Author ORCID Identifier
Document Type
Article
Publication Date
2012
Publication Title
Evolutionary Bioinformatics
Volume
2012
Issue
8
First Page
423
Last Page
435
Abstract
Molecular phylogeny is a fundamental tool to understanding the evolution of all life forms. One common issue faced by molecular phylogeny is the lack of sufficient molecular markers. Here, we present PhyloMarker, a phylogenomic tool designed to find nuclear gene markers for the inference of phylogeny through multiple genome comparison. Around 800 candidate markers were identified by PhyloMarker through comparison of partial genomes of Microcebus and Otolemur. In experimental tests of 20 randomly selected markers, nine markers were successfully amplified by PCR and directly sequenced in all 17 nominal Microcebus species. Phylogenetic analyses of the sequence data obtained for 17 taxa and nine markers confirmed the distinct lineage inferred from previous mtDNA data. PhyloMarker has also been used by other projects including the herons (Ardeidae, Aves) phylogeny and the Wood mice (Muridae, Mammalia) phylogeny. All source code and sample data are made available at http://bioinfo-srv1.awh.unomaha.edu/phylomarker/.
Recommended Citation
Lei, Runhua; Rowley, Thaine W.; Zhu, Lifeng; Bailey, Carolyn A.; Engberg, Shannon E.; Wood, Mindy L.; Christman, Mary C.; Perry, George H.; Louis, Edward E. Jr.; and Lu, Guoqing, "PhyloMarker—A Tool for Mining Phylogenetic Markers Through Genome Comparison: Application of the Mouse Lemur (Genus Microcebus) Phylogeny" (2012). Biology Faculty Publications. 160.
https://digitalcommons.unomaha.edu/biofacpub/160
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This work is licensed under a Creative Commons Attribution-Noncommercial 4.0 License
Comments
© the author(s), publisher and licensee Libertas Academica Ltd.
https://doi.org/10.4137/EBO.S9886