Abstract：
:At either end of the nopaline Ti-plasmid T-region resides a copy of a 25 bp repeated element. The normal T-DNA endpoint is 1 bp internal of the right copy, with the transcription initiation site of the nopaline synthase (nos) gene being approximately 300 bp away in the same direction. Here we describe results which demonstrate that deletion of any combination of sequences between the nos initiation site and the right copy of the 25 bp repeat does not affect oncogenicity. Thus a mutant retaining the right copy and only 3 bp internal of it is indistinguishable from the wild type parent in its oncogenic properties. However deletion of a further 39 bp, including complete removal of the right copy abolishes crown gall tumour formation on Kalanchöe and tobacco. From these results we infer that unlike the left border, the right copy of the 25 bp repeat is required for T-DNA transfer and/or integration. This is the first conclusive demonstration of the involvement of a copy of the repeats in this process.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Shaw CH,Watson MD,Carter GH,Shaw CHdoi
10.1093/nar/12.15.6031subject
Has Abstractpub_date
1984-08-10 00:00:00pages
6031-41issue
15eissn
0305-1048issn
1362-4962journal_volume
12pub_type
杂志文章abstract：:Full-length cDNA of the 6.3 kb turnip yellow mosaic virus (TYMV) genome was placed between a T7 promoter and a unique Hind III site. In vitro transcription of Hind III-linearized DNA of clone pTYMC yielded full-length RNA transcripts. In inoculations of Chinese cabbage protoplasts and plants, capped transcripts and vi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.12.4675
更新日期：1989-06-26 00:00:00
abstract：:Prion proteins (PrPs) cause prion diseases, such as bovine spongiform encephalopathy. The conversion of a normal cellular form (PrP(C)) of PrP into an abnormal form (PrP(Sc)) is thought to be associated with the pathogenesis. An RNA aptamer that tightly binds to and stabilizes PrP(C) is expected to block this conversi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks1132
更新日期：2013-01-01 00:00:00
abstract：:ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling pipeline that relies primarily on Modeller for fold assignment, sequence-structure alignment, model building and model assessment (http://salilab.org/modelle...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1091
更新日期：2011-01-01 00:00:00
abstract：:Alternative splicing has recently emerged as a major mechanism of regulation in the human genome, occurring in perhaps 40-60% of human genes. Thus, microarray studies of functional regulation could, in principle, be extended to detect not only the changes in the overall expression of a gene, but also changes in its sp...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnh173
更新日期：2004-12-14 00:00:00
abstract：:The FREP database (http://facts.gsc.riken.go.jp/FREP/) contains 31 396 RepeatMasker-identified non-redundant variant repeat sequences derived from 16,527 mouse cDNAs with protein-coding potential. The repeats were computationally associated with potential effects on transcriptional variation, translation, protein func...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkh123
更新日期：2004-01-01 00:00:00
abstract：:enod40 is a plant gene that participates in the regulation of symbiotic interaction between leguminous plants and bacteria or fungi. Furthermore, it has been suggested to play a general role in non-symbiotic plant development. Although enod40 seems to have multiple functions, being present in many land plants, the mol...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm173
更新日期：2007-01-01 00:00:00
abstract：:The PROSITE pattern Zinc_Finger_C2H2 was extended to permit the detection of all C2H2 zinc fingers and their parent proteins in the recently completed sequence of the yeast genome. Additionally, a new computer program was written that extracts other zinc binding motifs (non C2H2 'fingers'), overlapping with the classi...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/25.12.2464
更新日期：1997-06-15 00:00:00
abstract：:Staphylococcus aureus plasmid pT181 is thought to replicate via an asymmetric rolling-circle mechanism. By studying pulse labeled replicative intermediates, here we report that pT181 replication involves: (1) a post-replicative hypersupercoiled monomer and (2) a partially replicated intermediate which lacks superhelic...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.7.2897
更新日期：1988-04-11 00:00:00
abstract：:To synchronize SV40 replicons, simian cells infected with a tsA mutant were restricted at 40 degrees, to complete ongoing replication and returned to 32 degrees, to activate new replicons in the presence of the DNA chain elongation inhibitor aphidicolin. Upon further incubation at 40 degrees without the drug, 3H-dT wa...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/10.2.763
更新日期：1982-01-22 00:00:00
abstract：:The Mouse Genome Database (MGD) (http://www.informatics.jax.org) one component of a community database resource for the laboratory mouse, a key model organism for interpreting the human genome and for understanding human biology. MGD strives to provide an extensively integrated information resource with experimental d...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg047
更新日期：2003-01-01 00:00:00
abstract：:The sequence requirements for specific and efficient transcription from the 16S/23S rRNA promoter of Sulfolobus shibatae were analysed by point mutations and by cassette mutations using an in vitro transcription system. The examination of the box A-containing distal promoter element (DPE) showed the great importance o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/20.20.5423
更新日期：1992-10-25 00:00:00
abstract：:Computational modelling of mammalian cell cycle regulation is a challenging task, which requires comprehensive knowledge on many interrelated processes in the cell. We have developed a web-based integrated database on cell cycle regulation in mammals in normal and pathological states (Cyclonet database). It integrates...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl912
更新日期：2007-01-01 00:00:00
abstract：:The proteins in a cell often assemble into complexes to carry out their functions and play an essential role of biological processes. The PCFamily server identifies template-based homologous protein complexes [called protein complex family (PCF)] and infers functional modules of the query proteins. This server first f...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq464
更新日期：2010-07-01 00:00:00
abstract：:The Kluyveromyces lactis gene encoding the general transcription factor IIB (TFIIB) was isolated from a genomic library by complementation of the cold-sensitive phenotype conferred by a mutation in the SUA7 gene, which encodes TFIIB in Saccharomyces cerevisiae. DNA sequence analysis of the KI-SUA7 gene revealed a 357 ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.15.3413
更新日期：1993-07-25 00:00:00
abstract：:Genome packing in adenovirus has long evaded precise description, since the viral dsDNA molecule condensed by proteins (core) lacks icosahedral order characteristic of the virus protein coating (capsid). We show that useful insights regarding the organization of the core can be inferred from the analysis of spatial di...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv187
更新日期：2015-04-30 00:00:00
abstract：:Dinucleoside diphosphates of the general type pGpN have been prepared enzymatically using ribonuclease N1. Alkylated uridines or cytidines, which are products of carcinogens acting on nucleic acids, were tested in dinucleoside diphosphates for their ability to stimulate the binding of Ala- or Val-tRNA to ribosomes. O2...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/6.4.1709
更新日期：1979-04-01 00:00:00
abstract：:MicroRNAs (miRNAs) are small non-coding RNAs of approximately 22 nucleotides, which negatively regulate the gene expression at the post-transcriptional level. This study describes an update of the miRTarBase (http://miRTarBase.mbc.nctu.edu.tw/) that provides information about experimentally validated miRNA-target inte...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv1258
更新日期：2016-01-04 00:00:00
abstract：:The interplay between aromatic stacking and hydrogen bonding in nucleobases has been investigated via high-level quantum chemical calculations. The experimentally observed stacking arrangement between consecutive bases in DNA and RNA/DNA double helices is shown to enhance their hydrogen bonding ability as opposed to g...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gki317
更新日期：2005-03-23 00:00:00
abstract：:Here, we present an update of Breast Cancer Now Tissue Bank bioinformatics, a rich platform for the sharing, mining, integration and analysis of breast cancer data. Its modalities provide researchers with access to a centralised information gateway from which they can access a network of bioinformatic resources to que...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx913
更新日期：2018-01-04 00:00:00
abstract：:To explain the activation of transcription by a remote enhancer, two models are most often considered, namely looping and scanning. A scanning model, also referred to as 'polymerase entry site' model predicts that for two adjacent promoters the one proximal to an enhancer would be preferentially activated. Preferentia...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.22.8931
更新日期：1989-11-25 00:00:00
abstract：:The interaction of several synthetic analogues of d-ApA with Poly U and Poly dT was examined to explore the effects of substituents at phosphorus on binding properties of oligonucleotides. These analogues contained a bulky, lipophilic group (2,2,2-trichloroethoxy or 2,2,2-trichloro-1,1-dimethylethoxy) a small, uncharg...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.8.3487
更新日期：1986-04-25 00:00:00
abstract：:Xenbase (www.xenbase.org), the model organism database for Xenopus laevis and X. (Silurana) tropicalis, is the principal centralized resource of genomic, development data and community information for Xenopus research. Recent improvements include the addition of the literature and interaction tabs to gene catalog page...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp953
更新日期：2010-01-01 00:00:00
abstract：:The Plant Ontology Consortium (POC, http://www.plantontology.org) is a collaborative effort among model plant genome databases and plant researchers that aims to create, maintain and facilitate the use of a controlled vocabulary (ontology) for plants. The ontology allows users to ascribe attributes of plant structure ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkm908
更新日期：2008-01-01 00:00:00
abstract：:Oligonucleotides synthesized in array format suffer from contamination by truncated species. We have developed a method to invert DNA molecules in situ after completed synthesis. Reactive functions at the 5'-ends of the oligonucleotides are permitted to react with functions on the support before the 3'-ends are releas...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/27.24.4710
更新日期：1999-12-15 00:00:00
abstract：:The nucleotide sequence of the portion of a Bacillus subtilis (strain PAP115) 3 kb Pst I fragment which contains an endo-beta-1, 4-glucanase gene has been determined. This gene encodes a protein of 499 amino acid residues (Mr = 55,234) with a typical B. subtilis signal peptide. Escherichia coli which has been transfor...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/14.22.9159
更新日期：1986-11-25 00:00:00
abstract：:CDK12 (cyclin-dependent kinase 12) is a regulatory kinase with evolutionarily conserved roles in modulating transcription elongation. Recent tumor genome studies of breast and ovarian cancers highlighted recurrent CDK12 mutations, which have been shown to disrupt DNA repair in cell-based assays. In breast cancers, CDK...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkx187
更新日期：2017-06-20 00:00:00
abstract：:The apolipoprotein AI (apoAI) promoter/enhancer contains multiple cis -acting elements on which a variety of hepatocyte-enriched and ubiquitous transcription factors function synergistically to regulate liver-specific transcription. Adenovirus E1A proteins repress tissue-specific gene expression and disrupt the differ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.7.1761
更新日期：1998-04-01 00:00:00
abstract：:ETS-domain transcription factors play important roles in controlling gene expression in a variety of different contexts; however, these proteins bind to very similar sites and it is unclear how in vivo specificity is achieved. In silico analysis is unlikely to reveal specific targets for individual family members and ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkp804
更新日期：2009-12-01 00:00:00
abstract：:A novel cytoplasmic gene expression system has been developed. This system differs from other expression systems in that it relies on the co-delivery of plasmid DNA and T7 RNA polymerase (RNAP) during transfection. The plasmid contains a T7 RNAP gene driven by the T7 promoter (T7 autogene) and a functional/reporter ge...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/22.11.2114
更新日期：1994-06-11 00:00:00
abstract：:DNA and RNA guanine-quadruplexes (G4s) are stabilized by several cations, in particular by potassium and sodium ions. Generally, potassium stabilizes guanine-quartet assemblies to a larger extent than sodium; in this article we report about a higher-order G4 structure more stable in sodium than in potassium. Repeats o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw003
更新日期：2016-04-07 00:00:00
