Abstract:
:UV-induced reversion of the arg4-17 ochre allele in Saccharomyces cerevisiae is largely dependent on translesion polymerase eta (Rad30p), known to bypass cyclobutane-type TT dimers in an error-free fashion. arg4-17 locus reversion was predominantly due to T-->C transition of T127, the 3' T of a TT photoproduct site. This event was at least 20-fold reduced in a rad30 deletion mutant, irrespective of the status of nucleotide excision repair. These data correlate with known properties of 6-4 TT photoproducts and in vitro characteristics of polymerase eta and suggest that polymerase eta plays an important in vivo role in inserting G opposite the 3' T of 6-4 TT photoproducts at this site. Alternatively, an unprecedented error-prone processing of cyclobutane-type photoproducts at this site by polymerase eta must be assumed as the critical mechanism. Whereas photoreactivation results indeed hint at the latter possibility, a possible regulatory influence of reducing the overall UV damage load on the bypass probability of non-cyclobutane-type pyrimidine dimer photoproducts should not be dismissed.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Zhang H,Siede Wdoi
10.1093/nar/30.5.1262keywords:
subject
Has Abstractpub_date
2002-03-01 00:00:00pages
1262-7issue
5eissn
0305-1048issn
1362-4962journal_volume
30pub_type
杂志文章abstract::Substantial amounts of DNA (at least 25 microgram per cm2) can be stably bound to diazobenzyloxymethyl (DBM)-paper. Complementary RNA will hybridize to the DNA paper almost completely in 24 hours. Using several different conditions of hybridization and washing, the background of RNA bound non-specifically is very low ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/6.1.195
更新日期:1979-01-01 00:00:00
abstract::DNA methylation, the most intensively studied epigenetic modification, plays an important role in understanding the molecular basis of diseases. Furthermore, epigenome-wide association study (EWAS) provides a systematic approach to identify epigenetic variants underlying common diseases/phenotypes. However, there is n...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky942
更新日期:2019-01-08 00:00:00
abstract::We have previously shown that Y box-binding protein-1 (YB-1) binds preferentially to cisplatin-modified Y box sequences. Based on structural and biochemical data, we predicted that this protein binds single-stranded nucleic acids. In the present study we confirmed the prediction and also discovered some unexpected fun...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/29.5.1200
更新日期:2001-03-01 00:00:00
abstract::Establishment and differentiation of mammary alveoli during pregnancy are controlled by prolactin through the transcription factors STAT5A and STAT5B (STAT5), which also regulate temporal activation of mammary signature genes. This study addressed the question whether the methyltransferase and transcriptional co-activ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkv776
更新日期:2015-10-15 00:00:00
abstract::Single nucleotide polymorphisms (SNPs) are, together with copy number variation, the primary source of variation in the human genome. SNPs are associated with altered response to drug treatment, susceptibility to disease and other phenotypic variation. Furthermore, during genetic screens for disease-associated mutatio...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkm979
更新日期:2008-01-01 00:00:00
abstract::The genome of the cell is often exposed to DNA damaging agents and therefore requires an intricate well-regulated DNA damage response (DDR) to overcome its deleterious effects. The DDR needs proper regulation for its timely activation, repression, as well as appropriate choice of repair pathway. Studies in Saccharomyc...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkw1369
更新日期:2017-03-17 00:00:00
abstract::Phospho3D is a database of three-dimensional (3D) structures of phosphorylation sites (P-sites) derived from the Phospho.ELM database, which also collects information on the residues surrounding the P-site in space (3D zones). The database also provides the results of a large-scale structural comparison of the 3D zone...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq936
更新日期:2011-01-01 00:00:00
abstract::Molecular beacons (MBs) have the potential to provide a powerful tool for rapid RNA detection in living cells, as well as monitoring the dynamics of RNA expression in response to external stimuli. To exploit this potential, it is necessary to distinguish true signal from background signal due to non-specific interacti...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkq050
更新日期:2010-05-01 00:00:00
abstract::Bacteria belonging to the class Mollicutes were among the first ones to be selected for complete genome sequencing because of the minimal size of their genomes and their pathogenicity for humans and a broad range of animals and plants. At this time six genome sequences have been publicly released (Mycoplasma genitaliu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkh114
更新日期:2004-01-01 00:00:00
abstract::Trf4/5p-Air1/2p-Mtr4p polyadenylation complex (TRAMP) is an essential component of nuclear RNA surveillance in yeast. It recognizes a variety of nuclear transcripts produced by all three RNA polymerases, adds short poly(A) tails to aberrant or unstable RNAs and activates the exosome for their degradation. Despite the ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks223
更新日期:2012-07-01 00:00:00
abstract::The exact sites at which a number of drugs inhibit the nick translation of DNA by E.coli DNA polymerase-I have been pinpointed. In order to do this, a method has been developed for sequencing double-stranded plasmid DNA from the site of a specifically induced nick. The initial experiments have concentrated on analysis...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/10.22.7273
更新日期:1982-11-25 00:00:00
abstract::Microsatellites are widely used as genetic markers because they are co-dominant, multiallelic, easily scored and highly polymorphic. A major drawback of microsatellite markers is the time and cost required to characterise them. We have developed a novel technique to reduce this cost by producing a microsatellite-rich ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.21.4369
更新日期:1996-11-01 00:00:00
abstract::Expression from the K. pneumoniae nifLA promoter is oxygen sensitive and is also inhibited by the DNA gyrase inhibitor coumermycin A1 under anaerobic growth conditions. The activity of this promoter was found to be highly sensitive to changes in DNA topology in vitro. Transcription was completely dependent on negative...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.21.9933
更新日期:1988-11-11 00:00:00
abstract::Light-inducible systems allow spatiotemporal control of a variety of biological activities. Here, we report newly optimized optogenetic tools to induce transcription with light in mammalian cells, using the Arabidopsis photoreceptor Flavin Kelch-repeat F-box 1 (FKF1) and its binding partner GIGANTEA (GI) as well as CR...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx804
更新日期:2017-11-16 00:00:00
abstract::In the poly(A)+RNA isolated from the ciliate Paramecium primaurelia is found a discrete and abundant mRNA species of high molecular weight (corresponding to about 9,000 nucleotides). This mRNA species has size and abundance characteristics that identify it tentatively as the message coding for the variant cell-surface...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/11.21.7375
更新日期:1983-11-11 00:00:00
abstract::The synthesis of a pentadecamer of the 5'-phosphate of the antiviral nucleoside ribavirin (1'-beta-D-ribofuranosyl-1H-1,2,4-triazole-3-carboxamide) has been achieved. This homoribopolymer is terminated at the 5'-position with an (6-aminohexyl)phosphate group to permit conjugation to a carrier and at the 3'-position by...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.5.1099
更新日期:1990-03-11 00:00:00
abstract::The genomic distribution of 23 nuclear genes from three dicotyledons (pea, sunflower, tobacco) and five monocotyledons of the Gramineae family (barley, maize, rice, oat, wheat) was studied by localizing these genes in DNA fractions obtained by preparative centrifugation in Cs2SO4/BAMD density gradients. Each one of th...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/18.7.1859
更新日期:1990-04-11 00:00:00
abstract::We present MultiGO, a web-enabled tool for the identification of biologically relevant gene sets from hierarchically clustered gene expression trees (http://ekhidna.biocenter.helsinki.fi/poxo/multigo). High-throughput gene expression measuring techniques, such as microarrays, are nowadays often used to monitor the exp...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl694
更新日期:2006-01-01 00:00:00
abstract::The putative role of double-strand breaks (DSBs) created in vitro by restriction enzyme cleavage in or near CGG*CCG or CTG*CAG repeat tracts on their genetic instabilities, both within the repeats and in their flanking sequences, was investigated in an Escherichia coli plasmid system. DSBs at TRS junctions with the ve...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkl612
更新日期:2006-01-01 00:00:00
abstract::The origin of replication of the c-myc gene in HeLa cells was previously identified at low resolution within 3.5 kb 5' to the P1 promoter, based on replication fork polarity and the location of DNA nascent strands. To define the initiation events in the c-myc origin at higher resolution the template bias of nascent DN...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/24.10.1887
更新日期:1996-05-15 00:00:00
abstract::In the haploid genome of Xenopus laevis there are two genes coding for the r-protein L14. It is not known if they are located on the same chromosome. cDNA clones deriving from the transcripts of the two genes have been isolated from an oocyte messenger cDNA bank showing that they are both expressed. We have studied th...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.19.7633
更新日期:1986-10-10 00:00:00
abstract::In spite of the many developments in synthetic oligonucleotide (ON) chemistry and design, invasion into double-stranded DNA (DSI) under physiological salt and pH conditions remains a challenge. In this work, we provide a new ON tool based on locked nucleic acids (LNAs), designed for strand invasion into duplex DNA (DS...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt007
更新日期:2013-03-01 00:00:00
abstract::Generation of double-stranded cDNA during reverse transcription of a variety of mRNA molecules is well known to involve the formation of covalently linked antisense and sense strands in a hairpin configuration. In the present study we have examined the sequence of molecular events which occurs during cDNA synthesis fr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.24.5302
更新日期:1994-12-11 00:00:00
abstract::Long non-coding RNAs (lncRNAs) that have no protein-coding capacity make up a large proportion of the transcriptome of various species. Many lncRNAs are expressed within the animal central nervous system in spatial- and temporal-specific patterns, indicating that lncRNAs play important roles in cellular processes, neu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks943
更新日期:2012-12-01 00:00:00
abstract::The PSI/TM-Coffee web server performs multiple sequence alignment (MSA) of proteins by combining homology extension with a consistency based alignment approach. Homology extension is performed with Position Specific Iterative (PSI) BLAST searches against a choice of redundant and non-redundant databases. The main nove...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw300
更新日期:2016-07-08 00:00:00
abstract::Regulatory T-cells (Treg) play an essential role in the negative regulation of immune answers by developing an attenuated cytokine response that allows suppressing proliferation and effector function of T-cells (CD4(+) Th). The transcription factor FoxP3 is responsible for the regulation of many genes involved in the ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr444
更新日期:2011-10-01 00:00:00
abstract::Ribonuclease III of Escherichia coli is prominently involved in the endoribonucleolytic processing of cell and viral-encoded RNAs. Towards the goal of defining the RNA sequence and structural elements that establish specific catalytic cleavage of RNase III processing signals, this report demonstrates that a 60 nucleot...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/19.8.1759
更新日期:1991-04-25 00:00:00
abstract::IGF2 mRNA-binding protein 1 (IMP1) is a key regulator of messenger RNA (mRNA) metabolism and transport in organismal development and, in cancer, its mis-regulation is an important component of tumour metastasis. IMP1 function relies on the recognition of a diverse set of mRNA targets that is mediated by the combinator...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz136
更新日期:2019-05-07 00:00:00
abstract::The Medaka Expression Pattern Database (MEPD) stores and integrates information of gene expression during embryonic development of the small freshwater fish Medaka (Oryzias latipes). Expression patterns of genes identified by ESTs are documented by images and by descriptions through parameters such as staining intensi...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg017
更新日期:2003-01-01 00:00:00
abstract::The replication control circuit of the FII plasmids R1, R100 and R6-5 involves a small untranslated RNA molecule of about 93 nucleotides. This RNA, designated CopA RNA in plasmid R1, acts in vivo as a post-transcriptional inhibitor of the expression of the RepA protein whose synthesis is required for each round of pla...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.6.2523
更新日期:1986-03-25 00:00:00