Michal Skruný, Claudia Schneider, Attila Rácz, Julan Weng, David Tollervey, Ed Hurt
Nuclear mRNA export is a crucial step in eukaryotic gene expression, which is in yeast coupled to cotranscriptional messenger ribonucleoprotein particle (mRNP) assembly and surveillance. Several...
Schneider, Claudia, Leung, Eileen, Brown, Jeremy, Tollervey, David
Nuclear and cytoplasmic forms of the yeast exosome share 10 components, of which only Rrp44/Dis3 is believed to possess 3′ exonuclease activity. We report that expression only of Rrp44 lacking...
Decourty, Laurence, Saveanu, Cosmin, Rappsilber, Juri, Jacquier, Alain, ...
A genome-wide screen for synthetic lethal (SL) interactions with loss of the nuclear exosome cofactors Rrp47/Lrp1 or Air1 identified 3' --> 35' exonucleases, the THO complex required for mRNP...
Modelling yeast pre-rRNA processing (2008)
Federica Ciocchetta, Jane Hillston, Martin Kos, David Tollervey
Abstract. In this paper we present a quantified model concerning the synthesis of pre-rRNAs. The chemical kinetics simulation software Dizzy has been chosen as both the modelling and simulation...
Ciais, Delphine, Bohnsack, Markus T., Tollervey, David
Microarray analyses of mRNAs over-expressed in strains lacking the nuclear exosome component Rrp6 identified the transcript encoding the ARE-binding protein Cth2, which functions in cytoplasmic mRNA...
Leulliot, Nicolas, Bohnsack, Markus T., Graille, Marc, Tollervey, David, Van Tilbeurgh, Herman
Emg1 was previously shown to be required for maturation of the 18S rRNA and biogenesis of the 40S ribosomal subunit. Here we report the determination of the crystal structure of Emg1 at 2 Å...
El Hage, Aziz, Koper, Michal, Kufel, Joanna, Tollervey, David
During transcription termination by RNA polymerase II on protein-coding genes, the nuclear 5′ exonuclease Rat1/Xrn2 degrades the nascent transcript downstream from the polyadenylation site and...
Roles of the HEAT repeat proteins Utp10 and Utp20 in 40S ribosome maturation (2007)
Dez, Christophe, Dlakic, Mensur, Tollervey, David
A family of HEAT-repeat containing ribosome synthesis factors was previously identified in Saccharomyces cerevisiae. We report the detailed characterization of two of these factors, Utp10 and Utp20,...
Oeffinger, Marlene, Fatica, Alessandro, Rout, Michael P., Tollervey, David
Here we report that Rrp14p/Ykl082p is associated with pre-60S particles and to a lesser extent with earlier 90S pre-ribosomes. Depletion of Rrp14p inhibited pre-rRNA synthesis on both the 40S and 60S...
Thomson, Emma, Rappsilber, Juri, Tollervey, David
Proteomic analyses in yeast have identified a large number of proteins that are associated with preribosomal particles. However, the product of the yeast ORF YJL010C, herein designated as Nop9,...
Oeffinger, Marlene, Fatica, Alessandro, Rout, Michael P., Tollervey, David
Here we report that Rrp14p/Ykl082p is associated with pre-60S particles and to a lesser extent with earlier 90S pre-ribosomes. Depletion of Rrp14p inhibited pre-rRNA synthesis on both the 40S and 60S...
FLIPing heterokaryons to analyze nucleo-cytoplasmic shuttling of yeast proteins (2006)
Belaya, Katsiaryna, Tollervey, David, Kos, Martin
Nucleo-cytoplasmic shuttling is an important feature of proteins involved in nuclear export/import of RNAs, proteins, and also large ribonucleoprotein complexes such as ribosomes. The vast amount of...
FLIPing heterokaryons to analyze nucleo-cytoplasmic shuttling of yeast proteins (2006)
Belaya, Katsiaryna, Tollervey, David, Kos, Martin
Nucleo-cytoplasmic shuttling is an important feature of proteins involved in nuclear export/import of RNAs, proteins, and also large ribonucleoprotein complexes such as ribosomes. The vast amount of...
FLIPing heterokaryons to analyze nucleo-cytoplasmic shuttling of yeast proteins (2006)
Belaya, Katsiaryna, Tollervey, David, Kos, Martin
Nucleo-cytoplasmic shuttling is an important feature of proteins involved in nuclear export/import of RNAs, proteins, and also large ribonucleoprotein complexes such as ribosomes. The vast amount of...
Nop53p is required for late 60S ribosome subunit maturation and nuclear export in yeast (2005)
THOMSON, EMMA, TOLLERVEY, DAVID
We report that Ypl146cp/Nop53p is associated with pre-60S ribosomal complexes and localized to the nucleolus and nucleoplasm. In cells depleted of Nop53p synthesis of the rRNA components of the 60S...
Oeffinger, Marlene, Dlakic, Mensur, Tollervey, David
Rrp12p (Ypl012w) is unusual among characterized ribosome synthesis factors in being associated with late precursors to both the 40S and 60S subunits. Rrp12p is predominately nuclear with nucleolar...
PIN domain of Nob1p is required for D-site cleavage in 20S pre-rRNA (2004)
FATICA, ALESSANDRO, TOLLERVEY, DAVID, DLAKIC, MENSUR
Nob1p (Yor056c) is essential for processing of the 20S pre-rRNA to the mature 18S rRNA. It is part of a pre-40S ribosomal particle that is transported to the cytoplasm and subsequently cleaved at the...
Oeffinger, Marlene, Dlakic, Mensur, Tollervey, David
Rrp12p (Ypl012w) is unusual among characterized ribosome synthesis factors in being associated with late precursors to both the 40S and 60S subunits. Rrp12p is predominately nuclear with nucleolar...
Malys, Naglis, Carroll, Kathleen, Miyan, Jaleel, Tollervey, David, McCarthy, John E. G.
Dcs1, the m7GpppX pyrophosphatase of Saccharomyces cerevisiae, has been reported to ‘scavenge’ capped 5′ end fragments generated by 3′→5′ mRNA degradation. We now show that the absence of...
PIN domain of Nob1p is required for D-site cleavage in 20S pre-rRNA (2004)
FATICA, ALESSANDRO, TOLLERVEY, DAVID, DLAKIC, MENSUR
Nob1p (Yor056c) is essential for processing of the 20S pre-rRNA to the mature 18S rRNA. It is part of a pre-40S ribosomal particle that is transported to the cytoplasm and subsequently cleaved at the...
Oeffinger, Marlene, Dlakic, Mensur, Tollervey, David
Rrp12p (Ypl012w) is unusual among characterized ribosome synthesis factors in being associated with late precursors to both the 40S and 60S subunits. Rrp12p is predominately nuclear with nucleolar...
3'-processing of yeast tRNATrp precedes 5'-processing (2003)
KUFEL, JOANNA, TOLLERVEY, DAVID
Previous analyses of eukaryotic pre-tRNAs processing have reported that 5′-cleavage by RNase P precedes 3′-maturation. Here we report that in contrast to all other yeast tRNAs analyzed to date,...
A complex pathway for 3' processing of the yeast U3 snoRNA (2003)
Kufel, Joanna, Allmang, Christine, Verdone, Loredana, Beggs, Jean, Tollervey, David
Mature U3 snoRNA in yeast is generated from the 3′‐extended precursors by endonucleolytic cleavage followed by exonucleolytic trimming. These precursors terminate in poly(U) tracts and are...
The function and synthesis of Ribosomes (2001)
Lafontaine, Denis LJ, Tollervey, David
Structural analyses of the large and small ribosomal subunits have allowed us to think about how they work in more detail than ever before. The mechanisms that underlie ribosomal synthesis,...
The function and synthesis of Ribosomes (2001)
Lafontaine, Denis LJ, Tollervey, David
Structural analyses of the large and small ribosomal subunits have allowed us to think about how they work in more detail than ever before. The mechanisms that underlie ribosomal synthesis,...
Musing on the structural organization of the exosome complex (2000)
Mitchell, Philip, Tollervey, David
The exosome complex of 3′→5′ exoribonucleases functions in both the precise processing of 3′ extended precursor molecules to mature stable RNAs and the complete degradation of other RNAs....
Musing on the structural organization of the exosome complex (2000)
Mitchell, Philip, Tollervey, David
The exosome complex of 3′→5′ exoribonucleases functions in both the precise processing of 3′ extended precursor molecules to mature stable RNAs and the complete degradation of other RNAs....
Degradation of ribosomal RNA precursors by the exosome (2000)
Allmang, Christine, Mitchell, Philip, Petfalski, Elisabeth, Tollervey, David
The yeast exosome is a complex of 3′→5′ exonucleases involved in RNA processing and degradation. All 11 known components of the exosome are required during 3′ end processing of the 5.8S rRNA....
The yeast exosome and human PM-Scl are related complexes of 3' right-arrow 5' exonucleases (1999)
Allmang, Christine, Petfalski, Elisabeth, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David, Mitchell, Philip
The box H+ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase (1998)
Lafontaine, Denis L.J., Bousquet-Antonelli, Cécile, Henry, Yves, Caizergues-Ferrer, Michèle, Tollervey, David
Beltrame, Monica, Henry, Yves, Tollervey, David
The small nucleolar RNA U3 is essential for viability in yeast. We have previously shown that U3 can be crosslinked in vivo to the pre-rRNA in the 5' external transcribed spacer (ETS), at +470. This...
Identification and functional analysis of a novel yeast small nucleolar RNA (1993)
Dandekar, Thomas, Tollervey, David
snR31 is a RNA species of 225 nt. which has the trimethyl guanosine cap structure typical of small nuclear RNAs (snRNAs) and yeast small nucleolar RNAs (snoRNAs), and is associated with the nucleolar...
Wood, Heather, Luirink, Joen, Tollervey, David
E.coli 4.5S RNA is homologous to domain IV of eukaryotic SRP7S RNA, the RNA component of the signal recognition particle. The 4.5S RNA is associated in vivo with a 48kD protein (P48), which is...
Tollervey, David, Tessars, Gabriela, Lührmann, Reinhard
The large number of snRNAs in the fission yeast Schizosaccharomyces pombe can be divided into four non-ovetlapping groups by immunoprecipitation with antibodies directed against mammalian snRNP...
Sharma, Kishor, Tollervey, David
The loop of a stem structure close to the 5′ end of the 18S rRNA is complementary to the box A region of the U3 small nucleolar RNA (snoRNA). Substitution of the 18S loop nucleotides inhibited...
Genetic and Physical Interactions Involving the Yeast Nuclear Cap-Binding Complex
Fortes, Puri, Kufel, Joanna, Fornerod, Maarten, Polycarpou-Schwarz, Maria, Lafontaine, Denis, Tollervey, David, ...
Yeast strains lacking the yeast nuclear cap-binding complex (yCBC) are viable, although impaired in growth. We have taken advantage of this observation to carry out a genetic screen for components...
Synthesis and Assembly of the Box C+D Small Nucleolar RNPs
Lafontaine, Denis L. J., Tollervey, David
Two core small nucleolar RNP (snoRNP) proteins, Nop1p (fibrillarin in vertebrates) and Nop58p (also known as Nop5p) have previously been reported to be specifically associated with the box C+D class...
Kufel, Joanna, Allmang, Christine, Chanfreau, Guillaume, Petfalski, Elisabeth, Lafontaine, Denis L. J., Tollervey, David
Almost all small eukaryotic RNAs are processed from transiently stabilized 3′-extended forms. A key question is how and why such intermediates are stabilized and how they can then be processed to...
Dhr1p, a Putative DEAH-Box RNA Helicase, Is Associated with the Box C+D snoRNP U3
Colley, Alan, Beggs, Jean D., Tollervey, David, Lafontaine, Denis L. J.
Putative RNA helicases are involved in most aspects of gene expression. All previously characterized members of the DEAH-box family of putative RNA helicases are involved in pre-mRNA splicing. Here...
Gadal, Olivier, Strauß, Daniela, Kessl, Jacques, Trumpower, Bernard, Tollervey, David, Hurt, Ed
Nuclear export of ribosomes requires a subset of nucleoporins and the Ran system, but specific transport factors have not been identified. Using a large subunit reporter (Rpl25p-eGFP), we have...
Degradation of ribosomal RNA precursors by the exosome
Allmang, Christine, Mitchell, Philip, Petfalski, Elisabeth, Tollervey, David
The yeast exosome is a complex of 3′→5′ exonucleases involved in RNA processing and degradation. All 11 known components of the exosome are required during 3′ end processing of the 5.8S rRNA....
Processing of the Precursors to Small Nucleolar RNAs and rRNAs Requires Common Components
Petfalski, Elisabeth, Dandekar, Thomas, Henry, Yves, Tollervey, David
The genes encoding the small nucleolar RNA (snoRNA) species snR190 and U14 are located close together in the genome of Saccharomyces cerevisiae. Here we report that these two snoRNAs are synthesized...
Yeast 18S rRNA Dimethylase Dim1p: a Quality Control Mechanism in Ribosome Synthesis?
Lafontaine, Denis L. J., Preiss, Thomas, Tollervey, David
One of the few rRNA modifications conserved between bacteria and eukaryotes is the base dimethylation present at the 3′ end of the small subunit rRNA. In the yeast Saccharomyces cerevisiae, this...
Verheggen, Céline, Mouaikel, John, Thiry, Marc, Blanchard, Jean-Marie, Tollervey, David, Bordonné, Remi, ...
Nucleolar localization of box C/D small nucleolar (sno) RNAs requires the box C/D motif and, in vertebrates, involves transit through Cajal bodies (CB). We report that in yeast, overexpression of a...
Gadal, Olivier, Strauß, Daniela, Braspenning, Joris, Hoepfner, Dominic, Petfalski, Elisabeth, Philippsen, Peter, ...
Ribosomal precursor particles are assembled in the nucleolus before export into the cytoplasm. Using a visual assay for nuclear accumulation of 60S subunits, we have isolated several...
60S pre-ribosome formation viewed from assembly in the nucleolus until export to the cytoplasm
Nissan, Tracy A., Baßler, Jochen, Petfalski, Elisabeth, Tollervey, David, Hurt, Ed
60S ribosomes undergo initial assembly in the nucleolus before export to the cytoplasm and recent analyses have identified several nucleolar pre-60S particles. To unravel the steps in the pathway of...
Kufel, Joanna, Allmang, Christine, Verdone, Loredana, Beggs, Jean D., Tollervey, David
Depletion of any of the five essential proteins Lsm2p to Lsm5p and Lsm8p leads to strong accumulation of all tested unspliced pre-tRNA species, as well as accumulation of 5′ and 3′ unprocessed...
The path from nucleolar 90S to cytoplasmic 40S pre-ribosomes
Schäfer, Thorsten, Strauß, Daniela, Petfalski, Elisabeth, Tollervey, David, Hurt, Ed
Recent reports have increased our knowledge of the consecutive steps during 60S ribosome biogenesis substantially, but 40S subunit formation is less well understood. Here, we investigate the...
Nob1p Is Required for Cleavage of the 3′ End of 18S rRNA
Fatica, Alessandro, Oeffinger, Marlene, Dlakić, Mensur, Tollervey, David
We report the characterization of a novel factor, Nob1p (Yor056c), which is essential for the synthesis of 40S ribosome subunits. Genetic depletion of Nob1p strongly inhibits the processing of the...
Rrp47p Is an Exosome-Associated Protein Required for the 3′ Processing of Stable RNAs
Mitchell, Philip, Petfalski, Elisabeth, Houalla, Rym, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David
Related exosome complexes of 3′→5′ exonucleases are present in the nucleus and the cytoplasm. Purification of exosome complexes from whole-cell lysates identified a Mg2+-labile factor present...
Newton, Kathryn, Petfalski, Elisabeth, Tollervey, David, Cáceres, Javier F.
Fibrillarin, a protein component of C/D box small nucleolar ribonucleoproteins (snoRNPs), directs 2′-O-methylation of rRNA and is also involved in other aspects of rRNA processing. A gene trap...
A complex pathway for 3′ processing of the yeast U3 snoRNA
Kufel, Joanna, Allmang, Christine, Verdone, Loredana, Beggs, Jean, Tollervey, David
Mature U3 snoRNA in yeast is generated from the 3′-extended precursors by endonucleolytic cleavage followed by exonucleolytic trimming. These precursors terminate in poly(U) tracts and are normally...
Yeast Nop15p is an RNA-binding protein required for pre-rRNA processing and cytokinesis
Oeffinger, Marlene, Tollervey, David
Nop15p is an essential protein that contains an RNA recognition motif (RRM) and localizes to the nucleoplasm and nucleolus. Cells depleted of Nop15p failed to synthesize the 25S and 5.8S rRNA...
The box H+ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase
Lafontaine, Denis L.J., Bousquet-Antonelli, Cécile, Henry, Yves, Caizergues-Ferrer, Michèle, Tollervey, David
Many or all of the sites of pseudouridine (Ψ) formation in eukaryotic rRNA are selected by site-specific base-pairing with members of the box H + ACA class of small nucleolar RNAs (snoRNAs)....
The yeast exosome and human PM–Scl are related complexes of 3′ → 5′ exonucleases
Allmang, Christine, Petfalski, Elisabeth, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David, Mitchell, Philip
We previously identified a complex of 3′ → 5′ exoribonucleases, designated the exosome, that is expected to play a major role in diverse RNA processing and degradation pathways. Further...
A pre-ribosome-associated HEAT-repeat protein is required for export of both ribosomal subunits
Oeffinger, Marlene, Dlakić, Mensur, Tollervey, David
Rrp12p (Ypl012w) is unusual among characterized ribosome synthesis factors in being associated with late precursors to both the 40S and 60S subunits. Rrp12p is predominately nuclear with nucleolar...
7SL RNA from Schizosaccharomyces pombe is encoded by a single copy essential gene
Ribes, Véronique, Dehoux, Pierre, Tollervey, David
We have identified an abundant ribonucleoprotein particle from Schizosaccharomyces pombe with properties related to those of the vertebrate signal recognition particle (SRP), including cytoplasmic...
Malys, Naglis, Carroll, Kathleen, Miyan, Jaleel, Tollervey, David, McCarthy, John E. G.
Dcs1, the m7GpppX pyrophosphatase of Saccharomyces cerevisiae, has been reported to ‘scavenge’ capped 5′ end fragments generated by 3′→5′ mRNA degradation. We now show that the absence of...
Nuclear Pre-mRNA Decapping and 5′ Degradation in Yeast Require the Lsm2-8p Complex
Kufel, Joanna, Bousquet-Antonelli, Cecile, Beggs, Jean D., Tollervey, David
Previous analyses have identified related cytoplasmic Lsm1-7p and nuclear Lsm2-8p complexes. Here we report that mature heat shock and MET mRNAs that are trapped in the nucleus due to a block in mRNA...
Functional link between ribosome formation and biogenesis of iron–sulfur proteins
Yarunin, Alexander, Panse, Vikram Govind, Petfalski, Elisabeth, Dez, Christophe, Tollervey, David, Hurt, Ed
In genetic screens for ribosomal export mutants, we identified CFD1, NBP35 and NAR1 as factors involved in ribosome biogenesis. Notably, these components were recently reported to function in...
A Nuclear Surveillance Pathway for mRNAs with Defective Polyadenylation¶
Milligan, Laura, Torchet, Claire, Allmang, Christine, Shipman, Tracey, Tollervey, David
The pap1-5 mutation in poly(A) polymerase causes rapid depletion of mRNAs at restrictive temperatures. Residual mRNAs are polyadenylated, indicating that Pap1-5p retains at least partial activity. In...
Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p
Neumann, Silvia, Petfalski, Elisabeth, Brügger, Britta, Großhans, Helge, Wieland, Felix, Tollervey, David, ...
The yeast ubiquitin-protein ligase Rsp5p regulates processes as diverse as polII transcription and endocytosis. Here, we identify Rsp5p in a screen for tRNA export (tex) mutants. The tex23-1/rsp5-3...
Yeast Pescadillo is required for multiple activities during 60S ribosomal subunit synthesis.
Oeffinger, Marlene, Leung, Anthony, Lamond, Angus, Tollervey, David, Lueng, Anthony
The Pescadillo protein was identified via a developmental defect and implicated in cell cycle progression. Here we report that human Pescadillo and its yeast homolog (Yph1p or Nop7p) are localized to...
Naf1 p is a box H/ACA snoRNP assembly factor.
Fatica, Alessandro, Dlakić, Mensur, Tollervey, David
Box H/ACA small nucleolar ribonucleoprotein particles (snoRNPs) contain four essential proteins, Cbf5p, Gar1p, Nhp2p, and Nop10p, each of which, with the exception of Gar1p, is required for box H/ACA...
3′-processing of yeast tRNATrp precedes 5′-processing
KUFEL, JOANNA, TOLLERVEY, DAVID
Previous analyses of eukaryotic pre-tRNAs processing have reported that 5′-cleavage by RNase P precedes 3′-maturation. Here we report that in contrast to all other yeast tRNAs analyzed to date,...
Cic1p/Nsa3p is required for synthesis and nuclear export of 60S ribosomal subunits
FATICA, ALESSANDRO, OEFFINGER, MARLENE, TOLLERVEY, DAVID, BOZZONI, IRENE
Cic1p/Nsa3p was previously reported to be associated with the 26S proteasome and required for the degradation of specific substrates, but was also shown to be associated with early pre-60S particles...
PIN domain of Nob1p is required for D-site cleavage in 20S pre-rRNA
FATICA, ALESSANDRO, TOLLERVEY, DAVID, DLAKIĆ, MENSUR
Nob1p (Yor056c) is essential for processing of the 20S pre-rRNA to the mature 18S rRNA. It is part of a pre-40S ribosomal particle that is transported to the cytoplasm and subsequently cleaved at the...
Nop53p is required for late 60S ribosome subunit maturation and nuclear export in yeast
THOMSON, EMMA, TOLLERVEY, DAVID
We report that Ypl146cp/Nop53p is associated with pre-60S ribosomal complexes and localized to the nucleolus and nucleoplasm. In cells depleted of Nop53p synthesis of the rRNA components of the 60S...
The Noc proteins involved in ribosome synthesis and export contain divergent HEAT repeats
DLAKIĆ, MENSUR, TOLLERVEY, DAVID
The Noc1–4p proteins were previously reported to be involved in intranuclear and nucleocytoplasmic transport of pre-ribosomes. Using fold recognition and structural modeling, we show that Noc1–4p...
FLIPing heterokaryons to analyze nucleo-cytoplasmic shuttling of yeast proteins
Belaya, Katsiaryna, Tollervey, David, Koš, Martin
Nucleo-cytoplasmic shuttling is an important feature of proteins involved in nuclear export/import of RNAs, proteins, and also large ribonucleoprotein complexes such as ribosomes. The vast amount of...
Sharma, Kishor, Tollervey, David
The loop of a stem structure close to the 5′ end of the 18S rRNA is complementary to the box A region of the U3 small nucleolar RNA (snoRNA). Substitution of the 18S loop nucleotides inhibited...
Genetic and Physical Interactions Involving the Yeast Nuclear Cap-Binding Complex
Fortes, Puri, Kufel, Joanna, Fornerod, Maarten, Polycarpou-Schwarz, Maria, Lafontaine, Denis, Tollervey, David, ...
Yeast strains lacking the yeast nuclear cap-binding complex (yCBC) are viable, although impaired in growth. We have taken advantage of this observation to carry out a genetic screen for components...
Synthesis and Assembly of the Box C+D Small Nucleolar RNPs
Lafontaine, Denis L. J., Tollervey, David
Two core small nucleolar RNP (snoRNP) proteins, Nop1p (fibrillarin in vertebrates) and Nop58p (also known as Nop5p) have previously been reported to be specifically associated with the box C+D class...
Kufel, Joanna, Allmang, Christine, Chanfreau, Guillaume, Petfalski, Elisabeth, Lafontaine, Denis L. J., Tollervey, David
Almost all small eukaryotic RNAs are processed from transiently stabilized 3′-extended forms. A key question is how and why such intermediates are stabilized and how they can then be processed to...
Dhr1p, a Putative DEAH-Box RNA Helicase, Is Associated with the Box C+D snoRNP U3
Colley, Alan, Beggs, Jean D., Tollervey, David, Lafontaine, Denis L. J.
Putative RNA helicases are involved in most aspects of gene expression. All previously characterized members of the DEAH-box family of putative RNA helicases are involved in pre-mRNA splicing. Here...
Gadal, Olivier, Strauß, Daniela, Kessl, Jacques, Trumpower, Bernard, Tollervey, David, Hurt, Ed
Nuclear export of ribosomes requires a subset of nucleoporins and the Ran system, but specific transport factors have not been identified. Using a large subunit reporter (Rpl25p-eGFP), we have...
Degradation of ribosomal RNA precursors by the exosome
Allmang, Christine, Mitchell, Philip, Petfalski, Elisabeth, Tollervey, David
The yeast exosome is a complex of 3′→5′ exonucleases involved in RNA processing and degradation. All 11 known components of the exosome are required during 3′ end processing of the 5.8S rRNA....
Processing of the Precursors to Small Nucleolar RNAs and rRNAs Requires Common Components
Petfalski, Elisabeth, Dandekar, Thomas, Henry, Yves, Tollervey, David
The genes encoding the small nucleolar RNA (snoRNA) species snR190 and U14 are located close together in the genome of Saccharomyces cerevisiae. Here we report that these two snoRNAs are synthesized...
Yeast 18S rRNA Dimethylase Dim1p: a Quality Control Mechanism in Ribosome Synthesis?
Lafontaine, Denis L. J., Preiss, Thomas, Tollervey, David
One of the few rRNA modifications conserved between bacteria and eukaryotes is the base dimethylation present at the 3′ end of the small subunit rRNA. In the yeast Saccharomyces cerevisiae, this...
Verheggen, Céline, Mouaikel, John, Thiry, Marc, Blanchard, Jean-Marie, Tollervey, David, Bordonné, Remi, ...
Nucleolar localization of box C/D small nucleolar (sno) RNAs requires the box C/D motif and, in vertebrates, involves transit through Cajal bodies (CB). We report that in yeast, overexpression of a...
Gadal, Olivier, Strauß, Daniela, Braspenning, Joris, Hoepfner, Dominic, Petfalski, Elisabeth, Philippsen, Peter, ...
Ribosomal precursor particles are assembled in the nucleolus before export into the cytoplasm. Using a visual assay for nuclear accumulation of 60S subunits, we have isolated several...
60S pre-ribosome formation viewed from assembly in the nucleolus until export to the cytoplasm
Nissan, Tracy A., Baßler, Jochen, Petfalski, Elisabeth, Tollervey, David, Hurt, Ed
60S ribosomes undergo initial assembly in the nucleolus before export to the cytoplasm and recent analyses have identified several nucleolar pre-60S particles. To unravel the steps in the pathway of...
Kufel, Joanna, Allmang, Christine, Verdone, Loredana, Beggs, Jean D., Tollervey, David
Depletion of any of the five essential proteins Lsm2p to Lsm5p and Lsm8p leads to strong accumulation of all tested unspliced pre-tRNA species, as well as accumulation of 5′ and 3′ unprocessed...
The path from nucleolar 90S to cytoplasmic 40S pre-ribosomes
Schäfer, Thorsten, Strauß, Daniela, Petfalski, Elisabeth, Tollervey, David, Hurt, Ed
Recent reports have increased our knowledge of the consecutive steps during 60S ribosome biogenesis substantially, but 40S subunit formation is less well understood. Here, we investigate the...
Nob1p Is Required for Cleavage of the 3′ End of 18S rRNA
Fatica, Alessandro, Oeffinger, Marlene, Dlakić, Mensur, Tollervey, David
We report the characterization of a novel factor, Nob1p (Yor056c), which is essential for the synthesis of 40S ribosome subunits. Genetic depletion of Nob1p strongly inhibits the processing of the...
Rrp47p Is an Exosome-Associated Protein Required for the 3′ Processing of Stable RNAs
Mitchell, Philip, Petfalski, Elisabeth, Houalla, Rym, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David
Related exosome complexes of 3′→5′ exonucleases are present in the nucleus and the cytoplasm. Purification of exosome complexes from whole-cell lysates identified a Mg2+-labile factor present...
Newton, Kathryn, Petfalski, Elisabeth, Tollervey, David, Cáceres, Javier F.
Fibrillarin, a protein component of C/D box small nucleolar ribonucleoproteins (snoRNPs), directs 2′-O-methylation of rRNA and is also involved in other aspects of rRNA processing. A gene trap...
A complex pathway for 3′ processing of the yeast U3 snoRNA
Kufel, Joanna, Allmang, Christine, Verdone, Loredana, Beggs, Jean, Tollervey, David
Mature U3 snoRNA in yeast is generated from the 3′-extended precursors by endonucleolytic cleavage followed by exonucleolytic trimming. These precursors terminate in poly(U) tracts and are normally...
Yeast Nop15p is an RNA-binding protein required for pre-rRNA processing and cytokinesis
Oeffinger, Marlene, Tollervey, David
Nop15p is an essential protein that contains an RNA recognition motif (RRM) and localizes to the nucleoplasm and nucleolus. Cells depleted of Nop15p failed to synthesize the 25S and 5.8S rRNA...
The box H+ACA snoRNAs carry Cbf5p, the putative rRNA pseudouridine synthase
Lafontaine, Denis L.J., Bousquet-Antonelli, Cécile, Henry, Yves, Caizergues-Ferrer, Michèle, Tollervey, David
Many or all of the sites of pseudouridine (Ψ) formation in eukaryotic rRNA are selected by site-specific base-pairing with members of the box H + ACA class of small nucleolar RNAs (snoRNAs)....
The yeast exosome and human PM–Scl are related complexes of 3′ → 5′ exonucleases
Allmang, Christine, Petfalski, Elisabeth, Podtelejnikov, Alexandre, Mann, Matthias, Tollervey, David, Mitchell, Philip
We previously identified a complex of 3′ → 5′ exoribonucleases, designated the exosome, that is expected to play a major role in diverse RNA processing and degradation pathways. Further...
A pre-ribosome-associated HEAT-repeat protein is required for export of both ribosomal subunits
Oeffinger, Marlene, Dlakić, Mensur, Tollervey, David
Rrp12p (Ypl012w) is unusual among characterized ribosome synthesis factors in being associated with late precursors to both the 40S and 60S subunits. Rrp12p is predominately nuclear with nucleolar...
7SL RNA from Schizosaccharomyces pombe is encoded by a single copy essential gene
Ribes, Véronique, Dehoux, Pierre, Tollervey, David
We have identified an abundant ribonucleoprotein particle from Schizosaccharomyces pombe with properties related to those of the vertebrate signal recognition particle (SRP), including cytoplasmic...
Malys, Naglis, Carroll, Kathleen, Miyan, Jaleel, Tollervey, David, McCarthy, John E. G.
Dcs1, the m7GpppX pyrophosphatase of Saccharomyces cerevisiae, has been reported to ‘scavenge’ capped 5′ end fragments generated by 3′→5′ mRNA degradation. We now show that the absence of...
Nuclear Pre-mRNA Decapping and 5′ Degradation in Yeast Require the Lsm2-8p Complex
Kufel, Joanna, Bousquet-Antonelli, Cecile, Beggs, Jean D., Tollervey, David
Previous analyses have identified related cytoplasmic Lsm1-7p and nuclear Lsm2-8p complexes. Here we report that mature heat shock and MET mRNAs that are trapped in the nucleus due to a block in mRNA...
Functional link between ribosome formation and biogenesis of iron–sulfur proteins
Yarunin, Alexander, Panse, Vikram Govind, Petfalski, Elisabeth, Dez, Christophe, Tollervey, David, Hurt, Ed
In genetic screens for ribosomal export mutants, we identified CFD1, NBP35 and NAR1 as factors involved in ribosome biogenesis. Notably, these components were recently reported to function in...
A Nuclear Surveillance Pathway for mRNAs with Defective Polyadenylation¶
Milligan, Laura, Torchet, Claire, Allmang, Christine, Shipman, Tracey, Tollervey, David
The pap1-5 mutation in poly(A) polymerase causes rapid depletion of mRNAs at restrictive temperatures. Residual mRNAs are polyadenylated, indicating that Pap1-5p retains at least partial activity. In...
Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p
Neumann, Silvia, Petfalski, Elisabeth, Brügger, Britta, Großhans, Helge, Wieland, Felix, Tollervey, David, ...
The yeast ubiquitin-protein ligase Rsp5p regulates processes as diverse as polII transcription and endocytosis. Here, we identify Rsp5p in a screen for tRNA export (tex) mutants. The tex23-1/rsp5-3...
Yeast Pescadillo is required for multiple activities during 60S ribosomal subunit synthesis.
Oeffinger, Marlene, Leung, Anthony, Lamond, Angus, Tollervey, David, Lueng, Anthony
The Pescadillo protein was identified via a developmental defect and implicated in cell cycle progression. Here we report that human Pescadillo and its yeast homolog (Yph1p or Nop7p) are localized to...
Naf1 p is a box H/ACA snoRNP assembly factor.
Fatica, Alessandro, Dlakić, Mensur, Tollervey, David
Box H/ACA small nucleolar ribonucleoprotein particles (snoRNPs) contain four essential proteins, Cbf5p, Gar1p, Nhp2p, and Nop10p, each of which, with the exception of Gar1p, is required for box H/ACA...
3′-processing of yeast tRNATrp precedes 5′-processing
KUFEL, JOANNA, TOLLERVEY, DAVID
Previous analyses of eukaryotic pre-tRNAs processing have reported that 5′-cleavage by RNase P precedes 3′-maturation. Here we report that in contrast to all other yeast tRNAs analyzed to date,...
Cic1p/Nsa3p is required for synthesis and nuclear export of 60S ribosomal subunits
FATICA, ALESSANDRO, OEFFINGER, MARLENE, TOLLERVEY, DAVID, BOZZONI, IRENE
Cic1p/Nsa3p was previously reported to be associated with the 26S proteasome and required for the degradation of specific substrates, but was also shown to be associated with early pre-60S particles...
PIN domain of Nob1p is required for D-site cleavage in 20S pre-rRNA
FATICA, ALESSANDRO, TOLLERVEY, DAVID, DLAKIĆ, MENSUR
Nob1p (Yor056c) is essential for processing of the 20S pre-rRNA to the mature 18S rRNA. It is part of a pre-40S ribosomal particle that is transported to the cytoplasm and subsequently cleaved at the...
Nop53p is required for late 60S ribosome subunit maturation and nuclear export in yeast
THOMSON, EMMA, TOLLERVEY, DAVID
We report that Ypl146cp/Nop53p is associated with pre-60S ribosomal complexes and localized to the nucleolus and nucleoplasm. In cells depleted of Nop53p synthesis of the rRNA components of the 60S...
The Noc proteins involved in ribosome synthesis and export contain divergent HEAT repeats
DLAKIĆ, MENSUR, TOLLERVEY, DAVID
The Noc1–4p proteins were previously reported to be involved in intranuclear and nucleocytoplasmic transport of pre-ribosomes. Using fold recognition and structural modeling, we show that Noc1–4p...
FLIPing heterokaryons to analyze nucleo-cytoplasmic shuttling of yeast proteins
Belaya, Katsiaryna, Tollervey, David, Koš, Martin
Nucleo-cytoplasmic shuttling is an important feature of proteins involved in nuclear export/import of RNAs, proteins, and also large ribonucleoprotein complexes such as ribosomes. The vast amount of...
Yeast Trf5p is a nuclear poly(A) polymerase
Houseley, Jonathan, Tollervey, David
Recent analyses have shown that the activity of the yeast nuclear exosome is stimulated by the Trf4p–Air1/2p–Mtr4p polyadenylation (TRAMP) complex. Here, we report that strains lacking the Rrp6p...
Dez, Christophe, Houseley, Jonathan, Tollervey, David
We previously hypothesized that HEAT-repeat (Huntington, elongation A subunit, TOR) ribosome synthesis factors function in ribosome export. We report that the HEAT-repeat protein Sda1p is a component...
Oeffinger, Marlene, Fatica, Alessandro, Rout, Michael P., Tollervey, David
Here we report that Rrp14p/Ykl082p is associated with pre-60S particles and to a lesser extent with earlier 90S pre-ribosomes. Depletion of Rrp14p inhibited pre-rRNA synthesis on both the 40S and 60S...
Dez, Christophe, Houseley, Jonathan, Tollervey, David
Correction to: The EMBO Journal (2006) 25, 1534–1546. doi:10.1038/sj.emboj.7601035
Carneiro, Tiago, Carvalho, Célia, Braga, José, Rino, José, Milligan, Laura, Tollervey, David, ...
Recent data reveal that a substantial fraction of transcripts generated by RNA polymerases I, II, and III are rapidly degraded in the nucleus by the combined action of the exosome and a noncanonical...
Roles of the HEAT repeat proteins Utp10 and Utp20 in 40S ribosome maturation
Dez, Christophe, Dlakić, Mensur, Tollervey, David
A family of HEAT-repeat containing ribosome synthesis factors was previously identified in Saccharomyces cerevisiae. We report the detailed characterization of two of these factors, Utp10 and Utp20,...
Leulliot, Nicolas, Bohnsack, Markus T., Graille, Marc, Tollervey, David, Van Tilbeurgh, Herman
Emg1 was previously shown to be required for maturation of the 18S rRNA and biogenesis of the 40S ribosomal subunit. Here we report the determination of the crystal structure of Emg1 at 2 Å...
Hurt, Ed, Hannus, Stefan, Schmelzl, Birgit, Lau, Denise, Tollervey, David, Simos, George
To identify components involved in the nuclear export of ribosomes in yeast, we developed an in vivo assay exploiting a green fluorescent protein (GFP)-tagged version of ribosomal protein L25. After...
Gadal, Olivier, Strauss, Daniela, Petfalski, Elisabeth, Gleizes, Pierre-Emmanuel, Gas, Nicole, Tollervey, David, ...
Many analyses have examined subnucleolar structures in eukaryotic cells, but the relationship between morphological structures, pre-rRNA processing, and ribosomal particle assembly has remained...
The mRNA encoding the yeast ARE-binding protein Cth2 is generated by a novel 3′ processing pathway
Ciais, Delphine, Bohnsack, Markus T., Tollervey, David
Microarray analyses of mRNAs over-expressed in strains lacking the nuclear exosome component Rrp6 identified the transcript encoding the ARE-binding protein Cth2, which functions in cytoplasmic mRNA...
Thomson, Emma, Rappsilber, Juri, Tollervey, David
Proteomic analyses in yeast have identified a large number of proteins that are associated with preribosomal particles. However, the product of the yeast ORF YJL010C, herein designated as Nop9,...
Carneiro, Tiago, Carvalho, Célia, Braga, José, Rino, José, Milligan, Laura, Tollervey, David, ...
Small nucleolar RNAs (snoRNAs) associate with specific proteins forming small nucleolar ribonucleoprotein (snoRNP) particles, which are essential for ribosome biogenesis. The snoRNAs are transcribed,...
Efficient termination of transcription by RNA polymerase I requires the 5′ exonuclease Rat1 in yeast
El Hage, Aziz, Koper, Michal, Kufel, Joanna, Tollervey, David
During transcription termination by RNA polymerase II on protein-coding genes, the nuclear 5′ exonuclease Rat1/Xrn2 degrades the nascent transcript downstream from the polyadenylation site and...
Trf4 targets ncRNAs from telomeric and rDNA spacer regions and functions in rDNA copy number control
Houseley, Jonathan, Kotovic, Kimberly, El Hage, Aziz, Tollervey, David
Trf4 is the poly(A) polymerase component of TRAMP4, which stimulates nuclear RNA degradation by the exosome. We report that in Saccharomyces cerevisiae strains lacking Trf4, cryptic transcripts are...
Skružný, Michal, Schneider, Claudia, Rácz, Attila, Weng, Julan, Tollervey, David, Hurt, Ed
Nuclear mRNA export is a crucial step in eukaryotic gene expression, which is in yeast coupled to cotranscriptional messenger ribonucleoprotein particle (mRNP) assembly and surveillance. Several...
Milligan, Laura, Decourty, Laurence, Saveanu, Cosmin, Rappsilber, Juri, Ceulemans, Hugo, Jacquier, Alain, ...
A genome-wide screen for synthetic lethal (SL) interactions with loss of the nuclear exosome cofactors Rrp47/Lrp1 or Air1 identified 3′→5′ exonucleases, the THO complex required for mRNP...
Schneider, Claudia, Leung, Eileen, Brown, Jeremy, Tollervey, David
Nuclear and cytoplasmic forms of the yeast exosome share 10 components, of which only Rrp44/Dis3 is believed to possess 3′ exonuclease activity. We report that expression only of Rrp44 lacking...
Quantitative analysis of snoRNA association with pre-ribosomes and release of snR30 by Rok1 helicase
Bohnsack, Markus T, Kos, Martin, Tollervey, David
In yeast, three small nucleolar RNAs (snoRNAs) are essential for the processing of pre-ribosomal RNA—U3, U14 and snR30—whereas 72 non-essential snoRNAs direct site-specific modification of...
Granneman, Sander, Kudla, Grzegorz, Petfalski, Elisabeth, Tollervey, David
The U3 small nucleolar ribonucleoprotein (snoRNP) plays an essential role in ribosome biogenesis but, like many RNA–protein complexes, its architecture is poorly understood. To address this...