Research article summary (published 29 Sep 2002):

Design and structural analysis of hairpin-TFO for transcriptional activation of genes in S. cerevisiae.

Full Abstract

Triplex forming oligonucleotides (TFOs) have the potential to modulate gene expression. While most of the experiments are directed towards triplex mediated inhibition of gene expression the strategy potentially could be used for gene specific activation. In an attempt to design a strategy for gene specific activation in vivo applicable to a large number of genes we have designed a TFO based activator-target system which may be utilized in Saccharomyces cerevisiae or any other system where Gal4 protein is ectopically expressed. The total genome sequence of Saccharomyces cerevisiae and expression profiles were used to select the target genes with upstream poly (pu/py) sequences. We have utilized the paradigm of Gal4 protein and its binding site. We describe here the selection of target genes and design of hairpin-TFO including the targeting sequences containing polypurine stretch found in the upstream promoter regions of weakly expressed genes. We demonstrate, the formation of hairpin-TFO, its binding to Gal4 protein, its ability to form triplex with the target duplex in vitro, the effect of polyethylenimine on complex formation and discuss the implication on in vivo transcription activation.

Author information

Author/s: Ghosh, Mrinal Kanti (MK); Katyal, Anju (A); Brahmachari, Vani (V); Chandra, Ramesh (R);

Affiliation: Dr. B. R. Ambedkar Center for Biomedical Research, University of Delhi, Delhi-110007, India.

Journal and publication information

Publication Type: Journal Article

Journal: Journal of biomolecular structure & dynamics (J Biomol Struct Dyn), published in United States. (Language: eng)

Reference: 2002-Oct; vol 20 (issue 2) : pp 265-73

Dates: Created 2002/09/30; Completed 2003/05/02; Revised 2008/11/21;

PMID: 12354078, status: MEDLINE (last retrieved date: 2/18/2009)

Sourced from the National Library of Medicine. Abstract text and other information may be subject to copyright.

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MeSH headings (categories)

This article was linked to the MeSH Headings (categories) shown below.

Base Sequence Binding Sites Chromosomes, Fungal - genetics Circular Dichroism DNA, Fungal - metabolism DNA-Binding Proteins - metabolism Gene Expression Regulation - drug effects Genes, Fungal Models, Biological Nucleic Acid Heteroduplexes

Oligonucleotides - chemical synthesis; metabolism Polyethyleneimine - pharmacology Promoter Regions, Genetic Protein Binding Saccharomyces cerevisiae - genetics Saccharomyces cerevisiae Proteins - metabolism Temperature Transcription Factors - metabolism Transcription, Genetic Transcriptional Activation

Note: Bold headings indicate primary MeSH headings or qualifiers.

Associated Chemicals: DNA, Fungal (0) ; DNA-Binding Proteins (0) ; GAL4 protein, S cerevisiae (0) ; Nucleic Acid Heteroduplexes (0) ; Oligonucleotides (0) ; Saccharomyces cerevisiae Proteins (0) ; Transcription Factors (0) ; Polyethyleneimine (9002-98-6)

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