Identification and analysis of the Arabidopsis thaliana BSH gene, a member of the SNF5 gene family.

Abstract:

:The multiprotein complexes involved in active dis-ruption of chromatin structure, homologous to yeast SWI/SNF complex, have been described for human and Drosophila cells. In all SWI/SNF-class complexes characterised so far, one of the key components is the SNF5-type protein. Here we describe the isolation of a plant (Arabidopsis thaliana ) cDNA encoding a 27 kDa protein which we named BSH, with high homology to yeast SNF5p and its human (INI1) and Drosophila (SNR1) counterparts as well as to other putative SNF5-type proteins from Caenorhabditis elegans, fish and yeast. With 240 amino acids, the Arabidopsis BSH is the smallest SNF5-type protein so far identified. When expressed in Saccharomyces cerevisiae, the gene for BSH partially complements the snf5 mutation. BSH is, however, unable to activate transcription in yeast when tethered to DNA. The gene for BSH occurs in single copy in the Arabidopsis genome and is ubiquitously expressed in the plant. Analysis of the whole cell and nuclear protein extracts with antibodies against recombinant BSH indicates that the protein is localised in nuclei. Transgenic Arabidopsis plants with markedly decreased physiological level of the BSH mRNA, resulting from the expression of antisense messenger, are viable but exhibit a distinctive phenotype characterised by bushy growth and flowers that are unable to produce seeds.

journal_name

Nucleic Acids Res

journal_title

Nucleic acids research

authors

Brzeski J,Podstolski W,Olczak K,Jerzmanowski A

doi

10.1093/nar/27.11.2393

keywords:

subject

Has Abstract

pub_date

1999-06-01 00:00:00

pages

2393-9

issue

11

eissn

0305-1048

issn

1362-4962

pii

gkc382

journal_volume

27

pub_type

杂志文章
  • An expectation-maximization algorithm for probabilistic reconstructions of full-length isoforms from splice graphs.

    abstract::Reconstructing full-length transcript isoforms from sequence fragments (such as ESTs) is a major interest and challenge for bioinformatic analysis of pre-mRNA alternative splicing. This problem has been formulated as finding traversals across the splice graph, which is a directed acyclic graph (DAG) representation of ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkl396

    authors: Xing Y,Yu T,Wu YN,Roy M,Kim J,Lee C

    更新日期:2006-06-06 00:00:00

  • Comparison of substrate base sequences for RNA ligase reactions in the synthesis of a tetradecanucleotide corresponding to bases 21-34 of E. coli tRNAfMet 1.

    abstract::A tetradecanucleotide U-A-G-C(U-C-G)2G-G-C-Up corresponding to bases 21-34 of a nascent sequence of formylmethionyl tRNA of E. coli has been synthesized by the joining of two combinations of chemically synthesized oligonucleotides: 1) U-A-G-C + U-C-G-U-C-G + G-G-C-Up and 2) U-A-G-C + U-C-G-U + C-G-G-G-C-Up. In reactio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/8.17.3909

    authors: Ohtsuka E,Doi T,Uemura H,Taniyama Y,Ikehara M

    更新日期:1980-09-11 00:00:00

  • SplicePort--an interactive splice-site analysis tool.

    abstract::SplicePort is a web-based tool for splice-site analysis that allows the user to make splice-site predictions for submitted sequences. In addition, the user can also browse the rich catalog of features that underlies these predictions, and which we have found capable of providing high classification accuracy on human s...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkm407

    authors: Dogan RI,Getoor L,Wilbur WJ,Mount SM

    更新日期:2007-07-01 00:00:00

  • Transient expression directed by homologous and heterologous promoter and enhancer sequences in fish cells.

    abstract::In order to construct fish specific expression vectors for studies on gene regulation in vitro and in vivo a variety of heterologous enhancers and promoters from mammals and from viruses of higher vertebrate cells were tested for expression of the bacterial chloramphenicol acetyl transferase reporter gene in three tel...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/18.11.3299

    authors: Friedenreich H,Schartl M

    更新日期:1990-06-11 00:00:00

  • Allotopic expression of mitochondrial-encoded genes in mammals: achieved goal, undemonstrated mechanism or impossible task?

    abstract::Mitochondrial-DNA diseases have no effective treatments. Allotopic expression-synthesis of a wild-type version of the mutated protein in the nuclear-cytosolic compartment and its importation into mitochondria-has been proposed as a gene-therapy approach. Allotopic expression has been successfully demonstrated in yeast...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq769

    authors: Perales-Clemente E,Fernández-Silva P,Acín-Pérez R,Pérez-Martos A,Enríquez JA

    更新日期:2011-01-01 00:00:00

  • PRP28, a 'DEAD-box' protein, is required for the first step of mRNA splicing in vitro.

    abstract::We previously reported the isolation of PRP28, a gene in Saccharomyces cerevisiae whose activity is required for the first step of nuclear mRNA splicing in vivo. Sequence analysis revealed that PRP28 is included in the 'DEAD-box' gene family, members of which are thought to function as ATP-dependent RNA helicases. Gen...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/22.15.3187

    authors: Strauss EJ,Guthrie C

    更新日期:1994-08-11 00:00:00

  • Perturbing cohesin dynamics drives MRE11 nuclease-dependent replication fork slowing.

    abstract::Pds5 is required for sister chromatid cohesion, and somewhat paradoxically, to remove cohesin from chromosomes. We found that Pds5 plays a critical role during DNA replication that is distinct from its previously known functions. Loss of Pds5 hinders replication fork progression in unperturbed human and mouse cells. I...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gky519

    authors: Carvajal-Maldonado D,Byrum AK,Jackson J,Wessel S,Lemaçon D,Guitton-Sert L,Quinet A,Tirman S,Graziano S,Masson JY,Cortez D,Gonzalo S,Mosammaparast N,Vindigni A

    更新日期:2019-02-20 00:00:00

  • CNIT: a fast and accurate web tool for identifying protein-coding and long non-coding transcripts based on intrinsic sequence composition.

    abstract::As more and more high-throughput data has been produced by next-generation sequencing, it is still a challenge to classify RNA transcripts into protein-coding or non-coding, especially for poorly annotated species. We upgraded our original coding potential calculator, CNCI (Coding-Non-Coding Index), to CNIT (Coding-No...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkz400

    authors: Guo JC,Fang SS,Wu Y,Zhang JH,Chen Y,Liu J,Wu B,Wu JR,Li EM,Xu LY,Sun L,Zhao Y

    更新日期:2019-07-02 00:00:00

  • Genetic manipulation of an exogenous non-immunoglobulin protein by gene conversion machinery in a chicken B cell line.

    abstract::During culture, a chicken B cell line DT40 spontaneously mutates immunoglobulin (Ig) genes by gene conversion, which involves activation-induced cytidine deaminase (AID)-dependent homologous recombination of the variable (V) region gene with upstream pseudo-V genes. To explore whether this mutation mechanism can targe...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gnj013

    authors: Kanayama N,Todo K,Takahashi S,Magari M,Ohmori H

    更新日期:2006-01-18 00:00:00

  • 3did: a catalog of domain-based interactions of known three-dimensional structure.

    abstract::The database of 3D interacting domains (3did, available online for browsing and bulk download at http://3did.irbbarcelona.org) is a catalog of protein-protein interactions for which a high-resolution 3D structure is known. 3did collects and classifies all structural templates of domain-domain interactions in the Prote...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkt887

    authors: Mosca R,Céol A,Stein A,Olivella R,Aloy P

    更新日期:2014-01-01 00:00:00

  • Chromatin methylation activity of Dnmt3a and Dnmt3a/3L is guided by interaction of the ADD domain with the histone H3 tail.

    abstract::Using peptide arrays and binding to native histone proteins, we show that the ADD domain of Dnmt3a specifically interacts with the H3 histone 1-19 tail. Binding is disrupted by di- and trimethylation of K4, phosphorylation of T3, S10 or T11 and acetylation of K4. We did not observe binding to the H4 1-19 tail. The ADD...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq147

    authors: Zhang Y,Jurkowska R,Soeroes S,Rajavelu A,Dhayalan A,Bock I,Rathert P,Brandt O,Reinhardt R,Fischle W,Jeltsch A

    更新日期:2010-07-01 00:00:00

  • PDB-REPRDB: a database of representative protein chains from the Protein Data Bank (PDB) in 2003.

    abstract::PDB-REPRDB is a database of representative protein chains from the Protein Data Bank (PDB). Started at the Real World Computing Partnership (RWCP) in August 1997, it developed to the present system of PDB-REPRDB. In April 2001, the system was moved to the Computational Biology Research Center (CBRC), National Institut...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkg022

    authors: Noguchi T,Akiyama Y

    更新日期:2003-01-01 00:00:00

  • REPPER--repeats and their periodicities in fibrous proteins.

    abstract::REPPER (REPeats and their PERiodicities) is an integrated server that detects and analyzes regions with short gapless repeats in protein sequences or alignments. It finds periodicities by Fourier Transform (FTwin) and internal similarity analysis (REPwin). FTwin assigns numerical values to amino acids that reflect cer...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gki405

    authors: Gruber M,Söding J,Lupas AN

    更新日期:2005-07-01 00:00:00

  • Light-activated RNA interference using double-stranded siRNA precursors modified using a remarkable regiospecificity of diazo-based photolabile groups.

    abstract::Diazo-based precursors of photolabile groups have been used extensively for modifying nucleic acids, with the intention of toggling biological processes with light. These processes include transcription, translation and RNA interference. In these cases, the photolabile groups have been typically depicted as modifying ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkp415

    authors: Shah S,Jain PK,Kala A,Karunakaran D,Friedman SH

    更新日期:2009-07-01 00:00:00

  • A flexible multiple sequence alignment program.

    abstract::The 'regions' method for multisequence alignment used in the previously reported program MALIGN has been generalized to include recursive refinement so that unaligned portions between two regions at the current level of resolution can be handled with increased resolution. Additionally, there is incorporated a limiting...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/16.5.1683

    authors: Martinez HM

    更新日期:1988-03-11 00:00:00

  • siRNAs from miRNA sites mediate DNA methylation of target genes.

    abstract::Arabidopsis microRNA (miRNA) genes (MIR) give rise to 20- to 22-nt miRNAs that are generated predominantly by the type III endoribonuclease Dicer-like 1 (DCL1) but do not require any RNA-dependent RNA Polymerases (RDRs) or RNA Polymerase IV (Pol IV). Here, we identify a novel class of non-conserved MIR genes that give...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq590

    authors: Chellappan P,Xia J,Zhou X,Gao S,Zhang X,Coutino G,Vazquez F,Zhang W,Jin H

    更新日期:2010-11-01 00:00:00

  • Synthesis and hybridization studies of oligonucleotides containing 1-(2-deoxy-2-alpha-C-hydroxymethyl-beta-D-ribofuranosyl)thymine (2'-alpha-hm-dT).

    abstract::We report the first investigation of oligoribonucleotides containing a few 1-(2-deoxy-2-alpha-C-hydroxymethyl-beta-D-ribofuranosyl)thymine units (or 2'-hm-dT, abbreviated in this work as 'H'). Both the 2'-CH2O-phosphoramidite and 3'-O-phosphoramidite derivatives of H were synthesized and incorporated into both 2',5'-R...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gki1003

    authors: Peng CG,Damha MJ

    更新日期:2005-12-23 00:00:00

  • Cloning and sequencing of a full length cDNA coding for human retinol-binding protein.

    abstract::We have isolated and sequenced a cDNA clone coding for human Retinol Binding Protein. The sequence indicates that Retinol Binding Protein is synthesized as a single polypeptide chain precursor which is then matured to the secreted protein by removal of a leader peptide. Southern and Northern blot analysis suggest that...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/11.22.7769

    authors: Colantuoni V,Romano V,Bensi G,Santoro C,Costanzo F,Raugei G,Cortese R

    更新日期:1983-11-25 00:00:00

  • Hemicatenanes form upon inhibition of DNA replication.

    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

    authors: Lucas I,Hyrien O

    更新日期:2000-05-15 00:00:00

  • mRNA transfection of a novel TAL effector nuclease (TALEN) facilitates efficient knockout of HIV co-receptor CCR5.

    abstract::Homozygosity for a natural deletion variant of the HIV-coreceptor molecule CCR5, CCR5Δ32, confers resistance toward HIV infection. Allogeneic stem cell transplantation from a CCR5Δ32-homozygous donor has resulted in the first cure from HIV ('Berlin patient'). Based thereon, genetic disruption of CCR5 using designer nu...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkv469

    authors: Mock U,Machowicz R,Hauber I,Horn S,Abramowski P,Berdien B,Hauber J,Fehse B

    更新日期:2015-06-23 00:00:00

  • Compilation of DNA sequences of Escherichia coli (update 1993).

    abstract::We have compiled the DNA sequence data for E. coli available from the GENBANK and EMBL data libraries and over a period of several years independently from the literature. This is the fifth listing replacing and increasing the former listings substantially. However, in order to save space this printed version contains...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/21.13.2973

    authors: Kröger M,Wahl R,Rice P

    更新日期:1993-07-01 00:00:00

  • Naturally occurring mutations in the human HNF4alpha gene impair the function of the transcription factor to a varying degree.

    abstract::The hepatocyte nuclear factor (HNF)4alpha, a member of the nuclear receptor superfamily, regulates genes that play a critical role in embryogenesis and metabolism. Recent studies have shown that mutations in the human HNF4alpha gene cause a rare form of type 2 diabetes, maturity onset diabetes of the young (MODY1). To...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/28.2.430

    authors: Lausen J,Thomas H,Lemm I,Bulman M,Borgschulze M,Lingott A,Hattersley AT,Ryffel GU

    更新日期:2000-01-15 00:00:00

  • SIRT1 is regulated by a PPAR{γ}-SIRT1 negative feedback loop associated with senescence.

    abstract::Human Silent Information Regulator Type 1 (SIRT1) is an NAD(+)-dependent deacetylase protein which is an intermediary of cellular metabolism in gene silencing and aging. SIRT1 has been extensively investigated and shown to delay senescence; however, less is known about the regulation of SIRT1 during aging. In this stu...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkq609

    authors: Han L,Zhou R,Niu J,McNutt MA,Wang P,Tong T

    更新日期:2010-11-01 00:00:00

  • The UCSC Genome Browser database: 2018 update.

    abstract::The UCSC Genome Browser (https://genome.ucsc.edu) provides a web interface for exploring annotated genome assemblies. The assemblies and annotation tracks are updated on an ongoing basis-12 assemblies and more than 28 tracks were added in the past year. Two recent additions are a display of CRISPR/Cas9 guide sequences...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkx1020

    authors: Casper J,Zweig AS,Villarreal C,Tyner C,Speir ML,Rosenbloom KR,Raney BJ,Lee CM,Lee BT,Karolchik D,Hinrichs AS,Haeussler M,Guruvadoo L,Navarro Gonzalez J,Gibson D,Fiddes IT,Eisenhart C,Diekhans M,Clawson H,Barber GP,

    更新日期:2018-01-04 00:00:00

  • Non-canonical translation initiation of the spliced mRNA encoding the human T-cell leukemia virus type 1 basic leucine zipper protein.

    abstract::Human T-cell leukemia virus type 1 (HTLV-1) is the etiological agent of adult T-cell leukemia (ATL). The HTLV-1 basic leucine zipper protein (HBZ) is expressed in all cases of ATL and is directly associated with virus pathogenicity. The two isoforms of the HBZ protein are synthesized from antisense messenger RNAs (mRN...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gky802

    authors: Cáceres CJ,Angulo J,Lowy F,Contreras N,Walters B,Olivares E,Allouche D,Merviel A,Pino K,Sargueil B,Thompson SR,López-Lastra M

    更新日期:2018-11-16 00:00:00

  • MAGNET: MicroArray Gene expression and Network Evaluation Toolkit.

    abstract::MicroArray Gene expression and Network Evaluation Toolkit (MAGNET) is a web-based application that provides tools to generate and score both protein-protein interaction networks and coexpression networks. MAGNET integrates user-provided experimental measurements with high-throughput proteomic datasets, generating weig...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gks526

    authors: Linderman GC,Chance MR,Bebek G

    更新日期:2012-07-01 00:00:00

  • Transcripts within the replication origin, oriC, of Escherichia coli.

    abstract::Transcription start and termination sites were mapped in the E. coli replication origin, oriC. Outward transcription from within oriC (promoters Pori-r and Pori-l) was found to start in vivo at position 178 for Pori-l and at positions 294 and 304 for Pori-r, respectively. These transcripts were terminated after 100-15...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/15.6.2479

    authors: Schauzu MA,Kücherer C,Kölling R,Messer W,Lother H

    更新日期:1987-03-25 00:00:00

  • DNA topology of the ordered chromatin domain 5' to the human c-myc gene.

    abstract::DNA restriction fragments located 5' to the human c-myc gene display anomalous electrophoretic mobility on polyacrylamide gels. Computer modeling of the c-myc flanking DNA suggests that the slow-moving DNA fragments spanning nucleotides -1690 to -1054 (relative to c-myc promoter P1) and -718 to -452 form large left ha...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/17.7.2819

    authors: Kumar S,Leffak M

    更新日期:1989-04-11 00:00:00

  • In silico characterization and prediction of global protein-mRNA interactions in yeast.

    abstract::Post-transcriptional gene regulation is mediated through complex networks of protein-RNA interactions. The targets of only a few RNA binding proteins (RBPs) are known, even in the well-characterized budding yeast. In silico prediction of protein-RNA interactions is therefore useful to guide experiments and to provide ...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkr160

    authors: Pancaldi V,Bähler J

    更新日期:2011-08-01 00:00:00

  • An adaptation of the LMS method to determine expression variations in profiling data.

    abstract::One of the major issues in expression profiling analysis still is to outline proper thresholds to determine differential expression, while avoiding false positives. The problem being that the variance is inversely proportional to the log of signal intensities. Aiming to solve this issue, we describe a model, expressio...

    journal_title:Nucleic acids research

    pub_type: 杂志文章

    doi:10.1093/nar/gkm093

    authors: Chuchana P,Marchand D,Nugoli M,Rodriguez C,Molinari N,Garcia-Sanz JA

    更新日期:2007-01-01 00:00:00