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....
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...