NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE33073 Query DataSets for GSE33073
Status Public on Jan 17, 2013
Title The Saccharomyces cerevisiae genome is highly connected by inter- and intra- chromosomal interactions
Organism Saccharomyces cerevisiae
Experiment type Other
Summary Nuclear and mitochondrial organelles must maintain a communication system. Loci on the mitochondrial genome were recently reported to interact with nuclear loci. To determine whether this is part of a DNA based communication system we used genome conformation capture to map the global network of DNA-DNA interactions between the mitochondrial and nuclear genomes (Mito-nDNA) in Saccharomyces cerevisiae cells grown under three different metabolic conditions. The interactions that form between mitochondrial and nuclear loci are dependent on the metabolic state of the yeast. Moreover, the frequency of specific mitochondrial - nuclear interactions (i.e. COX1-MSY1 and Q0182-RSM7) showed significant reductions in the absence of mitochondrial encoded reverse transcriptase machinery. Furthermore, these reductions correlated with increases in the transcript levels of the nuclear loci (MSY1 and RSM7). We propose that these interactions represent an inter-organelle DNA mediated communication system and that reverse transcription of mitochondrial RNA plays a role in this process.
 
Overall design Genome Conformation Capture (GCC) has been performed on exponentially growing Saccharomyces cerevisiae cultures in glucose containing media. Paired end sequencing on an Illumina Genome Analyser was performed before the sequences were analysed by the propieatry software Topography 1.19. Inter- and intra- chromosomal interactions were mapped onto the S. cerevisiae S288 genome scaffold.
 
Contributor(s) Rodley CD, O'Sullivan JM
Citation(s) 22292080
Submission date Oct 19, 2011
Last update date May 15, 2019
Contact name Justin M. O'Sullivan
E-mail(s) justin.osullivan@auckland.ac.nz
Organization name University of Auckland
Department Liggins Institute
Street address 85 Park Road, Grafton
City Auckland
ZIP/Postal code 1023
Country New Zealand
 
Platforms (1)
GPL9134 Illumina Genome Analyzer (Saccharomyces cerevisiae)
Samples (1)
GSM819137 Saccharomyces_cerevisiae_Glucose_GCC_Reps1and2
This SubSeries is part of SuperSeries:
GSE34132 Mitochondrial-nuclear DNA interactions contribute to the regulation of nuclear transcript levels as part of the inter-organelle communication system
Relations
SRA SRP009582
BioProject PRJNA156573

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE33073_RAW.tar 131.2 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap