Mechanisms of mRNA export

Perales, 2009, Cotranscriptionality: the transcription elongation complex as a nexus for nuclear transactions, Mol Cell, 36, 178, 10.1016/j.molcel.2009.09.018 Daneholt, 2001, Assembly and transport of a premessenger RNP particle, Proc Natl Acad Sci U S A, 98, 7012, 10.1073/pnas.111145498 Björk, 2011, Nucleocytoplasmic mRNP export is an integral part of mRNP biogenesis, Chromosoma, 120, 23, 10.1007/s00412-010-0298-1 Kaufmann, 2012, Superresolution imaging of transcription units on newt lampbrush chromosomes, Chromosome Res, 20, 1009, 10.1007/s10577-012-9306-z Fakan, 2007, The perichromatin region: a functional compartment in the nucleus that determines large-scale chromatin folding, Semin Cell Dev Biol, 18, 676, 10.1016/j.semcdb.2007.08.010 Kornberg, 2007, The molecular basis of eukaryotic transcription, Proc Natl Acad Sci U S A, 104, 12955, 10.1073/pnas.0704138104 Bentley, 2014, Coupling mRNA processing with transcription in time and space, Nat Rev Genet, 15, 163, 10.1038/nrg3662 Müller-McNicoll, 2013, How cells get the message: dynamic assembly and function of mRNA–protein complexes, Nat Rev Gen, 14, 275, 10.1038/nrg3434 Glisovic, 2008, RNA-binding proteins and post-transcriptional gene regulation, FEBS Lett, 582, 1977, 10.1016/j.febslet.2008.03.004 Björk, 2009, Specific combinations of SR proteins associate with single pre-messenger RNAs in vivo and contribute different function, J Cell Biol, 184, 555, 10.1083/jcb.200806156 Merz, 2007, Protein composition of human mRNPs spliced in vitro and differential requirements for mRNP protein recruitment, RNA, 13, 116, 10.1261/rna.336807 Lai, 2013, On the importance of cotranscriptional RNA structure formation, RNA, 19, 1461, 10.1261/rna.037390.112 Pan, 2006, RNA folding during transcription, Annu Rev Biophys Biomol Struct, 35, 161, 10.1146/annurev.biophys.35.040405.102053 Zhao, 2011, Cotranscriptional folding kinetics of ribonucleic acid secondary structures, J Chem Phys, 135, 245101, 10.1063/1.3671644 Zmaft, 2012, Nascent RNA structure modulates the transcriptional dynamics of RNA polymerases, Proc Natl Acad Sci U S A, 109, 8948, 10.1073/pnas.1205063109 Vargas, 2011, Single-molecule imaging of transcriptionally coupled and uncoupled splicing, Cell, 147, 1054, 10.1016/j.cell.2011.10.024 Egecioglu, 2011, Proofreading and spellchecking: a two-tier strategy for pre-mRNA splicing quality control, RNA, 17, 383, 10.1261/rna.2454711 Lönnroth, 1992, Demonstration of a 7-nm RNP fiber as the basic structural element in a premessenger RNP particle, Exp Cell Res, 199, 292, 10.1016/0014-4827(92)90437-D Batisse, 2009, Purification of nuclear poly(A)-binding protein Nab2 reveals association with the yeast transcriptome and a messenger ribonucleoprotein core structure, J Biol Chem, 284, 34911, 10.1074/jbc.M109.062034 Singh, 2012, The cellular EJC interactome reveals higher-order mRNP structure and an EJC-SR protein nexus, Cell, 151, 750, 10.1016/j.cell.2012.10.007 Mehlin, 1992, Translocation of specific premessenger ribonucleoprotein particle through the nuclear pore studied with electron microscope tomography, Cell, 69, 605, 10.1016/0092-8674(92)90224-Z Mor, 2010, Dynamics of single mRNP nucleocytoplasmic transport and export through the nuclear pore in living cells, Nat Cell Biol, 12, 543, 10.1038/ncb2056 Wetterberg, 2001, In situ transcription and splicing in the Balbiani ring 3 gene, EMBO J, 20, 2564, 10.1093/emboj/20.10.2564 Mayeda, 1992, Regulation of alternative pre-mRNA splicing by hnRNPA1 and splicing factor SF2, Cell, 68, 365, 10.1016/0092-8674(92)90477-T Licatalosi, 2002, Functional interaction of yeast pre-mRNA 3′ end processing factors with RNA polymerase II, Mol Cell, 9, 1101, 10.1016/S1097-2765(02)00518-X Martinson, 2011, An active role for splicing in 3′-end formation, Wiley Interdiscip. Rev. RNA, 2, 459, 10.1002/wrna.68 Baurén, 1998, Transcriptional termination in the Balbiani ring 1 gene is closely coupled to the 3′-end formation and excision of the 3′-terminal intron, Genes Dev, 12, 2759, 10.1101/gad.12.17.2759 Schmid, 2008, Quality control of mRNP in the nucleus, Chromosoma, 117, 419, 10.1007/s00412-008-0166-4 Qu, 2009, Assembly of an export-competent mRNP is needed for efficient release of the 3′-end processing complex after polyadenylation, Mol Cell Biol, 29, 5327, 10.1128/MCB.00468-09 de Almeida, 2010, A link between nuclear RNA surveillance, the human exosome and RNA polymerase II transcription termination, Nucl Acids Res, 38, 8015, 10.1093/nar/gkq703 Singh, 1999, The intranuclear movement of Balbiani ring premessenger ribonucleoprotein particles, Exp Cell Res, 251, 135, 10.1006/excr.1999.4490 Siebrasse, 2008, Discontinous movement of mRNP particles in nucleoplasmic regions devoid of chromatin, Proc Natl Acad Sci U S A, 105, 20291, 10.1073/pnas.0810692105 Veith, 2010, Balbiani ring mRNPs diffuse through and bind to clusters of large intranuclear molecular structures, Biophys J, 99, 2676, 10.1016/j.bpj.2010.08.004 Miralles, 2000, Electron tomography reveals posttranscriptional binding of pre-mRNPs to specific fibers in the nucleoplasm, J Cell Biol, 148, 271, 10.1083/jcb.148.2.271 Schermelleh, 2008, Subdifraction multicolor imaging of the nuclear periphery with 3D structured illumination microscopy, Science, 320, 1332, 10.1126/science.1156947 Rouquette, 2009, Revealing the high-resolution three-dimensional network of chromatin and interchromatin space: a novel electron microscopic approach to reconstructing nuclear architecture, Chromosome Res, 17, 801, 10.1007/s10577-009-9070-x Politz, 1998, Intranuclear diffusion and hybridization state of oligonucleotides measured by fluorescence correlation spectroscopy in living cells, Proc Natl Acad Sci U S A, 95, 6043, 10.1073/pnas.95.11.6043 Visa, 1996, A nuclear cap-binding complex binds Balbiani ring pre-mRNA cotranscriptionally and accompanies the ribonucleoprotein particle during nuclear export, J Cell Biol, 133, 5, 10.1083/jcb.133.1.5 Baurén, 1994, Splicing of Balbiani ring 1 gene pre-mRNA occurs simultaneously with transcription, Cell, 76, 183, 10.1016/0092-8674(94)90182-1 Wetterberg, 1996, The intranuclear site of excision of each intron in Balbiani ring 3 pre-mRNA is influenced by the time remaining to transcription termination and different excision efficiencies for the various introns, RNA, 2, 641 Zhao, 2004, CRM1 and Ran are present but a NES–CRM1–RanGTP complex is not required in Balbiani ring mRNP particles from the gene to the cytoplasm, J Cell Sci, 117, 1553, 10.1242/jcs.00992 Kataoka, 2001, Magoh, a human homolog of Drosophila mago nashi protein, is a component of the splicing-dependent exon–exon junction complex, EMBO J, 20, 6424, 10.1093/emboj/20.22.6424 Johnson, 2009, Cotranscriptional recruitment of the mRNA export factor Yra1 by direct interaction with the 3′ end processing factor Pcf11, Mol Cell, 33, 215, 10.1016/j.molcel.2008.12.007 Cheng, 2006, Human mRNA export machinery recruited to the 5′ end of mRNA, Cell, 127, 1389, 10.1016/j.cell.2006.10.044 Huang, 2001, Splicing factors SRp20 and 9G8 promote the nucleocytoplasmic export of mRNA, Mol Cell, 7, 899, 10.1016/S1097-2765(01)00233-7 Huang, 2003, SR splicing factors serve as adapter proteins for TAP-dependent mRNA export, Mol Cell, 11, 837, 10.1016/S1097-2765(03)00089-3 Teng, 2013, Mapping interactions between mRNA export factors in living cells, PLoS ONE, 8, e67676, 10.1371/journal.pone.0067676 Custódio, 2004, In vivo recruitment of exon junction complex proteins to transcription sites in mammalian cell nuclei, RNA, 10, 622, 10.1261/rna.5258504 Björk P, Persson JO, Wieslander L. Binding of the exon–junction complex and NXF1 to endogenous pre-mRNP/mRNP in vivo, in preparation. Kiesler, 2002, HEL/UAP56 binds cotranscriptionally to the Balbiani ring pre-mRNA in an intron-independent manner and accompanies the BR mRNP to the nuclear pore, Curr Biol, 12, 859, 10.1016/S0960-9822(02)00840-0 Palazzo, 2012, Nuclear export as a key arbiter of mRNA identity in eukaryotes, Biochem Biophys Acta, 1819, 566 Brennan, 2000, Protein ligands to HuR modulate interaction with target mRNAs in vivo, J Cell Biol, 151, 1, 10.1083/jcb.151.1.1 Saavedra, 1996, Regulation of mRNA export in response to stress in Saccharomyces cerevisiae, Genes Dev, 10, 1608, 10.1101/gad.10.13.1608 Beyer, 1981, Correlation of hnRNP structure and nascent transcript cleavage, Cell, 26, 155, 10.1016/0092-8674(81)90299-3 Han, 2011, Pre-mRNA splicing: where and when in the nucleus, Trends Cell Biol, 21, 336, 10.1016/j.tcb.2011.03.003 Brugiolo, 2013, Counting on cotranscriptional splicing, F1000 Prime Rep, 5, 9, 10.12703/P5-9 Vargas, 2011, Single-molecule imaging of transcriptionally coupled and uncoupled splicing, Cell, 147, 1054, 10.1016/j.cell.2011.10.024 Lamond, 2003, Nuclear speckles: a model for nuclear organelles, Nat Rev Mol Cell Biol, 4, 605, 10.1038/nrm1172 Spector, 1991, Associations between distinct pre-mRNA splicing components and the cell nucleus, EMBO J, 10, 3467, 10.1002/j.1460-2075.1991.tb04911.x Fakan, 1984, Ultrastructural distribution of nuclear ribonucleoproteins as visualized by immunocytochemistry on thin sections, J Cell Biol, 98, 358, 10.1083/jcb.98.1.358 Girard, 2012, Post-transcriptional spliceosomes are retained in nuclear speckles until splicing completion, Nat Commun, 3, 1, 10.1038/ncomms1998 Dias, 2010, A role for TREX components in the release of spliced mRNA from nuclear speckle domains, Nat Commun, 1, 97, 10.1038/ncomms1103 Aitchison, 2012, The yeast nuclear pore complex and transport through it, Genetics, 190, 855, 10.1534/genetics.111.127803 Terry, 2009, Flexible gates: dynamic topologies and functions for FG nucleoporins in nucleocytoplasmic transport, Eukaryot Cell, 12, 1814, 10.1128/EC.00225-09 Fahrenkrog, 2003, The nuclear pore complex: nucleocytolasmic transport and beyond, Nat Rev Mol Cell Biol, 4, 757, 10.1038/nrm1230 D’Angelo, 2012, A change in nuclear pore complex composition regulates cell differentiation, Dev Cell, 22, 446, 10.1016/j.devcel.2011.11.021 Galy, 2004, Nuclear retention of unspliced mRNAs in yeast is mediated by perinuclear Mlp1, Cell, 116, 63, 10.1016/S0092-8674(03)01026-2 Siebrasse, 2012, Nuclear export of single native mRNA molecules observed by light sheet fluorescence microscopy, Proc Natl Acad Sci U S A, 109, 9426, 10.1073/pnas.1201781109 Ma, 2013, High-resolution three-dimensional mapping of mRNA export through the nuclear pore, Nat Commun, 4, 2414, 10.1038/ncomms3414 Mehlin, 1995, Structural interaction between the nuclear pore complex and a specific translocating RNP particle, J Cell Biol, 129, 1205, 10.1083/jcb.129.5.1205 Grünwald, 2010, In vivo imaging of labeled endogenous actin mRNA during nucleocytoplasmic transport, Nature, 467, 604, 10.1038/nature09438 Vinciguerra, 2005, Perinuclear Mlp proteins downregulate gene expression in response to a defect in mRNA export, EMBO J, 24, 813, 10.1038/sj.emboj.7600527 Nino, 2013, mRNA nuclear export in yeast, Chem Rev, 113, 8523, 10.1021/cr400002g Strässer, 2000, Yra1p a conserved nuclear RNA-binding protein, interacts directly with Mex67p and is required for mRNA export, EMBO J, 19, 410, 10.1093/emboj/19.3.410 Stutz, 2000, REF, an evolutionary conserved family of hnRNP-like proteins, interacts with TAP/Mex67p and participates in mRNA nuclear export, RNA, 6, 638, 10.1017/S1355838200000078 Sabri, 2000, The Ct-RAE1 protein interacts with Balbiani ring RNP particles at the nuclear pore, RNA, 6, 1597, 10.1017/S1355838200001138 Dieppois, 2010, Connecting the transcription site to the nuclear pore: a multi-tether process that regulates gene expression, J Cell Sci, 123, 1989, 10.1242/jcs.053694 Jani, 2012, Functional and structural characterization of the mammalian TREX-2 complex that links transcription with nuclear messenger RNA export, Nucl Acids Res, 40, 4562, 10.1093/nar/gks059 Umlauf, 2013, The human TREX-2 complex is stably associated with the nuclear pore basket, J Cell Sci, 126, 2656, 10.1242/jcs.118000 Fribourg, 2001, Structural basis for the recognition of a nucleoporin FG repeat by the NTF2-like domain of the TAP/Mex67 mRNA nuclear export factor, Mol Cell, 8, 645, 10.1016/S1097-2765(01)00348-3 Lévesque, 2001, J Biol Chem, 276, 44953, 10.1074/jbc.M106558200 Wiegand, 2002, Formation of TAP/NXT1 heterodimers activates Tap-dependent nuclear mRNA export by enhancing recruitment to nuclear pore complexes, Mol Cell Biol, 22, 245, 10.1128/MCB.22.1.245-256.2002 Siniossoglou, 1996, A novel complex of nucleoporins, which includes Sec13p and Sec13p homolog, is essential for normal nuclear pores, Cell, 84, 265, 10.1016/S0092-8674(00)80981-2 Folkmann, 2011, Dbp5, Gle1-IP6 and Nup159: a working model for mRNA export, Nucleus, 2, 540, 10.4161/nucl.2.6.17881 Powrie, 2011, A nucleoporin Nup60p, affects the nuclear and cytoplasmic localization of ASH1 mRNA in S. cerevisiae, RNA, 17, 134, 10.1261/rna.1210411 Colón-Ramos, 2003, Asymmetric distribution of nuclear pore complexes and the cytoplasmic localization of beta2-tubulin mRNA in Chlamydomonas reinhardtii, Dev. Cell, 4, 941, 10.1016/S1534-5807(03)00163-1 Lee, 2010, Escape of herpesviruses from the nucleus, Rev Med Virol, 20, 214, 10.1002/rmv.643 Speese, 2012, Nuclear envelope budding enables large ribonucleoprotein particle export during synaptic Wnt signaling, Cell, 149, 832, 10.1016/j.cell.2012.03.032