An RNA Polymerase Pause Site Is Associated with the Immunoglobulin μs Poly(A) Site

REFERENCES

• Aranda, A., and N. Proudfoot. 1999. Definition of transcriptional pause elements in fission yeast. Mol. Cell. Biol. 19: 1251–1261.
   PubMedGoogle Scholar
• Arhin, G. K., M. Boots, P. S. Bagga, C. Milcarek, and J. Wilusz. 2002. Downstream sequence elements with different affinities for the hnRNP H/H′ protein influence the processing efficiency of mammalian polyadenylation signals. Nucleic Acids Res. 30: 1842–1850.
   PubMed Web of Science ®Google Scholar
• Ashfield, R., P. Enriquez-Harris, and N. J. Proudfoot. 1991. Transcriptional termination between the closely linked complement genes C2 and factor B: common termination factor for C2 and c-myc? EMBO J. 10: 4197–4207.
   PubMedGoogle Scholar
• Ashfield, R., A. J. Patel, S. A. Bossone, H. Brown, R. D. Campbell, K. B. Marcu, and N. J. Proudfoot. 1994. MAZ-dependent termination between closely spaced human complement genes. EMBO J. 13: 5656–5667.
   PubMedGoogle Scholar
• Bagga, P. S., L. P. Ford, F. Chen, and J. Wilusz. 1995. The G-rich auxiliary downstream element has distinct sequence and position requirements and mediates efficient 3′ end pre-mRNA processing through a trans-acting factor. Nucleic Acids Res. 23: 1625–1631.
   PubMed Web of Science ®Google Scholar
• Blattner, F. R., and P. W. Tucker. 1984. The molecular biology of immunoglobulin D. Nature 307: 417–422.
   PubMedGoogle Scholar
• Chao, L. C., A. Jamal, S. J. Kim, L. Huang, and H. G. Martinson. 1999. Assembly of the cleavage and polyadenylation apparatus requires about 10 seconds in vivo and is faster for strong than weak poly(A) sites. Mol. Cell. Biol. 19: 5588–5600.
   PubMedGoogle Scholar
• Chen, F., and J. Wilusz. 1998. Auxiliary downstream elements are required for efficient polyadenylation of mammalian pre-mRNAs. Nucleic Acids Res. 26: 2891–2898.
   PubMedGoogle Scholar
• Conaway, J. W., A. Shilatifard, A. Dvir, and R. C. Conaway. 2000. Control of elongation by RNA polymerase II. Trends Biochem. Sci. 25: 375–380.
   PubMedGoogle Scholar
• Connelly, S., and J. L. Manley. 1989. A CCAAT box sequence in the adenovirus major late promoter functions as part of an RNA polymerase II termination signal. Cell 57: 561–571.
   PubMedGoogle Scholar
• Coyle, J. H., and D. A. Lebman. 2000. Correct immunoglobulin α mRNA processing depends on specific sequence in the Cα3-αM intron. J. Immunol. 164: 3659–3665.
   PubMedGoogle Scholar
• Edwalds-Gilbert, G., and C. Milcarek. 1995. Regulation of poly(A) site use during mouse B-cell development involves a change in the binding of a general polyadenylation factor in a B-cell stage-specific manner. Mol. Cell. Biol. 15: 6420–6429.
   PubMedGoogle Scholar
• Eggermont, J., and N. J. Proudfoot. 1993. Poly(A) signals and transcriptional pause sites combine to prevent interference between RNA polymerase II promoters. EMBO J. 12: 2539–2548.
   PubMed Web of Science ®Google Scholar
• Enriquez-Harris, P., N. Levitt, D. Briggs, and N. J. Proudfoot. 1991. A pause site for RNA polymerase II is associated with termination of transcription. EMBO J. 10: 1833–1842.
   PubMed Web of Science ®Google Scholar
• Eperon, L. P., I. R. Graham, A. D. Griffiths, and I. C. Eperon. 1988. Effects of RNA secondary structure on alternative splicing of pre-mRNA: is folding limited to a region behind the transcribing RNA polymerase? Cell 54: 393–401.
   PubMed Web of Science ®Google Scholar
• Galli, G., J. W. Guise, M. A. McDevitt, P. W. Tucker, and J. R. Nevins. 1987. Relative position and strengths of poly(A) sites as well as transcription termination are critical to membrane versus secreted μ-chain expression during B-cell development. Genes Dev. 1: 471–481.
   PubMedGoogle Scholar
• Grosschedl, R., and D. Baltimore. 1985. Cell-type specificity of immunoglobulin gene expression is regulated by at least three DNA sequence elements. Cell 41: 885–897.
   PubMed Web of Science ®Google Scholar
• Keene, R. G., A. Mueller, R. Landick, and L. London. 1999. Transcriptional pause, arrest and termination sites for RNA polymerase II in mammalian N- and C-myc genes. Nucleic Acids Res. 27: 3173–3182.
   PubMed Web of Science ®Google Scholar
• Kelley, D. E., and R. P. Perry. 1986. Transcriptional and post-transcriptional control of immunoglobulin mRNA production during B lymphocyte development. Nucleic Acids Res. 14: 5431–5447.
   PubMedGoogle Scholar
• Krumm, A., T. Meulia, M. Brunvand, and M. Groudine. 1992. The block to transcriptional elongation within the human c-myc gene is determined in the promoter-proximal region. Genes Dev. 6: 2201–2213.
   PubMed Web of Science ®Google Scholar
• Lassman, C. R., S. Matis, B. L. Hall, D. L. Toppmeyer, and C. Milcarek. 1992. Plasma cell-regulated polyadenylation at the Igγ2b secretion-specific poly(A) site. J. Immunol. 148: 1251–1260.
   PubMedGoogle Scholar
• Lin-Lee, Y. C., S. M. Soyal, A. Surguchov, S. Sanders, W. Strobl, and W. Patsch. 1995. Thyroid hormone influences conditional transcript elongation of the apolipoprotein A-I gene in rat liver. J. Lipid Res. 36: 1586–1594.
   PubMedGoogle Scholar
• Lou, H., G. J. Cote, S. M. Berget, and R. F. Gagel. 1995. An intron enhancer containing a 5′ splice site sequence in the human calcitonin/calcitonin gene-related peptide gene. Mol. Cell. Biol. 15: 7135–7142.
   PubMedGoogle Scholar
• Lou, H., R. F. Gagel, and S. M. Berget. 1996. An intron enhancer recognized by splicing factors activates polyadenylation. Genes Dev. 10: 208–219.
   PubMedGoogle Scholar
• Lou, H., D. M. Helfman, R. F. Gagel, and S. M. Berget. 1999. Polypyrimidine tract-binding protein positively regulates inclusion of an alternative 3′-terminal exon. Mol. Cell. Biol. 19: 78–85.
   PubMedGoogle Scholar
• Palangat, M., and R. Landick. 2001. Roles of RNA:DNA hybrid stability, RNA structure, and active site conformation in pausing by human RNA polymerase. J. Mol. Biol. 311: 265–282.
   PubMedGoogle Scholar
• Palangat, M., T. I. Meier, R. G. Keene, and R. Landick. 1998. Transcriptional pausing at +62 of the HIV-1 nascent RNA modulates formation of the TAR RNA structure. Mol. Cell 1: 1033–1042.
   PubMed Web of Science ®Google Scholar
• Peterson, M. L. 1994. Regulated immunoglobulin (Ig) RNA processing does not require specific cis-acting sequences: non-Ig genes can be alternatively processed in B cells and plasma cells. Mol. Cell. Biol. 14: 7891–7898.
   PubMedGoogle Scholar
• Peterson, M. L. 1994. RNA processing and the expression of immunoglobulin genes, p. 321–342. In E. C. Snow (ed.), Handbook of B and T lymphocytes. Academic Press, San Diego, Calif.
   Google Scholar
• Peterson, M. L., M. B. Bryman, M. Peiter, and C. Cowan. 1994. Exon size affects competition between splicing and cleavage-polyadenylation in the immunoglobulin μ gene. Mol. Cell. Biol. 14: 77–86.
   PubMed Web of Science ®Google Scholar
• Peterson, M. L., and R. P. Perry. 1989. The regulated production of μm and μs mRNA is dependent on the relative efficiencies of μs poly(A) site usage and the Cμ4-to-M1 splice. Mol. Cell. Biol. 9: 726–738.
   PubMedGoogle Scholar
• Peterson, M. L., and R. P. Perry. 1986. Regulated production of μm and μs mRNA requires linkage of the poly(A) addition sites and is dependent on the length of the μs-μm intron. Proc. Natl. Acad. Sci. USA 83: 8883–8887.
   PubMedGoogle Scholar
• Phillips, C., C. B. Kyriakopoulou, and A. Virtanen. 1999. Identification of a stem-loop structure important for polyadenylation at the murine IgM secretory poly(A) site. Nucleic Acids Res. 27: 429–438.
   PubMed Web of Science ®Google Scholar
• Phillips, C., and A. Virtanen. 1997. The murine secretory poly(A) site contains dual upstream and downstream elements which affect polyadenylation. Nucleic Acids Res. 25: 2344–2351.
   PubMedGoogle Scholar
• Price, D. H. 2000. P-TEFb, a cyclin-dependent kinase controlling elongation by RNA polymerase II. Mol. Cell. Biol. 20: 2629–2634.
   PubMed Web of Science ®Google Scholar
• Proudfoot, N. J. 1989. How RNA polymerase II terminates transcription in higher eukaryotes. Trends Biochem. Sci. 14: 105–110.
   PubMed Web of Science ®Google Scholar
• Reines, D., M. J. Chamberlin, and C. M. Kane. 1989. Transcription elongation factor SII (TFIIS) enables RNA polymerase II to elongate through a block to transcription in a human gene in vitro. J. Biol. Chem. 264: 10799–10809.
   PubMed Web of Science ®Google Scholar
• Roberts, G. C., C. Gooding, H. Y. Mak, N. J. Proudfoot, and C. W. J. Smith. 1998. Co-transcriptional commitment to alternative splice site selection. Nucleic Acids Res. 26: 5568–5572.
   PubMed Web of Science ®Google Scholar
• Sarkar, G., and S. S. Sommer. 1990. The “megaprimer” method of site-directed mutagenesis. BioTechniques 8: 404–407.
   PubMed Web of Science ®Google Scholar
• Schibler, U., K. B. Marcu, and R. P. Perry. 1978. The synthesis and processing of the messenger RNAs specifying heavy and light chain immunoglobulins in MPC-11 cells. Cell 15: 1495–1509.
   PubMed Web of Science ®Google Scholar
• Seipelt, R. L., and M. L. Peterson. 1995. Alternative RNA processing of IgA pre-mRNA responds like IgM to alterations in the efficiency of the competing splice and cleavage-polyadenylation reactions. Mol. Immunol. 32: 277–285.
   PubMedGoogle Scholar
• Seipelt, R. L., B. T. Spear, E. C. Snow, and M. L. Peterson. 1998. A nonimmunoglobulin transgene and the endogenous immunoglobulin μ gene are coordinately regulated by alternative RNA processing during B-cell maturation. Mol. Cell. Biol. 18: 1042–1048.
   PubMedGoogle Scholar
• Shilatifard, A. 1998. Factors regulating the transcriptional elongation activity of RNA polymerase II. FASEB J. 12: 1437–1446.
   PubMed Web of Science ®Google Scholar
• Spear, B. T., and S. M. Tilghman. 1990. Role of α-fetoprotein regulatory elements in transcriptional activation in transient heterokaryons. Mol. Cell. Biol. 10: 5047–5054.
   PubMedGoogle Scholar
• Takagaki, Y., R. L. Seipelt, M. L. Peterson, and J. L. Manley. 1996. The polyadenylation factor CstF-64 regulates alternative processing of IgM heavy chain pre-mRNA during B cell differentiation. Cell 87: 941–952.
   PubMed Web of Science ®Google Scholar
• Taylor, A., L. Zhang, J. Herrmann, B. Wu, L. Kedes, and D. Wells. 1997. Cell-cycle-specific transcription termination within the human histone H3.3 gene is correlated with specific protein-DNA interactions. Genet. Res. 69: 101–110.
   PubMedGoogle Scholar
• Tisch, R., N. Kondo, and N. Hozumi. 1990. Parameters that govern the regulation of immunoglobulin δ heavy-chain gene expression. Mol. Cell. Biol. 10: 5340–5348.
   PubMedGoogle Scholar
• Tsurushita, N., and L. J. Korn. 1987. Effects of intron length on differential processing of mouse μ heavy-chain mRNA. Mol. Cell. Biol. 7: 2602–2605.
   PubMedGoogle Scholar
• Uptain, S. M., C. M. Kane, and M. J. Chamberlin. 1997. Basic mechanisms of transcript elongation and its regulation. Annu. Rev. Biochem. 66: 117–172.
   PubMed Web of Science ®Google Scholar
• Veraldi, K. L., G. Arhin, K. Martincic, L.-H. Chung-Ganster, J. Wilusz, and C. Milcarek. 2001. hnRNP F influences binding of a 64-kilodalton subunit of cleavage stimulation factor to mRNA precursors in mouse B cells. Mol. Cell. Biol. 21: 1228–1238.
   PubMedGoogle Scholar
• Yeung, G., L. M. Choi, L. C. Chao, N. J. Park, D. Liu, A. Jamil, and H. G. Martinson. 1998. Poly(A)-driven and poly(A)-assisted termination: two different modes of poly(A)-dependent transcription termination. Mol. Cell. Biol. 18: 276–289.
   PubMedGoogle Scholar
• Yonaha, M., and N. J. Proudfoot. 1999. Specific transcriptional pausing activates polyadenylation in a coupled in vitro system. Mol. Cell 3: 593–600.
   PubMedGoogle Scholar
• Yonaha, M., and N. J. Proudfoot. 2000. Transcriptional termination and coupled polyadenylation in vitro. EMBO J. 19: 3770–3777.
   PubMed Web of Science ®Google Scholar
• Yuan, D., and P. W. Tucker. 1984. Transcriptional regulation of μ-δ heavy chain locus in normal murine B lymphocytes. J. Exp. Med. 160: 564–583.
   PubMedGoogle Scholar
• Yuan, D., and P. L. Witte. 1988. Transcriptional regulation of μ and δ gene expression in bone marrow pre-B and B lymphocytes. J. Immunol. 140: 2808–2814.
   PubMedGoogle Scholar
• Yuan, D., P. L. Witte, J. Tan, J. Hawley, and T. Dang. 1996. Regulation of IgM and IgD heavy chain gene expression. J. Immunol. 157: 2073–2081.
   PubMedGoogle Scholar
• Zhao, J., L. Hyman, and C. Moore. 1999. Formation of mRNA 3′ ends in eukaryotes: mechanism, regulation, and interrelationships with other steps in mRNA synthesis. Microbiol. Mol. Biol. Rev. 63: 405–445.
   PubMed Web of Science ®Google Scholar