Molecular Biology and Evolution, Vol 16, 1125-1134, Copyright © 1999 by Society for Molecular Biology and Evolution
S Garcia-Vallve, J Palau and A Romeu
Glycosyl hydrolase (GH) genes from Escherichia coli and Bacillus subtilis
were used to search for cases of horizontal gene transfer. Such an event
was inferred by G + C content, codon usage analysis, and a phylogenetic
congruency test. The codon usage analysis used is a procedure based on a
distance derived from a Pearson linear correlation coefficient determined
from a pairwise codon usage comparison. The distances are then used to
generate a distance-based tree with which we can define clusters and
rapidly compare codon usage. Three genes (yagH from E. coli and xynA and
xynB from B. subtilis) were determined to have arrived by horizontal gene
transfer and were located in E. coli CP4-6 prophage, and B. subtilis
prophages 6 and 5, respectively. In this study, we demonstrate that with
codon usage analysis, the proposed horizontally transferred genes can be
distinguished from highly expressed genes.
ORIGINAL ARTICLE
Horizontal gene transfer in glycosyl hydrolases inferred from codon usage in Escherichia coli and Bacillus subtilis
Department of Biochemistry and Biotechnology, Rovira i Virgili University, Catalonia, Spain.
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