Abstract:
:Fibroblast growth factor receptor 3 (FGFR3) plays an important role in cartilage development. Although upregulation of FGFR3 expression in response to bone morphogenetic protein-2 (BMP-2) has been reported, the molecular mechanisms remain unknown. In this study, we used in vivo approaches to characterize BMP-2-induced alterations in the chromatin organization of the FGFR3 core promoter. Chromatin immunoprecipitation analysis demonstrated that the binding of Brg1, a component of the SWI/SNF remodeling complex, may selectively remodel a chromatin region (encompassing nucleotide -90 to +35), uncovering the transcription start site and three Sp1-binding sites, as revealed by nuclease digestion hypersensitivity assays. We then showed an increase in the association of Sp1 with the proximal promoter, followed by the recruitment of p300, resulting in a change of the histone 'code', such as in phosphorylation and methylation. Collectively, our study results suggest a model for BMP-2-induced FGFR3 expression in which the core promoter architecture is specifically regulated.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Sun F,Chen Q,Yang S,Pan Q,Ma J,Wan Y,Chang CH,Hong Adoi
10.1093/nar/gkp261subject
Has Abstractpub_date
2009-07-01 00:00:00pages
3897-911issue
12eissn
0305-1048issn
1362-4962pii
gkp261journal_volume
37pub_type
杂志文章abstract::In many viruses and transposons, expression of some genes requires alternative reading of the genetic code, also called recoding. Such events depend on specific mRNA sequences and can lead to read through of an in-frame stop codon or to +1 or -1 frameshifting. Here, we addressed the issue of conservation of recoding r...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/23.9.1557
更新日期:1995-05-11 00:00:00
abstract::One challenge in engineering organisms is taking responsibility for their behavior over many generations. Spontaneous mutations arising before or during use can impact heterologous genetic functions, disrupt system integration, or change organism phenotype. Here, we propose restructuring the genetic code itself such t...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkz745
更新日期:2019-11-04 00:00:00
abstract::The Rat Genome Database (RGD, http://rgd.mcw.edu) was developed to provide a core resource for rat researchers combining genetic, genomic, pathway, phenotype and strain information with a focus on disease. RGD users are provided with access to structured and curated data from the molecular level through to the level o...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkn842
更新日期:2009-01-01 00:00:00
abstract::The POU domain transcription factor, Oct-2, is essential for the B cell-specific expression of CD36 in mouse B cells. In order to determine how Oct-2 mediates expression of CD36 in B cells, we cloned and analysed the mouse CD36 promoter. In contrast to the human CD36 promoter, the mouse promoter contains a consensus o...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/30.8.1767
更新日期:2002-04-15 00:00:00
abstract::A correlation between histone acetylation and transcription has been noted for a long time, but little is known about what step(s) in the transcription cycle is influenced by acetylation. We have examined the immediate transcriptional response to histone deacetylase (HDAC) inhibition, and find that release of promoter...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa234
更新日期:2020-05-21 00:00:00
abstract::Genomic DNA methylation contributes substantively to transcriptional regulations that underlie mammalian development and cellular differentiation. Much effort has been made to decipher the molecular mechanisms governing the establishment and maintenance of DNA methylation patterns. However, little is known about genom...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr017
更新日期:2011-05-01 00:00:00
abstract::Non-homologous DNA end joining (NHEJ) is considered the major pathway of double-strand break (DSB) repair in mammalian cells and depends, among other things, on the DNA end-binding Ku70/80 hetero-dimer. To investigate the function of Ku in NHEJ we have compared the ability of cell-free extracts from wild-type CHO-K1 c...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/28.13.2585
更新日期:2000-07-01 00:00:00
abstract::The DNA topoisomerase from Agrobacterium tumefaciens has been purified to apparent homogeneity. The enzyme is a single polypeptide of about 100,000 in molecular weight. No apparent separation of the nicking and sealing activities could be obtained in attempts to separate the two activities by a variety of methods, inc...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.4.909
更新日期:1981-02-25 00:00:00
abstract::Mutational analysis of the 5'-untranslated leader sequence (omega) of tobacco mosaic virus (TMV) was carried out to determine those sequences necessary for the translational enhancement associated with omega. Five deletion mutants, a single base substitution, and a 25 base replacement mutant were tested for alteration...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/16.3.883
更新日期:1988-02-11 00:00:00
abstract::GenBank (R) is a comprehensive sequence database that contains publicly available DNA sequences for more than 119 000 different organisms, obtained primarily through the submission of sequence data from individual laboratories and batch submissions from large-scale sequencing projects. Most submissions are made using ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkg057
更新日期:2003-01-01 00:00:00
abstract::The plastid psbA promoter of tobacco was used with the aim to construct plastid specific marker genes. Upon transfer to the tobacco nuclear genome the plastid promoter fragment appeared to specify a messenger RNA. Placed 5' to the bar or nptII coding sequences the level of expression is sufficient to obtain a selectab...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/17.1.19
更新日期:1989-01-11 00:00:00
abstract::The agents daunomycin, ethidium bromide, distamycin A and cytochrome c inhibit DNA dependent DNA polymerase I (E. coli) reaction competitively to DNA. The influence of these template inactivators on the binding of DNA polymerase to native as well as denatured DNA has been determined by affinity chromatography. Cytochr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/1.1.63
更新日期:1974-01-01 00:00:00
abstract::Spirochetes of the genus Borrelia include the tick-transmitted causative agents of Lyme disease and relapsing fever. They possess unusual genomes composed mainly of linear replicons terminated by closed DNA hairpin telomeres. Hairpin telomeres present an uninterrupted DNA chain to the replication machinery overcoming ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt832
更新日期:2013-12-01 00:00:00
abstract::Genome-wide transcriptome profiling has enabled non-supervised classification of tumours, revealing different sub-groups characterized by specific gene expression features. However, the biological significance of these subtypes remains for the most part unclear. We describe herein an interactive platform, Minimum Span...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkx338
更新日期:2017-07-27 00:00:00
abstract::A Fortran computer algorithm has been used to analyze the nucleotide sequence of several structural genes. The analysis performed on both coding and complementary DNA strands shows that whereas open reading frames shorter than 100 codons are randomly distributed on both DNA strands, open reading frames longer than 100...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/9.6.1499
更新日期:1981-03-25 00:00:00
abstract::UNITE (https://unite.ut.ee/) is a web-based database and sequence management environment for the molecular identification of fungi. It targets the formal fungal barcode-the nuclear ribosomal internal transcribed spacer (ITS) region-and offers all ∼1 000 000 public fungal ITS sequences for reference. These are clustere...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky1022
更新日期:2019-01-08 00:00:00
abstract::Mononegaviruses, such as Ebola virus, encode an L (large) protein that bears all the catalytic activities for replication/transcription and RNA capping. The C-terminal conserved region VI (CRVI) of L protein contains a K-D-K-E catalytic tetrad typical for 2'O methyltransferases (MTase). In mononegaviruses, cap-MTase a...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gky637
更新日期:2018-09-06 00:00:00
abstract::The helical twist of poly d(A-s4T) was determined from the periodicity of the cleavage patterns of the double stranded polydeoxynucleotide adsorbed on calcium phosphate and found to be 14 bp per turn. Both cleavage patterns and 31P NMR spectra indicate a mononucleotide structure rather than an alternating B DNA like p...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/14.5.2241
更新日期:1986-03-11 00:00:00
abstract::We studied fluorescence intensity, polarization and lifetime of some commonly used fluorophores conjugated to oligodeoxyribonucleotides with different primary and secondary structures. We found that fluorescence intensity can increase or decrease upon hybridization of the labeled strand to its complement depending on ...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/30.9.2089
更新日期:2002-05-01 00:00:00
abstract::Two models have been proposed for triggering release of the lagging strand polymerase at the replication fork, enabling cycling to the primer for the next Okazaki fragment--either collision with the 5'-end of the preceding fragment (collision model) or synthesis of a new primer by primase (signaling model). Specific p...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkt1098
更新日期:2014-02-01 00:00:00
abstract::Spirochetes of the genus Borrelia possess unusual genomes that consist in a linear chromosome and multiple linear and circular plasmids. The linear replicons are terminated by covalently closed hairpin ends, referred to as hairpin telomeres. The hairpin telomeres represent a simple solution to the end-replication prob...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw344
更新日期:2016-06-20 00:00:00
abstract::The interaction specificity of salmon sperm DNA with 2-hydroxyethanethionlato(2,2',2''-terpyridine)platinum(II),PtTS has been studied. The results of 1H and 13C nuclear magnetic resonance, flow dichroism and circular dichroism studies are found to be consistent with an intercalation mode of binding as has been propose...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/7.4.1081
更新日期:1979-10-25 00:00:00
abstract::The DNA damage checkpoint halts cell cycle progression in G2 in response to genotoxic insults. Central to the execution of cell cycle arrest is the checkpoint-induced stabilization of securin-separase complex (yeast Pds1-Esp1). The checkpoint kinases Chk1 and Chk2 (yeast Chk1 and Rad53) are thought to critically contr...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkaa355
更新日期:2020-06-19 00:00:00
abstract::Muscleblind-like proteins (MBNLs) are regulators of RNA metabolism. During tissue differentiation the level of MBNLs increases, while their functional insufficiency plays a crucial role in myotonic dystrophy (DM). Deep sequencing of RNA molecules cross-linked to immunoprecipitated protein particles (CLIP-seq) revealed...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkw1158
更新日期:2017-02-28 00:00:00
abstract::Anti-silencing function 1 (Asf1) and Chromatin Assembly Factor 1 (CAF-1) chaperone histones H3/H4 during the assembly of nucleosomes on newly replicated DNA. To understand the mechanism of histone H3/H4 transfer among Asf1, CAF-1 and DNA from a thermodynamic perspective, we developed and employed biophysical approache...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gks906
更新日期:2012-12-01 00:00:00
abstract::The MalaCards human disease database (http://www.malacards.org/) is an integrated compendium of annotated diseases mined from 68 data sources. MalaCards has a web card for each of ∼20 000 disease entries, in six global categories. It portrays a broad array of annotation topics in 15 sections, including Summaries, Symp...
journal_title:Nucleic acids research
pub_type: 杂志文章,评审
doi:10.1093/nar/gkw1012
更新日期:2017-01-04 00:00:00
abstract::The promoter region of the mouse CCAAT-Enhancer Binding Protein (C/EBP alpha) gene is capable of directing high levels of expression of reporter constructs in various cell lines, albeit even in cells that do not express their endogenous C/EBP alpha gene. To understand the molecular mechanisms underlying this ubiquitou...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.8.1735
更新日期:1993-04-25 00:00:00
abstract::For efficient DNA cleavage, the Type III restriction endonuclease EcoP15I communicates with two inversely oriented recognition sites in an ATP-dependent process. EcoP15I consists of methylation (Mod) and restriction (Res) subunits forming a multifunctional enzyme complex able to methylate or to cleave DNA. In this stu...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/gkr1239
更新日期:2012-04-01 00:00:00
abstract::A cDNA encoding the 60 kDa subunit of mammalian splicing factor SF3a has been isolated. The deduced protein sequence reveals a 30% identity to the PRP9 splicing protein of the yeast S.cerevisiae. The highest homology is present in a zinc finger-like region in the C-terminal domain of both proteins. The PRP9 zinc finge...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/22.24.5223
更新日期:1994-12-11 00:00:00
abstract::We have previously isolated two different aFGF cDNA clones from kidney and brain. The two corresponding mRNA, designated aFGF 1.A and 1.B, are the predominant species in kidney and brain, respectively. During the characterization of aFGF mRNA in glioblastoma cells, we demonstrated that aFGF mRNA in U1242MG and D65MG g...
journal_title:Nucleic acids research
pub_type: 杂志文章
doi:10.1093/nar/21.3.489
更新日期:1993-02-11 00:00:00