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Protein interaction maps for complete genomes based on gene fusion events

Protein interaction maps for complete genomes based on gene fusion events A large-scale effort to measure, detect and analyse protein–protein interactions using experimental methods is under way 1,2 . These include biochemistry such as co-immunoprecipitation or crosslinking, molecular biology such as the two-hybrid system or phage display, and genetics such as unlinked noncomplementing mutant detection 3 . Using the two-hybrid system 4 , an international effort to analyse the complete yeast genome is in progress 5 . Evidently, all these approaches are tedious, labour intensive and inaccurate 6 . From a computational perspective, the question is how can we predict that two proteins interact from structure or sequence alone. Here we present a method that identifies gene-fusion events in complete genomes, solely based on sequence comparison. Because there must be selective pressure for certain genes to be fused over the course of evolution, we are able to predict functional associations of proteins. We show that 215 genes or proteins in the complete genomes of Escherichia coli, Haemophilus influenzae and Methanococcus jannaschii are involved in 64 unique fusion events. The approach is general, and can be applied even to genes of unknown function. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Nature Springer Journals

Protein interaction maps for complete genomes based on gene fusion events

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References (29)

Publisher
Springer Journals
Copyright
Copyright © 1999 by Macmillan Magazines Ltd.
Subject
Science, Humanities and Social Sciences, multidisciplinary; Science, Humanities and Social Sciences, multidisciplinary; Science, multidisciplinary
ISSN
0028-0836
eISSN
1476-4687
DOI
10.1038/47056
Publisher site
See Article on Publisher Site

Abstract

A large-scale effort to measure, detect and analyse protein–protein interactions using experimental methods is under way 1,2 . These include biochemistry such as co-immunoprecipitation or crosslinking, molecular biology such as the two-hybrid system or phage display, and genetics such as unlinked noncomplementing mutant detection 3 . Using the two-hybrid system 4 , an international effort to analyse the complete yeast genome is in progress 5 . Evidently, all these approaches are tedious, labour intensive and inaccurate 6 . From a computational perspective, the question is how can we predict that two proteins interact from structure or sequence alone. Here we present a method that identifies gene-fusion events in complete genomes, solely based on sequence comparison. Because there must be selective pressure for certain genes to be fused over the course of evolution, we are able to predict functional associations of proteins. We show that 215 genes or proteins in the complete genomes of Escherichia coli, Haemophilus influenzae and Methanococcus jannaschii are involved in 64 unique fusion events. The approach is general, and can be applied even to genes of unknown function.

Journal

Nature – Springer Journals

Published: Nov 4, 1999

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