael Ashburner,et al. The ribosomal protein genes and Minute loci of Drosophila melanogaster , 2007, Genome Biology.
[50] A. Böck,et al. The many levels of control on bacterial selenoprotein synthesis. , 2009, Biochimica et biophysica acta.
[51] J. Chin,et al. Cellular logic with orthogonal ribosomes. , 2005, Journal of the American Chemical Society.
[52] D. Weijers,et al. An Arabidopsis Minute-like phenotype caused by a semi-dominant mutation in a RIBOSOMAL PROTEIN S5 gene. , 2001, Development.
[53] C. Vonrhein,et al. Structure of the 30S ribosomal subunit , 2000, Nature.
[54] J. Chin,et al. Synthesizing cellular networks from evolved ribosome-mRNA pairs. , 2006, Biochemical Society transactions.
[55] R. Gourse,et al. rRNA transcription in Escherichia coli. , 2004, Annual review of genetics.
[56] Klaus Schulten,et al. The role of L1 stalk-tRNA interaction in the ribosome elongation cycle. , 2010, Journal of molecular biology.
[57] R. Agrawal,et al. Structure of a mitochondrial ribosome with minimal RNA , 2009, Proceedings of the National Academy of Sciences.
[58] I. Moll,et al. Selective translation during stress in Escherichia coli. , 2012, Trends in biochemical sciences.
[59] P G Schultz,et al. Expanding the Genetic Code of Escherichia coli , 2001, Science.
[60] J. Chin,et al. Expanding the Genetic Code of an Animal , 2011, Journal of the American Chemical Society.
[61] S. Kobayashi,et al. Presence of mitochondrial large ribosomal RNA outside mitochondria in germ plasm of Drosophila melanogaster. , 1993, Science.
[62] N. Ban,et al. Crystal Structure of the Eukaryotic 40S Ribosomal Subunit in Complex with Initiation Factor 1 , 2011, Science.
[63] P. Cunningham,et al. Genetic analysis of the Shine-Dalgarno interaction: selection of alternative functional mRNA-rRNA combinations. , 1996, RNA.
[64] Peter Gustavsson,et al. The gene encoding ribosomal protein S19 is mutated in Diamond-Blackfan anaemia , 1999, Nature Genetics.
[65] M. Farach-Carson,et al. Ribosomal protein L29/HIP deficiency delays osteogenesis and increases fragility of adult bone in mice , 2009, Journal of orthopaedic research : official publication of the Orthopaedic Research Society.
[66] Dieter Söll,et al. From one amino acid to another: tRNA-dependent amino acid biosynthesis , 2008, Nucleic acids research.
[67] O. Uhlenbeck,et al. Specificity of the ribosomal A site for aminoacyl-tRNAs , 2008, Nucleic acids research.
[68] G. Hart,et al. O-GlcNAc Cycling Enzymes Associate with the Translational Machinery and Modify Core Ribosomal Proteins , 2010, Molecular biology of the cell.
[69] Steven J. Marygold,et al. Drosophila Ribosomal Protein Mutants Control Tissue Growth Non-Autonomously via Effects on the Prothoracic Gland and Ecdysone , 2011, PLoS genetics.
[70] V. Gladyshev,et al. Dual functions of codons in the genetic code , 2010, Critical reviews in biochemistry and molecular biology.
[71] J. Kutok,et al. Haploinsufficiency for ribosomal protein genes causes selective activation of p53 in human erythroid progenitor cells. , 2011, Blood.
[72] Gene-Wei Li,et al. The anti-Shine-Dalgarno sequence drives translational pausing and codon choice in bacteria , 2012, Nature.
[73] T. Earnest,et al. Crystal Structure of the Ribosome at 5.5 Å Resolution , 2001, Science.
[74] Sergey V. Melnikov,et al. The structure of the eukaryotic ribosome at 3.0 angstrom resolution. , 2011 .
[75] J. Chin,et al. Expanding the genetic code of Drosophila melanogaster. , 2012, Nature chemical biology.
[76] S. Thompson,et al. RPS25 is essential for translation initiation by the Dicistroviridae and hepatitis C viral IRESs. , 2009, Genes & development.
[77] R. Agrawal,et al. Structure of the Mammalian Mitochondrial Ribosome Reveals an Expanded Functional Role for Its Component Proteins , 2003, Cell.
[78] A. Schambach,et al. Mice with ribosomal protein S19 deficiency develop bone marrow failure and symptoms like patients with Diamond-Blackfan anemia. , 2011, Blood.
[79] I. Brierley,et al. Non-canonical translation in RNA viruses , 2012, The Journal of general virology.
[80] J. Abkowitz,et al. Establishing Rps6 hemizygous mice as a model for studying how ribosomal protein haploinsufficiency impairs erythropoiesis. , 2012, Experimental hematology.
[81] August Böck,et al. Identification of a novel translation factor necessary for the incorporation of selenocysteine into protein , 1989, Nature.
[82] M. Yusupov,et al. One core, two shells: bacterial and eukaryotic ribosomes , 2012, Nature Structural &Molecular Biology.
[83] Steven J. Marygold,et al. Genetic Analysis of RpL38 and RpL5, Two Minute Genes Located in the Centric Heterochromatin of Chromosome 2 of Drosophila melanogaster , 2005, Genetics.
[84] G. Edelman,et al. Differential utilization of upstream AUGs in the beta-secretase mRNA suggests that a shunting mechanism regulates translation. , 2004, Proceedings of the National Academy of Sciences of the United States of America.
[85] Peter G Schultz,et al. Adding new chemistries to the genetic code. , 2010, Annual review of biochemistry.
[86] N. Ban,et al. Crystal Structure of the Eukaryotic 60S Ribosomal Subunit in Complex with Initiation Factor 6 , 2011, Science.
[87] T. Mercer,et al. The human mitochondrial transcriptome and the RNA‐binding proteins that regulate its expression , 2012, Wiley interdisciplinary reviews. RNA.
[88] G. Edelman,et al. The ribosome filter hypothesis , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[89] M. Yusupov,et al. Crystal structure of the 80S yeast ribosome. , 2012, Current opinion in structural biology.
[90] T. Wood,et al. Construction of a specialized‐ribosome vector or cloned‐gene expression in E. coli , 1991, Biotechnology and bioengineering.
[91] T. Burke,et al. An engineered selenocysteine defines a unique class of antibody derivatives , 2008, Proceedings of the National Academy of Sciences.
[92] Role of mitochondrial ribosome-dependent translation in germline formation in Drosophila embryos , 2005, Mechanisms of Development.
[93] R. Horos,et al. Ribosomal deficiencies in Diamond-Blackfan anemia impair translation of transcripts essential for differentiation of murine and human erythroblasts. , 2012, Blood.
[94] R. Lehmann,et al. Germ Versus Soma Decisions: Lessons from Flies and Worms , 2007, Science.
[95] Wei Xu,et al. Impaired Control of IRES-Mediated Translation in X-Linked Dyskeratosis Congenita , 2006, Science.
[96] L. Flohé. The labour pains of biochemical selenology: the history of selenoprotein biosynthesis. , 2009, Biochimica et biophysica acta.
[97] T. McCutchan,et al. Structurally distinct, stage-specific ribosomes occur in Plasmodium. , 1987, Science.
[98] N. Malys,et al. Translation initiation: variations in the mechanism can be anticipated , 2011, Cellular and Molecular Life Sciences.
[99] António Amorim,et al. The human RPS4 paralogue on Yq11.223 encodes a structurally conserved ribosomal protein and is preferentially expressed during spermatogenesis , 2010, BMC Molecular Biology.
[100] Wei Zhang,et al. GTPase activation of elongation factor EF‐Tu by the ribosome during decoding , 2009, The EMBO journal.
[101] M. Berry,et al. Regulation and function of selenoproteins in human disease. , 2009, The Biochemical journal.
[102] C. Robinson,et al. Oxygenase-catalyzed ribosome hydroxylation occurs in prokaryotes and humans. , 2012, Nature chemical biology.
[103] Isabella Moll,et al. Selective Translation of Leaderless mRNAs by Specialized Ribosomes Generated by MazF in Escherichia coli , 2011, Cell.
[104] Hans J C T Wessels,et al. A functional peptidyl-tRNA hydrolase, ICT1, has been recruited into the human mitochondrial ribosome , 2010, The EMBO journal.
[105] M. Whitt,et al. The minimal conserved transcription stop-start signal promotes stable expression of a foreign gene in vesicular stomatitis virus , 1996, Journal of virology.
[106] P. Schultz,et al. Genetic incorporation of unnatural amino acids into proteins in mammalian cells , 2007, Nature Methods.
[107] A. Böck,et al. Escherichia coli genes whose products are involved in selenium metabolism , 1988, Journal of bacteriology.
[108] Jason W. Chin,et al. Designer proteins: applications of genetic code expansion in cell biology , 2012, Nature Reviews Molecular Cell Biology.
[109] G. Dittmar,et al. Cell Cycle–Regulated Modification of the Ribosome by a Variant Multiubiquitin Chain , 2000, Cell.
[110] A. Serganov,et al. Structured mRNAs Regulate Translation Initiation by Binding to the Platform of the Ribosome , 2007, Cell.
[111] L. Spremulli,et al. Mechanism of protein biosynthesis in mammalian mitochondria. , 2012, Biochimica et biophysica acta.
[112] A. Hüttenhofer,et al. Selenocysteine inserting RNA elements modulate GTP hydrolysis of elongation factor SelB. , 1998, Biochemistry.
[113] B. Birren,et al. Proof and evolutionary analysis of ancient genome duplication in the yeast Saccharomyces cerevisiae , 2004, Nature.
[114] V. Ramakrishnan,et al. What recent ribosome structures have revealed about the mechanism of translation , 2009, Nature.
[115] Isabella Moll,et al. Translation initiation with 70S ribosomes: an alternative pathway for leaderless mRNAs. , 2004, Nucleic acids research.
[116] A. Amsterdam,et al. Many ribosomal protein mutations are associated with growth impairment and tumor predisposition in zebrafish , 2009, Developmental dynamics : an official publication of the American Association of Anatomists.
[117] G. King,et al. Direct visualization of disulfide bonds through diselenide proxies using 77Se NMR spectroscopy. , 2009, Angewandte Chemie.
[118] J. Whelan,et al. Pentatricopeptide repeat domain protein 3 associates with the mitochondrial small ribosomal subunit and regulates translation , 2009, FEBS letters.
[119] Jennifer A. Doudna,et al. The Crystal Structure of the Signal Recognition Particle in Complex with Its Receptor , 2011, Science.
[120] J. Chin,et al. Synthesis of orthogonal transcription-translation networks , 2009, Proceedings of the National Academy of Sciences.
[121] Jason W. Chin,et al. Encoding multiple unnatural amino acids via evolution of a quadruplet-decoding ribosome , 2010, Nature.
[122] H. Noller,et al. Reconstitution of functional 50S ribosomes from in vitro transcripts of Bacillus stearothermophilus 23S rRNA. , 1999, Biochemistry.
[123] B. S. Laursen,et al. Initiation of Protein Synthesis in Bacteria , 2005, Microbiology and Molecular Biology Reviews.
[124] D. Bodine,et al. A transgenic mouse model demonstrates a dominant negative effect of a point mutation in the RPS19 gene associated with Diamond-Blackfan anemia. , 2010, Blood.
[125] W. Paik,et al. Methylation of Ribosomal Proteins in Escherichia coli , 1974, Journal of bacteriology.
[126] T. Steitz,et al. The complete atomic structure of the large ribosomal subunit at 2.4 A resolution. , 2000, Science.
[127] D. Söll,et al. Distinct genetic code expansion strategies for selenocysteine and pyrrolysine are reflected in different aminoacyl‐tRNA formation systems , 2010, FEBS letters.
[128] Martijn A. Huynen,et al. Reconstructing the evolution of the mitochondrial ribosomal proteome , 2007, Nucleic acids research.
[129] Koichi Ito,et al. tRNA mimicry in translation termination and beyond , 2011, Wiley interdisciplinary reviews. RNA.
[130] R. Horos,et al. Molecular mechanisms of pathology and treatment in Diamond Blackfan Anaemia , 2012, British journal of haematology.
[131] K. Caban,et al. Selenocysteine Insertion Sequence (SECIS)-binding Protein 2 Alters Conformational Dynamics of Residues Involved in tRNA Accommodation in 80 S Ribosomes* , 2012, The Journal of Biological Chemistry.
[132] O. Rackham,et al. Engineered rRNA enhances the efficiency of selenocysteine incorporation during translation. , 2013, Journal of the American Chemical Society.
[133] A. Rich,et al. Ribosome-catalyzed ester formation. , 1970, Biochemistry.
[134] Aleksandra Filipovska,et al. Building a Parallel Metabolism within the Cell. , 2008, ACS chemical biology.
[135] Sergey Melnikov,et al. The Structure of the Eukaryotic Ribosome at 3.0 Å Resolution , 2011, Science.
[136] T. Blumenthal,et al. Trans‐splicing , 2011, Wiley interdisciplinary reviews. RNA.
[137] H. D. de Boer,et al. Specialized ribosome system: preferential translation of a single mRNA species by a subpopulation of mutated ribosomes in Escherichia coli. , 1987, Proceedings of the National Academy of Sciences of the United States of America.
[138] Elias S. J. Arnér,et al. Selenocysteine in proteins-properties and biotechnological use. , 2005, Biochimica et biophysica acta.
[139] Farren J. Isaacs,et al. RNA synthetic biology , 2006, Nature Biotechnology.
[140] K. Nasmyth,et al. Mating type switching in yeast controlled by asymmetric localization of ASH1 mRNA. , 1997, Science.
[141] H. Jakubowski. Quality control in tRNA charging , 2012, Wiley interdisciplinary reviews. RNA.
[142] J. Hofsteenge,et al. Identification of the 40 S ribosomal protein S6 phosphorylation sites induced by cycloheximide. , 1988, The Journal of biological chemistry.
[143] J. Chin,et al. A network of orthogonal ribosome·mRNA pairs , 2005, Nature chemical biology.
[144] Ira Herskowitz,et al. The Khd1 protein, which has three KH RNA‐binding motifs, is required for proper localization of ASH1 mRNA in yeast , 2002, The EMBO journal.