Bibliography
Brannan, K., Kim, H., Erickson, B., Glover-Cutter, K., Kim, S., Fong, N., Kiemele, L., Hansen, K., Davis, R., Lykke-Andersen, J., & Bentley, D. L. (2012). mRNA Decapping Factors and the Exonuclease Xrn2 Function in Widespread Premature Termination of RNA Polymerase II Transcription. Molecular Cell, 46(3), 311â324.
Authors
11
- Kris Brannan (first)
- Hyunmin Kim (additional)
- Benjamin Erickson (additional)
- Kira Glover-Cutter (additional)
- Soojin Kim (additional)
- Nova Fong (additional)
- Lauren Kiemele (additional)
- Kirk Hansen (additional)
- Richard Davis (additional)
- Jens Lykke-Andersen (additional)
- David L. Bentley (additional)
References
61
Referenced
184
10.1038/nature01181
/ Nature / The RNA processing exosome is linked to elongating RNA polymerase II in Drosophila by Andrulis (2002)10.1371/journal.pone.0006193
/ PLoS ONE / A novel tandem reporter quantifies RNA polymerase II termination in mammalian cells by Banerjee (2009)10.1111/j.2517-6161.1995.tb02031.x
/ J. R. Stat. Soc., B / Controlling the false discovery rate: a practical and powerful approach to multiple testing by Benjamini (1995)10.1038/321702a0
/ Nature / A block to elongation is largely responsible for decreased transcription of c-myc in differentiated HL60 cells by Bentley (1986)10.1101/gad.10.12.1479
/ Genes Dev. / Activator-dependent regulation of transcriptional pausing on nucleosomal templates by Brown (1996)10.1016/j.yexcr.2010.05.036
/ Exp. Cell Res. / Promoter-proximal pausing and its release: molecular mechanisms and physiological functions by Chiba (2010)10.1146/annurev.biochem.73.011303.074032
/ Annu. Rev. Biochem. / Eukaryotic mRNA decapping by Coller (2004)10.1101/gad.2.4.440
/ Genes Dev. / A functional mRNA polyadenylation signal is required for transcription termination by RNA polymerase II by Connelly (1988)10.1126/science.1150843
/ Science / Transcription regulation through promoter-proximal pausing of RNA polymerase II by Core (2008)10.1126/science.1162228
/ Science / Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters by Core (2008)10.1074/jbc.M109.013847
/ J. Biol. Chem. / Torpedo nuclease Rat1 is insufficient to terminate RNA polymerase II in vitro by Dengl (2009)10.1101/gad.463708
/ Genes Dev. / Efficient termination of transcription by RNA polymerase I requires the 5′ exonuclease Rat1 in yeast by El Hage (2008)10.1016/j.molcel.2005.10.031
/ Mol. Cell / Multiple processing body factors and the ARE binding protein TTP activate mRNA decapping by Fenger-Grøn (2005)10.1038/nsmb.1652
/ Nat. Struct. Mol. Biol. / Fast ribozyme cleavage releases transcripts from RNA polymerase II and aborts co-transcriptional pre-mRNA processing by Fong (2009)10.1016/j.molcel.2008.11.001
/ Mol. Cell / The control of mRNA decapping and P-body formation by Franks (2008)10.1128/MCB.6.11.3984
/ Mol. Cell. Biol. / RNA polymerase II interacts with the promoter region of the noninduced hsp70 gene in Drosophila melanogaster cells by Gilmour (1986)10.1038/nsmb.1460
/ Nat. Struct. Mol. Biol. / Phosphorylation of the RNA polymerase II C-terminal domain dictates transcription termination choice by Gudipati (2008)10.1016/0092-8674(82)90102-7
/ Cell / Attenuation in the control of SV40 gene expression by Hay (1982)10.1016/j.molcel.2010.05.004
/ Mol. Cell / Simple combinations of lineage-determining transcription factors prime cis-regulatory elements required for macrophage and B cell identities by Heinz (2010)10.1016/S1097-2765(04)00234-5
/ Mol. Cell / Involvement of transcription termination factor 2 in mitotic repression of transcription elongation by Jiang (2004)10.1038/nature09338
/ Nature / Identification of a quality-control mechanism for mRNA 5′-end capping by Jiao (2010)10.1016/j.molcel.2010.01.019
/ Mol. Cell / The yeast 5′-3′ exonuclease Rat1p functions during transcription elongation by RNA polymerase II by Jimeno-González (2010)10.1038/330489a0
/ Nature / Anti-termination of transcription within the long terminal repeat of HIV-1 by tat gene product by Kao (1987)10.1101/gad.463408
/ Genes Dev. / Budding yeast RNA polymerases I and II employ parallel mechanisms of transcriptional termination by Kawauchi (2008)10.1038/nature03041
/ Nature / The yeast Rat1 exonuclease promotes transcription termination by RNA polymerase II by Kim (2004)10.1073/pnas.1109475108
/ Proc. Natl. Acad. Sci. USA / Pre-mRNA splicing is a determinant of histone H3K36 methylation by Kim (2011)10.1101/gad.2020911
/ Genes Dev. / The multifunctional Ccr4-Not complex directly promotes transcription elongation by Kruk (2011)10.1101/gad.9.5.559
/ Genes Dev. / Promoter-proximal pausing of RNA polymerase II defines a general rate-limiting step after transcription initiation by Krumm (1995)10.1128/MCB.24.21.9646-9657.2004
/ Mol. Cell. Biol. / Nuclear pre-mRNA decapping and 5′ degradation in yeast require the Lsm2-8p complex by Kufel (2004)10.1186/gb-2009-10-3-r25
/ Genome Biol. / Ultrafast and memory-efficient alignment of short DNA sequences to the human genome by Langmead (2009)10.1093/emboj/16.4.760
/ EMBO J. / RNA polymerase I transcription on nucleosomal templates: the transcription termination factor TTF-I induces chromatin remodeling and relieves transcriptional repression by Längst (1997)10.1016/S0006-291X(03)01486-4
/ Biochem. Biophys. Res. Commun. / hLodestar/HuF2 interacts with CDC5L and is involved in pre-mRNA splicing by Leonard (2003)10.1016/j.cell.2011.04.021
/ Cell / Paused RNA polymerase II as a developmental checkpoint by Levine (2011)10.1073/pnas.1332764100
/ Proc. Natl. Acad. Sci. USA / A global transcriptional regulatory role for c-Myc in Burkitt's lymphoma cells by Li (2003)10.1074/jbc.273.40.25541
/ J. Biol. Chem. / A human RNA polymerase II transcription termination factor is a SWI2/SNF2 family member by Liu (1998)10.1101/gad.1409106
/ Genes Dev. / The role of Rat1 in coupling mRNA 3′-end processing to transcription termination: implications for a unified allosteric-torpedo model by Luo (2006)10.1128/MCB.22.23.8114-8121.2002
/ Mol. Cell. Biol. / Identification of a human decapping complex associated with hUpf proteins in nonsense-mediated decay by Lykke-Andersen (2002)10.1016/j.biochi.2007.05.007
/ Biochimie / Overlapping pathways dictate termination of RNA polymerase II transcription by Lykke-Andersen (2007)10.1101/gad.1282305
/ Genes Dev. / Recruitment and activation of mRNA decay enzymes by two ARE-mediated decay activation domains in the proteins TTP and BRF-1 by Lykke-Andersen (2005)10.1101/gad.8.7.855
/ Genes Dev. / Deadenylation of the unstable mRNA encoded by the yeast MFA2 gene leads to decapping followed by 5′—>3′ digestion of the transcript by Muhlrad (1994)10.1038/ng.2007.21
/ Nat. Genet. / RNA polymerase is poised for activation across the genome by Muse (2007)10.1016/j.bbagrm.2010.11.001
/ Biochim Biophys Acta / Pol II waiting in the starting gates: Regulating the transition from transcription initiation into productive elongation by Nechaev (2011)10.1126/science.1181421
/ Science / Global analysis of short RNAs reveals widespread promoter-proximal stalling and arrest of Pol II in Drosophila by Nechaev (2010)10.1093/bioinformatics/btp472
/ Bioinformatics / The Integrated Genome Browser: free software for distribution and exploration of genome-scale datasets by Nicol (2009)10.1046/j.1365-2443.2002.00563.x
/ Genes Cells / Transcription termination and anti-termination in E. coli by Nudler (2002)10.1038/nsmb724
/ Nat. Struct. Mol. Biol. / The enzymes and control of eukaryotic mRNA turnover by Parker (2004)10.1016/j.molcel.2006.06.014
/ Mol. Cell / Controlling the elongation phase of transcription with P-TEFb by Peterlin (2006)10.1126/science.1164096
/ Science / RNA exosome depletion reveals transcription upstream of active human promoters by Preker (2008)10.1128/MCB.24.10.4104-4117.2004
/ Mol. Cell. Biol. / An array of coactivators is required for optimal recruitment of TATA binding protein and RNA polymerase II by promoter-bound Gcn4p by Qiu (2004)10.1016/j.cell.2010.03.030
/ Cell / c-Myc regulates transcriptional pause release by Rahl (2010)10.1101/gad.836300
/ Genes Dev. / Dynamic association of capping enzymes with transcribing RNA polymerase II by Schroeder (2000)10.1126/science.1162253
/ Science / Divergent transcription from active promoters by Seila (2008)10.1016/j.molcel.2010.10.010
/ Mol. Cell / Multiple mRNA decapping enzymes in mammalian cells by Song (2010)10.1038/35095090
/ Nature / RNA-binding protein Nrd1 directs poly(A)-independent 3′-end formation of RNA polymerase II transcripts by Steinmetz (2001)10.1101/gad.3.3.265
/ Genes Dev. / In vitro formation of short RNA polymerase II transcripts that terminate within the HIV-1 and HIV-2 promoter-proximal downstream regions by Toohey (1989)10.1038/nsmb.2091
/ Nat. Struct. Mol. Biol. / Biogenic mechanisms and utilization of small RNAs derived from human protein-coding genes by Valen (2011)10.1038/nsmb.1468
/ Nat. Struct. Mol. Biol. / The Nrd1-Nab3-Sen1 termination complex interacts with the Ser5-phosphorylated RNA polymerase II C-terminal domain by Vasiljeva (2008)10.1073/pnas.192445599
/ Proc. Natl. Acad. Sci. USA / The hDcp2 protein is a mammalian mRNA decapping enzyme by Wang (2002)10.1038/nature03035
/ Nature / Human 5′ —> 3′ exonuclease Xrn2 promotes transcription termination at co-transcriptional cleavage sites by West (2004)10.1128/JB.182.1.1-8.2000
/ J. Bacteriol. / Transcription attenuation: once viewed as a novel regulatory strategy by Yanofsky (2000)10.1038/ng.2007.26
/ Nat. Genet. / RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo by Zeitlinger (2007)
Dates
Type | When |
---|---|
Created | 13 years, 5 months ago (April 5, 2012, 2:35 p.m.) |
Deposited | 1 year, 4 months ago (April 22, 2024, 5:42 p.m.) |
Indexed | 1 month ago (Aug. 6, 2025, 8:50 a.m.) |
Issued | 13 years, 4 months ago (May 1, 2012) |
Published | 13 years, 4 months ago (May 1, 2012) |
Published Print | 13 years, 4 months ago (May 1, 2012) |
@article{Brannan_2012, title={mRNA Decapping Factors and the Exonuclease Xrn2 Function in Widespread Premature Termination of RNA Polymerase II Transcription}, volume={46}, ISSN={1097-2765}, url={http://dx.doi.org/10.1016/j.molcel.2012.03.006}, DOI={10.1016/j.molcel.2012.03.006}, number={3}, journal={Molecular Cell}, publisher={Elsevier BV}, author={Brannan, Kris and Kim, Hyunmin and Erickson, Benjamin and Glover-Cutter, Kira and Kim, Soojin and Fong, Nova and Kiemele, Lauren and Hansen, Kirk and Davis, Richard and Lykke-Andersen, Jens and Bentley, David L.}, year={2012}, month=may, pages={311–324} }