Addressing Inter-Gene Heterogeneity in Maximum Likelihood Phylogenomic Analysis: Yeasts Revisited
Author Information
Author(s): Jaqueline Hess, Nick Goldman, Magnus Rattray
Primary Institution: Harvard University
Hypothesis
Can appropriate evolutionary models address inter-gene heterogeneities in phylogenomic analysis of yeasts?
Conclusion
The study successfully reconstructed a well-supported species tree for 18 ascomycetous yeasts, demonstrating the importance of using sophisticated models to account for inter-gene heterogeneity.
Supporting Evidence
- The study analyzed 343 genes to reconstruct the phylogeny of 18 yeast species.
- Using partitioned models improved the likelihood of the phylogenetic trees compared to concatenated models.
- The results support the monophyly of pre-WGD species and suggest C. glabrata is at the base of the WGD clade.
Takeaway
This study looked at how different genes in yeasts can behave differently over time, and found a way to make better trees showing how these yeasts are related.
Methodology
The study used maximum likelihood analyses on nucleotide and amino acid sequences from 343 genes across 18 yeast species, employing both concatenated and partitioned models to account for inter-gene heterogeneity.
Potential Biases
Potential biases may arise from the selection of genes and species included in the analysis.
Limitations
The study may not account for all sources of error in phylogenetic reconstruction, such as compositional bias and mutational saturation.
Participant Demographics
The study focused on 18 species of ascomycetous yeasts.
Statistical Information
P-Value
p<0.05
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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