Abstract
Phylogenomics is a field in which genome analysis and evolutionary
reconstructions are integrated. This integration is important because
genome data is of great value in evolutionary reconstructions, because
evolutionary analysis is critical for understanding and interpreting
genomic data, and because there are feedback loops between evolutionary
and genome analysis such that they need to be done in an integrated
manner. In this paper I describe how I developed my particular
phylogenomic approach under the guidance of my Ph.D advisor Philip C.
Hanawalt. Since I was the first to use the term phylogenomics in a
publication, I have decided to rename the field (at least temporarily)
Philogenomics.