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Hoffmann, R. A wiki for the life sciences where authorship matters. Nature Genetics (2008)
MeSH Review

Genes, rRNA

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Disease relevance of Genes, rRNA


High impact information on Genes, rRNA

  • SIR2 regulates recombination between different rDNA repeats, but not recombination within individual rRNA genes in yeast [6].
  • In exploring the mechanism by which the active or silent state of rRNA genes is inherited, we found that NoRC, a nucleolar remodeling complex containing Snf2h (also called Smarca5, SWI/SNF-related matrix-associated actin-dependent regulator of chromatin, subfamily a, member 5), represses rDNA transcription [7].
  • The results provide a molecular link between RNA polymerase I transcription and transcription-coupled repair of active ribosomal RNA genes [8].
  • Here we report that in cells lacking Suv3p, there is an approximately 50-fold increase in the excised form of the group I intron omega of the mitochondrial 31S rRNA gene [9].
  • The TFIIIB-dependent binding of pol III to the SUP4 tRNA and 5S rRNA genes has been analyzed in binary (protein and DNA only) and precisely arrested ternary (protein, DNA, and RNA) transcription complexes [10].

Chemical compound and disease context of Genes, rRNA

  • The effects of extra, plasmid-borne rRNA genes on the synthesis rate of rRNA in Escherichia coli were examined by measuring the fraction of total RNA synthesis that is rRNA and tRNA (rs/rt), the cytoplasmic concentration of guanosine tetraphosphate (ppGpp), and the absolute rates of RNA and protein synthesis [11].
  • We have identified the nucleotide at which transcription initiates on the yeast mitochondrial small (14 S) rRNA gene by sequencing of RNA labeled at the 5' initiating triphosphate with vaccinia virus guanylyltransferase [alpha-32P]GTP (in vitro capping reaction) [12].
  • Simultaneous colonisation of Helicobacter pylori with and without mutations in the 23S rRNA gene in patients with no history of clarithromycin exposure [13].
  • The stringent response was elicited in the antibiotic producer Streptomyces coelicolor A3(2) either by amino acid depletion (nutritional shiftdown) or by the addition of serine hydroxamate; both led to increased levels of ppGpp and to a reduction in transcription from the four promoters of the rrnD rRNA gene set [14].
  • Regulation of ribosomal RNA gene transcription during retinoic acid-induced differentiation of mouse teratocarcinoma cells [15].

Biological context of Genes, rRNA

  • In both rat and human chromosomes, regions containing amplified ribosomal RNA genes were specifically removed by the restriction endonuclease Msp I [16].
  • An in vitro processing system of mouse rRNA was achieved using an RNA polymerase I-specific transcription system, (S100) and recombinant plasmids consisting of mouse rRNA gene (rDNA) segments containing the transcription initiation and 5'-terminal region of 18S (or 41S) rRNA [17].
  • UBF is a DNA binding protein which interacts with both the promoter and the enhancer of various vertebrate ribosomal RNA genes and functions as a transcription initiation factor for RNA polymerase I (pol I) [18].
  • We propose that expression of the rRNA genes is regulated during mitosis at the level of transcription elongation, similarly to what is known for a number of genes transcribed by pol II [19].
  • These data identify a novel target for ERK, and suggest that its ability to stimulate biosynthetic capacity and growth involves direct transcriptional activation of tRNA and 5S rRNA genes [20].

Anatomical context of Genes, rRNA


Associations of Genes, rRNA with chemical compounds


Gene context of Genes, rRNA


Analytical, diagnostic and therapeutic context of Genes, rRNA


  1. E. coli ribosomes with a C912 to U base change in the 16S rRNA are streptomycin resistant. Montandon, P.E., Wagner, R., Stutz, E. EMBO J. (1986) [Pubmed]
  2. Localization of RNA polymerase I in interphase cells and mitotic chromosomes by light and electron microscopic immunocytochemistry. Scheer, U., Rose, K.M. Proc. Natl. Acad. Sci. U.S.A. (1984) [Pubmed]
  3. Gene expression of an Escherichia coli ribosomal RNA promoter fused to structural genes of the galactose operon. Ota, Y., Kikuchi, A., Cashel, M. Proc. Natl. Acad. Sci. U.S.A. (1979) [Pubmed]
  4. Mutational analysis of simian virus 40 T antigen: stimulation of cellular DNA synthesis and activation of rRNA genes by mutants with deletions in the T-antigen gene. Soprano, K.J., Galanti, N., Jonak, G.J., McKercher, S., Pipas, J.M., Peden, K.W., Baserga, R. Mol. Cell. Biol. (1983) [Pubmed]
  5. Human prostatic carcinoma oncogene PTI-1 is expressed in human tumor cell lines and prostate carcinoma patient blood samples. Sun, Y., Lin, J., Katz, A.E., Fisher, P.B. Cancer Res. (1997) [Pubmed]
  6. SIR2 regulates recombination between different rDNA repeats, but not recombination within individual rRNA genes in yeast. Kobayashi, T., Horiuchi, T., Tongaonkar, P., Vu, L., Nomura, M. Cell (2004) [Pubmed]
  7. The nucleolar remodeling complex NoRC mediates heterochromatin formation and silencing of ribosomal gene transcription. Santoro, R., Li, J., Grummt, I. Nat. Genet. (2002) [Pubmed]
  8. TFIIH plays an essential role in RNA polymerase I transcription. Iben, S., Tschochner, H., Bier, M., Hoogstraten, D., Hozák, P., Egly, J.M., Grummt, I. Cell (2002) [Pubmed]
  9. The DExH box protein Suv3p is a component of a yeast mitochondrial 3'-to-5' exoribonuclease that suppresses group I intron toxicity. Margossian, S.P., Li, H., Zassenhaus, H.P., Butow, R.A. Cell (1996) [Pubmed]
  10. S. cerevisiae TFIIIB is the transcription initiation factor proper of RNA polymerase III, while TFIIIA and TFIIIC are assembly factors. Kassavetis, G.A., Braun, B.R., Nguyen, L.H., Geiduschek, E.P. Cell (1990) [Pubmed]
  11. Control of rRNA synthesis in Escherichia coli at increased rrn gene dosage. Role of guanosine tetraphosphate and ribosome feedback. Baracchini, E., Bremer, H. J. Biol. Chem. (1991) [Pubmed]
  12. Transcriptional initiation and processing of the small ribosomal RNA of yeast mitochondria. Christianson, T., Edwards, J., Levens, D., Locker, J., Rabinowitz, M. J. Biol. Chem. (1982) [Pubmed]
  13. Simultaneous colonisation of Helicobacter pylori with and without mutations in the 23S rRNA gene in patients with no history of clarithromycin exposure. Matsuoka, M., Yoshida, Y., Hayakawa, K., Fukuchi, S., Sugano, K. Gut (1999) [Pubmed]
  14. The stringent response in Streptomyces coelicolor A3(2). Strauch, E., Takano, E., Baylis, H.A., Bibb, M.J. Mol. Microbiol. (1991) [Pubmed]
  15. Regulation of ribosomal RNA gene transcription during retinoic acid-induced differentiation of mouse teratocarcinoma cells. Datta, P.K., Budhiraja, S., Reichel, R.R., Jacob, S.T. Exp. Cell Res. (1997) [Pubmed]
  16. Chromosome localization of highly repetitive human DNA's and amplified ribosomal DNA with restriction enzymes. Miller, D.A., Choi, Y.C., Miller, O.J. Science (1983) [Pubmed]
  17. Coupled transcription and processing of mouse ribosomal RNA in a cell-free system. Mishima, Y., Mitsuma, T., Ogata, K. EMBO J. (1985) [Pubmed]
  18. The nucleolar transcription factor mUBF is phosphorylated by casein kinase II in the C-terminal hyperacidic tail which is essential for transactivation. Voit, R., Schnapp, A., Kuhn, A., Rosenbauer, H., Hirschmann, P., Stunnenberg, H.G., Grummt, I. EMBO J. (1992) [Pubmed]
  19. A possible mechanism for the inhibition of ribosomal RNA gene transcription during mitosis. Weisenberger, D., Scheer, U. J. Cell Biol. (1995) [Pubmed]
  20. The mitogen-activated protein (MAP) kinase ERK induces tRNA synthesis by phosphorylating TFIIIB. Felton-Edkins, Z.A., Fairley, J.A., Graham, E.L., Johnston, I.M., White, R.J., Scott, P.H. EMBO J. (2003) [Pubmed]
  21. Intron within the large rRNA gene of N. crassa mitochondria: a long open reading frame and a consensus sequence possibly important in splicing. Burke, J.M., RajBhandary, U.L. Cell (1982) [Pubmed]
  22. Molecular basis for specific recognition of both RNA and DNA by a zinc finger protein. Clemens, K.R., Wolf, V., McBryant, S.J., Zhang, P., Liao, X., Wright, P.E., Gottesfeld, J.M. Science (1993) [Pubmed]
  23. Temporal order of replication of Xenopus laevis 5S ribosomal RNA genes in somatic cells. Gilbert, D.M. Proc. Natl. Acad. Sci. U.S.A. (1986) [Pubmed]
  24. Genes for tRNAIle and tRNAAla in the spacer between the 16S and 23S rRNA genes of a blue-green alga: strong homology to chloroplast tRNA genes and tRNA genes of the E. coli rrnD gene cluster. Williamson, S.E., Doolittle, W.F. Nucleic Acids Res. (1983) [Pubmed]
  25. Basonuclin is associated with the ribosomal RNA genes on human keratinocyte mitotic chromosomes. Tseng, H., Biegel, J.A., Brown, R.S. J. Cell. Sci. (1999) [Pubmed]
  26. The sequences of the small ribosomal RNA gene and the phenylalanine tRNA gene are joined end to end in human mitochondrial DNA. Crews, S., Attardi, G. Cell (1980) [Pubmed]
  27. Precise localization and nucleotide sequence of the two mouse mitochondrial rRNA genes and three immediately adjacent novel tRNA genes. Van Etten, R.A., Walberg, M.W., Clayton, D.A. Cell (1980) [Pubmed]
  28. The 3' terminus of the large ribosomal subunit ("17S") RNA from hamster mitochondria is ragged and oligoadenylated. Dubin, D.T., Timko, K.D., Baer, R.J. Cell (1981) [Pubmed]
  29. Altered ribosomal RNA genes in mitochondria from mammalian cells with chloramphenicol resistance. Kearsey, S.E., Craig, I.W. Nature (1981) [Pubmed]
  30. Recovery of 16S ribosomal RNA gene fragments from ancient halite. Fish, S.A., Shepherd, T.J., McGenity, T.J., Grant, W.D. Nature (2002) [Pubmed]
  31. Nucleolar transcription factor hUBF contains a DNA-binding motif with homology to HMG proteins. Jantzen, H.M., Admon, A., Bell, S.P., Tjian, R. Nature (1990) [Pubmed]
  32. Transcription of chromosomal rRNA genes by both RNA polymerase I and II in yeast uaf30 mutants lacking the 30 kDa subunit of transcription factor UAF. Siddiqi, I.N., Dodd, J.A., Vu, L., Eliason, K., Oakes, M.L., Keener, J., Moore, R., Young, M.K., Nomura, M. EMBO J. (2001) [Pubmed]
  33. Genes encoding a subunit of respiratory NADH dehydrogenase (ND1) and a reverse transcriptase-like protein (RTL) are linked to ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA. Boer, P.H., Gray, M.W. EMBO J. (1988) [Pubmed]
  34. A temperature-sensitive mutant in the gene rplX for ribosomal protein L24 and its suppression by spontaneous mutations in a 23S rRNA gene of Escherichia coli. Nishi, K., Schnier, J. EMBO J. (1986) [Pubmed]
  35. Role of Histone Deacetylase Rpd3 in Regulating rRNA Gene Transcription and Nucleolar Structure in Yeast. Oakes, M.L., Siddiqi, I., French, S.L., Vu, L., Sato, M., Aris, J.P., Beyer, A.L., Nomura, M. Mol. Cell. Biol. (2006) [Pubmed]
  36. Direct activation of RNA polymerase III transcription by c-Myc. Gomez-Roman, N., Grandori, C., Eisenman, R.N., White, R.J. Nature (2003) [Pubmed]
  37. Drug-induced dispersal of transcribed rRNA genes and transcriptional products: immunolocalization and silver staining of different nucleolar components in rat cells treated with 5,6-dichloro-beta-D-ribofuranosylbenzimidazole. Scheer, U., Hügle, B., Hazan, R., Rose, K.M. J. Cell Biol. (1984) [Pubmed]
  38. Otzi's last meals: DNA analysis of the intestinal content of the Neolithic glacier mummy from the Alps. Rollo, F., Ubaldi, M., Ermini, L., Marota, I. Proc. Natl. Acad. Sci. U.S.A. (2002) [Pubmed]
  39. Human Nopp140, which interacts with RNA polymerase I: implications for rRNA gene transcription and nucleolar structural organization. Chen, H.K., Pai, C.Y., Huang, J.Y., Yeh, N.H. Mol. Cell. Biol. (1999) [Pubmed]
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