Analysis of a Drosophila amplicon in follicle cells highlights the diversity of metazoan replication origins.

Abstract:

:To investigate the properties of metazoan replication origins, recent studies in cell culture have adopted the strategy of identifying origins using genome-wide approaches and assessing correlations with such features as transcription and histone modifications. Drosophila amplicon in follicle cells (DAFCs), genomic regions that undergo repeated rounds of DNA replication to increase DNA copy number, serve as powerful in vivo model replicons. Because there are six DAFCs, compared with thousands of origins activated in the typical S phase, close molecular characterization of all DAFCs is possible. To determine the extent to which the six DAFCs are different or similar, we investigated the developmental and replication properties of the newly identified DAFC-34B. DAFC-34B contains two genes expressed in follicle cells, although the timing and spatial patterns of expression suggest that amplification is not a strategy to promote high expression at this locus. Like the previously characterized DAFC-62D, DAFC-34B displays origin activation at two separate stages of development. However, unlike DAFC-62D, amplification at the later stage is not transcription-dependent. We mapped the DAFC-34B amplification origin to 1 kb by nascent strand analysis and delineated cis requirements for origin activation, finding that a 6-kb region, but not the 1-kb origin alone, is sufficient for amplification. We analyzed the developmental localization of the origin recognition complex (ORC) and the minichromosome maintenance (MCM)2-7 complex, the replicative helicase. Intriguingly, the final round of origin activation at DAFC-34B occurs in the absence of detectable ORC, although MCMs are present, suggesting a new amplification initiation mechanism.

authors

Kim JC,Orr-Weaver TL

doi

10.1073/pnas.1114209108

subject

Has Abstract

pub_date

2011-10-04 00:00:00

pages

16681-6

issue

40

eissn

0027-8424

issn

1091-6490

pii

1114209108

journal_volume

108

pub_type

杂志文章
  • Independent and combined analyses of sequences from all three genomic compartments converge on the root of flowering plant phylogeny.

    abstract::Plant phylogenetic estimates are most likely to be reliable when congruent evidence is obtained independently from the mitochondrial, plastid, and nuclear genomes with all methods of analysis. Here, results are presented from separate and combined genomic analyses of new and previously published data, including six an...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.220427497

    authors: Barkman TJ,Chenery G,McNeal JR,Lyons-Weiler J,Ellisens WJ,Moore G,Wolfe AD,dePamphilis CW

    更新日期:2000-11-21 00:00:00

  • Thymic nurse cells provide microenvironment for secondary T cell receptor α rearrangement in cortical thymocytes.

    abstract::Distinct subsets of thymic epithelial cells (TECs) support T-cell development and selection. Isolated TECs contain multicellular complexes that enclose many viable thymocytes. However, the functions of those TECs, termed thymic nurse cells (TNCs), are unclear and the idea that TNCs are present in vivo is questioned. H...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1213069109

    authors: Nakagawa Y,Ohigashi I,Nitta T,Sakata M,Tanaka K,Murata S,Kanagawa O,Takahama Y

    更新日期:2012-12-11 00:00:00

  • On the mechanism of action of aldosterone.

    abstract::Studies to elucidate the mode of action of aldosterone have been carried out in the amphibian urinary bladder. The following previously reported hypotheses were evaluated: (1) aldosterone stimulates sodium transport by increasing the amount of sodium available to the sodium pump; (2) aldosterone enhances energy produc...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.64.1.330

    authors: Goodman DB,Allen JE,Rasmussen H

    更新日期:1969-09-01 00:00:00

  • The Arabidopsis SUMO E3 ligase SIZ1 controls phosphate deficiency responses.

    abstract::Plants sense phosphate (Pi) deficiency and initiate signaling that controls adaptive responses necessary for Pi acquisition. Herein, evidence establishes that AtSIZ1 is a plant small ubiquitin-like modifier (SUMO) E3 ligase and is a focal controller of Pi starvation-dependent responses. T-DNA insertional mutated allel...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0500778102

    authors: Miura K,Rus A,Sharkhuu A,Yokoi S,Karthikeyan AS,Raghothama KG,Baek D,Koo YD,Jin JB,Bressan RA,Yun DJ,Hasegawa PM

    更新日期:2005-05-24 00:00:00

  • CD4+ T cells control the differentiation of Gr1+ monocytes into fibrocytes.

    abstract::Fibrocytes are collagen-type-I-producing cells that arise at low frequency from hematopoietic cells. We have analyzed in mice which leukocyte subsets are required for generation of fibrocytes and show that murine fibrocytes develop from the subpopulation of CD11b(+) CD115(+) Gr1(+) monocytes under the control of CD4(+...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0906070106

    authors: Niedermeier M,Reich B,Rodriguez Gomez M,Denzel A,Schmidbauer K,Göbel N,Talke Y,Schweda F,Mack M

    更新日期:2009-10-20 00:00:00

  • Molecular cloning and primary structure of Kell blood group protein.

    abstract::The Kell blood group is a major antigenic system in human erythrocytes. Kell antigens reside on a 93-kDa membrane glycoprotein that is surface-exposed and associated with the underlying cytoskeleton. We isolated tryptic peptides and, based on the amino acid sequence of one of the peptides and by using the PCR, prepare...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.14.6353

    authors: Lee S,Zambas ED,Marsh WL,Redman CM

    更新日期:1991-07-15 00:00:00

  • Selective translation by alternative bacterial ribosomes.

    abstract::Alternative ribosome subunit proteins are prevalent in the genomes of diverse bacterial species, but their functional significance is controversial. Attempts to study microbial ribosomal heterogeneity have mostly relied on comparing wild-type strains with mutants in which subunits have been deleted, but this approach ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2009607117

    authors: Chen YX,Xu ZY,Ge X,Sanyal S,Lu ZJ,Javid B

    更新日期:2020-08-11 00:00:00

  • Differentiation of cell membranes in cultures of embryonic chick breast muscle.

    abstract::Three components of differentiated muscle membrane, the acetylcholine receptor, acetylcholinesterase (EC 3.1.1.7; acetylcholine hydrolase), and adenylate cyclase [EC 4.6.1.1; ATP pyrophosphate-lyase (cyclizing)], appear simultaneously during myogenesis in cultures of embryonic chick muscle, after the main period of ra...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.71.8.3208

    authors: Prives JM,Paterson BM

    更新日期:1974-08-01 00:00:00

  • The zero dispersion limit for the Korteweg-deVries KdV equation.

    abstract::We use the inverse scattering method to determine the weak limit of solutions of the Korteweg-deVries equation as dispersion tends to zero. The limit, valid for all time, is characterized in terms of a quadratic programming problem which can be solved with the aid of function theoretic methods. For large t, the soluti...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.76.8.3602

    authors: Lax PD,Levermore CD

    更新日期:1979-08-01 00:00:00

  • Advancing a clinically relevant perspective of the clonal nature of cancer.

    abstract::Cancers frequently arise as a result of an acquired genomic instability and the subsequent clonal evolution of neoplastic cells with variable patterns of genetic aberrations. Thus, the presence and behaviors of distinct clonal populations in each patient's tumor may underlie multiple clinical phenotypes in cancers. We...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1104009108

    authors: Ruiz C,Lenkiewicz E,Evers L,Holley T,Robeson A,Kiefer J,Demeure MJ,Hollingsworth MA,Shen M,Prunkard D,Rabinovitch PS,Zellweger T,Mousses S,Trent JM,Carpten JD,Bubendorf L,Von Hoff D,Barrett MT

    更新日期:2011-07-19 00:00:00

  • Identification of frame-shift intermediate mutant cells.

    abstract::Frame-shift mutations at microsatellites occur as a time-dependent function of polymerase errors followed by failure of postreplicational mismatch repair. A cell-culture system was developed that allows identification of intermediate mutant cells that carry the mutation on a single DNA strand after the initial DNA pol...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0437965100

    authors: Gasche C,Chang CL,Natarajan L,Goel A,Rhees J,Young DJ,Arnold CN,Boland CR

    更新日期:2003-02-18 00:00:00

  • Capture of flanking DNA by a P element in Drosophila melanogaster: creation of a transposable element.

    abstract::A 6.1-kilobase insertion into the rudimentary (r) gene was cloned and partially sequenced. The insertion consists of a 703-base-pair (bp) P element next to a 5.4-kilobase single-copy sequence. The normal position of the single-copy sequence is near the tip of the X chromosome. Upon insertion into the r gene, this chim...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.88.3.693

    authors: Tsubota SI,Huong DV

    更新日期:1991-02-01 00:00:00

  • Additivity of mutant effects assessed by binomial mutagenesis.

    abstract::Eleven amino acid positions in the helix-turn-helix of lambda repressor have been mutagenized by using a combinatorial method in which alanine is substituted at each position with a probability of 0.5. Approximately 25% of the 2048 proteins in the resulting binomial library are active, including some variants with as ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.90.9.4246

    authors: Gregoret LM,Sauer RT

    更新日期:1993-05-01 00:00:00

  • Glutaredoxin homolog encoded by vaccinia virus is a virion-associated enzyme with thioltransferase and dehydroascorbate reductase activities.

    abstract::Glutaredoxins (GRXs), also known as thioltransferases, use glutathione as a cofactor for reduction of disulfides in prokaryotes and eukaryotes. We demonstrate that the vaccinia virus O2L open reading frame encodes a functional GRX, as predicted by Johnson et al. [Johnson, G. P., Goebel, S. J., Perkus, M. E., Davis, S....

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.89.15.7060

    authors: Ahn BY,Moss B

    更新日期:1992-08-01 00:00:00

  • A model of the cell-autonomous mammalian circadian clock.

    abstract::Circadian timekeeping by intracellular molecular clocks is evident widely in prokaryotes and eukaryotes. The clockworks are driven by autoregulatory feedback loops that lead to oscillating levels of components whose maxima are in fixed phase relationships with one another. These phase relationships are the key metric ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0904837106

    authors: Mirsky HP,Liu AC,Welsh DK,Kay SA,Doyle FJ 3rd

    更新日期:2009-07-07 00:00:00

  • Calcification in atherosclerosis: bone biology and chronic inflammation at the arterial crossroads.

    abstract::Dystrophic or ectopic mineral deposition occurs in many pathologic conditions, including atherosclerosis. Calcium mineral deposits that frequently accompany atherosclerosis are readily quantifiable radiographically, serve as a surrogate marker for the disease, and predict a higher risk of myocardial infarction and dea...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1932554100

    authors: Doherty TM,Asotra K,Fitzpatrick LA,Qiao JH,Wilkin DJ,Detrano RC,Dunstan CR,Shah PK,Rajavashisth TB

    更新日期:2003-09-30 00:00:00

  • Major species differences between humans and rodents in the susceptibility to pancreatic beta-cell injury.

    abstract::The ability of beta cells to endure assaults may be relevant in the development of insulin-dependent diabetes mellitus. This study examines the susceptibility of human pancreatic islets to agents that are cytotoxic for rodent beta cells--i.e., sodium nitroprusside (NP, a nitric oxide donor), streptozotocin (SZ), or al...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.20.9253

    authors: Eizirik DL,Pipeleers DG,Ling Z,Welsh N,Hellerström C,Andersson A

    更新日期:1994-09-27 00:00:00

  • Nonhuman primate event-related potentials indexing covert shifts of attention.

    abstract::A half-century's worth of research has established the existence of numerous event-related potential components measuring different cognitive operations in humans including the selection of stimuli by covert attention mechanisms. Surprisingly, it is unknown whether nonhuman primates exhibit homologous electrophysiolog...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0703477104

    authors: Woodman GF,Kang MS,Rossi AF,Schall JD

    更新日期:2007-09-18 00:00:00

  • T-bet is required for optimal production of IFN-gamma and antigen-specific T cell activation by dendritic cells.

    abstract::IFN-gamma is well known as the signature cytokine of CD4+ T helper 1, CD8+, and natural killer cells, but recent studies demonstrate that antigen-presenting cells, in particular dendritic cells (DCs), are another potent source for this proinflammatory cytokine. T-bet, a transcription factor that controls IFN-gamma exp...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1332767100

    authors: Lugo-Villarino G,Maldonado-Lopez R,Possemato R,Penaranda C,Glimcher LH

    更新日期:2003-06-24 00:00:00

  • Endocytosis in alveolar type II cells: effect of charge and size of tracers.

    abstract::The type II cell of the alveolar epithelium of adult rats has been studied by electron microscopy to determine its ability to endocytose electron-dense tracers of differing molecular charge and size. The tracers studied were native (anionic) ferritin, cationic ferritin, 70-kilodalton dextran, and colloidal carbon. Alv...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.81.19.6054

    authors: Williams MC

    更新日期:1984-10-01 00:00:00

  • Substrate binding to an active creatine kinase with a thiol-bound mercurinitrophenol chromophoric probe.

    abstract::A mol of creatine kinase (EC 2.7.3.2), an enzyme with two identical subunits can be titrated very rapidly and stoichiometrically with 2 mol of 2-chloromercuri-4-nitrophenol, an environmentally sensitive chromophoric probe specific for thiols. Chemical modification does not inactivate the enzyme nor can the reaction be...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.70.10.2858

    authors: Quiocho FE,Thomson JW

    更新日期:1973-10-01 00:00:00

  • Colony stimulating factor-induced differentiation of murine M1 myeloid leukemia cells is permissive in early G1 phase.

    abstract::Granulocyte-colony stimulating factor (G-CSF) induces differentiation of M1 murine myeloid leukemia cells into mature granulocytes/macrophages and also causes accumulation of the cells in the G1 phase of the cell cycle. We examined, therefore, whether synchronization of M1 cells in the G1 phase could affect G-CSF-indu...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.83.12.4317

    authors: Tsuda H,Neckers LM,Pluznik DH

    更新日期:1986-06-01 00:00:00

  • Dynamic contrast-enhanced magnetic resonance imaging reveals stress-induced angiogenesis in MCF7 human breast tumors.

    abstract::The mechanism of contrast enhancement of tumors using magnetic resonance imaging was investigated in MCF7 human breast cancer implanted in nude mice. Dynamic contrast-enhanced images recorded at high spatial resolution were analyzed by an image analysis method based on a physiological model, which included the blood c...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.93.13.6247

    authors: Furman-Haran E,Margalit R,Grobgeld D,Degani H

    更新日期:1996-06-25 00:00:00

  • Ornitholimnology: Effects of grazing by the Andean flamingo (Phoenicoparrus andinus).

    abstract::Experimental exclusion of the Andean flamingo (Phoenicoparrus andinus) from shallow water areas of a salt lake in the Bolivian Andes caused large increases in the biomass of microorganisms inhabiting the surface sediments, especially a large diatom (Surirella wetzeli), amebas, ciliates, and nematodes. This is a conser...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.80.15.4766

    authors: Hurlbert SH,Chang CC

    更新日期:1983-08-01 00:00:00

  • Modern proteomes contain putative imprints of ancient shifts in trace metal geochemistry.

    abstract::Because of the rise in atmospheric oxygen 2.3 billion years ago (Gya) and the subsequent changes in oceanic redox state over the last 2.3-1 Gya, trace metal bioavailability in marine environments has changed dramatically. Although theorized to have influenced the biological usage of metals leaving discernable genomic ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0605798103

    authors: Dupont CL,Yang S,Palenik B,Bourne PE

    更新日期:2006-11-21 00:00:00

  • A small RNA promotes siderophore production through transcriptional and metabolic remodeling.

    abstract::Siderophores are essential factors for iron (Fe) acquisition in bacteria during colonization and infection of eukaryotic hosts, which restrain iron access through iron-binding protein, such as lactoferrin and transferrin. The synthesis of siderophores by Escherichia coli is considered to be fully regulated at the tran...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1007805107

    authors: Salvail H,Lanthier-Bourbonnais P,Sobota JM,Caza M,Benjamin JA,Mendieta ME,Lépine F,Dozois CM,Imlay J,Massé E

    更新日期:2010-08-24 00:00:00

  • Phylogeny of the genus Pistacia as determined from analysis of the chloroplast genome.

    abstract::Classification within the genus Pistacia has been based on leaf morphology and geographical distribution. Molecular genetic tools (PCR amplification followed by restriction analysis of a 3.2-kb region of variable chloroplast DNA, and restriction fragment length polymorphism analysis of the Pistacia cpDNA with tobacco ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.94.15.7987

    authors: Parfitt DE,Badenes ML

    更新日期:1997-07-22 00:00:00

  • Polar zipper sequence in the high-affinity hemoglobin of Ascaris suum: amino acid sequence and structural interpretation.

    abstract::The extracellular hemoglobin of Ascaris has an extremely high oxygen affinity (P50 = 0.004 mmHg). It consists of eight identical subunits of molecular weight 40,600. Their sequence, determined by protein chemistry, shows two tandemly linked globin-like sequences and an 18-residue C-terminal extension. Two N-linked gly...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.89.10.4638

    authors: De Baere I,Liu L,Moens L,Van Beeumen J,Gielens C,Richelle J,Trotman C,Finch J,Gerstein M,Perutz M

    更新日期:1992-05-15 00:00:00

  • Effects of methylation on a synthetic polynucleotide: the B--Z transition in poly(dG-m5dC).poly(dG-m5dC).

    abstract::We have compared the behavior in solution of the synthetic polynucleotide poly(dG-m5dC).poly(dG-m5dC) with that of the unmethylated polynucleotide poly(dG-dC).poly(dG-dC). In solutions containing high concentrations of salt, poly(dG-dC).poly(dG-dC) is known to exhibit altered circular dichroic and absorption spectra c...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.78.3.1619

    authors: Behe M,Felsenfeld G

    更新日期:1981-03-01 00:00:00

  • Single-molecule spectroscopy reveals polymer effects of disordered proteins in crowded environments.

    abstract::Intrinsically disordered proteins (IDPs) are involved in a wide range of regulatory processes in the cell. Owing to their flexibility, their conformations are expected to be particularly sensitive to the crowded cellular environment. Here we use single-molecule Förster resonance energy transfer to quantify the effect ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1322611111

    authors: Soranno A,Koenig I,Borgia MB,Hofmann H,Zosel F,Nettels D,Schuler B

    更新日期:2014-04-01 00:00:00