Genome-wide characterization of chromatin binding and nucleosome spacing activity of the nucleosome remodelling ATPase ISWI

Davide Corona, Giosue' Lo Bosco, Raffaele Giancarlo, Vito Di Gesu', Giosuã̈ Lo Bosco, Anna Sala, Luca Pinello, Maria Toto

Research output: Contribution to journalArticle

42 Citations (Scopus)

Abstract

The evolutionarily conserved ATP-dependent nucleosome remodelling factor ISWI can space nucleosomes affecting a variety of nuclear processes. In Drosophila, loss of ISWI leads to global transcriptional defects and to dramatic alterations in higher-order chromatin structure, especially on the male X chromosome. In order to understand if chromatin condensation and gene expression defects, observed in ISWI mutants, are directly correlated with ISWI nucleosome spacing activity, we conducted a genome-wide survey of ISWI binding and nucleosome positioning in wild-type and ISWI mutant chromatin. Our analysis revealed that ISWI binds both genic and intergenic regions. Remarkably, we found that ISWI binds genes near their promoters causing specific alterations in nucleosome positioning at the level of the Transcription Start Site, providing an important insights in understanding ISWI role in higher eukaryote transcriptional regulation. Interestingly, differences in nucleosome spacing, between wild-type and ISWI mutant chromatin, tend to accumulate on the X chromosome for all ISWI-bound genes analysed. Our study shows how in higher eukaryotes the activity of the evolutionarily conserved nucleosome remodelling factor ISWI regulates gene expression and chromosome organization genome-wide.
Original languageEnglish
Pages (from-to)1766-1777
Number of pages11
JournalEMBO Journal
Volume30
Publication statusPublished - 2011

Fingerprint

Nucleosomes
Chromatin
Adenosine Triphosphatases
Genes
Genome
Chromosomes
X Chromosome
Eukaryota
Gene expression
Gene Expression
Defects
Intergenic DNA
Transcription Initiation Site
Drosophila
Condensation
Adenosine Triphosphate

All Science Journal Classification (ASJC) codes

  • Neuroscience(all)
  • Molecular Biology
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)

Cite this

Genome-wide characterization of chromatin binding and nucleosome spacing activity of the nucleosome remodelling ATPase ISWI. / Corona, Davide; Lo Bosco, Giosue'; Giancarlo, Raffaele; Di Gesu', Vito; Lo Bosco, Giosuã̈; Sala, Anna; Pinello, Luca; Toto, Maria.

In: EMBO Journal, Vol. 30, 2011, p. 1766-1777.

Research output: Contribution to journalArticle

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AU - Corona, Davide

AU - Lo Bosco, Giosue'

AU - Giancarlo, Raffaele

AU - Di Gesu', Vito

AU - Lo Bosco, Giosuã̈

AU - Sala, Anna

AU - Pinello, Luca

AU - Toto, Maria

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AB - The evolutionarily conserved ATP-dependent nucleosome remodelling factor ISWI can space nucleosomes affecting a variety of nuclear processes. In Drosophila, loss of ISWI leads to global transcriptional defects and to dramatic alterations in higher-order chromatin structure, especially on the male X chromosome. In order to understand if chromatin condensation and gene expression defects, observed in ISWI mutants, are directly correlated with ISWI nucleosome spacing activity, we conducted a genome-wide survey of ISWI binding and nucleosome positioning in wild-type and ISWI mutant chromatin. Our analysis revealed that ISWI binds both genic and intergenic regions. Remarkably, we found that ISWI binds genes near their promoters causing specific alterations in nucleosome positioning at the level of the Transcription Start Site, providing an important insights in understanding ISWI role in higher eukaryote transcriptional regulation. Interestingly, differences in nucleosome spacing, between wild-type and ISWI mutant chromatin, tend to accumulate on the X chromosome for all ISWI-bound genes analysed. Our study shows how in higher eukaryotes the activity of the evolutionarily conserved nucleosome remodelling factor ISWI regulates gene expression and chromosome organization genome-wide.

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KW - ISWI

KW - chromatin remodelling

KW - nucleosome spacing

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