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Updated: Jul 22, 2025

Using Phylogenetic Analysis to Investigate Eukaryotic Gene Origin
Published on: August 14, 2018
xenoGI 3: using the DTLOR model to reconstruct the evolution of gene families in clades of microbes
Nuo Liu1, Tonatiuh A Gonzalez1, Jacob Fischer2
1Department of Biology, Harvey Mudd College, Claremont, CA, USA.
Abstract:
To understand genome evolution in a group of microbes, we need to know the timing of events such as duplications, deletions and horizontal transfers. A common approach is to perform a gene-tree / species-tree reconciliation. While a number of software packages perform this type of analysis, none are geared toward a complete reconstruction for all families in an entire clade. Here we describe an update to the xenoGI software package which allows users to perform such an analysis using the newly developed DTLOR (duplication-transfer-loss-origin-rearrangement) reconciliation model starting from genome sequences as input.
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