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 rRNA and tRNA(leu) genes were not present on one end of the DNA, demonstrating a mitochondrial genome organization different from that of T. thermophila. The DNA sequence of the LSU alpha rRNA was used to construct a mitochondrial phylogenetic tree, which was found to be topologically equivalent to a phylogenetic tree based on nuclear small subunit rRNA sequences (Sogin et al. (1986) EMBO J. 5, 3625-3630). The mitochondrial rRNA gene was found to accumulate base-pair substitutions considerably faster than the nuclear rRNA gene, the rate difference being similar to that observed for mammals.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Morin GB,Cech TRdoi
10.1093/nar/16.1.327subject
Has Abstractpub_date
1988-01-11 00:00:00pages
327-46issue
1eissn
0305-1048issn
1362-4962journal_volume
16pub_type
杂志文章abstract::RNA:5-methylcytosine (m5C) methyltransferases are currently the focus of intense research following a series of high-profile reports documenting their physiological links to several diseases. However, no methods exist which permit the specific analysis of RNA:m5C methyltransferases in cells. Herein, we described how a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz1047
更新日期:2020-01-10 00:00:00
abstract::For the rapid and sensitive detection of p53 'hot spot' mutations, we combined polymerase chain reaction based single-strand conformational polymorphism (PCR-SSCP) analysis with sequence specific-clamping by peptide nucleic acids (PNAs) in a one-step reaction tube protocol. For this purpose, we designed two PNA molecu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/26.5.1356
更新日期:1998-03-01 00:00:00
abstract::Herpes simplex type 1 virus (HSV-1) and bacteriophage λ capsids undergo considerable structural changes during self-assembly and DNA packaging. The initial steps of viral capsid self-assembly require weak, non-covalent interactions between the capsid subunits to ensure free energy minimization and error-free assembly....
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku634
更新日期:2014-08-01 00:00:00
abstract::We studied in vivo transcription and gene expression directed by a series of synthetic sequences, bearing the consensus hexamer (CH) pair of E.coli promoters in various contexts. The results demonstrate that, for the contexts tested, the CH pair supports transcription activity and gene expression, whether the spacer l...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.5.1137
更新日期:1990-03-11 00:00:00
abstract::The proportion of cytosines methylated in the DNA of nucleosome oligomers and of core particles appears indistinguishable from that of total nuclear DNA from CHO cells. However the DNA in nucleoprotein which is initially released from nuclei by treatment with very low levels of micrococcal nuclease and the first 10% o...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/4.9.3097
更新日期:1977-09-01 00:00:00
abstract::We have reported previously (1) two unexpected consequences of the microinjection into fertilized mouse eggs of a recombinant plasmid designated p12B1, carrying a 343 bp insert of non-repetitive mouse DNA. Injected at very low concentrations, this plasmid could be established as an extrachromosomal genetic element. Wh...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.25.7243
更新日期:1991-12-01 00:00:00
abstract::We describe a rapid fluorescence indicator displacement assay (R-FID) to evaluate the affinity and the selectivity of compounds binding to different DNA structures. We validated the assay using a library of 30 well-known nucleic acid binders containing a variety chemical scaffolds. We used a combination of principal c...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky019
更新日期:2018-04-20 00:00:00
abstract::Although cis-regulatory binding sites (CRBSs) are at least as important as the coding sequences in a genome, our general understanding of them in most sequenced genomes is very limited due to the lack of efficient and accurate experimental and computational methods for their characterization, which has largely hindere...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp248
更新日期:2009-06-01 00:00:00
abstract::E2F transcription factors (E2F1-8) are known to coordinately regulate the expression of a plethora of target genes, including those coding for microRNAs (miRNAs), to control cell cycle progression. Recent work has described the atypical E2F factor E2F7 as a transcriptional repressor of cell cycle-related protein-codin...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw146
更新日期:2016-07-08 00:00:00
abstract::Escherichia coli has long been regarded as a model organism in the study of codon usage bias (CUB). However, most studies in this organism regarding this topic have been computational or, when experimental, restricted to small datasets; particularly poor attention has been given to genes with low CUB. In this work, co...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg897
更新日期:2003-12-01 00:00:00
abstract::Three peaks of methyltransferase activity specific for MNNG alkylated DNA have been identified from extracts of chemically adapted M. luteus. They are designated as TI to TIII in order to their elution from a Sephadex G-75 column. The first one of these peaks has been purified to homogeneity. TI, is an inducible, unus...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/15.22.9471
更新日期:1987-11-25 00:00:00
abstract::The human beta-actin promoter, including its 5' flanking region and 5' untranslated region, is ubiquitously active in mammalian cells in culture. In this report we investigated the transcriptional activity of, and the protein-DNA interactions that occur within, the proximal region of the human beta-actin promoter. Eff...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.24.6913
更新日期:1991-12-25 00:00:00
abstract::Restriction mapping demonstrated the presence of several distinct proviral forms of mouse mammary tumor virus in the genome of GR mice. One of these proviruses (GR-MTV-2) was highly amplified in GR 3A cells, a cell line derived from a GR mammary tumor. By the criterion of restriction mapping, the amplified GR-MTV-2 pr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.23.5715
更新日期:1980-12-11 00:00:00
abstract::The signal recognition particle database (SRPDB) is located at the University of Texas Health Science Center at Tyler and includes tabulations of SRP RNA, SRP protein and SRP receptor sequences. The sequences are annotated with links to the primary databases. They are ordered alphabetically or phylogenetically and are...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.1.169
更新日期:1999-01-01 00:00:00
abstract::The thermal stabilities of RNA:DNA hybrids are substantially greater than those of DNA:DNA duplexes in aqueous electrolyte solutions containing high concentrations of formamide. Association rates to form DNA:DNA duplexes and DNA:RNA hybrids have been measured in these solvents. There is a temperature range in which DN...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/4.5.1539
更新日期:1977-01-01 00:00:00
abstract::RsaE is a regulatory RNA highly conserved amongst Firmicutes that lowers the amount of mRNAs associated with the TCA cycle and folate metabolism. A search for new RsaE targets in Staphylococcus aureus revealed that in addition to previously described substrates, RsaE down-regulates several genes associated with argini...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky584
更新日期:2018-09-28 00:00:00
abstract::It has been postulated that a myriad of long noncoding RNAs (lncRNAs) contribute to gene regulation. In fission yeast, glucose starvation triggers lncRNA transcription across promoter regions of stress-responsive genes including fbp1 (fructose-1,6-bisphosphatase1). At the fbp1 promoter, this transcription promotes chr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw142
更新日期:2016-06-20 00:00:00
abstract::The Zebrafish Information Network (ZFIN) (https://zfin.org/) is the database for the model organism, zebrafish (Danio rerio). ZFIN expertly curates, organizes, and provides a wide array of zebrafish genetic and genomic data, including genes, alleles, transgenic lines, gene expression, gene function, mutant phenotypes,...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1010
更新日期:2021-01-08 00:00:00
abstract::Current approaches to design efficient antisense RNAs (asRNAs) rely primarily on a thermodynamic understanding of RNA-RNA interactions. However, these approaches depend on structure predictions and have limited accuracy, arguably due to overlooking important cellular environment factors. In this work, we develop a bio...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx115
更新日期:2017-05-19 00:00:00
abstract::PPARγ2 is a critical lineage-determining transcription factor that is essential for adipogenic differentiation. Here we report characterization of the three-dimensional structure of the PPARγ2 locus after the onset of adipogenic differentiation and the mechanisms by which it forms. We identified a differentiation-depe...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw129
更新日期:2016-06-20 00:00:00
abstract::Under-modified E. coli tRNATyr that contains 7-(aminomethyl)-7-deazaguanosine in place of Q nucleoside can be chemically modified by dansyl chloride under neutral conditions. Fluorescent labelling specifically occurred only in the 7-(aminomethyl)-7-deazaguanine moiety. The modified tRNATyr was found to be active both ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/7.1.231
更新日期:1979-09-11 00:00:00
abstract::A general procedure, based on a new activated alkyne linker, for the preparation of peptide-oligonucleotide conjugates (POCs) on solid support has been developed. With this linker, conjugation is effective at room temperature (RT) in millimolar concentration and submicromolar amounts. This is made possible since the u...
journal_title:Nucleic acids research
pub_type: 杂志文章
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更新日期:2011-11-01 00:00:00
abstract::ProtoNet is an automatic hierarchical classification of the protein sequence space. In 2004, the ProtoNet (version 4.0) presents the analysis of over one million proteins merged from SwissProt and TrEMBL databases. In addition to rich visualization and analysis tools to navigate the clustering hierarchy, we incorporat...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gki007
更新日期:2005-01-01 00:00:00
abstract::Insertion of microRNA target sequences into the flavivirus genome results in selective tissue-specific attenuation and host-range restriction of live attenuated vaccine viruses. However, previous strategies for miRNA-targeting did not incorporate a mechanism to prevent target elimination under miRNA-mediated selective...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw061
更新日期:2016-04-20 00:00:00
abstract::Replication of the promiscuous plasmid pMV158 requires expression of the initiator repB gene, which is controlled by the repressor CopG. Genes repB and copG are co-transcribed from promoter P(cr). We have studied the interactions between RNA polymerase, CopG and the promoter to elucidate the mechanism of repression by...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp503
更新日期:2009-08-01 00:00:00
abstract::The abundance and complexity of total poly(A)+RNA of human normal unstimulated lymphocytes, PHA-stimulated and leukemic lymphocytes were examined using the cDNA-poly(A)+ RNA hybridization technique. It was found that in both PHA-stimulated and leukemic lymphocytes the complexity of total poly(A)+RNA is strongly reduce...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.24.7013
更新日期:1981-12-21 00:00:00
abstract::Biological and chemical DNA fragmentation generates DNA molecules with a variety of termini, including blunt ends and single-stranded overhangs. We have developed a Next Generation Sequencing (NGS) assay, XACTLY, to interrogate the termini of fragmented DNA, information traditionally lost in standard NGS library prepa...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa128
更新日期:2020-05-07 00:00:00
abstract::Escherichia coli cells lacking the ribosomal RNA processing enzyme RNase III do no excise the normal RNA precursors p16a (17S) and p23a from nascent rRNA transcripts. These cells produce, instead, slightly larger p16b and p23b precursors. Digestion of p16b or p23b rRNA with RNases A plus T1 yields double-stranded frag...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.8.1873
更新日期:1980-04-25 00:00:00
abstract::During carcinogenesis, cells are exposed to increased replication stress due to replication fork arrest at sites of DNA lesions and difficult to replicate genomic regions. Efficient fork restart and DNA repair are important for cancer cell proliferation. We previously showed that the ADP-ribosyltransferase PARP10 inte...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky658
更新日期:2018-09-28 00:00:00
abstract::Pentatricopeptide repeat (PPR) proteins are helical-repeat proteins that offer a promising scaffold for the engineering of proteins to bind specified RNAs. PPR tracts bind RNA in a modular 1-repeat, 1-nucleotide fashion. An amino acid code specifying the bound nucleotide has been elucidated. However, this code does no...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx1288
更新日期:2018-03-16 00:00:00