Mapping Mutations in Genes Encoding the Two Large Subunits of Drosophila RNA Polymerase II Defines Domains Essential for Basic Transcription Functions and for Proper Expression of Developmental Genes

REFERENCES

• Ahearn, J. M., M. S. Bartolomei, M. L. West, L. J. Cisek, and J. L. Corden. 1987. Cloning and sequence analysis of the mouse genomic locus encoding the largest subunit of RNA polymerase II. J. Biol. Chem. 262:10695–10705.
   PubMedGoogle Scholar
• Allison, L. A., M. Moyle, M. Shales, and C. J. Ingles. 1985. Extensive homology among the largest subunits of eukaryotic and prokaryotic RNA polymerases. Cell 42:599–610.
   PubMed Web of Science ®Google Scholar
• Archambault, J., F. Lacroute, A. Ruet, and J. D. Friesen. 1992. Genetic interaction between transcription elongation factor TFIIS and RNA polymerase II. Mol. Cell. Biol. 12:4142–4152.
   PubMedGoogle Scholar
• Bartholomew, B., M. E. Dahmus, and C. F. Meares. 1986. RNA contacts subunits IIo and IIc in HeLa RNA polymerase II transcription complexes. J. Biol. Chem. 261:14226–14231.
   PubMedGoogle Scholar
• Bartolomei, M. S., and J. L. Corden. 1987. Localization of an α-amanitin resistance mutation in the gene encoding the largest subunit of mouse RNA polymerase II. Mol. Cell. Biol. 7:586–594.
   PubMedGoogle Scholar
• Bird, D. M., and D. L. Riddle. 1989. Molecular cloning and sequencing of ama-1, the gene encoding the largest subunit of Caenorhabditis elegans RNA polymerase II. Mol. Cell. Biol. 9:4119–4130.
   PubMedGoogle Scholar
• Birnboim, H. C. 1983. A rapid alkaline extraction method for the isolation of plasmid DNA. Methods Enzymol. 100:243–255.
   PubMed Web of Science ®Google Scholar
• Borukhov, S., A. Polyakov, V. Nikiforov, and A. Goldfarb. 1992. GreA protein: a transcription elongation factor from Escherichia coli. Proc. Natl. Acad. Sci. USA 89:8899–8902.
   PubMedGoogle Scholar
• Breant, B., J. Huet, A. Sentenac, and P. Fromageot. 1983. Analysis of yeast RNA polymerases with subunit-specific anti-bodies. J. Biol. Chem. 258:11968–11973.
   PubMed Web of Science ®Google Scholar
• Coulter, D. E., and A. L. Greenleaf. 1982. Properties of muta-tionally altered RNA polymerases II of Drosophila. J. Biol. Chem. 257:1945–1952.
   PubMedGoogle Scholar
• Coulter, D. E., and A. L. Greenleaf. 1985. A mutation in the largest subunit of RNA polymerase II alters RNA chain elon-gation in vitro. J. Biol. Chem. 260:13190–13198.
   PubMedGoogle Scholar
• Crerar, M. M., R. Leather, E. David, and M. L. Pearson. 1983. Myogenic differentiation of L6 myoblasts: evidence for pleio-tropic effects on myogenesis by RNA polymerase II mutations to a-amanitin resistance. Mol. Cell. Biol. 3:946–955.
   PubMedGoogle Scholar
• Delcuve, G., W. Downing, H. Lewis, and P. P. Dennis. 1980. Nucleotide sequence of the proximal portion of the RNA polymerase beta subunit gene of Escherichia coli. Gene 11:367–373.
   PubMedGoogle Scholar
• Devereux, J., P. Haeberli, and O. Smithies. 1984. A comprehen-sive set of sequence analysis programs for the VAX. Nucleic Acids Res. 12:387–395.
   PubMed Web of Science ®Google Scholar
• Falkenburg, D., B. Dworniczak, D. M. Faust, and E. K. Bautz. 1987. RNA polymerase II of Drosophila. Relation of its 140,000 Mr subunit to the beta subunit of Escherichia coli RNA polymerase. J. Mol. Biol. 195:929–937.
   Google Scholar
• Greenleaf, A. L., L. M. Borsett, P. F. Jiamachello, and D. E. Coulter. 1979. Alpha-amanitin-resistant D. melanogaster with an altered RNA polymerase II. Cell 18:613–622.
   PubMed Web of Science ®Google Scholar
• Greenleaf, A. L., J. R. Weeks, R. A. Voelker, S. Ohnishi, and B. Dickson. 1980. Genetic and biochemical characterization of mutants at an RNA polymerase II locus in D. melanogaster. Cell 21:785–792.
   PubMedGoogle Scholar
• Gundelfinger, E. D. 1983. Interaction of nucleic acids with the DNA-dependent RNA polymerases of Drosophila. FEBS Lett. 157:133–138.
   PubMed Web of Science ®Google Scholar
• Hamilton, B. J., M. A. Mortin, and A. L. Greenleaf. Genetics, in press.
   Google Scholar
• Hekmatpanah, D. S., and R. A. Young. 1991. Mutations in a conserved region of RNA polymerase II influence the accuracy of mRNA start site selection. Mol. Cell. Biol. 11:5781–5791.
   PubMedGoogle Scholar
• Hirano, T., G. Konoha, T. Toda, and M. Yanagida. 1989. Essential roles of the RNA polymerase I largest subunit and DNA topoisomerases in the formation of fission yeast nucleo-lus. J. Cell Biol. 108:243–253.
   PubMedGoogle Scholar
• James, P., S. Whelen, and B. D. Hall. 1991. The RET1 gene of yeast encodes the second-largest subunit of RNA polymerase. III. Structural analysis of the wild-type and retl-1 mutant alleles. J. Biol. Chem. 266:5616–5624.
   Google Scholar
• Jokerst, R. S., J. R. Weeks, W. A. Zehring, and A. L. Greenleaf. 1989. Analysis of the gene encoding the largest subunit of RNA polymerse II in Drosophila. Mol. Gen. Genet. 215:266–275.
   PubMedGoogle Scholar
• Kontermann, R., S. Sitzler, W. Seifarth, G. Petersen, and E. K. Bautz. 1989. Primary structure and functional aspects of the gene coding for the second-largest subunit of RNA polymerase III of Drosophila. Mol. Gen. Genet. 219:373–380.
   PubMedGoogle Scholar
• Lancy, E. D., C. Moyer, and D. L. Riddle. Personal communi-cation.
   Google Scholar
• Lindsley, D. L., and G. G. Zimm. 1992. The genome of Drosophila melanogaster. Academic Press, San Diego, Calif.
   Google Scholar
• Mitchell, P. J., and R. Tjian. 1989. Transcriptional regulation in mammalian cells by sequence-specific DNA binding proteins. Science 245:371–378.
   PubMed Web of Science ®Google Scholar
• Mortin, M. 1990. Use of second-site suppressor mutations in Drosophila to identify components of the transcriptional machinery. Proc. Natl. Acad. Sci. USA 87:4864–4868.
   PubMedGoogle Scholar
• Mortin, M., R. Zuerner, S. Berger, and B. J. Hamilton. 1992. Mutations in the second-largest subunit of Drosophila RNA polymerase II interact with Ubx. Genetics 131:895–903.
   PubMedGoogle Scholar
• Mortin, M. A. Unpublished data.
   Google Scholar
• Mortin, M. A., W. J. Kim, and J. Huang. 1988. Antagonistic interactions between alleles of the RpII215 locus in Drosophila melanogaster. Genetics 119:863–873.
   PubMedGoogle Scholar
• Mortin, M. A., and G. J. Lefevre. 1981. An RNA polymerase II mutation in Drosophila melanogaster that mimics Ultrabitho-rax. Chromosoma 82:237–247.
   PubMedGoogle Scholar
• Mustaev, A., M. Kashlev, J. Lee, A. Polyakov, A. Lebedev, K. Zalenskaya, M. Grachev, A. Goldfarb, and V. Nikiforov. 1991. Mapping of the priming substrate contacts in the active center of Escherichia coli RNA polymerase. J. Biol. Chem. 266:23927–23931.
   PubMedGoogle Scholar
• Nawrath, C., J. Schell, and C. Koncz. 1990. Homologous domains of the largest subunit of eukaryotic RNA polymerase II are conserved in plants. Mol. Gen. Genet. 223:65–75.
   PubMedGoogle Scholar
• Orita, M., H. Iwahana, H. Kanazawa, K. Hayashi, and T. Sekiya. 1989. Detection of polymorphisms of human DNA by gel electrophoresis as single-strand conformation polymorphisms. Proc. Natl. Acad. Sci. USA 86:2766–2770.
   PubMed Web of Science ®Google Scholar
• Orita, M., Y. Suzuki, T. Sekiya, and K. Hayashi. 1989. Rapid and sensitive detection of point mutations and DNA polymor-phisms using the polymerase chain reaction. Genomics 5:874–879.
   PubMed Web of Science ®Google Scholar
• Ovchinnikov, Y. A., G. S. Monastyrskaya, S. O. Guriev, N. F. Kalinina, E. D. Sverdlov, A. I. Gragerov, I. A. Bass, I. F. Kiver, E. P. Moiseyeva, V. N. Igumnov, S. Z. Mindlin, V. G. Nikiforov, and R. B. Khesin. 1982. The primary structure of E. coli RNA polymerase. Nucleotide sequence of the rpoC gene and amino acid sequence of the β'-subunit. Nucleic Acids Res. 10:4035–4044.
   PubMed Web of Science ®Google Scholar
• Price, D. H., A. E. Sluder, and A. L. Greenleaf. 1987. Fraction-ation of transcription factors for RNA polymerase II from Drosophila Kc cell nuclear extracts. J. Biol. Chem. 262:3244–3255.
   PubMedGoogle Scholar
• Punier, G., F. Lottspeich, and W. Zillig. 1989. Organization and nucleotide sequence of the genes encoding the large subunits A, B and C of the DNA-dependent RNA polymerase of the archaebacterium Sulfolobus acidocaldarius. Nucleic Acids Res. 17:4517–4534.
   PubMedGoogle Scholar
• Reines, D. 1992. Elongation factor-dependent transcript short-ening by template-engaged RNA polymerase II. J. Biol. Chem. 267:3795–3800.
   PubMedGoogle Scholar
• Riva, M., C. Carles, A. Sentenac, M. A. Grachev, A. A. Mustaev, and E. F. Zaychikov. 1990. Mapping the active site of yeast RNA polymerase B (II). J. Biol. Chem. 265:16498–16503.
   PubMedGoogle Scholar
• Riva, M., A. R. Schaffher, A. Sentenac, G. R. Hartmann, A. A. Mustaev, E. F. Zaychikov, and M. A. Grachev. 1987. Active site labeling of the RNA polymerases A, B, and C from yeast. J. Biol. Chem. 262:14377–14380.
   PubMedGoogle Scholar
• Rogalski, T. M., A. M. Bullerjahn, and D. L. Riddle. 1988. Lethal and amanitin-resistance mutations in the Caenorhabditis elegans ama-1 and ama-2 genes. Genetics 120:409–422.
   PubMedGoogle Scholar
• Rossiter, B. J. F., and C. T. Caskey. 1990. Molecular scanning methods of mutation detection. J. Biol. Chem. 265:12753–12756.
   PubMed Web of Science ®Google Scholar
• Ruet, A., A. Sentenac, P. Fromageot, B. Winsor, and F. Lac-route. 1980. A mutation of the B220 subunit gene affects the structural and functional properties of yeast RNA polymerase B in vitro. J. Biol. Chem. 255:6450–6455.
   PubMed Web of Science ®Google Scholar
• Saiki, R. K., D. H. Gelfand, S. Stoffel, S. J. Scharf, R. Higuchi, G. T. Horn, K. B. Mullis, and H. A. Erlich. 1988. Primer-directed enzymatic amplification of DNA with a thermostable DNA polymerase. Science 239:487–491.
   PubMed Web of Science ®Google Scholar
• Saltzman, A. G., and R. Weinmann. 1989. Promoter specificity and modulation of RNA polymerase II transcription. FASEB J. 3:1723–1733.
   PubMedGoogle Scholar
• Sawadogo, M., and A. Sentenac. 1990. RNA polymerase B (II) and general transcription factors. Annu. Rev. Biochem 59:711–754.
   PubMed Web of Science ®Google Scholar
• Scafe, C., C. Martin, M. Nonet, S. Podos, S. Okamura, and R. A. Young. 1990. Conditional mutations occur predominantly in highly conserved residues of RNA polymerase II subunits. Mol. Cell. Biol. 10:1270–1275.
   PubMedGoogle Scholar
• Seifarth, W., G. Petersen, R. Kontermann, M. Riva, J. Huet, and E. K. Bautz. 1991. Identification of the genes coding for the second-largest subunits of RNA polymerases I and III of Drosophila melanogaster. Mol. Gen. Genet. 228:424–432.
   PubMedGoogle Scholar
• Sentenac, A. 1985. Eukaryotic RNA polymerases. CRC Crit. Rev. Biochem. 18:31–90.
   PubMed Web of Science ®Google Scholar
• Shirai, T., and M. Go. 1991. RNase-like domain in DNA-directed RNA polymerase II. Proc. Natl. Acad. Sci. USA 88:9056–9060.
   PubMedGoogle Scholar
• Sitzler, S., I. Oldenburg, G. Petersen, and E. K. Bautz. 1991. Analysis of the promoter region of the housekeeping gene DmRpl40 by sequence comparison of Drosophila melanogaster and Drosophila virilis. Gene 100:155–162.
   PubMedGoogle Scholar
• Sweetser, D., M. Nonet, and R. A. Young. 1987. Prokaryotic and eukaryotic RNA polymerases have homologous core subunits. Proc. Natl. Acad. Sci. USA 84:1192–1196.
   PubMed Web of Science ®Google Scholar
• Thummel, C.. Personal communication.
   Google Scholar
• Treich, I., C. Carles, A. Sentenac, and M. Riva. 1992. Determi-nation of lysine residues affinity labeled in the active site of yeast RNA polymerase 11(B) by mutagenesis. Nucleic Acids Res. 20:4721–4725.
   PubMedGoogle Scholar
• Yano, R., and M. Nomura. 1991. Suppressor analysis of tem-perature-sensitive mutations of the largest subunit of RNA polymerase I in Saccharomyces cerevisiae: a suppressor gene encodes the second-largest subunit of RNA polymerase I. Mol. Cell. Biol. 11:754–764.
   PubMedGoogle Scholar
• Young, R. A. 1991. RNA polymerase II. Annu. Rev. Biochem 60:689–715.
   PubMed Web of Science ®Google Scholar