Characterization of human 5S rRNA genes.

Abstract:

:The human 5S rRNA genes are found in clusters of tandem repeated units. We have cloned and partially characterized six restriction fragments from two clusters of 2.3 kb and 1.6 kb repeats, respectively. Four fragments from the cluster of 2.3 kb repeats contain a 5S rRNA gene and one fragment contains a gene variant with an additional nucleotide in the internal control region. A fragment from the 1.6 kb cluster contains a gene and is highly homologous to the 2.3 kb repeats, except for a large deletion in the 3'-flanking region starting 12 bp downstream of the gene. The number of genes and closely related gene variants is found to be 300-400 per haploid human genome. 100-150 of these are found in 2.3 kb repeats and 5-10 are found in 1.6 kb repeats. The total number of 5S rRNA sequences, including pseudogenes, is 1700-2000 per haploid genome. The genes and the gene variant are transcribed equally efficient in a HeLa cell extract. If 5'-flanking sequences, including a GC-motif in the -40 region, are removed from the genes, transcription is reduced with a factor 10 or more, suggesting that sequences upstream of the coding region are important for the level of transcription.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Sørensen PD,Frederiksen S

doi

10.1093/nar/19.15.4147

subject

Has Abstract

pub_date

1991-08-11 00:00:00

pages

4147-51

issue

15

eissn

0305-1048

issn

1362-4962

journal_volume

19

pub_type

杂志文章
  • Gene transfer mediated by alpha2-macroglobulin.

    abstract::alpha2-Macroglobulin covalently linked to poly(L)-lysine can be used as a vehicle for receptor-mediated gene transfer. This modified alpha2-macroglobulin maintains its ability to bind to the alpha2-macroglobulin receptor, and was shown to introduce a luciferase reporter gene plasmid into HepG2 human hepatoma cells in ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/24.19.3873

    authors: Schneider H,Huse K,Birkenmeier G,Otto A,Scholz GH

    更新日期:1996-10-01 00:00:00

  • Synthesis of cyclic oligodeoxyribonucleotides via the 'filtration' approach.

    abstract::The synthesis of cyclic di-, tri-, tetra-, penta- and hexa-thymidylic acids (16; n = 2, 3, 4, 5 and 6) and the cyclic hexadeoxyribonucleotide [d(CpCpTpApGpGp)], via the "filtration" approach, is reported. Some of the physical properties of the cyclic oligonucleotides are discussed, and their susceptibility to digestio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/17.20.8221

    authors: Rao MV,Reese CB

    更新日期:1989-10-25 00:00:00

  • The abundance of RNPS1, a protein component of the exon junction complex, can determine the variability in efficiency of the Nonsense Mediated Decay pathway.

    abstract::Nonsense-mediated mRNA decay (NMD) is a molecular pathway of mRNA surveillance that ensures rapid degradation of mRNAs containing premature translation termination codons (PTCs) in eukaryotes. NMD has been shown to also regulate normal gene expression and thus emerged as one of the key post-transcriptional mechanisms ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkm461

    authors: Viegas MH,Gehring NH,Breit S,Hentze MW,Kulozik AE

    更新日期:2007-01-01 00:00:00

  • Differences in unwinding of supercoiled DNA induced by the two enantiomers of anti-benzo[a]pyrene diol epoxide.

    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

    authors: Xu R,Birke S,Carberry SE,Geacintov NE,Swenberg CE,Harvey RG

    更新日期:1992-12-11 00:00:00

  • The 5'-end heterogeneity of adenovirus virus-associated RNAI contributes to the asymmetric guide strand incorporation into the RNA-induced silencing complex.

    abstract::Human Adenovirus type 5 encodes two short RNA polymerase III transcripts, the virus-associated (VA) RNAI and VA RNAII, which can adopt stable hairpin structures that resemble micro-RNA precursors. The terminal stems of the VA RNAs are processed into small RNAs (mivaRNAs) that are incorporated into RISC. It has been re...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkp764

    authors: Xu N,Gkountela S,Saeed K,Akusjärvi G

    更新日期:2009-11-01 00:00:00

  • Dynamics of genetic variation in transcription factors and its implications for the evolution of regulatory networks in Bacteria.

    abstract::The evolution of regulatory networks in Bacteria has largely been explained at macroevolutionary scales through lateral gene transfer and gene duplication. Transcription factors (TF) have been found to be less conserved across species than their target genes (TG). This would be expected if TFs accumulate mutations fas...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkaa162

    authors: Ali F,Seshasayee ASN

    更新日期:2020-05-07 00:00:00

  • IS3 can function as a mobile promoter in E. coli.

    abstract::We had shown previously (3) that the E. coli argE gene could be turned-on by an IS3 element inserted in orientation II near the 5' end of the gene. Here we show that this effect is due to the presence of an outward promoter located on IS3. The exact site of insertion of IS3 was determined by DNA sequencing. Using the ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/10.19.5935

    authors: Charlier D,Piette J,Glansdorff N

    更新日期:1982-10-11 00:00:00

  • MicroRNA-mediated up-regulation of an alternatively polyadenylated variant of the mouse cytoplasmic {beta}-actin gene.

    abstract::Actin is a major cytoskeletal protein in eukaryotes. Recent studies suggest more diverse functional roles for this protein. Actin mRNA is known to be localized to neuronal synapses and undergoes rapid deadenylation during early developmental stages. However, its 3'-untranslated region (UTR) is not characterized and th...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkn624

    authors: Ghosh T,Soni K,Scaria V,Halimani M,Bhattacharjee C,Pillai B

    更新日期:2008-11-01 00:00:00

  • Human protein reference database--2006 update.

    abstract::Human Protein Reference Database (HPRD) (http://www.hprd.org) was developed to serve as a comprehensive collection of protein features, post-translational modifications (PTMs) and protein-protein interactions. Since the original report, this database has increased to >20 000 proteins entries and has become the largest...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkj141

    authors: Mishra GR,Suresh M,Kumaran K,Kannabiran N,Suresh S,Bala P,Shivakumar K,Anuradha N,Reddy R,Raghavan TM,Menon S,Hanumanthu G,Gupta M,Upendran S,Gupta S,Mahesh M,Jacob B,Mathew P,Chatterjee P,Arun KS,Sharma S,Chand

    更新日期:2006-01-01 00:00:00

  • Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments.

    abstract::In this paper we focus on the detection of differentially expressed genes according to changes in hybridization signals using statistical tests. These tests were applied to 14 208 zebrafish cDNA clones that were immobilized on a nylon support and hybridized with radioactively labeled target mRNA from wild-type and lit...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/29.23.e117

    authors: Herwig R,Aanstad P,Clark M,Lehrach H

    更新日期:2001-12-01 00:00:00

  • Composition and arrangement of genes define the strength of IRES-driven translation in bicistronic mRNAs.

    abstract::In addition to the cap-dependent mechanism, eukaryotic initiation of translation can occur by a cap-independent mechanism which directs ribosomes to defined start codons enabled by internal ribosome entry site (IRES) elements. IRES elements from poliovirus and encephalomyocarditis virus are often used to construct bi-...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/29.16.3327

    authors: Hennecke M,Kwissa M,Metzger K,Oumard A,Kröger A,Schirmbeck R,Reimann J,Hauser H

    更新日期:2001-08-15 00:00:00

  • Thioflavin T binds dimeric parallel-stranded GA-containing non-G-quadruplex DNAs: a general approach to lighting up double-stranded scaffolds.

    abstract::A molecular rotor thioflavin T (ThT) is usually used as a fluorescent ligand specific for G-quadruplexes. Here, we demonstrate that ThT can tightly bind non-G-quadruplex DNAs with several GA motifs and dimerize them in a parallel double-stranded mode, accompanied by over 100-fold enhancement in the fluorescence emissi...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkx942

    authors: Liu S,Peng P,Wang H,Shi L,Li T

    更新日期:2017-12-01 00:00:00

  • The DNA dioxygenase ALKBH2 protects Arabidopsis thaliana against methylation damage.

    abstract::The Escherichia coli AlkB protein (EcAlkB) is a DNA repair enzyme which reverses methylation damage such as 1-methyladenine (1-meA) and 3-methylcytosine (3-meC). The mammalian AlkB homologues ALKBH2 and ALKBH3 display EcAlkB-like repair activity in vitro, but their substrate specificities are different, and ALKBH2 is ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gks327

    authors: Meza TJ,Moen MN,Vågbø CB,Krokan HE,Klungland A,Grini PE,Falnes PØ

    更新日期:2012-08-01 00:00:00

  • Identification of the yeast cytidine deaminase CDD1 as an orphan C-->U RNA editase.

    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

    authors: Dance GS,Beemiller P,Yang Y,Mater DV,Mian IS,Smith HC

    更新日期:2001-04-15 00:00:00

  • PaintOmics 3: a web resource for the pathway analysis and visualization of multi-omics data.

    abstract::The increasing availability of multi-omic platforms poses new challenges to data analysis. Joint visualization of multi-omics data is instrumental in better understanding interconnections across molecular layers and in fully utilizing the multi-omic resources available to make biological discoveries. We present here P...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gky466

    authors: Hernández-de-Diego R,Tarazona S,Martínez-Mira C,Balzano-Nogueira L,Furió-Tarí P,Pappas GJ Jr,Conesa A

    更新日期:2018-07-02 00:00:00

  • The mouse and human homologs of DMC1, the yeast meiosis-specific homologous recombination gene, have a common unique form of exon-skipped transcript in meiosis.

    abstract::Genetic recombination in meiosis plays an important role in generating diversity of genetic information. In yeast an Escherichia coli RecA-like gene, DMC1, is expressed in meiotic prophase and its product co-localizes with Rad51 protein on zygotene chromosomes. We have cloned the mouse and human homologs of the yeast ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/24.3.470

    authors: Habu T,Taki T,West A,Nishimune Y,Morita T

    更新日期:1996-02-01 00:00:00

  • Efficient and seamless DNA recombineering using a thymidylate synthase A selection system in Escherichia coli.

    abstract::Lambda-red system-based recombinogenic engineering is a powerful new method to engineer DNA without the need for restriction enzymes or ligases. Here, we report the use of a single selectable marker to enhance the usefulness of this approach. The strategy is to utilize the thymidylate synthase A (thyA) gene, which enc...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gni059

    authors: Wong QN,Ng VC,Lin MC,Kung HF,Chan D,Huang JD

    更新日期:2005-03-30 00:00:00

  • Involvement of Schizosaccharomyces pombe rrp1+ and rrp2+ in the Srs2- and Swi5/Sfr1-dependent pathway in response to DNA damage and replication inhibition.

    abstract::Previously we identified Rrp1 and Rrp2 as two proteins required for the Sfr1/Swi5-dependent branch of homologous recombination (HR) in Schizosaccharomyces pombe. Here we use a yeast two-hybrid approach to demonstrate that Rrp1 and Rrp2 can interact with each other and with Swi5, an HR mediator protein. Rrp1 and Rrp2 f...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkt564

    authors: Dziadkowiec D,Kramarz K,Kanik K,Wisniewski P,Carr AM

    更新日期:2013-09-01 00:00:00

  • Evidence for three distinct D proteins, which react differentially with anti-Sm autoantibodies, in the cores of the major snRNPs U1, U2, U4/U6 and U5.

    abstract::Electrophoresis of the mixture of proteins from purified snRNPs U1, U2, U4/U6 and U5 on SDS-polyacrylamide gels that had been allowed to polymerise in the presence of high TEMED concentrations have revealed the presence of proteins in the snRNPs that previously had eluded detection. The most striking case is that of p...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/18.22.6475

    authors: Lehmeier T,Foulaki K,Lührmann R

    更新日期:1990-11-25 00:00:00

  • Substitution of Asp-210 in HAP1 (APE/Ref-1) eliminates endonuclease activity but stabilises substrate binding.

    abstract::HAP1, also known as APE/Ref-1, is the major apurinic/apyrimidinic (AP) endonuclease in human cells. Previous structural studies have suggested a possible role for the Asp-210 residue of HAP1 in the enzymatic function of this enzyme. Here, we demonstrate that substitution of Asp-210 by Asn or Ala eliminates the AP endo...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/28.11.2207

    authors: Rothwell DG,Hang B,Gorman MA,Freemont PS,Singer B,Hickson ID

    更新日期:2000-06-01 00:00:00

  • Contributions of DNA interstrand cross-links to aging of cells and organisms.

    abstract::Impaired DNA damage repair, especially deficient transcription-coupled nucleotide excision repair, leads to segmental progeroid syndromes in human patients as well as in rodent models. Furthermore, DNA double-strand break signalling has been pinpointed as a key inducer of cellular senescence. Several recent findings s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章,评审

    doi:10.1093/nar/gkm1065

    authors: Grillari J,Katinger H,Voglauer R

    更新日期:2007-01-01 00:00:00

  • Fine mapping of replication origins (ori A and ori B) in Nicotiana tabacum chloroplast DNA.

    abstract::Using a partially purified replication complex from tobacco chloroplasts, replication origins have been localized to minimal sequences of 82 (pKN8, positions 137 683-137 764) and 243 bp (pKN3, positions 130 513-130 755) for ori A and ori B respectively. Analysis of in vitro replication products by two-dimensional agar...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/25.18.3681

    authors: Kunnimalaiyaan M,Nielsen BL

    更新日期:1997-09-15 00:00:00

  • Predicting translational diffusion of evolutionary conserved RNA structures by the nucleotide number.

    abstract::Ribonucleic acids are highly conserved essential parts of cellular life. RNA function is determined to a large extent by its hydrodynamic behaviour. The presented study proposes a strategy to predict the hydrodynamic behaviour of RNA single strands on the basis of the polymer size. By atom-level shell-modelling of hig...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq808

    authors: Werner A

    更新日期:2011-02-01 00:00:00

  • Genomic organization and transcription of the alpha beta heat shock DNA in Drosophila melanogaster.

    abstract::Previous studies have shown that (i) several RNAs induced by heat shock of Drosophila melanogaster cells are homologous to tandemly repeated alpha beta units found in cloned segments of D. melanogaster DNA, and (ii) the alpha beta sequences are present both at a major heat shock locus, 87Cl, and the chromocenter of po...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/9.20.5297

    authors: Lis JT,Ish-Horowicz D,Pinchin SM

    更新日期:1981-10-24 00:00:00

  • Structure of mouse rRNA precursors. Complete sequence and potential folding of the spacer regions between 18S and 28S rRNA.

    abstract::We have determined the complete nucleotide sequence of the regions of mouse ribosomal RNA transcription unit which separate mature rRNA genes. These internal transcribed spacers (ITS) are excised from rRNA precursor during ribosome biosynthesis. ITS 1, between 18S and 5.8S rRNA genes, is 999 nucleotides long. ITS 2, b...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/11.10.3375

    authors: Michot B,Bachellerie JP,Raynal F

    更新日期:1983-05-25 00:00:00

  • RNA polymerase III-specific general transcription factor IIIC contains a heterodimer resembling TFIIF Rap30/Rap74.

    abstract::Transcription of tRNA-encoding genes by RNA polymerase (Pol) III requires the six-subunit general transcription factor IIIC that uses subcomplexes τA and τB to recognize two gene-internal promoter elements named A- and B-box. The Schizosaccharomyces pombe τA subcomplex comprises subunits Sfc1, Sfc4 and Sfc7. The cryst...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkt664

    authors: Taylor NM,Baudin F,von Scheven G,Müller CW

    更新日期:2013-10-01 00:00:00

  • Direct sequencing of RAPD fragments using 3'-extended oligonucleotide primers and dye terminator cycle-sequencing.

    abstract::Random amplified polymorphic DNA (RAPD) markers are used widely to develop high resolution genetic maps and for genome fingerprinting. Typically, single oligomers of approximately 10 nucleotides are used to PCR amplify characteristic RAPD marker fragments. We describe an efficient method for the direct end-sequencing ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/27.19.e28

    authors: Mitchelson KR,Drenth J,Duong H,Chaparro JX

    更新日期:1999-10-01 00:00:00

  • SRF and MCM1 have related but distinct DNA binding specificities.

    abstract::The mammalian transcription factor SRF and the yeast regulatory protein MCM1 contain DNA binding domains that are 70% identical; moreover, both proteins can bind the serum response element in the human c-fos promoter. Here we present an analysis of MCM1 sequence specificity by selection of sites from random sequence o...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/20.13.3297

    authors: Wynne J,Treisman R

    更新日期:1992-07-11 00:00:00

  • Effect of asymmetric terminal structures of short RNA duplexes on the RNA interference activity and strand selection.

    abstract::Short interfering RNAs (siRNAs) are valuable reagents for sequence-specific inhibition of gene expression via the RNA interference (RNAi) pathway. Although it has been proposed that the relative thermodynamic stability at the 5'-ends of siRNAs plays a crucial role in siRNA strand selection, we demonstrate here that a ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkn584

    authors: Sano M,Sierant M,Miyagishi M,Nakanishi M,Takagi Y,Sutou S

    更新日期:2008-10-01 00:00:00

  • An archaeal Rad54 protein remodels DNA and stimulates DNA strand exchange by RadA.

    abstract::Rad54 protein is a key member of the RAD52 epistasis group required for homologous recombination in eukaryotes. Rad54 is a duplex DNA translocase that remodels both DNA and protein-DNA complexes, and functions at multiple steps in the recombination process. Here we use biochemical criteria to demonstrate the existence...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkp068

    authors: Haseltine CA,Kowalczykowski SC

    更新日期:2009-05-01 00:00:00