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- Title
xenoGI 3: using the DTLOR model to reconstruct the evolution of gene families in clades of microbes.
- Authors
Liu, Nuo; Gonzalez, Tonatiuh A.; Fischer, Jacob; Hong, Chan; Johnson, Michelle; Mawhorter, Ross; Mugnatto, Fabrizia; Soh, Rachael; Somji, Shifa; Wirth, Joseph S.; Libeskind-Hadas, Ran; Bush, Eliot C.
- 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.
- Subjects
GENE families; SOFTWARE maintenance; INTEGRATED software; MICROORGANISMS
- Publication
BMC Bioinformatics, 2023, Vol 24, Issue 1, p1
- ISSN
1471-2105
- Publication type
Article
- DOI
10.1186/s12859-023-05410-0