Stepwise and dynamic assembly of the earliest precursors of small ribosomal subunits in yeast.

Abstract:

:The eukaryotic ribosomal RNA (rRNA) is associated cotranscriptionally with numerous factors into an enormous 90S preribosomal particle that conducts early processing of small ribosomal subunits. The assembly pathway and structure of the 90S particle is poorly understood. Here, we affinity-purified and analyzed the constituents of yeast 90S particles that were assembled on a series of plasmid-encoded 3'-truncated pre-18S RNAs. We determined the assembly point of 65 proteins and the U3, U14, and snR30 small nucleolar RNAs (snoRNAs), revealing a stepwise and dynamic assembly map. The 5' external transcribed spacer (ETS) alone can nucleate a large complex. When the 18S rRNA is nearly complete, the 90S structure undergoes a dramatic reorganization, releasing U14, snR30, and 14 protein factors that bind earlier. We also identified a reference state of 90S that is fully assembled yet has not undergone 5'ETS processing. The assembly map present here provides a new framework to understand small subunit biogenesis.

journal_name

Genes Dev

journal_title

Genes & development

authors

Zhang L,Wu C,Cai G,Chen S,Ye K

doi

10.1101/gad.274688.115

subject

Has Abstract

pub_date

2016-03-15 00:00:00

pages

718-32

issue

6

eissn

0890-9369

issn

1549-5477

pii

30/6/718

journal_volume

30

pub_type

杂志文章
  • Phosphorylation of the v-erbA protein is required for its function as an oncogene.

    abstract::The v-erbA oncogene of avian erythroblastosis virus (AEV) encodes a ligand-independent mutated version of the chicken c-erbA alpha-encoded thyroid hormone receptor. The v-erbA gene product, a 75-kD gag/v-erbA fusion protein, is phosphorylated on Ser-16/17 of its v-erbA-encoded domain, and phosphorylation at this site ...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.4.10.1663

    authors: Glineur C,Zenke M,Beug H,Ghysdael J

    更新日期:1990-10-01 00:00:00

  • The scaffold protein WRAP53β orchestrates the ubiquitin response critical for DNA double-strand break repair.

    abstract::The WD40 domain-containing protein WRAP53β (WD40 encoding RNA antisense to p53; also referred to as WDR79/TCAB1) controls trafficking of splicing factors and the telomerase enzyme to Cajal bodies, and its functional loss has been linked to carcinogenesis, premature aging, and neurodegeneration. Here, we identify WRAP5...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.246546.114

    authors: Henriksson S,Rassoolzadeh H,Hedström E,Coucoravas C,Julner A,Goldstein M,Imreh G,Zhivotovsky B,Kastan MB,Helleday T,Farnebo M

    更新日期:2014-12-15 00:00:00

  • A tetramer of the Flp recombinase silences the trimers within it during resolution of a Holliday junction substrate.

    abstract::Recombination catalyzed by the Flp site-specific recombinase involves breakage and joining of four DNA strands between two target substrates. The reaction is carried out in two steps of pairwise strand exchanges by a DNA-protein assembly in which four Flp monomers act cooperatively to execute strand cleavage and joini...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.11.18.2438

    authors: Lee J,Jayaram M

    更新日期:1997-09-15 00:00:00

  • An intersubunit contact stimulating transcription initiation by E coli RNA polymerase: interaction of the alpha C-terminal domain and sigma region 4.

    abstract::The C-terminal domain of the Escherichia coli RNA polymerase (RNAP) alpha subunit (alphaCTD) stimulates transcription initiation by interacting with upstream (UP) element DNA and a variety of transcription activators. Here we identify specific substitutions in region 4.2 of sigma 70 (sigma(70)) and in alphaCTD that de...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.1079403

    authors: Ross W,Schneider DA,Paul BJ,Mertens A,Gourse RL

    更新日期:2003-05-15 00:00:00

  • A 5' RNA element promotes dengue virus RNA synthesis on a circular genome.

    abstract::The mechanisms of RNA replication of plus-strand RNA viruses are still unclear. Here, we identified the first promoter element for RNA synthesis described in a flavivirus. Using dengue virus as a model, we found that the viral RdRp discriminates the viral RNA by specific recognition of a 5' element named SLA. We demon...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.1444206

    authors: Filomatori CV,Lodeiro MF,Alvarez DE,Samsa MM,Pietrasanta L,Gamarnik AV

    更新日期:2006-08-15 00:00:00

  • A monocarboxylate transporter required for hepatocyte secretion of ketone bodies during fasting.

    abstract::To find new genes that influence liver lipid mass, we performed a genetic screen for zebrafish mutants with hepatic steatosis, a pathological accumulation of fat. The red moon (rmn) mutant develops hepatic steatosis as maternally deposited yolk is depleted. Conversely, hepatic steatosis is suppressed in rmn mutants by...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.180968.111

    authors: Hugo SE,Cruz-Garcia L,Karanth S,Anderson RM,Stainier DY,Schlegel A

    更新日期:2012-02-01 00:00:00

  • Combinatorial control of Drosophila eye development by eyeless, homothorax, and teashirt.

    abstract::In Drosophila, the development of the compound eye depends on the movement of a morphogenetic furrow (MF) from the posterior (P) to the anterior (A) of the eye imaginal disc. We define several subdomains along the A-P axis of the eye disc that express distinct combinations of transcription factors. One subdomain, ante...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.1009002

    authors: Bessa J,Gebelein B,Pichaud F,Casares F,Mann RS

    更新日期:2002-09-15 00:00:00

  • Seven-up, the Drosophila homolog of the COUP-TF orphan receptors, controls cell proliferation in the insect kidney.

    abstract::Morphogenesis of the insect kidney, the Malpighian tubules, is controlled in Drosophila by a single large cell, the tip cell. It has been postulated that this cell sends out a mitogenic signal that induces the division of neighboring cells. The signal and the molecules that receive it have remained elusive. We show th...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.12.12.1781

    authors: Kerber B,Fellert S,Hoch M

    更新日期:1998-06-15 00:00:00

  • pX, the HBV-encoded coactivator, suppresses the phenotypes of TBP and TAFII250 mutants.

    abstract::Hepatitis B virus (HBV) infects humans and causes a wide range of clinical manifestations, from acute hepatitis to hepatocellular carcinoma (HCC). The HBV genome contains multiple promoters with gene expression regulated predominantly by the cellular transcription initiation machinery. Accordingly, the HBV-encoded pX,...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.12.8.1217

    authors: Haviv I,Matza Y,Shaul Y

    更新日期:1998-04-15 00:00:00

  • Activity and tissue-specific expression of the transcription factor NF-E1 multigene family.

    abstract::NF-E1, a DNA-binding protein that recognizes the general consensus motif WGATAR, is the first tissue-specific factor to be identified in erythroid cells. Using a probe from the murine GF-1 (NF-E1) cDNA clone, we isolated three homologous chicken cDNAs: One of these corresponds to an mRNA (NF-E1a) that is abundantly an...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.4.10.1650

    authors: Yamamoto M,Ko LJ,Leonard MW,Beug H,Orkin SH,Engel JD

    更新日期:1990-10-01 00:00:00

  • Noncoding RNA control of the making and breaking of sugars.

    abstract::Noncoding RNA regulators have been implicated in almost all imaginable cellular processes. Here we review how regulatory small RNAs such as Spot42, SgrS, GlmY, and GlmZ and a cis-encoded ribozyme in glmS mRNA control sugar metabolism. Besides discussing the physiological implications, we show how the study of these mo...

    journal_title:Genes & development

    pub_type: 杂志文章,评审

    doi:10.1101/gad.1717808

    authors: Görke B,Vogel J

    更新日期:2008-11-01 00:00:00

  • Characterization of a unique protein component of yeast RNase MRP: an RNA-binding protein with a zinc-cluster domain.

    abstract::RNase MRP is a ribonucleoprotein endoribonuclease that has been shown to cleave mitochondrial primer RNA sequences from a variety of sources. Most of the RNase MRP activity is found in the nucleus where it plays a role in the processing of 5.8S rRNA. A temperature-conditional point mutation in the yeast RNA component ...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.8.21.2617

    authors: Schmitt ME,Clayton DA

    更新日期:1994-11-01 00:00:00

  • ICP27 mediates HSV RNA export by shuttling through a leucine-rich nuclear export signal and binding viral intronless RNAs through an RGG motif.

    abstract::Infection of metazoan cells with some viruses alters the balance of cellular mRNA export to favor viral RNA export and to retain cellular transcripts in the nucleus. Here, evidence is presented to show that the herpes simplex virus 1 (HSV-1) essential regulatory protein ICP27, which inhibits host cell-splicing, result...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.12.6.868

    authors: Sandri-Goldin RM

    更新日期:1998-03-15 00:00:00

  • Neuroectoderm in Drosophila embryos is dependent on the mesoderm for positioning but not for formation.

    abstract::By studying neuroectoderm formation in the absence of mesoderm and mesectoderm in mutants of the zygotic genes snail and twist, we have found that the number of neuroblasts is not reduced in these mutants, suggesting that mesoderm and mesectoderm are not essential for the initiation of neural development. The position...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.5.9.1577

    authors: Rao Y,Vaessin H,Jan LY,Jan YN

    更新日期:1991-09-01 00:00:00

  • Skewing X chromosome choice by modulating sense transcription across the Xist locus.

    abstract::The X-inactive-specific transcript (Xist) locus is a cis-acting switch that regulates X chromosome inactivation in mammals. Over recent years an important goal has been to understand how Xist is regulated at the initiation of X inactivation. Here we report the analysis of a series of targeted mutations at the 5' end o...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.271203

    authors: Nesterova TB,Johnston CM,Appanah R,Newall AE,Godwin J,Alexiou M,Brockdorff N

    更新日期:2003-09-01 00:00:00

  • Dynamic association of proteins with the pre-mRNA branch region.

    abstract::The association of proteins with the branch site region during pre-mRNA splicing was probed using a novel methodology to site-specifically modify the pre-mRNA with the photo-reagent benzophenone. Three sets of proteins were distinguished by the kinetics of their associations with pre-mRNAs, by their association with d...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.8.24.3008

    authors: MacMillan AM,Query CC,Allerson CR,Chen S,Verdine GL,Sharp PA

    更新日期:1994-12-15 00:00:00

  • Selection of the initiator tRNA by Escherichia coli initiation factors.

    abstract::We have developed a new technique, called 'toeprinting,' which has allowed a study of the tRNA-binding properties of Escherichia coli translation initiation complexes. In response to natural mRNAs, the initiator tRNA and a variety of elongator tRNAs bind to the same tRNA-binding site on the 30S ribosomal subunit as lo...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.3.12a.1899

    authors: Hartz D,McPheeters DS,Gold L

    更新日期:1989-12-01 00:00:00

  • Mouse models for human lung cancer.

    abstract::In recent years several new mouse models for lung cancer have been described. These include models for both non-small-cell lung cancer (NSCLC) and small-cell lung cancer (SCLC). Tumorigenesis in these conditional mouse tumor models can be initiated in adult mice through Cre-recombinase-induced activation of oncogenic ...

    journal_title:Genes & development

    pub_type: 杂志文章,评审

    doi:10.1101/gad.1284505

    authors: Meuwissen R,Berns A

    更新日期:2005-03-15 00:00:00

  • Nuclear receptor ERR alpha and coactivator PGC-1 beta are effectors of IFN-gamma-induced host defense.

    abstract::Macrophage activation by the proinflammatory cytokine interferon-gamma (IFN-gamma) is a critical component of the host innate response to bacterial pathogenesis. However, the precise nature of the IFN-gamma-induced activation pathway is not known. Here we show using genome-wide expression and chromatin-binding profili...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.1553007

    authors: Sonoda J,Laganière J,Mehl IR,Barish GD,Chong LW,Li X,Scheffler IE,Mock DC,Bataille AR,Robert F,Lee CH,Giguère V,Evans RM

    更新日期:2007-08-01 00:00:00

  • Hedgehog signaling and the retina: insights into the mechanisms controlling the proliferative properties of neural precursors.

    abstract::Hedgehog signaling has been linked to cell proliferation in a variety of systems; however, its effects on the cell cycle have not been closely studied. In the vertebrate retina, Hedgehog's effects are controversial, with some reports emphasizing increased proliferation and others pointing to a role in cell cycle exit....

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.391106

    authors: Locker M,Agathocleous M,Amato MA,Parain K,Harris WA,Perron M

    更新日期:2006-11-01 00:00:00

  • Dual pathways for induction of wingless expression by protein kinase A and Hedgehog in Drosophila embryos.

    abstract::The secreted Drosophila Hedgehog (Hh) protein induces transcription of specific genes by an unknown mechanism that requires the serpentine transmembrane protein Smoothened (Smo) and the transcription factor Cubitus interruptus (Ci). Protein kinase A (PKA) has been implicated in the mechanism of Hh signal transduction ...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.11.17.2250

    authors: Ohlmeyer JT,Kalderon D

    更新日期:1997-09-01 00:00:00

  • Mesp2: a novel mouse gene expressed in the presegmented mesoderm and essential for segmentation initiation.

    abstract::We isolated a novel bHLH protein gene Mesp2 (for mesoderm posterior 2) that cross-hybridizes with Mesp1 expressed in the early mouse mesoderm. Mesp2 is expressed in the rostral presomitic mesoderm, but down-regulated immediately after the formation of the segmented somites. To determine the function of MesP2 protein (...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.11.14.1827

    authors: Saga Y,Hata N,Koseki H,Taketo MM

    更新日期:1997-07-15 00:00:00

  • STAR RNA-binding protein Quaking suppresses cancer via stabilization of specific miRNA.

    abstract::Multidimensional cancer genome analysis and validation has defined Quaking (QKI), a member of the signal transduction and activation of RNA (STAR) family of RNA-binding proteins, as a novel glioblastoma multiforme (GBM) tumor suppressor. Here, we establish that p53 directly regulates QKI gene expression, and QKI prote...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.189001.112

    authors: Chen AJ,Paik JH,Zhang H,Shukla SA,Mortensen R,Hu J,Ying H,Hu B,Hurt J,Farny N,Dong C,Xiao Y,Wang YA,Silver PA,Chin L,Vasudevan S,Depinho RA

    更新日期:2012-07-01 00:00:00

  • Yeast calcineurin regulates nuclear localization of the Crz1p transcription factor through dephosphorylation.

    abstract::Calcineurin, a Ca2+/calmodulin dependent protein phosphatase, regulates Ca2+-dependent processes in a wide variety of cells. In the yeast, Saccharomyces cerevisiae, calcineurin effects Ca2+-dependent changes in gene expression through regulation of the Crz1p transcription factor. We show here that calcineurin dephosph...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.13.7.798

    authors: Stathopoulos-Gerontides A,Guo JJ,Cyert MS

    更新日期:1999-04-01 00:00:00

  • Evidence for a novel protease governing regulated intramembrane proteolysis and resistance to antimicrobial peptides in Bacillus subtilis.

    abstract::Evidence is presented that the activation of the RNA polymerase sigma factor sigma(W) in Bacillus subtilis by regulated intramembrane proteolysis is governed by a novel, membrane-embedded protease. The sigma(W) factor is activated by proteolytic destruction of the membrane-bound anti-sigma(W) factor RsiW in response t...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.1440606

    authors: Ellermeier CD,Losick R

    更新日期:2006-07-15 00:00:00

  • Local regulation of the Srs2 helicase by the SUMO-like domain protein Esc2 promotes recombination at sites of stalled replication.

    abstract::Accurate completion of replication relies on the ability of cells to activate error-free recombination-mediated DNA damage bypass at sites of perturbed replication. However, as anti-recombinase activities are also recruited to replication forks, how recombination-mediated damage bypass is enabled at replication stress...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.265629.115

    authors: Urulangodi M,Sebesta M,Menolfi D,Szakal B,Sollier J,Sisakova A,Krejci L,Branzei D

    更新日期:2015-10-01 00:00:00

  • The fasciated ear2 gene encodes a leucine-rich repeat receptor-like protein that regulates shoot meristem proliferation in maize.

    abstract::The ability to initiate organs throughout the lifecycle is a unique feature of plant development that is executed by groups of stem cells called meristems. The balance between stem cell proliferation and organ initiation is carefully regulated and ensures that organs can be initiated in regular geometric patterns. To ...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.208501

    authors: Taguchi-Shiobara F,Yuan Z,Hake S,Jackson D

    更新日期:2001-10-15 00:00:00

  • A novel, activin-inducible, blastopore lip-specific gene of Xenopus laevis contains a fork head DNA-binding domain.

    abstract::The organizer region, or dorsal blastopore lip, plays a central role in the initiation of gastrulation and the formation of the body axis during Xenopus development. A similar process can also be induced in ectodermal explants by activin or by injection of activin mRNA into embryos. We have searched early embryo-speci...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.6.4.599

    authors: Dirksen ML,Jamrich M

    更新日期:1992-04-01 00:00:00

  • Nuclear myosin I acts in concert with polymeric actin to drive RNA polymerase I transcription.

    abstract::Actin is associated with all three nuclear RNA polymerases and acts in concert with nuclear myosin I (NM1) to drive transcription. Practically nothing is known regarding the state of actin and the functional interplay of actin and NM1 in transcription. Here we show that actin and NM1 act in concert to promote RNA poly...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.455908

    authors: Ye J,Zhao J,Hoffmann-Rohrer U,Grummt I

    更新日期:2008-02-01 00:00:00

  • Frequent provirus insertional mutagenesis of Notch1 in thymomas of MMTVD/myc transgenic mice suggests a collaboration of c-myc and Notch1 for oncogenesis.

    abstract::The MMTVD/myc transgenic mice spontaneously develop oligoclonal CD4+CD8+ T-cell tumors. We used provirus insertional mutagenesis in these mice to identify putative collaborators of c-myc. We found that Notch1 was mutated in a high proportion (52%) of these tumors. Proviruses were inserted upstream of the exon coding f...

    journal_title:Genes & development

    pub_type: 杂志文章

    doi:10.1101/gad.10.15.1930

    authors: Girard L,Hanna Z,Beaulieu N,Hoemann CD,Simard C,Kozak CA,Jolicoeur P

    更新日期:1996-08-01 00:00:00