Emergence of a replicating species from an in vitro RNA evolution reaction.

Abstract:

:The technique of self-sustained sequence replication allows isothermal amplification of DNA and RNA molecules in vitro. This method relies on the activities of a reverse transcriptase and a DNA-dependent RNA polymerase to amplify specific nucleic acid sequences. We have modified this protocol to allow selective amplification of RNAs that catalyze a particular chemical reaction. During an in vitro RNA evolution experiment employing this modified system, a unique class of "selfish" RNAs emerged and replicated to the exclusion of the intended RNAs. Members of this class of selfish molecules, termed RNA Z, amplify efficiently despite their inability to catalyze the target chemical reaction. Their amplification requires the action of both reverse transcriptase and RNA polymerase and involves the synthesis of both DNA and RNA replication intermediates. The proposed amplification mechanism for RNA Z involves the formation of a DNA hairpin that functions as a template for transcription by RNA polymerase. This arrangement links the two strands of the DNA, resulting in the production of RNA transcripts that contain an embedded RNA polymerase promoter sequence.

authors

Breaker RR,Joyce GF

doi

10.1073/pnas.91.13.6093

subject

Has Abstract

pub_date

1994-06-21 00:00:00

pages

6093-7

issue

13

eissn

0027-8424

issn

1091-6490

journal_volume

91

pub_type

杂志文章
  • Intermolecular crosslinking of fatty acyl chains in phospholipids: use of photoactivable carbene precursors.

    abstract::Phospholipids containing photolysable carbene precursors (beta-trifluoro-alpha-diazopropionoxy and m-diazirinophenoxy groups) in omega-positions of sn-2 fatty acyl chains were prepared. Photolysis of their vesicles produced crosslinked products in 40-60% yields. Crosslinking was mostly intermolecular and occurred by 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.76.6.2595

    authors: Gupta CM,Radhakrishnan R,Gerber GE,Olsen WL,Quay SC,Khorana HG

    更新日期:1979-06-01 00:00:00

  • Secretion of a pneumococcal type II secretion system pilus correlates with DNA uptake during transformation.

    abstract::Streptococcus pneumoniae is a major human pathogen that successfully adapts to the host environment via an efficient uptake system for free DNA liberated from other organisms in the upper respiratory tract, facilitating immune evasion and drug resistance. Although the initial signaling events leading to pneumococcal 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.1313860111

    authors: Balaban M,Bättig P,Muschiol S,Tirier SM,Wartha F,Normark S,Henriques-Normark B

    更新日期:2014-02-18 00:00:00

  • NG-methyl-L-arginine causes endothelium-dependent contraction and inhibition of cyclic GMP formation in artery and vein.

    abstract::The objective of this study was to determine whether the vascular smooth muscle contractile effect of NG-methyl-L-arginine (NMA) is endothelium dependent and attributed to a decline in smooth muscle levels of cyclic GMP. Vascular smooth muscle levels of cyclic GMP are severalfold greater in endothelium-intact than in ...

    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.87.12.4430

    authors: Gold ME,Wood KS,Byrns RE,Fukuto J,Ignarro LJ

    更新日期:1990-06-01 00:00:00

  • Inhibition of a reductive function of the plasma membrane by bacitracin and antibodies against protein disulfide-isomerase.

    abstract::Evidence had been provided that a disulfide-linked [125I]iodotyramine/poly(D-lysine) conjugate was reductively cleaved when bound nonspecifically to the surface of Chinese hamster ovary (CHO) cells and that this cleavage was abolished by membrane-impermeant sulfhydryl blockers. The same blockers were subsequently foun...

    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.90.9.4112

    authors: Mandel R,Ryser HJ,Ghani F,Wu M,Peak D

    更新日期:1993-05-01 00:00:00

  • Design of embedded chimeric peptide nucleic acids that efficiently enter and accurately reactivate gene expression in vivo.

    abstract::Pharmacological treatments designed to reactivate fetal γ-globin can lead to an effective and successful clinical outcome in patients with hemoglobinopathies. However, new approaches remain highly desired because such treatments are not equally effective for all patients, and toxicity issues remain. We have taken a sy...

    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.0912896107

    authors: Chen J,Peterson KR,Iancu-Rubin C,Bieker JJ

    更新日期:2010-09-28 00:00:00

  • Identification of specific apical membrane polypeptides associated with the antidiuretic hormone-elicited water permeability increase in the toad urinary bladder.

    abstract::Antidiuretic hormone (ADH) increases the water permeability of the toad urinary bladder. The increase occurs in the apical plasma membrane of granular cells that line the urinary surface of the bladder and is produced by the insertion of water permeability units that have been identified by freeze-fracture electron mi...

    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.85.6.1942

    authors: Harris HW Jr,Wade JB,Handler JS

    更新日期:1988-03-01 00:00:00

  • Selective inhibition by a synthetic hirudin peptide of fibrin-dependent thrombosis in baboons.

    abstract::To determine the importance of the thrombin substrate recognition exosite for fibrinogen binding in the formation of both arterial and venous thrombi, we evaluated the antithrombotic effects of the tyrosine-sulfated dodecapeptide from residues 53-64 of hirudin (H peptide) in a nonhuman primate model. This peptide was ...

    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.88.4.1177

    authors: Cadroy Y,Maraganore JM,Hanson SR,Harker LA

    更新日期:1991-02-15 00:00:00

  • Spontaneous transmitter release is critical for the induction of long-term and intermediate-term facilitation in Aplysia.

    abstract::Long-term plasticity can differ from short-term in recruiting the growth of new synaptic connections, a process that requires the participation of both the presynaptic and postsynaptic components of the synapse. How does information about synaptic plasticity spread from its site of origin to recruit the other componen...

    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.1206914109

    authors: Jin I,Puthanveettil S,Udo H,Karl K,Kandel ER,Hawkins RD

    更新日期:2012-06-05 00:00:00

  • X-raying galaxies: a Chandra legacy.

    abstract::This presentation reviews Chandra's major contribution to the understanding of nearby galaxies. After a brief summary on significant advances in characterizing various types of discrete x-ray sources, the presentation focuses on the global hot gas in and around galaxies, especially normal ones like our own. The hot ga...

    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.0914255107

    authors: Wang QD

    更新日期:2010-04-20 00:00:00

  • Engineered leucine zippers show that hemiphosphorylated CREB complexes are transcriptionally active.

    abstract::The ability of basic/leucine zipper transcription factors to form homo- and heterodimers potentially increases the diversity of signaling pathways that can impinge upon a single genetic element. The capacity of these proteins to dimerize in various combinations complicates the analysis of their functional properties, ...

    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.90.19.9046

    authors: Loriaux MM,Rehfuss RP,Brennan RG,Goodman RH

    更新日期:1993-10-01 00:00:00

  • Place recognition and heading retrieval are mediated by dissociable cognitive systems in mice.

    abstract::A lost navigator must identify its current location and recover its facing direction to restore its bearings. We tested the idea that these two tasks--place recognition and heading retrieval--might be mediated by distinct cognitive systems in mice. Previous work has shown that numerous species, including young childre...

    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.1424194112

    authors: Julian JB,Keinath AT,Muzzio IA,Epstein RA

    更新日期:2015-05-19 00:00:00

  • Structural analysis of the core COMPASS family of histone H3K4 methylases from yeast to human.

    abstract::Histone H3 lysine 4 (H3K4) methylation is catalyzed by the highly evolutionarily conserved multiprotein complex known as Set1/COMPASS or MLL/COMPASS-like complexes from yeast to human, respectively. Here we have reconstituted fully functional yeast Set1/COMPASS and human MLL/COMPASS-like complex in vitro and have iden...

    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.1109360108

    authors: Takahashi YH,Westfield GH,Oleskie AN,Trievel RC,Shilatifard A,Skiniotis G

    更新日期:2011-12-20 00:00:00

  • Remodeling in bone without osteocytes: billfish challenge bone structure-function paradigms.

    abstract::A remarkable property of tetrapod bone is its ability to detect and remodel areas where damage has accumulated through prolonged use. This process, believed vital to the long-term health of bone, is considered to be initiated and orchestrated by osteocytes, cells within the bone matrix. It is therefore surprising that...

    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.1412372111

    authors: Atkins A,Dean MN,Habegger ML,Motta PJ,Ofer L,Repp F,Shipov A,Weiner S,Currey JD,Shahar R

    更新日期:2014-11-11 00:00:00

  • Waves and stimulus-modulated dynamics in an oscillating olfactory network.

    abstract::The temporal dynamics of electrical activity in an olfactory organ, the procerebral lobe of the terrestrial mollusc Limax maximus, is studied. The lobe exhibits intrinsic oscillations in its field potential. Intracellular recordings show that the lobe contains two classes of neurons, both with activity phase-locked to...

    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.91.2.669

    authors: Delaney KR,Gelperin A,Fee MS,Flores JA,Gervais R,Tank DW,Kleinfeld D

    更新日期:1994-01-18 00:00:00

  • Optical mapping of site-directed cleavages on single DNA molecules by the RecA-assisted restriction endonuclease technique.

    abstract::Fluorescence in situ hybridization (FISH) resolution has advanced because newer techniques use increasingly decondensed chromatin. FISH cannot analyze restriction enzyme cutting sites due to limitations of the hybridization and detection technologies. The RecA-assisted restriction endonuclease (RARE) technique cleaves...

    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.92.1.165

    authors: Wang YK,Huff EJ,Schwartz DC

    更新日期:1995-01-03 00:00:00

  • An axoplasmic myosin with a calmodulin-like light chain.

    abstract::Organelles in the axoplasm from the squid giant axon move along exogenous actin filaments toward their barbed ends. An approximately 235-kDa protein, the only band recognized by a pan-myosin antibody in Western blots of isolated axoplasmic organelles, has been previously proposed to be a motor for these movements. Her...

    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.93.12.6064

    authors: Bearer EL,DeGiorgis JA,Jaffe H,Medeiros NA,Reese TS

    更新日期:1996-06-11 00:00:00

  • Antigenic variation in Plasmodium falciparum.

    abstract::Antigenic variation of infectious organisms is a major factor in evasion of the host immune response. However, there has been no definitive demonstration of this phenomenon in the malaria parasite Plasmodium falciparum. In this study, cloned parasites were examined serologically and biochemically for the expression of...

    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.88.20.9171

    authors: Biggs BA,Goozé L,Wycherley K,Wollish W,Southwell B,Leech JH,Brown GV

    更新日期:1991-10-15 00:00:00

  • Coadministration of HIV vaccine vectors with vaccinia viruses expressing IL-15 but not IL-2 induces long-lasting cellular immunity.

    abstract::Vaccine efficacy is determined largely by cellular and humoral immunity as well as long-lasting immunological memory. IL-2 and IL-15 were evaluated in vaccinia vectors expressing HIV gp160 for the establishment of an effective vaccine strategy. Both IL-2 and IL-15 in the vaccinia vector induced strong and long-lasting...

    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.0630592100

    authors: Oh S,Berzofsky JA,Burke DS,Waldmann TA,Perera LP

    更新日期:2003-03-18 00:00:00

  • Power law tails in phylogenetic systems.

    abstract::Covariance analysis of protein sequence alignments uses coevolving pairs of sequence positions to predict features of protein structure and function. However, current methods ignore the phylogenetic relationships between sequences, potentially corrupting the identification of covarying positions. Here, we use random m...

    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.1711913115

    authors: Qin C,Colwell LJ

    更新日期:2018-01-23 00:00:00

  • Neurons sense nanoscale roughness with nanometer sensitivity.

    abstract::The interaction between cells and nanostructured materials is attracting increasing interest, because of the possibility to open up novel concepts for the design of smart nanobiomaterials with active biological functionalities. In this frame we investigated the response of human neuroblastoma cell line (SH-SY5Y) to go...

    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.0914456107

    authors: Brunetti V,Maiorano G,Rizzello L,Sorce B,Sabella S,Cingolani R,Pompa PP

    更新日期:2010-04-06 00:00:00

  • Antibodies to the binding site of the receptor for luteinizing hormone-releasing hormone (LHRH): generation with a synthetic decapeptide encoded by an RNA complementary to LHRH mRNA.

    abstract::A molecular recognition code has been hypothesized to exist in which ligands and their binding sites are encoded on complementary segments of genomic DNA. We have tested this hypothesis by generating a rabbit antibody to a synthetic decapeptide (complementary peptide) encoded by an RNA complementary to the mRNA for lu...

    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.83.24.9714

    authors: Mulchahey JJ,Neill JD,Dion LD,Bost KL,Blalock JE

    更新日期:1986-12-01 00:00:00

  • The up-regulation of ferritin expression using a small-molecule ligand to the native mRNA.

    abstract::The binding of small molecules to distinctive three-dimensional structures in mRNA provides a new dimension in RNA control, previously limited to the targeting of secondary structures with antisense and RNA interference; such targeting can modulate mRNA function and rates of protein biosynthesis. Small molecules that ...

    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.0509744102

    authors: Tibodeau JD,Fox PM,Ropp PA,Theil EC,Thorp HH

    更新日期:2006-01-10 00:00:00

  • Ecological and socioeconomic effects of China's policies for ecosystem services.

    abstract::To address devastating environmental crises and to improve human well-being, China has been implementing a number of national policies on payments for ecosystem services. Two of them, the Natural Forest Conservation Program (NFCP) and the Grain to Green Program (GTGP), are among the biggest programs in the world becau...

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

    pub_type: 杂志文章,评审

    doi:10.1073/pnas.0706436105

    authors: Liu J,Li S,Ouyang Z,Tam C,Chen X

    更新日期:2008-07-15 00:00:00

  • Isolation and mapping of plasmids containing the Salmonella typhimurium origin of DNA replication.

    abstract::A purified EcoRI restriction endonuclease fragment that determines resistance to kanamycin and is incapable of self-replication was used to select autonomously replicating fragments from an EcoRI digest of a Salmonella typhimurium F' plasmid containing the chromosomal region believed to include the S. typhimurium orig...

    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.76.7.3097

    authors: Zyskind JW,Deen LT,Smith DW

    更新日期:1979-07-01 00:00:00

  • Reconstitution of thermostable ATPase capable of energy coupling from its purified subunits.

    abstract::Purified dicyclohexylcarbodiimide-sensitive ATPase (TF0-F1) from thermophilic bacterium PS3 is composed of a water soluble part with ATP hydrolytic activity (TF1) and a water insoluble moiety (TF0). All of the five subunits (alpha, beta, gamma, delta, and epsilon) of TF1 were isolated. TF1 was reconstituted from the f...

    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.74.3.936

    authors: Yoshida M,Okamoto H,Sone N,Hirata H,Kagawa Y

    更新日期:1977-03-01 00:00:00

  • Mechanical properties of sensory hair bundles are reflected in their Brownian motion measured with a laser differential interferometer.

    abstract::By optically probing with a focused, low-power laser beam, we measured the spontaneous deflection fluctuations of the sensory hair bundles on frog saccular hair cells with a sensitivity of about 1 pm/square root of Hz. The preparation was illuminated by two orthogonally polarized laser beams separated by only about 0....

    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.86.14.5371

    authors: Denk W,Webb WW,Hudspeth AJ

    更新日期:1989-07-01 00:00:00

  • Macrophage activation: dissociation of cytotoxic activity from Ia-A antigen expression.

    abstract::Peritoneal macrophages were obtained from DBA/2 mice that were untreated or after the injection of bacillus Calmette-Guerin (BCG), thioglycollate broth, proteose-peptone broth, or gamma-irradiated P-815 tumor cells. These macrophages were "activated" to become cytotoxic for a fibroblast cell line (L 929) by the additi...

    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.80.7.2031

    authors: Blumenthal EJ,Roberts WK,Vasil A,Talmage DW

    更新日期:1983-04-01 00:00:00

  • Isolation of the tumor-inducing RNA from oncogenic and nononcogenic Agrobacterium tumefaciens.

    abstract::Two RNA fractions have been isolated and purified from both oncogenic and nononcogenic strains of Agrobacterium tumefaciens. Both RNAs are capable of inducing the formation of transplantable tumors when introduced at wound sites in stems of Datura stramonium plants. One of these RNA fractions was found to be bound to ...

    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.71.5.1585

    authors: Beljanski M,Aaron-da Cunha MI,Beljanski MS,Manigault P,Bourgarel P

    更新日期:1974-05-01 00:00:00

  • Improved tools for biological sequence comparison.

    abstract::We have developed three computer programs for comparisons of protein and DNA sequences. They can be used to search sequence data bases, evaluate similarity scores, and identify periodic structures based on local sequence similarity. The FASTA program is a more sensitive derivative of the FASTP program, which can be us...

    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.85.8.2444

    authors: Pearson WR,Lipman DJ

    更新日期:1988-04-01 00:00:00

  • GLQ223: an inhibitor of human immunodeficiency virus replication in acutely and chronically infected cells of lymphocyte and mononuclear phagocyte lineage.

    abstract::GLQ223 is a highly purified, formulated preparation of trichosanthin, a 26-kDa plant-derived ribosome-inactivating protein with potent inhibitory activity against human immunodeficiency virus (HIV) in vitro. The compound produced concentration-dependent inhibition of HIV replication in acutely infected cultures of T-l...

    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.86.8.2844

    authors: McGrath MS,Hwang KM,Caldwell SE,Gaston I,Luk KC,Wu P,Ng VL,Crowe S,Daniels J,Marsh J

    更新日期:1989-04-01 00:00:00