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Title: Role of Fft3 in nuclear organization [DamID-chip, ChIP-chip]      
dateReleased:
03-02-2015
description:
In eukaryotic cells, local chromatin structure and chromatin organization in the nucleus both influence transcriptional regulation. At the local level, the Fun30 chromatin remodeler Fft3 is essential for maintaining proper chromatin structure at centromeres and subtelomeres in fission yeast. Using genome-wide mapping and live cell imaging, we show that this role is linked to controlling nuclear organization of its targets. In fft3Δ cells, subtelomeres lose their association with the LEM domain protein Man1 at the nuclear periphery and move to the interior of the nucleus. Furthermore, genes in these domains are upregulated and active chromatin marks increase. Fft3 is also enriched at retrotransposon-derived long terminal repeat (LTR) elements at the borders of subtelomeres and at tRNA genes. In cells lacking Fft3, these sites lose their peripheral positioning and show reduced nucleosome occupancy. We propose that Fft3 has a global role in mediating association between specific chromatin domains and components of the nuclear envelope by maintaining chromatin structure required for anchoring DNA insulators to nuclear pores. For DamID samples, we recorded methylation levels for Dam fusion proteins and compared them to Dam-only control samples. For ChIP samples, we compared immuno-precipitated DNA to mock or input controls.
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-47464
refinement:
raw
alternateIdentifiers:
47464
keywords:
functional genomics
dateModified:
03-07-2015
availability:
available
types:
gene expression
name:
Schizosaccharomyces pombe
ID:
A-GEOD-7715
name:
[Sp20b_M] Affymetrix S. pombe Tiling 1.0FR Array
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-47464/E-GEOD-47464.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-47464/E-GEOD-47464.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE47464
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress

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