Molecular Biology and Evolution, Vol 12, 980-987, Copyright © 1995 by Society for Molecular Biology and Evolution
B Labedan and M Riley
Sequences of 1,862 chromosomally encoded Escherichia coli K12 proteins were
examined to identify genes likely to have arisen by duplication of genes in
an ancestral chromosome. The criteria for sequence relatedness were an
alignment of at least 100 amino acid residues and a PAM distance (number of
accepted point mutations per 100 residues separating two sequences) below
250. A total of 971 of the 1,862 proteins examined were found in 2,329
sequence-related pairs that met these criteria. Most proteins of the
sequence-related pairs were related in cellular function, as judged by
biochemical and/or physiological features. Many of the pairs of proteins
could be grouped into sequence-related families. If such groupings were
generated from ancestral genes by duplication and divergence events,
through these sequence comparisons we can identify putative ancestral
sequences of the present-day genes of E. coli and other organisms. The
results suggest that the 971 paralogous genes could have been derived from
only 204 ancestral genes. We have also shown that the process of
duplication and divergence is not the exclusive mechanism of evolution of
all E. coli genes. Indeed, the relationships among the sequences of
multiple (in the sense of redundant) enzymes indicate that nearly half
could have arisen either by convergent evolution or by lateral transfer.
Therefore, not all functionally related genes need arise by duplication and
divergence.
ORIGINAL ARTICLE
Gene products of Escherichia coli: sequence comparisons and common ancestries
Institut de Genetique et Microbiologie, Universite de Paris-Sud.
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