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PMID: 9600883 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't Review

Measuring genome evolution.

Proceedings of the National Academy of Sciences of the United States of America ·Vol. 95 ·No. 11 ·1998-05-26 ·Pages 5849-56

Huynen MA, Bork P

Abstract

The determination of complete genome sequences provides us with an opportunity to describe and analyze evolution at the comprehensive level of genomes. Here we compare nine genomes with respect to their protein coding genes at two levels: (i) we compare genomes as "bags of genes" and measure the fraction of orthologs shared between genomes and (ii) we quantify correlations between genes with respect to their relative positions in genomes. Distances between the genomes are related to their divergence times, measured as the number of amino acid substitutions per site in a set of 34 orthologous genes that are shared among all the genomes compared. We establish a hierarchy of rates at which genomes have changed during evolution. Protein sequence identity is the most conserved, followed by the complement of genes within the genome. Next is the degree of conservation of the order of genes, whereas gene regulation appears to evolve at the highest rate. Finally, we show that some genomes are more highly organized than others: they show a higher degree of the clustering of genes that have orthologs in other genomes.

MeSH Terms
Animals Computer Simulation Evolution, Molecular Genome Humans Models, Genetic Sequence Analysis
Authors & Affiliations
2 authors, click to expand affiliations / ORCID
Huynen M A
European Molecular Biology Laboratory, Meyerhofstrasse 1, 69012 Heidelberg, Germany, and Max-Delbrück-Centrum for Molecular Medicine, 13122 Berlin-Buch, Germany. huynen@embl-heidelberg.de
Bork P
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Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
DOI
10.1073/pnas.95.11.5849
Email
huynen@embl-heidelberg.de
Published
1998-05-26
Pages
5849-56
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC34486
Subset
IM
External Links
PubMed source DOI: 10.1073/pnas.95.11.5849 PMC Full Text View journal details
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