Abstract:
:Starting from a crude E. coli extract, two activities which specifically protect highly repetitive bacterial DNA sequences (called PU for Palindromic Unit or REP for Repetitive Extragenic Palindromic sequence) against a digestion with Exonuclease III have been purified. We show that one of these activities is due to the DNA polymerase I (Pol I). This constitutes the first indication for a specific interaction between Pol I and a duplex DNA. This interaction requires the presence of PU. It was confirmed and analyzed by native gel electrophoresis and DNase I footprinting experiments. The other activity contained at least five polypeptides. Its binding to PU DNA sequences was confirmed by native gel electrophoresis. Implications for the possible origin and functions of PU are discussed.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Gilson E,Perrin D,Hofnung Mdoi
10.1093/nar/18.13.3941subject
Has Abstractpub_date
1990-07-11 00:00:00pages
3941-52issue
13eissn
0305-1048issn
1362-4962journal_volume
18pub_type
杂志文章abstract::In a bis-(3'-5')-cyclic dimeric guanosine monophosphate (c-di-GMP)/transcription factor binding screen, we identified Mycobacterium smegmatis Ms6479 as the first c-di-GMP-responsive transcriptional factor in mycobacteria. Ms6479 could specifically bind with c-di-GMP and recognize the promoters of 37 lipid transport an...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks923
更新日期:2012-12-01 00:00:00
abstract::A new method of representing DNA sequences has been devised which is termed stave projection. Compared with other formats for showing the base sequences of DNA, this method greatly enhances the ease of visual analysis of the sequences of bases and it is also in a machine readable form. Using this method it is possible...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.1.509
更新日期:1986-01-10 00:00:00
abstract::BRCA1 expression is repressed by aberrant cytosine methylation in sporadic breast cancer. We hypothesized that aberrant cytosine methylation of the BRCA1 promoter was associated with the transcriptionally repressive effects of histone hypoacetylation and chromatin condensation. To address this question, we developed a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.17.3233
更新日期:2000-09-01 00:00:00
abstract::A soluble enzyme system that specifically initiates lambda dv plasmid DNA replication at a bacteriophage lambda replication origin [Wold et al. (1982) Proc. Natl. Acad. Sci. USA 79, 6176-6180] is also capable of replicating the single-stranded circular chromosomes of phages M13 and phi X174 to a duplex form. This chai...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/12.7.3069
更新日期:1984-04-11 00:00:00
abstract::Controller (C) proteins regulate the timing of the expression of restriction and modification (R-M) genes through a combination of positive and negative feedback circuits. A single dimer bound to the operator switches on transcription of the C-gene and the endonuclease gene; at higher concentrations, a second dimer bo...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn448
更新日期:2008-08-01 00:00:00
abstract::The 3' splice site of the second intron (I2) of the human apolipoprotein-AII gene, (GT)16GGGCAG, is unique in that, although fully functional, a stretch of alternating guanine and thymine residues replaces the polypyrimidine tract usually associated with 3' splice junctions. The transient expression of successive 5' d...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.9.3787
更新日期:1987-05-11 00:00:00
abstract::Two new crescent-shaped unsymmetrical cyanine dyes have been synthesised and their interactions with DNA have been investigated by different spectroscopic methods. These dyes are analogues to a minor groove binding unsymmetrical cyanine dye, BEBO, recently reported by us. In this dye, the structure of the known interc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg821
更新日期:2003-11-01 00:00:00
abstract::Bacterial small regulatory RNAs (sRNAs) play a major role in the regulation of various cellular functions. Most sRNAs interact with mRNA targets via an antisense mechanism, modifying their translation and/or degradation. Despite considerable progresses in discovering sRNAs in Gram-positive bacteria, their functions, f...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx190
更新日期:2017-05-05 00:00:00
abstract::An alpha-neo-endorphin (alpha NE) gene, which we previously synthesized chemically and inserted into E. coli beta-galactosidase gene of pK013 plasmid, has been excised and fused to E. coli alkaline phosphatase (APase) gene. One of the transformants was named E15/pA alpha NE1. Under the APase gene regulation, APase-alp...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.5.1283
更新日期:1983-03-11 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::Yeast co-expressing rat APOBEC-1 and a fragment of human apolipoprotein B (apoB) mRNA assembled functional editosomes and deaminated C6666 to U in a mooring sequence-dependent fashion. The occurrence of APOBEC-1-complementing proteins suggested a naturally occurring mRNA editing mechanism in yeast. Previously, a hidde...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.8.1772
更新日期:2001-04-15 00:00:00
abstract::p53 is thought to function in the maintenance of genomic stability by modulating transcription and interacting with cellular proteins to influence the cell cycle, DNA repair and apoptosis. p53 mutations occur in >50% of human cancers, and cells which lack wild type p53 accumulate karyotypic abnormalities such as ampli...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.19.3868
更新日期:1997-10-01 00:00:00
abstract::The temperature-sensitive Neurospora nuclear mutant cyt18-1 is deficient in splicing many Group I mitochondrial introns when grown at its non-permissive temperature; however, splicing of intron 1 in the coI gene of the Adiopodoume (formerly called North Africa) strain is unaffected (R.A. Collins and A.M. Lambowitz, J....
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.22.9087
更新日期:1989-11-25 00:00:00
abstract::Backscattering interferometry (BSI) has been used to successfully monitor molecular interactions without labeling and with high sensitivity. These properties suggest that this approach might be useful for detecting biomarkers of infection. In this report, we identify interactions and characteristics of nucleic acid pr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt165
更新日期:2013-05-01 00:00:00
abstract::Interactive Tree Of Life (http://itol.embl.de) is a web-based tool for the display, manipulation and annotation of phylogenetic trees. It is freely available and open to everyone. In addition to classical tree viewer functions, iTOL offers many novel ways of annotating trees with various additional data. Current versi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr201
更新日期:2011-07-01 00:00:00
abstract::Signaling pathways constitute a valuable source of information that allows interpreting the way in which alterations in gene activities affect to particular cell functionalities. There are web tools available that allow viewing and editing pathways, as well as representing experimental data on them. However, few metho...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt451
更新日期:2013-07-01 00:00:00
abstract::Because of their high nucleotide sequence homology, the specific detection of mRNA transcripts of individual members of a gene family presents certain problems. Here we apply and defend the single nucleotide primer extension (SNuPE) as a simple, specific, and highly quantitative assay for this purpose. The method dist...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.23.4812
更新日期:1996-12-01 00:00:00
abstract::The database of molecular motions, MolMovDB (http://molmovdb.org), has been in existence for the past decade. It classifies macromolecular motions and provides tools to interpolate between two conformations (the Morph Server) and predict possible motions in a single structure. In 2005, we expanded the services offered...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkj046
更新日期:2006-01-01 00:00:00
abstract::The complete nucleotide sequences of the various precursor 5S RNA species occurring in Bacillus licheniformis have been elucidated. The B. licheniformis precursors contain a 5'-precursor-specific segment of 95 nucleotides which is four times as long as the corresponding segment of the p5S RNAs from the closely related...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.19.4535
更新日期:1980-10-10 00:00:00
abstract::Phosphorylation of the easily accessible 3',5'-diesters 1a-d with diphenyl phosphorochloridate, followed by selective 5'-deacylation, affords the phosphotriester derivatives 2a-d in good yields. Alkaline treatment of 2a-d results in the formation of the 2',3'-cyclic phosphates (3a-d). The usefulness of the phosphotrie...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/3.10.2731
更新日期:1976-10-01 00:00:00
abstract::In Trypanosoma brucei the genes are organised into long polycistronic transcription units and only three promoters for protein-encoding genes and a single terminator have been characterised. These promoters recruit a polI-like RNA polymerase for the transcription units encoding the two major stage-specific antigens of...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.2.597
更新日期:2000-01-15 00:00:00
abstract::Topoisomerases catalyse changes in the topological state of DNA and are required for many aspects of DNA metabolism. While the functions of topoisomerases I and II in eukaryotes are well established, the role of topoisomerase III remains poorly defined. We have identified a gene in the fission yeast Schizosaccharomyce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.20.4050
更新日期:1999-10-15 00:00:00
abstract::The conformations of supercoiled (sc) DNA and linear DNA bound to polylysine (PL)-coated mica were investigated by scanning force microscopy (SFM) in solution. From the polymer statistical analysis of linear DNA, we could distinguish between re-arrangements or trapping of the DNA on the surface. Conditions of re-arran...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gng137
更新日期:2003-11-15 00:00:00
abstract::Mollusca represents the second largest animal phylum but remains poorly explored from a genomic perspective. While the recent increase in genomic resources holds great promise for a deep understanding of molluscan biology and evolution, access and utilization of these resources still pose a challenge. Here, we present...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa918
更新日期:2021-01-08 00:00:00
abstract::A set of programs was developed for searching nucleic acid and protein sequence data bases for sequences similar to a given sequence. The programs, written in FORTRAN 77, were optimized for vector processing on a Hitachi S810-20 supercomputer. A search of a 500-residue protein sequence against the entire PIR data base...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.1.57
更新日期:1986-01-10 00:00:00
abstract::The locus DXS269 (P20) defines a deletion hotspot in the distal part of the Duchenne Muscular Dystrophy gene. We have cloned over 90 kilobase-pairs of genomic DNA from this region in overlapping cosmids. The use of whole cosmids as probes in a competitive DNA hybridization analysis proves a fast and convenient method ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.14.5611
更新日期:1989-07-25 00:00:00
abstract::Poly(ADP-ribosyl)ation is involved in numerous bio-logical processes including DNA repair, transcription and cell death. Cellular levels of poly(ADP-ribose) (PAR) are regulated by PAR polymerases (PARPs) and the degrading enzyme PAR glycohydrolase (PARG), controlling the cell fate decision between life and death in re...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku505
更新日期:2014-07-01 00:00:00
abstract::Alu insertions have contributed to >11% of the human genome and ∼30-35 Alu subfamilies remain actively mobile, yet the characterization of polymorphic Alu insertions from short-read data remains a challenge. We build on existing computational methods to combine Alu detection and de novo assembly of WGS data as a means...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv1089
更新日期:2015-12-02 00:00:00
abstract::DNA methylation plays a crucial role in the establishment of tissue-specific gene expression and the regulation of key biological processes. However, our present inability to predict the effect of genome sequence variation on DNA methylation precludes a comprehensive assessment of the consequences of non-coding variat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx177
更新日期:2017-06-20 00:00:00
abstract::Thiol-activated neocarzinostatin chromophore abstracts tritium from the 5', but not from the 1' or 2' positions of deoxyribose in DNA and incorporates it into a stable, non-exchangeable form. The abstracted tritium remains covalently associated with the chromophore or its degradation product after treatment with acid ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/13.5.1637
更新日期:1985-03-11 00:00:00