Transcriptional co-expression and co-regulation of genes coding for components of the oxidative phosphorylation system

BMC Genomics
Corina van Waveren, Carlos T Moraes

Abstract

The mitochondrial oxidative phosphorylation (OXPHOS) is critical for energy (ATP) production in eukaryotic cells. It was previously shown that genes coding for mitochondrial proteins involved in energy production co-express at the RNA level. Because the OXPHOS enzymes are multimeric complexes, we tested the hypothesis that genes coding for components of specific complexes are also co-regulated at the transcriptional level, and share common regulatory elements in their promoters. We observed for the first time that, not only OXPHOS genes as a group co-express, but there is a co-expression of genes within each of the five OXPHOS enzyme complexes, showing a higher degree of complexity in gene co-regulation. In silico analysis of homologous promoter sequences in mammals identified the likely core promoter elements for most genes encoding OXPHOS subunits/assembly factors. The results included a significant abundance of previously identified sites (e.g. NRF1, NRF2, ERRA and YY1), as well as several sites that had not been previously detected. Although we identified patterns that correlated to OXPHOS gene expression, we did not detect an OXPHOS complex-specific arrangement of transcription factor binding sites within the core promoter...Continue Reading

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Citations

Jun 4, 2011·PloS One·Tung T NguyenIoannis P Androulakis
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Methods Mentioned

BETA
phylogenetic footprinting
chips
immunoprecipitation
footprinting

Software Mentioned

MitoProteome
DiAlignTF
BLAT
UCSC Genome Browser
Genomatix
Genespring
MitoRES
Genomatix Genome Browser
Genomatix Matrix Family Library

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