Abstract:
:Human 2'-5' oligoadenylate synthetase-1 (OAS1) is central in innate immune system detection of cytoplasmic double-stranded RNA (dsRNA) and promotion of host antiviral responses. However, the molecular signatures that promote OAS1 activation are currently poorly defined. We show that the 3'-end polyuridine sequence of viral and cellular RNA polymerase III non-coding transcripts is critical for their optimal activation of OAS1. Potentiation of OAS1 activity was also observed with a model dsRNA duplex containing an OAS1 activation consensus sequence. We determined that the effect is attributable to a single appended 3'-end residue, is dependent upon its single-stranded nature with strong preference for pyrimidine residues and is mediated by a highly conserved OAS1 residue adjacent to the dsRNA binding surface. These findings represent discovery of a novel signature for OAS1 activation, the 3'-single-stranded pyrimidine (3'-ssPy) motif, with potential functional implications for OAS1 activity in its antiviral and other anti-proliferative roles.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Vachon VK,Calderon BM,Conn GLdoi
10.1093/nar/gku1289subject
Has Abstractpub_date
2015-01-01 00:00:00pages
544-52issue
1eissn
0305-1048issn
1362-4962pii
gku1289journal_volume
43pub_type
杂志文章abstract::Here we report that the poor binding of methylphosphonate oligodeoxynucleosides (MP-ODNs) to their nucleic acid targets can be improved by additional inversion of the anomeric configuration (from beta to alpha) in the sugar moieties to give a new class of analogs, MP alpha-oligonucleosides. MP alpha-dT12and MP 5' alph...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.20.4551
更新日期:1998-10-15 00:00:00
abstract::We describe a new, broadly applicable methodology for screening in parallel interactions of RNA-binding proteins (RBPs) with large numbers of microRNA (miRNA) precursors and for determining their affinities in native form in the presence of cellular factors. The assays aim at identifying pre-miRNAs that are potentiall...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1197
更新日期:2013-02-01 00:00:00
abstract::Argonaute (AGO) proteins have a well-established role in post-transcriptional regulation of gene expression as key component of the RNA silencing pathways. Recent evidence involves AGO proteins in mammalian nuclear processes such as transcription and splicing, though the mechanistic aspects of AGO nuclear functions re...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku1387
更新日期:2015-02-18 00:00:00
abstract::Transcription is the first step in gene expression, and it is the step at which most of the regulation of expression occurs. Although sequenced prokaryotic genomes provide a wealth of information, transcriptional regulatory networks are still poorly understood using the available genomic information, largely because a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr795
更新日期:2012-02-01 00:00:00
abstract::The cold shock domain is one of the most highly conserved motifs between bacteria and higher eukaryotes. Y-box-binding proteins represent a subfamily of cold shock domain proteins with pleiotropic functions, ranging from transcription in the nucleus to translation in the cytoplasm. These proteins have been investigate...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku1077
更新日期:2014-12-01 00:00:00
abstract::Although the thermophilic bacterium Thermus aquaticus grows optimally at 70 degrees C and cannot grow at moderate temperatures, its DNA polymerase I has significant activity at 20-37 degrees C. This activity is a bane to some PCRs, since it catalyzes non-specific priming. We report mutations of Klentaq (an N-terminal ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg813
更新日期:2003-11-01 00:00:00
abstract::Partial acid cleavage, comparative HPLC tryptic peptide mapping and amino acid sequencing of the C1 and C2 proteins of HeLa heterogeneous nuclear ribonucleoprotein (hnRNP) particles demonstrate that proteins C1 and C2 differ in primary structure by the presence of a 13 amino acid insert sequence in C2. This C2 insert ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.21.8441
更新日期:1989-11-11 00:00:00
abstract::We describe a method for anchoring bacteriophage lambda DNA by one end to gold by Au-biotin-streptavidin-biotin-DNA bonds. DNA anchored to a microfabricated Au line could be aligned and stretched in flow and electric fields. The anchor was shown to resist a force of at least 11 pN, a linkage strong enough to allow DNA...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.3.492
更新日期:1994-02-11 00:00:00
abstract::Large-scale sequencing studies discovered substantial genetic variants occurring in enhancers which regulate genes via long range chromatin interactions. Importantly, such variants could affect enhancer regulation by changing transcription factor bindings or enhancer hijacking, and in turn, make an essential contribut...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx920
更新日期:2018-01-04 00:00:00
abstract::Deciphering gene regulatory network architecture amounts to the identification of the regulators, conditions in which they act, genes they regulate, cis-acting motifs they bind, expression profiles they dictate and more complex relationships between alternative regulatory partnerships and alternative regulatory motifs...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki166
更新日期:2005-01-31 00:00:00
abstract::OligoArrayDb is a comprehensive database containing pangenomic oligonucleotide microarray probe sets designed for most of the sequenced genomes that are not covered by commercial catalog arrays. The availability of probe sequences, associated with custom microarray fabrication services offered by many companies and co...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn761
更新日期:2009-01-01 00:00:00
abstract::Apolipoprotein B (apoB) is a major protein component of low density and very low density lipoproteins. Because of its large size and heterogeneity, molecular studies of apoB have been difficult, and its structure and regulation remain poorly understood. We now report the identification of human apoB cDNA clones by ant...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.19.6937
更新日期:1985-10-11 00:00:00
abstract::The modified nucleoside, 7-(4,5-cis-dihydroxy-1-cyclopenten-3-yl-aminomethyl)-7-deazaguanosine, designated as Q, and its derivative, Q*, were found in tRNA's from various organisms, including several mammalian tissues, other animals such as starfish, lingula and hagfish, and wheat germ. Q isolated from rat liver tRNA ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/2.10.1931
更新日期:1975-10-01 00:00:00
abstract::Eukaryotic transcription factor B (TFB) proteins are homologous to KsgA/Dim1 ribosomal RNA (rRNA) methyltransferases. The mammalian TFB1, mitochondrial (TFB1M) factor is an essential protein necessary for mitochondrial gene expression. TFB1M mediates an rRNA modification in the small ribosomal subunit and thus plays a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt547
更新日期:2013-09-01 00:00:00
abstract::A simple and efficient gene replacement method, based on the recombination and repair activities of the cell, was developed. The method permits the targeted construction of markerless deletions, insertions and point mutations in the Escherichia coli chromosome. A suicide plasmid, carrying the mutant allele and the rec...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.22.4409
更新日期:1999-11-15 00:00:00
abstract::Double-stranded soybean leghemoglobin DNA was synthesized from leghemoglobin mRNA isolated from soybean nodules. The dsDNA was inserted into the Bam H1 site of plasmid pBR322 using the poly-dAT-joiner method. A cloned DNA fragment of one recombinant plasmid was isolated and characterized by restriction endonuclease di...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.9.3061
更新日期:1979-07-11 00:00:00
abstract::We have studied the ability of the wt1 tumor suppressor gene product to repress different classes of activation domains previously shown to stimulate the initiation and elongation steps of RNA polymerase II transcription in vivo. Repression assays revealed that WT1 represses all three classes of activation domains: Sp...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.14.2889
更新日期:1999-07-15 00:00:00
abstract::Telomeres play a central role in human cancer, cardiovascular aging and possibly longevity. However, present methods to measure telomere length are fraught with shortcomings that limit their use. Here, we describe a novel method to measure the relative telomere DNA content by dot blot analysis. In each dot, the DNA co...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr235
更新日期:2011-07-01 00:00:00
abstract::The unwinding of supercoiled phi X174 RFI DNA induced by the tumorigenic (+) and non-tumorigenic (-) enantiomers of trans-7,8-dihydroxy-anti-9,10-epoxy-7,8,9,10-tetrahydrobenzo[a]pyrene (BPDE) has been investigated by agarose slab-gel and ethidium titration tube gel electrophoresis. The differences in adduct conformat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.23.6167
更新日期:1992-12-11 00:00:00
abstract::The representational difference analysis (RDA) and other subtraction techniques are used to enrich sample-specific sequences by elimination of ubiquitous sequences existing in both the sample of interest (tester) and the subtraction partner (driver). While applying the RDA to genomic DNA of cutaneous lymphoma cells in...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.4.e20
更新日期:2001-02-15 00:00:00
abstract::Transcription factors (TFs) regulate gene expression by binding to short DNA sequence motifs, yet their binding specificities alone cannot explain how certain TFs drive a diversity of biological processes. In order to investigate the factors that control the functions of the pleiotropic TF STAT3, we studied its genome...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks1300
更新日期:2013-02-01 00:00:00
abstract::Human minisatellite probes cross-hybridize to mouse DNA and detect multiple variable loci. The resulting DNA "fingerprints" vary substantially between inbred strains but relatively little within an inbred strain. By studying the segregation of variable DNA fragments in BXD recombinant inbred strains of mice, at least ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.7.2823
更新日期:1987-04-10 00:00:00
abstract::Clustered regularly interspaced short palindromic repeats (CRISPR), in combination with CRISPR associated (cas) genes, constitute CRISPR-Cas bacterial adaptive immune systems. To generate immunity, these systems acquire short sequences of nucleic acids from foreign invaders and incorporate these into their CRISPR arra...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku527
更新日期:2014-07-01 00:00:00
abstract::During DNA replication, the presence of 8-oxoguanine (8-oxoG) lesions in the template strand cause the high-fidelity (HiFi) DNA polymerase (Pol) to stall. An early response to 8-oxoG lesions involves 'on-the-fly' translesion synthesis (TLS), in which a specialized TLS Pol is recruited and replaces the stalled HiFi Pol...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa803
更新日期:2020-11-04 00:00:00
abstract::Two analog uridine triphosphates tethering additional functionality, one a primary amino group and the second a mercapto group, were prepared and tested for their compatibility with in vitro RNA selection procedures. 5-(3-Aminopropyl)uridine triphosphate (UNH(2)) as a uridine substitute was a more effective substrate ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.17.3316
更新日期:2000-09-01 00:00:00
abstract::Sodium is one of the most abundant metals in the environment and in biology, playing critical ecological and physiological roles. Na+ is also the most common buffer salt for nucleic acids research, while its specific interaction with DNA has yet to be fully studied. Herein, we probe a highly selective and robust Na+ a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw845
更新日期:2016-12-01 00:00:00
abstract::In order to characterize structure-function relationships, the kinetic behavior of chimeric RNA/DNA ribozyme was compared with that of all RNA ribozyme. Determined kcat values were proven to represent the chemical-cleavage step and not the product-dissociation step. In agreement with the finding by Dahm and Uhlenbeck ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.24.5656
更新日期:1993-12-11 00:00:00
abstract::The Bcl-2 protein has an anti-apoptotic effect in neuronal and other cell types. We show for the first time that the Bcl-2 promoter is activated by the neuronal survival factor nerve growth factor (NGF) and that this effect is dependent on a region of the promoter from -1472 to -1414. This activation requires the Rap-...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.10.2086
更新日期:1999-05-15 00:00:00
abstract::DNA intercalators are found to recognize a DNA lesion as a high affinity receptor site. This lesion-specific binding is observed when one strand of a DNA double helix contains an extra, unpaired nucleotide. Our assay for binding controls for the effects of sequence with a series of oligodeoxynucleotide duplexes which ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.24.11607
更新日期:1988-12-23 00:00:00
abstract::Underlying higher order chromatin organization are Structural Maintenance of Chromosomes (SMC) complexes, large protein rings that entrap DNA. The molecular mechanism by which SMC complexes organize chromatin is as yet incompletely understood. Two prominent models posit that SMC complexes actively extrude DNA loops (l...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1270
更新日期:2021-01-12 00:00:00