当前位置： SCI文献检索 > NUCLEIC ACIDS RESEARCH期刊下所有文献 > Restriction endonuclease isoschizomers ItaI, BsoFI and Fsp4HI are characterised by differences in their sensitivities to CpG methylation.

Restriction endonuclease isoschizomers ItaI, BsoFI and Fsp4HI are characterised by differences in their sensitivities to CpG methylation.

Abstract：

:BsoFI , ItaI and Fsp4HI are isoshizomers of Fnu4HI (5'-GC NGC-3'). Both Fnu4HI and BsoFI have previously been shown to be inhibited by cytosine-specific methylation within the recognition sequence. Fnu4HI is inhibited if either the internal cytosine at position 2 or the external cytosine at position 5 of the restriction sequence is methylated, but the precise nature of the methylation sensitivity of BsoFI is unclear from the literature. The methylation sensitivities of ItaI and Fsp4HI have not previously been reported. By methylating the plasmid pUC18 with M.SssI (a DNA cytosine-5'-methyltransferase with a specificity for CpG), we have determined that ItaI is sensitive only to methylation of internal CpG sites within the restriction sequence. The methylation sensitivity of Fsp4HI is identical to that of Fnu4HI, being inhibited by methylation of either internal CpG sites or overlapping CpG sites. BsoFI , like the other isoschizomers tested, is sensitive to a combination of internal and overlapping CpG methylation. BsoFI is also sensitive to overlapping CpG methylation (in the absence of internal CpG methylation) if CpG overlap with both sides of the recognition sequence. Sites containing one overlapping CpG (in the absence of internal CpG) are cut when methylated but show marked individual variation in their rates of cleavage. Considerable variation in the rate of cleavage by BsoFI is also observed at sites containing only internal methylated CpG. Some sites are cut slowly, whilst others fail to cut even after prolonged incubation with excess of enzyme.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Ramsahoye BH,Burnett AK,Taylor C

doi

10.1093/nar/25.16.3196

subject

Has Abstract

pub_date

1997-08-15 00:00:00

pages

3196-8

issue

16

eissn

0305-1048

issn

1362-4962

pii

gka543

journal_volume

25

pub_type

杂志文章

相关文献

NUCLEIC ACIDS RESEARCH文献大全
  • Importance of base-pair opening for mismatch recognition.

    abstract：:Mismatch repair is a highly conserved cellular pathway responsible for repairing mismatched dsDNA. Errors are detected by the MutS enzyme, which most likely senses altered mechanical property of damaged dsDNA rather than a specific molecular pattern. While the curved shape of dsDNA in crystallographic MutS/DNA structu...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkaa896

    authors： Bouchal T,Durník I,Illík V,Réblová K,Kulhánek P

    更新日期：2020-11-18 00:00:00

  • Mutations in the RNA polymerase recognition sequence of the Klebsiella pneumoniae nifH promoter permitting transcriptional activation in the absence of NifA binding to upstream activator sequences.

    abstract：:Positive control of the wild-type Klebsiella pneumoniae nifH promoter by the NifA protein requires that NifA is bound at the upstream activator sequence (UAS). By introducing base substitutions at -15 to -17 in the RNA polymerase recognition sequence of the nifH promoter, positive control by a form of NifA unable to b...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/17.7.2597

    authors： Buck M,Cannon W

    更新日期：1989-04-11 00:00:00

  • RNABindR: a server for analyzing and predicting RNA-binding sites in proteins.

    abstract：:Understanding interactions between proteins and RNA is key to deciphering the mechanisms of many important biological processes. Here we describe RNABindR, a web-based server that identifies and displays RNA-binding residues in known protein-RNA complexes and predicts RNA-binding residues in proteins of unknown struct...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkm294

    authors： Terribilini M,Sander JD,Lee JH,Zaback P,Jernigan RL,Honavar V,Dobbs D

    更新日期：2007-07-01 00:00:00

  • The beta recombinase from the Streptococcal plasmid pSM 19035 represses its own transcription by holding the RNA polymerase at the promoter region.

    abstract：:The beta protein encoded by the Streptococcus pyogenes plasmid pSM19035 is a site-specific recombinase involved in both resolution of plasmid multimers into monomers and DNA inversion. It has been proposed that the DNA region to which the beta recombinase binds to mediate recombination includes a promoter from which o...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/22.10.1855

    authors： Rojo F,Alonso JC

    更新日期：1994-05-25 00:00:00

  • An hnRNP-like RNA-binding protein affects alternative splicing by in vivo interaction with transcripts in Arabidopsis thaliana.

    abstract：:Alternative splicing (AS) of pre-mRNAs is an important regulatory mechanism shaping the transcriptome. In plants, only few RNA-binding proteins are known to affect AS. Here, we show that the glycine-rich RNA-binding protein AtGRP7 influences AS in Arabidopsis thaliana. Using a high-resolution RT-PCR-based AS panel, we...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gks873

    authors： Streitner C,Köster T,Simpson CG,Shaw P,Danisman S,Brown JW,Staiger D

    更新日期：2012-12-01 00:00:00

  • Peripheral re-localization of constitutive heterochromatin advances its replication timing and impairs maintenance of silencing marks.

    abstract：:The replication of the genome is a highly organized process, both spatially and temporally. Although a lot is known on the composition of the basic replication machinery, how its activity is regulated is mostly unknown. Several chromatin properties have been proposed as regulators, but a potential role of the nuclear ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gky368

    authors： Heinz KS,Casas-Delucchi CS,Török T,Cmarko D,Rapp A,Raska I,Cardoso MC

    更新日期：2018-07-06 00:00:00

  • Complementation of the DNA repair-deficient swi10 mutant of fission yeast by the human ERCC1 gene.

    abstract：:In human cells DNA damage caused by UV light is mainly repaired by the nucleotide excision repair pathway. This mechanism involves dual incisions on both sides of the damage catalyzed by two nucleases. In mammalian cells XPG cleaves 3' of the DNA lesion while the ERCC1-XPF complex makes the 5' incision. The amino acid...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/25.14.2823

    authors： Rödel C,Jupitz T,Schmidt H

    更新日期：1997-07-15 00:00:00

  • COBRA: a sensitive and quantitative DNA methylation assay.

    abstract：:We report here on a quantitative technique called COBRA to determine DNA methylation levels at specific gene loci in small amounts of genomic DNA. Restriction enzyme digestion is used to reveal methylation-dependent sequence differences in PCR products of sodium bisulfite-treated DNA as described previously. We show t...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/25.12.2532

    authors： Xiong Z,Laird PW

    更新日期：1997-06-15 00:00:00

  • Synthesis of backbone deuterium labelled [r(CGCGAAUUCGCG)]2 and HPLC purification of synthetic RNA.

    abstract：:The chemical synthesis of backbone deuterium labelled [r(CGCGAAU*U*CGCG)]2 (U* = [5'-2H]U) is described. An efficient purification procedure was developed using a polymeric reverse phase (PRP) HPLC column at 60 degrees C. This procedure provided pure RNA dodecamer in the multi-milligram quantities (39% overall yield) ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/20.19.5131

    authors： Khare D,Orban J

    更新日期：1992-10-11 00:00:00

  • A non-canonical multisubunit RNA polymerase encoded by a giant bacteriophage.

    abstract：:The infection of Pseudomonas aeruginosa by the giant bacteriophage phiKZ is resistant to host RNA polymerase (RNAP) inhibitor rifampicin. phiKZ encodes two sets of polypeptides that are distantly related to fragments of the two largest subunits of cellular multisubunit RNAPs. Polypeptides of one set are encoded by mid...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkv1095

    authors： Yakunina M,Artamonova T,Borukhov S,Makarova KS,Severinov K,Minakhin L

    更新日期：2015-12-02 00:00:00

  • Highly selective retrieval of accurate DNA utilizing a pool of in situ-replicated DNA from multiple next-generation sequencing platforms.

    abstract：:Scalable and cost-effective production of error-free DNA is critical to meet the increased demand for such DNA in the field of biological science. Methods based on 'Dial-out PCR' have enabled the high-throughput error-free DNA synthesis from a microarray-synthesized DNA pool by labeling with retrieval PCR tags, and re...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gky016

    authors： Lim H,Cho N,Ahn J,Park S,Jang H,Kim H,Han H,Lee JH,Bang D

    更新日期：2018-04-20 00:00:00

  • RegulonDB: a database on transcriptional regulation in Escherichia coli.

    abstract：:RegulonDB is a DataBase that integrates biological knowledge of the mechanisms that regulate the transcription initiation in Escherichia coli , as well as knowledge on the organization of the genes and regulatory signals into operons in the chromosome. The operon is the basic structure used in RegulonDB to describe th...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/26.1.55

    authors： Huerta AM,Salgado H,Thieffry D,Collado-Vides J

    更新日期：1998-01-01 00:00:00

  • Quadruplex formation is necessary for stable PNA invasion into duplex DNA of BCL2 promoter region.

    abstract：:Guanine-rich sequences are highly abundant in the human genome, especially in regulatory regions. Because guanine-rich sequences have the unique ability to form G-quadruplexes, these structures may play a role in the regulation of gene transcription. In previous studies, we demonstrated that formation of G-quadruplexe...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkr259

    authors： Onyshchenko MI,Gaynutdinov TI,Englund EA,Appella DH,Neumann RD,Panyutin IG

    更新日期：2011-09-01 00:00:00

  • Interaction of the resolving enzyme YDC2 with the four-way DNA junction.

    abstract：:Holliday junctions (four-way DNA junctions), formed during homologous recombination, are bound and resolved by junction-specific endonucleases to yield recombinant duplex DNA products. The junction-resolving enzymes are a structurally diverse class of proteins that nevertheless have many properties in common; in parti...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/26.24.5609

    authors： White MF,Lilley DM

    更新日期：1998-12-15 00:00:00

  • Analysis of complex genetic systems by ARMS-SSCP: application to HLA genotyping.

    abstract：:We have developed a new method for analysis of complex genetic systems by a combination of the Amplification Refractory Mutation System (ARMS) and Single-Strand Conformation Polymorphism (SSCP) analysis: ARMS-SSCP. Thus, a complex allelic series is subdivided into a number of groups by ARMS followed by the identificat...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/20.5.1005

    authors： Lo YM,Patel P,Mehal WZ,Fleming KA,Bell JI,Wainscoat JS

    更新日期：1992-03-11 00:00:00

  • Dissecting the function of the adult β-globin downstream promoter region using an artificial zinc finger DNA-binding domain.

    abstract：:Developmental stage-specific expression of the β-type globin genes is regulated by many cis- and trans-acting components. The adult β-globin gene contains an E-box located 60 bp downstream of the transcription start site that has been shown to bind transcription factor upstream stimulatory factor (USF) and to contribu...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gku107

    authors： Barrow JJ,Li Y,Hossain M,Huang S,Bungert J

    更新日期：2014-04-01 00:00:00

  • Transcriptional activation by mitochondrial transcription factor A involves preferential distortion of promoter DNA.

    abstract：:Mitochondrial transcription factor A (mtTFA/TFAM) is a nucleus-encoded, high-mobility-group-box (HMG-box) protein that regulates transcription of the mitochondrial genome by specifically recognizing light-strand and heavy-strand promoters (LSP, HSP1). TFAM also binds mitochondrial DNA in a non-sequence specific (NSS) ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkr787

    authors： Malarkey CS,Bestwick M,Kuhlwilm JE,Shadel GS,Churchill ME

    更新日期：2012-01-01 00:00:00

  • Chromatin structures and transcription of rDNA in yeast Saccharomyces cerevisiae.

    abstract：:The chromatin structure of yeast ribosomal DNA was analyzed in vivo by crosslinking intact cells with psoralen. We found that in exponentially growing cultures the regions coding for the 35S rRNA precursor fall into two distinct classes. One class was highly accessible to psoralen and associated with nascent RNAs, cha...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/21.10.2331

    authors： Dammann R,Lucchini R,Koller T,Sogo JM

    更新日期：1993-05-25 00:00:00

  • Update of TTD: Therapeutic Target Database.

    abstract：:Increasing numbers of proteins, nucleic acids and other molecular entities have been explored as therapeutic targets, hundreds of which are targets of approved and clinical trial drugs. Knowledge of these targets and corresponding drugs, particularly those in clinical uses and trials, is highly useful for facilitating...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkp1014

    authors： Zhu F,Han B,Kumar P,Liu X,Ma X,Wei X,Huang L,Guo Y,Han L,Zheng C,Chen Y

    更新日期：2010-01-01 00:00:00

  • Human PAML browser: a database of positive selection on human genes using phylogenetic methods.

    abstract：:With the recent increase in the number of mammalian genomes being sequenced, large-scale genome scans for human-specific positive selection are now possible. Selection can be inferred through phylogenetic analysis by comparing the rates of silent and replacement substitution between related species. Maximum-likelihood...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkm764

    authors： Nickel GC,Tefft D,Adams MD

    更新日期：2008-01-01 00:00:00

  • Database resources of the National Center for Biotechnology Information.

    abstract：:In addition to maintaining the GenBank® nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides analysis and retrieval resources for the data in GenBank and other biological data made available through the NCBI Web site. NCBI resources include Entrez, the Entrez Programming Ut...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkq1172

    authors： Sayers EW,Barrett T,Benson DA,Bolton E,Bryant SH,Canese K,Chetvernin V,Church DM,DiCuccio M,Federhen S,Feolo M,Fingerman IM,Geer LY,Helmberg W,Kapustin Y,Landsman D,Lipman DJ,Lu Z,Madden TL,Madej T,Maglott DR,Ma

    更新日期：2011-01-01 00:00:00

  • Phylogenetic relationships and altered genome structures among Tetrahymena mitochondrial DNAs.

    abstract：:Tetrahymena thermophila mitochondrial DNA is a linear molecule with two tRNAs, large subunit beta (LSU beta) rRNA (21S rRNA) and LSU alpha rRNA (5.8S-like RNA) encoded near each terminus. The DNA sequence of approximately 550 bp of this region was determined in six species of Tetrahymena. In three species the LSU beta...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/16.1.327

    authors： Morin GB,Cech TR

    更新日期：1988-01-11 00:00:00

  • A NAC transcription factor and SNI1 cooperatively suppress basal pathogen resistance in Arabidopsis thaliana.

    abstract：:Transcriptional repression of pathogen defense-related genes is essential for plant growth and development. Several proteins are known to be involved in the transcriptional regulation of plant defense responses. However, mechanisms by which expression of defense-related genes are regulated by repressor proteins are po...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gks683

    authors： Kim HS,Park HC,Kim KE,Jung MS,Han HJ,Kim SH,Kwon YS,Bahk S,An J,Bae DW,Yun DJ,Kwak SS,Chung WS

    更新日期：2012-10-01 00:00:00

  • Ribosomal protein L35 is required for 27SB pre-rRNA processing in Saccharomyces cerevisiae.

    abstract：:Ribosome synthesis involves the concomitance of pre-rRNA processing and ribosomal protein assembly. In eukaryotes, this is a complex process that requires the participation of specific sequences and structures within the pre-rRNAs, at least 200 trans-acting factors and the ribosomal proteins. There is little informati...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkq260

    authors： Babiano R,de la Cruz J

    更新日期：2010-08-01 00:00:00

  • A self-initiating eukaryotic transient gene expression system based on contransfection of bacteriophage T7 RNA polymerase and DNA vectors containing a T7 autogene.

    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

    authors： Chen X,Li Y,Xiong K,Wagner TE

    更新日期：1994-06-11 00:00:00

  • 5-methylcytosine in RNA: detection, enzymatic formation and biological functions.

    abstract：:The nucleobase modification 5-methylcytosine (m(5)C) is widespread both in DNA and different cellular RNAs. The functions and enzymatic mechanisms of DNA m(5)C-methylation were extensively studied during the last decades. However, the location, the mechanism of formation and the cellular function(s) of the same modifi...

    journal_title：Nucleic acids research

    pub_type： 杂志文章,评审

    doi：10.1093/nar/gkp1117

    authors： Motorin Y,Lyko F,Helm M

    更新日期：2010-03-01 00:00:00

  • Flexible expressed region analysis for RNA-seq with derfinder.

    abstract：:Differential expression analysis of RNA sequencing (RNA-seq) data typically relies on reconstructing transcripts or counting reads that overlap known gene structures. We previously introduced an intermediate statistical approach called differentially expressed region (DER) finder that seeks to identify contiguous regi...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkw852

    authors： Collado-Torres L,Nellore A,Frazee AC,Wilks C,Love MI,Langmead B,Irizarry RA,Leek JT,Jaffe AE

    更新日期：2017-01-25 00:00:00

  • PrankWeb: a web server for ligand binding site prediction and visualization.

    abstract：:PrankWeb is an online resource providing an interface to P2Rank, a state-of-the-art method for ligand binding site prediction. P2Rank is a template-free machine learning method based on the prediction of local chemical neighborhood ligandability centered on points placed on a solvent-accessible protein surface. Points...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkz424

    authors： Jendele L,Krivak R,Skoda P,Novotny M,Hoksza D

    更新日期：2019-07-02 00:00:00

  • Twin-primer non-enzymatic DNA assembly: an efficient and accurate multi-part DNA assembly method.

    abstract：:DNA assembly forms the cornerstone of modern synthetic biology. Despite the numerous available methods, scarless multi-fragment assembly of large plasmids remains challenging. Furthermore, the upcoming wave in molecular biological automation demands a rethinking of how we perform DNA assembly. To streamline automation...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/gkx132

    authors： Liang J,Liu Z,Low XZ,Ang EL,Zhao H

    更新日期：2017-06-20 00:00:00

  • The nucleotide sequence of a UGA suppressor serine tRNA from Schizosaccharomyces pombe.

    abstract：:The UGA suppressor tRNA produced by Schizosaccharomyces pombe strain sup3-e was purified to homogeneity. It can be aminoacylated with a serine by a crude aminoacyl-tRNA synthetase preparation from S. pombe cells. By combining post-labeling fingerprinting and gel sequencing methods the nucleotide sequence of this tRNA ...

    journal_title：Nucleic acids research

    pub_type： 杂志文章

    doi：10.1093/nar/6.8.2683

    authors： Rafalski A,Kohli J,Agris P,Söll D

    更新日期：1979-06-25 00:00:00