Abstract：
:We have used a polymerase chain reaction (PCR) procedure to analyse low abundance complementary sense RNAs of Digitaria streak virus (DSV) from infected leaves of Digitaria setigera. This study has confirmed that both spliced and unspliced RNAs are synthesised by the same transcription unit. The position of the intron has been proven from sequencing cDNAs corresponding to the spliced RNA. Although the majority of cDNAs have 3' ends at coordinate 1063, downstream from a consensus polyadenylation sequence, a minor population of RNAs with heterogeneous 3' ends has also been identified. Two major RNA species with alternative splice sites or 3' ends, previously identified by nuclease S1 protection assays, could not be detected, but a cDNA species was observed with an apparent 90bp insertion at the 5' end of the intron. In transgenic tobacco containing integrated dimers of DSV DNA, the major unspliced RNA could readily be detected, but no spliced RNA was present. This may be a reason why DSV DNA did not replicate in tobacco. In addition, neither the minor population of heterogeneous RNAs nor the cDNA species with the insertion could be detected. The failure of the intron to be spliced in tobacco and its low activity in Digitaria is discussed in relation to recent studies on RNA splicing in plants and has led us to the conclusion that the geminivirus introns may be intrinsically inefficient.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Mullineaux PM,Guerineau F,Accotto GPdoi
10.1093/nar/18.24.7259subject
Has Abstractpub_date
1990-12-25 00:00:00pages
7259-65issue
24eissn
0305-1048issn
1362-4962journal_volume
18pub_type
杂志文章abstract：:Recent studies show that the region of DNA brought into close proximity to the fetal gamma-globin genes in deletional forms of hereditary persistence of fetal hemoglobin (HPFH) is selectively hypomethylated (and presumably active) in normal erythroid tissue. This region is normally located approximately 100 kilobases ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.13.5169
更新日期：1987-07-10 00:00:00
abstract：:Initiation of σ(54)-dependent transcription requires assistance to melt DNA at the promoter site but is impeded by numerous protein-protein and nucleo-protein interactions. To alleviate these inhibitory interactions, hexameric bacterial enhancer binding proteins (bEBP), a subset of the ATPases associated with various ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gks661
更新日期：2012-10-01 00:00:00
abstract：:Oligodeoxyribonucleotides containing N4-methoxycytosine (mo4C), N4-methoxy-5-methylcytosine (mo4m5C) and other base-analogues were synthesised and used to compare the stabilities of duplexes containing mo4C.A and mo4C.G base pairs with those containing normal and mismatch pairs. The Tm values and other thermodynamic p...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/15.20.8167
更新日期：1987-10-26 00:00:00
abstract：:DNA methylation is the best-studied epigenetic modification and describes the conversion of cytosine to 5-methylcytosine. The importance of this phenomenon is that aberrant promoter hypermethylation is a common occurrence in cancer and is frequently associated with gene silencing. Various techniques are currently avai...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gnj017
更新日期：2006-02-07 00:00:00
abstract：:Controller (C) proteins regulate the timing of the expression of restriction and modification (R-M) genes through a combination of positive and negative feedback circuits. A single dimer bound to the operator switches on transcription of the C-gene and the endonuclease gene; at higher concentrations, a second dimer bo...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkn448
更新日期：2008-08-01 00:00:00
abstract：:DNA methylation of cytosine in eukaryotic cells is a common epigenetic modification, which plays an important role in gene expression and thus affects various cellular processes like development and carcinogenesis. The occurrence of 5-methyl-2'-deoxycytosine (5mC) as well as the distribution pattern of this epigenetic...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw812
更新日期：2016-11-16 00:00:00
abstract：:Nucleosomes released from oviduct nuclei during brief micrococcal nuclease digestions are enriched in transcribed sequences (bloom K.S. and Anderson, J.N. (1978) Cell, 15, 141-150). Such nucleosomes released into this 1Sf supernatant fraction are enriched in proteins HMG14, 17 and a third lower molecular weight protei...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/9.12.2761
更新日期：1981-06-25 00:00:00
abstract：:Previous work in predicting protein localization to the chloroplast organelle in plants led to the development of an artificial neural network-based approach capable of remarkable accuracy in its prediction (ChloroP). A common criticism against such neural network models is that it is difficult to interpret the criter...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/29.16.e82
更新日期：2001-08-15 00:00:00
abstract：:Automated fluorescence-based DNA sequence analysis offers the possibility to undertake very large scale sequencing projects. Directed strategies, such as the specific-primer-directed sequencing approach ('gene walking'), should prove useful in such projects. Described herein is a study involving the use of this approa...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/17.15.6087
更新日期：1989-08-11 00:00:00
abstract：:The diverse localization of transcripts in cells suggests that there are many specific RNA-protein interactions that have yet to be identified. Progress has been limited, however, by the lack of a robust method to detect and isolate the RNA-binding proteins. Here we describe the use of an RNA aptamer, scaffolded to a ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkq1316
更新日期：2011-04-01 00:00:00
abstract：:RJ2.2.5, a mutant derived from the human B-lymphoma cell, Raji, is unable to express the MHC class II genes because of a recessive transcriptional defect attributed to the lack of an activator function. We report the isolation of a RJ2.2.5 revertant, namely AR, in which the expression of the mRNAs encoded by these gen...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.3.381
更新日期：1993-02-11 00:00:00
abstract：:The attachment of replicating DNA to a rapidly sedimenting nuclear structure was investigated by digestion with various nucleases. When DNA was gradually removed by DNase I, pulse label incorporated during either 1 min or during 1 hour in the presence of arabinosylcytosine, remained preferentially attached to the nucl...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/6.1.219
更新日期：1979-01-01 00:00:00
abstract：:Messenger RNA in eukaryotes is comprised of several abundance classes. Also, the decay of these unstable molecules shows at least two very different lifetimes. Two independent techniques are used here to examine the relation between message abundance and lifetime in cell lines from very different organisms. The method...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/5.8.3057
更新日期：1978-08-01 00:00:00
abstract：:A list of DNA sequences cloned from the human genome is presented. Intended as a guide to clone availability, this list includes published reports of cDNA, genomic and synthetic clones comprising gene and pseudogene sequences, uncharacterised DNA segments and repetitive DNA elements. ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/16.suppl.r403
更新日期：1988-01-01 00:00:00
abstract：:The antitumor antibiotic CC-1065 binds in the minor groove of double-stranded DNA, and the cyclopropapyrroloindole (CPI) subunit of the drug alkylates adjacent adenines at their N-3 position. We have attached racemic CPI to oligodeoxyribonucleotides (ODNs) via a terminal phosphorothioate at either the 3'- or 5'-end of...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/24.4.683
更新日期：1996-02-15 00:00:00
abstract：:We have implemented a genome annotation system for prokaryotes called AGMIAL. Our approach embodies a number of key principles. First, expert manual annotators are seen as a critical component of the overall system; user interfaces were cyclically refined to satisfy their needs. Second, the overall process should be o...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkl471
更新日期：2006-07-19 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：: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
更新日期：1982-10-11 00:00:00
abstract：:Electron microscopic technique was used to examine the structures of SV40 DNA recombination intermediates induced by ultraviolet irradiation as an approach for understanding recombination mechanisms in animal cells. Putative recombination intermediate with the characteristic Holliday junction was observed in both SV40...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/19.25.7193
更新日期：1991-12-01 00:00:00
abstract：:Genetic therapy holds great promise for the treatment of inherited or acquired genetic diseases; however, its breakthrough is hampered by the lack of suitable gene delivery systems. Dumbbell-shaped DNA minimal vectors represent an attractive, safe alternative to the commonly used viral vectors which are fraught with r...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv583
更新日期：2015-10-15 00:00:00
abstract：:The Kruppel-like factor 5 (KLF5/IKLF) belongs to the Kruppel family of genes which bind GC-rich DNA elements and activate or repress their target genes in a promoter context and/or cellular environment-dependent manner. In the present study, we used the Gal4 fusion assay system to characterize the mechanism of transac...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkg310
更新日期：2003-04-15 00:00:00
abstract：:In Euplotes crassus millions of telomeres are synthesized during the sexual phase of the life cycle. Since these newly synthesized telomeres are longer than normal macronuclear telomeres, they must be trimmed to the mature size. We have examined the timing and mechanism of this trimming step. We have shown that a sudd...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/21.23.5366
更新日期：1993-11-25 00:00:00
abstract：:In diverse bacterial species, the turnover and processing of many RNAs is mediated by the ribonuclease RNase J, a member of the widely occurring metallo-β-lactamase enzyme family. We present crystal structures of Streptomyces coelicolor RNase J with bound RNA in pre- and post-cleavage states, at 2.27 Å and 2.80 Å reso...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkv732
更新日期：2015-09-18 00:00:00
abstract：:The dicistrovirus intergenic internal ribosome entry site (IGR IRES) directly recruits the ribosome and initiates translation using a non-AUG codon. A subset of IGR IRESs initiates translation in either of two overlapping open reading frames (ORFs), resulting in expression of the 0 frame viral structural polyprotein a...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku622
更新日期：2014-08-01 00:00:00
abstract：:G-quadruplexes are dynamic structures folded in G-rich single-stranded DNA regions. These structures have been recognized as a potential nucleic acid based mechanism for regulating multiple cellular processes such as replication, transcription and genomic maintenance. So far, their transcriptional role in vivo during ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw011
更新日期：2016-05-19 00:00:00
abstract：:The small subunit ribosomal RNA gene (16S rRNA) has been successfully used to catalogue and study the diversity of prokaryotic species and communities but it offers limited resolution at the species and finer levels, and cannot represent the whole-genome diversity and fluidity. To overcome these limitations, we introd...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gky467
更新日期：2018-07-02 00:00:00
abstract：:The COXPRESdb (http://coxpresdb.jp) provides gene coexpression relationships for animal species. Here, we report the updates of the database, mainly focusing on the following two points. For the first point, we added RNAseq-based gene coexpression data for three species (human, mouse and fly), and largely increased th...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gku1163
更新日期：2015-01-01 00:00:00
abstract：:ModBase (http://salilab.org/modbase) is a database of annotated comparative protein structure models. The models are calculated by ModPipe, an automated modeling pipeline that relies primarily on Modeller for fold assignment, sequence-structure alignment, model building and model assessment (http://salilab.org/modelle...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkt1144
更新日期：2014-01-01 00:00:00
abstract：:We have amplified the large subunit ribosomal DNA (LSUrDNA) of the 12 described Naegleria spp. and of 34 other Naegleria lineages that might be distinct species. Two strains yielded a product that is longer than 3 kb, which is the length of the LSUrDNA of all described Naegleria spp. Sequencing data revealed that the ...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/26.2.456
更新日期：1998-01-15 00:00:00
abstract：:The 'druggable genome' encompasses several protein families, but only a subset of targets within them have attracted significant research attention and thus have information about them publicly available. The Illuminating the Druggable Genome (IDG) program was initiated in 2014, has the goal of developing experimental...
journal_title：Nucleic acids research
pub_type： 杂志文章
doi：10.1093/nar/gkw1072
更新日期：2017-01-04 00:00:00
