INVESTIGADORES
BELLORA Nicolas
artículos
Título:
Positional bias of general and tissue-specific regulatory motifs in mouse gene promoters
Autor/es:
NICOLAS BELLORA; DOMENEC FARRE; M MAR ALBA
Revista:
BMC GENOMICS
Editorial:
BIOMED CENTRAL LTD
Referencias:
Lugar: Bethesda MD; Año: 2007 vol. 8 p. 1 - 13
ISSN:
1471-2164
Resumen:
Background
The
arrangement of regulatory motifs in gene promoters, or promoter
architecture, is the result of mutation and selection processes that
have operated over many millions of years. In mammals, tissue-specific
transcriptional regulation is related to the presence of specific
protein-interacting DNA motifs in gene promoters. However, little is
known about the relative location and spacing of these motifs. To fill
this gap, we have performed a systematic search for motifs that show
significant bias at specific promoter locations in a large collection
of housekeeping and tissue-specific genes.
Results
We
observe that promoters driving housekeeping gene expression are
enriched in particular motifs with strong positional bias, such as YY1,
which are of little relevance in promoters driving tissue-specific
expression. We also identify a large number of motifs that show
positional bias in genes expressed in a highly tissue-specific manner.
They include well-known tissue-specific motifs, such as HNF1 and HNF4
motifs in liver, kidney and small intestine, or RFX motifs in testis,
as well as many potentially novel regulatory motifs. Based on this
analysis, we provide predictions for 559 tissue-specific motifs in
mouse gene promoters.
Conclusion
The
study shows that motif positional bias is an important feature of
mammalian proximal promoters and that it affects both general and
tissue-specific motifs. Motif positional constraints define very
distinct promoter architectures depending on breadth of expression and
type of tissue.