For instance, using TSP as an example and assuming that the common genes detected [c.sub.3], [c.sub.4], and [c.sub.5] form a segment of the path, then these genes--and the information associated with them such as the segment of the path they form as well as the length and direction of the segment--can be compressed, that is, represented by a single composite gene
, say, [c'.sub.3].
PCR products of 500 bp to 590 bp were amplified for each isolate, sequenced in both directions, and manually joined to form an artificial composite gene
. These were compared by multiple sequence alignment and clustal analysis.
The set of nucleotide substitutions at gyrA, polC, and rpoB was used to construct a separate gene phylogeny for each segment and a composite gene
phylogeny based on all three segments, using Swofford's PAUP 3.1 (1993) parsimony analysis.