dc.contributor.author | FARES, MARIO ALI | |
dc.date.accessioned | 2013-09-02T11:36:06Z | |
dc.date.available | 2013-09-02T11:36:06Z | |
dc.date.issued | 2012 | |
dc.date.submitted | 2012 | en |
dc.identifier.citation | Alvarez-Ponce, D., Fares, M.A., Evolutionary rate and duplicability in the Arabidopsis thaliana protein-protein interaction network, Genome Biology and Evolution, 4, 12, 2012, 1263-1274 | en |
dc.identifier.other | Y | |
dc.identifier.uri | http://hdl.handle.net/2262/67296 | |
dc.description | PUBLISHED | en |
dc.description.abstract | Genes show a bewildering variation in their patterns of molecular ev
olution, as a result of the action of different levels and types of
selective forces. The factors underlying this variation are, however, s
till poorly understood. In the last decade, the position of proteins in
the protein?protein interaction network has been put forward as a determinant factor of the evolutionary rate and duplicability of
their encoding genes. This conclusion, however, has been based on the analysis of the limited number of microbes and animals for
which interactome-level data are available (essentially,
Escherichia coli
, yeast, worm, fly, and humans). Here, we study, for the first
time, the relationship between the position of pro
teins in the high-density interactome of a plant (
Arabidopsis thaliana
)andthe
patterns of molecular evolution of their encoding genes. We found that genes whose encoded products act at the center of the
network are more evolutionarily constrained than those acting a
t the network periphery. This trend remains significant when
potential confounding factors (gene expression level and breadth, duplicability, function, and length of the encoded products) are
controlled for. Even though the correlation between centrality measures and rates of evolution is generally weak, for some functional
categories, it is comparable in strength to (or even stronger than) the correlation between evolutionary rates and expression levels or
breadths. In addition, genes encoding interacting proteins i
n the network evolve at relatively similar rates. Finally,
Arabidopsis
proteins
encoded by duplicated genes are more highly connected than those encoded by singleton genes. This observation is in agreement
with the patterns observed in humans, but in contrast with those observed in
E. coli
, yeast, worm, and fly (whose duplicated genes
tend to act at the periphery of the network), implying that the rela
tionship between duplicability and centrality inverted at least twice
during eukaryote evolution. Taken together, these results indicate that the structure of the
A. thaliana
network constrains the
evolution of its components at multiple levels | en |
dc.description.sponsorship | This study was supported by a grant from the Spanish
Ministerio de Ciencia e Innovacio
?
n (BFU2009-12022) and a
grant from the Research Frontiers Program (10/RFP/
GEN2685) from Science Foundation Ireland to MAF. D.A.-P.
was supported by a Juan de la Cierva postdoctoral fellowship
from the Spanish Ministerio de Econom?
?
a y Competitividad
(JCI-2011-11089). We are grateful to two anonymous ref-
erees for their helpful comments | en |
dc.format.extent | 1263-1274 | en |
dc.language.iso | en | en |
dc.relation.ispartofseries | Genome Biology and Evolution; | |
dc.relation.ispartofseries | 4; | |
dc.relation.ispartofseries | 12; | |
dc.rights | Y | en |
dc.subject | network evolution, Arabidopsis interactome, natural selection, rates of evolution, gene duplication, network centrality | en |
dc.subject.lcsh | network evolution, Arabidopsis interactome, natural selection, rates of evolution, gene duplication, network centrality | en |
dc.title | Evolutionary rate and duplicability in the Arabidopsis thaliana protein-protein interaction network | en |
dc.type | Journal Article | en |
dc.type.supercollection | scholarly_publications | en |
dc.type.supercollection | refereed_publications | en |
dc.identifier.peoplefinderurl | http://people.tcd.ie/faresm | |
dc.identifier.rssinternalid | 86521 | |