Abstract:
:Treatment of the ciliated protozoan Tetrahymena thermophila with 8-methoxypsoralen combined with long wavelength ultraviolet irradiation (UVA, lambda approximately 360 nm) resulted in a dose dependent equal inhibition of the synthesis of rRNA, 5.8S, 5S and tRNA. Similar results were obtained with 3-carbethoxy-8-methoxypsoralen which predominantly forms DNA mono-adducts. In contrast the synthesis of tRNA in T. thermophila was much less sensitive than that of rRNA, 5.8S and 5S RNA to treatment with short wavelength ultraviolet irradiation (UVB, lambda approximately 254 nm). These results are interpreted in favor of a mechanism by which psoralen-DNA adducts (crosslinks much greater than monoadducts) inhibit RNA transcription initiation (in contrast to UVB which causes premature chain termination). Furthermore it is argued that RNA synthesis is regulated in equally sized domains regardless of the gene-size.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Nielsen PEdoi
10.1093/nar/15.3.921subject
Has Abstractpub_date
1987-02-11 00:00:00pages
921-32issue
3eissn
0305-1048issn
1362-4962journal_volume
15pub_type
杂志文章abstract::RNA levels in a cell are regulated by the relative rates of RNA synthesis and decay. We recently developed a new approach for measuring both RNA synthesis and decay in a single experimental setting by biosynthetic labeling of newly transcribed RNA. Here, we show that this provides measurements of RNA half-lives from m...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkp542
更新日期:2009-09-01 00:00:00
abstract::Formation of a transcriptionally competent open complex is a highly regulated multistep process involving at least two intermediates. The rate of formation and stability of the intermediate complexes often determine promoter strength. However, the detailed mechanism of formation of the open complex and the high resolu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.3.854
更新日期:2001-02-01 00:00:00
abstract::BmFTZ-F1 is a Bombyx mori homologue of FTZ-F1, a positive regulator of the fushi tarazu gene of Drosophila melanogaster. In order to determine the sequence recognized with this factor, we made three sets of oligonucleotide mixture which contain 4 possible nucleotides at different positions within the previously propos...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.13.3689
更新日期:1991-07-11 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::Here, we describe the development of WikiPathways (http://www.wikipathways.org), a public wiki for pathway curation, since it was first published in 2008. New features are discussed, as well as developments in the community of contributors. New features include a zoomable pathway viewer, support for pathway ontology a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1074
更新日期:2012-01-01 00:00:00
abstract::Conventional chemotherapy remains the primary treatment option for triple-negative breast cancer (TNBC). However, the current chemotherapeutic drugs have limited effects on TNBC, and often lead to serious side effects as well as drug resistance. Thus, more effective therapeutic options are sorely needed. As c-MYC onco...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz835
更新日期:2019-11-18 00:00:00
abstract::Here we employ a set of RNA Polymerase II (Pol II) activity mutants to determine the consequences of increased or decreased Pol II catalysis on gene expression in Saccharomyces cerevisiae. We find that alteration of Pol II catalytic rate, either fast or slow, leads to decreased Pol II occupancy and apparent reduction ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx037
更新日期:2017-05-05 00:00:00
abstract::Mutator-like transposable elements (MULEs) are widespread across fungal, plant and animal species. Despite their abundance and importance as genetic tools in plants, the transposition mechanism of the MULE superfamily was previously unknown. Discovery of the Muta1 element from Aedes aegypti and its successful transpos...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx357
更新日期:2017-06-20 00:00:00
abstract::Human MitBASE is a database collecting human mtDNA variants. This database is part of a greater mitochondrial genome database (MitBASE) funded within the EU Biotech Program. The present paper reports the recent improvements in data structure, data quality and data quantity. As far as the database structure is concerne...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.1.143
更新日期:1999-01-01 00:00:00
abstract::High throughput sequencing (HTS) platforms generate unprecedented amounts of data that introduce challenges for processing and downstream analysis. While tools that report the 'best' mapping location of each read provide a fast way to process HTS data, they are not suitable for many types of downstream analysis such a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gku370
更新日期:2014-07-01 00:00:00
abstract::We report the use of MonoQ FPLC (Fast Protein Liquid Chromatography) for the rapid purification of a novel Type II restriction endonuclease PmaCI, from Pseudomonas maltophila, which recognises the sequence 5'-CAC decreases GTG-3'. The resulting enzyme is free of other nucleases to a level suitable for its characterisa...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.3.1293
更新日期:1986-02-11 00:00:00
abstract::The thermodynamics of 13 hybridization reactions between 10 base DNA sequences of design 5'-ATGCXYATGC-3' with X, Y = A, C, G, T and their complementary PNA and DNA sequences were determined from isothermal titration calorimetry (ITC) measurements at ambient temperature. For the PNA/DNA hybridization reactions, the bi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/27.24.4792
更新日期:1999-12-15 00:00:00
abstract::Plasmid DNA incubated in interphase Xenopus egg extracts is normally assembled into chromatin and then into synthetic nuclei which undergo one round of regulated replication. During a study of restriction endonuclease cut plasmid replication intermediates (RIs) by the Brewer-Fangman 2D gel electrophoresis technique, w...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.10.2187
更新日期:2000-05-15 00:00:00
abstract::DNA strand exchange, the central step of homologous recombination, is considered to occur approximately independently of DNA sequence content. However, certain prokaryotic and eukaryotic genomic loci display either an enhanced or reduced frequency of genetic exchange. Here we show that the Homo sapiens DNA strand exch...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl355
更新日期:2006-05-24 00:00:00
abstract::A pan-genome is the union of the gene sets of all the individuals of a clade or a species and it provides a new dimension of genome complexity with the presence/absence variations (PAVs) of genes among these genomes. With the progress of sequencing technologies, pan-genome study is becoming affordable for eukaryotes w...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw958
更新日期:2017-01-25 00:00:00
abstract::Revealing the clonal composition of a single tumor is essential for identifying cell subpopulations with metastatic potential in primary tumors or with resistance to therapies in metastatic tumors. Sequencing technologies provide only an overview of the aggregate of numerous cells. Computational approaches to de-mix a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt641
更新日期:2013-09-01 00:00:00
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
更新日期:2012-10-01 00:00:00
abstract::A synapomorphy is a phylogenetic character that provides evidence of shared descent. Ideally a synapomorphy is ubiquitous within the clade of related organisms and nonexistent outside the clade, implying that it arose after divergence from other extant species and before the last common ancestor of the clade. With the...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl440
更新日期:2006-01-01 00:00:00
abstract::Dnmt3a and Dnmt3b are paralogous enzymes responsible for de novo DNA methylation but with distinguished biological functions. In mice, disruption of Dnmt3b but not Dnmt3a causes global DNA hypomethylation, especially in repetitive sequences, which comprise the large majority of methylated DNA in the genome. By measuri...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq456
更新日期:2010-10-01 00:00:00
abstract::For characterizing in vivo functions of a mammalian protein, it is informative to obtain conditional mutations and apply them to the mouse genetic system. However, the isolation of conditional mutations has been quite difficult in cultured cells. We report here that functional expression of a heterologous mammalian ge...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.20.4229
更新日期:1994-10-11 00:00:00
abstract::Mammalian gene promoters for transcription by RNA polymerase II are typically organized in the following order: upstream sequence motif(s)/TATA box/initiation site. Here we report studies in which the order, orientation and DNA sequences of these three elements are varied to determine how these affect polarity of tran...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.24.6699
更新日期:1991-12-25 00:00:00
abstract::To locate the boundaries of the TATA element in the SV40 early promoter, point mutations have been constructed such as to cover the whole T + A-rich region of the replication origin. The effects of these mutations on the rate of transcription in vivo show that this region actually contains two TATA elements I and II, ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/20.5.975
更新日期:1992-03-11 00:00:00
abstract::Structural changes of reconstituted SV 40 minichromosomes have been studied in relation to the salt concentration and addition of histone H1 by sedimentation and electron microscopy. Sedimentation data are represented as functions of the NaCl concentration and the Debye-Hückel electrostatic screening radius 1/alpha. T...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.11.3581
更新日期:1979-08-10 00:00:00
abstract::Period2 (Per2) is an essential component of the mammalian clock mechanism and robust circadian expression of Per2 is essential for the maintenance of circadian rhythms. Although recent studies have shown that the circadian E2 enhancer (a non-canonical E-box) accounts for most of the circadian transcriptional drive of ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl868
更新日期:2007-01-01 00:00:00
abstract::The endonuclease activity within the influenza virus cap-snatching process is a proven therapeutic target. The anti-influenza drug baloxavir is highly effective, but is associated with resistance mutations that threaten its clinical efficacy. The endonuclease resides within the N-terminal domain of the PA subunit (PAN...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa1294
更新日期:2021-01-19 00:00:00
abstract::Here we describe a two-stepped photobiotin-based procedure to enrich a target (canine retinal) cDNA library for tissue specific clones without removing those containing repetitive ( SINE ) elements, despite the presence of these elements in the driver population. In a first hybridization excess SINE elements were hybr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/25.21.4427
更新日期:1997-11-01 00:00:00
abstract::Translesion DNA synthesis (TLS) by the Y-family DNA polymerases Polη, Polι and Polκ, mediated via interaction with proliferating cell nuclear antigen (PCNA), is a crucial pathway that protects human cells against DNA damage. We report that Polη has three PCNA-interacting protein (PIP) boxes (PIP1, 2, 3) that contribut...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv712
更新日期:2015-09-18 00:00:00
abstract::Calf thymus nucleosomes exhibit two different and independent hydrodynamic responses to diminishing salt concentration. One change is gradual over the range 40 to 0.2 mM Na+ and is accompanied by decreases in contact-site cross-linking efficiency. The other change is abrupt, being centered between 1 and 2 mM Na+. We f...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/8.21.4969
更新日期:1980-11-11 00:00:00
abstract::The InParanoid eukaryotic ortholog database (http://InParanoid.sbc.su.se/) has been updated to version 6 and is now based on 35 species. We collected all available 'complete' eukaryotic proteomes and Escherichia coli, and calculated ortholog groups for all 595 species pairs using the InParanoid program. This resulted ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm1020
更新日期:2008-01-01 00:00:00
abstract::Nucleosomes are the most abundant protein-DNA complexes in eukaryotes that provide compaction of genomic DNA and are implicated in regulation of transcription, DNA replication and repair. The details of DNA positioning on the nucleosome and the DNA conformation can provide key regulatory signals. Hydroxyl-radical foot...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx616
更新日期:2017-09-19 00:00:00