| [1] | Darzacq X, Shav-Tal Y, de Turris V, Brody Y, Shenoy SM, et al. (2007) In vivo dynamics of RNA polymerase II transcription. Nat Struct Mol Biol 14: 796–806.
|
| [2] | Krumm A, Hickey LB, Groudine M (1995) Promoter-proximal pausing of RNA polymerase II defines a general rate-limiting step after transcription initiation. Genes Dev 9: 559–572.
|
| [3] | Yamaguchi Y, Takagi T, Wada T, Yano K, Furuya A, et al. (1999) NELF, a multisubunit complex containing RD, cooperates with DSIF to repress RNA polymerase II elongation. Cell 97: 41–51.
|
| [4] | Wade JT, Struhl K (2008) The transition from transcriptional initiation to elongation. Curr Opin Genet Dev 18: 130–136.
|
| [5] | Greger IH, Aranda A, Proudfoot N (2000) Balancing transcriptional interference and initiation on the GAL7 promoter of Saccharomyces cerevisiae. Proc Natl Acad Sci U S A 97: 8415–8420.
|
| [6] | Rougemaille M, Dieppois G, Kisseleva-Romanova E, Gudipati RK, Lemoine S, et al. (2008) THO/Sub2p functions to coordinate 3′-end processing with gene-nuclear pore association. Cell 135: 308–321.
|
| [7] | West S, Proudfoot NJ (2009) Transcriptional termination enhances protein expression in human cells. Mol Cell 33: 354–364.
|
| [8] | Logan J, Falck-Pedersen E, Darnell JE Jr., Shenk T (1987) A poly(A) addition site and a downstream termination region are required for efficient cessation of transcription by RNA polymerase II in the mouse beta maj-globin gene. Proc Natl Acad Sci U S A 84: 8306–8310.
|
| [9] | Connelly S, Manley JL (1988) A functional mRNA polyadenylation signal is required for transcription termination by RNA polymerase II. Genes Dev 2: 440–452.
|
| [10] | Luo W, Johnson AW, Bentley DL (2006) The role of Rat1 in coupling mRNA 3′-end processing to transcription termination: implications for a unified allosteric-torpedo model. Genes Dev 20: 954–965.
|
| [11] | Ahn SH, Kim M, Buratowski S (2004) Phosphorylation of serine 2 within the RNA polymerase II C-terminal domain couples transcription and 3′ end processing. Mol Cell 13: 67–76.
|
| [12] | Marzluff WF Jr. (1978) Transcription of RNA in isolated nuclei. Methods Cell Biol 19: 317–332.
|
| [13] | Greenberg ME, Greene LA, Ziff EB (1985) Nerve growth factor and epidermal growth factor induce rapid transient changes in proto-oncogene transcription in PC12 cells. J Biol Chem 260: 14101–14110.
|
| [14] | West S, Zaret K, Proudfoot NJ (2006) Transcriptional termination sequences in the mouse serum albumin gene. Rna 12: 655–665.
|
| [15] | Grabczyk E, Usdin K (2000) The GAA？TTC triplet repeat expanded in Friedreich's ataxia impedes transcription elongation by T7 RNA polymerase in a length and supercoil dependent manner. Nucleic Acids Res 28: 2815–2822.
|
| [16] | Grabczyk E, Mancuso M, Sammarco MC (2007) A persistent RNA.DNA hybrid formed by transcription of the Friedreich ataxia triplet repeat in live bacteria, and by T7 RNAP in vitro. Nucleic Acids Res 35: 5351–5359.
|
| [17] | Ditlevson JV, Tornaletti S, Belotserkovskii BP, Teijeiro V, Wang G, et al. (2008) Inhibitory effect of a short Z-DNA forming sequence on transcription elongation by T7 RNA polymerase. Nucleic Acids Res 36: 3163–3170.
|
| [18] | Dye MJ, Proudfoot NJ (2001) Multiple transcript cleavage precedes polymerase release in termination by RNA polymerase II. Cell 105: 669–681.
|
| [19] | Gromak N, West S, Proudfoot NJ (2006) Pause sites promote transcriptional termination of mammalian RNA polymerase II. Mol Cell Biol 26: 3986–3996.
|
| [20] | Teixeira A, Tahiri-Alaoui A, West S, Thomas B, Ramadass A, et al. (2004) Autocatalytic RNA cleavage in the human beta-globin pre-mRNA promotes transcription termination. Nature 432: 526–530.
|
| [21] | Kim M, Krogan NJ, Vasiljeva L, Rando OJ, Nedea E, et al. (2004) The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II. Nature 432: 517–522.
|
| [22] | West S, Gromak N, Proudfoot NJ (2004) Human 5′–> 3′ exonuclease Xrn2 promotes transcription termination at co-transcriptional cleavage sites. Nature 432: 522–525.
|
| [23] | Ursic D, Chinchilla K, Finkel JS, Culbertson MR (2004) Multiple protein/protein and protein/RNA interactions suggest roles for yeast DNA/RNA helicase Sen1p in transcription, transcription-coupled DNA repair and RNA processing. Nucleic Acids Res 32: 2441–2452.
|
| [24] | Stevens A (1980) Purification and characterization of a Saccharomyces cerevisiae exoribonuclease which yields 5′-mononucleotides by a 5′ leads to 3′ mode of hydrolysis. J Biol Chem 255: 3080–3085.
|
| [25] | Stevens A, Poole TL (1995) 5′-exonuclease-2 of Saccharomyces cerevisiae. Purification and features of ribonuclease activity with comparison to 5′-exonuclease-1. J Biol Chem 270: 16063–16069.
|
| [26] | Ursic D, Himmel KL, Gurley KA, Webb F, Culbertson MR (1997) The yeast SEN1 gene is required for the processing of diverse RNA classes. Nucleic Acids Res 25: 4778–4785.
|
| [27] | Steinmetz EJ, Warren CL, Kuehner JN, Panbehi B, Ansari AZ, et al. (2006) Genome-wide distribution of yeast RNA polymerase II and its control by Sen1 helicase. Mol Cell 24: 735–746.
|
| [28] | Grabczyk E, Usdin K (1999) Generation of microgram quantities of trinucleotide repeat tracts of defined length, interspersion pattern, and orientation. Analytical Biochemistry 267: 241–243.
|
| [29] | Rozen S, Skaletsky H (2000) Primer3 on the WWW for general users and for biologist programmers. Methods Mol Biol 132: 365–386.
|
| [30] | Sammarco MC, Grabczyk E (2005) A series of bidirectional tetracycline-inducible promoters provides coordinated protein expression. Anal Biochem 346: 210–216.
|
| [31] | Sammarco MC, Ditch S, Banerjee A, Grabczyk E (2008) Ferritin L and H Subunits Are Differentially Regulated on a Post-transcriptional Level. J Biol Chem 283: 4578–4587.
|
| [32] | Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) Method. Methods 25: 402–408.
|
| [33] | Winer J, Jung CK, Shackel I, Williams PM (1999) Development and validation of real-time quantitative reverse transcriptase-polymerase chain reaction for monitoring gene expression in cardiac myocytes in vitro. Anal Biochem 270: 41–49.
|
