Inconsistent Phylogenetic Trees from Nucleotide or Amino Acid Sequences from Mammalian Mitochondrial Genomes.

Citation: Loh, BJK, Kannan, KSS, Patil, T, Vij, R, Ling, MHT. 2022. Inconsistent Phylogenetic Trees from Nucleotide or Amino Acid Sequences from Mammalian Mitochondrial Genomes. EC Clinical and Medical Case Reports 5(7): 03-09.

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Phylogenetic trees using orthologs are commonly used to analyze such evolutionary histories of organisms. A recent study suggests that phylogenetic analysis from single orthologous genes or multiple single orthologous genes are not likely to reflect actual evolutionary history and core genome is required. However, it is not clear whether this finding can be extrapolated to orthologous peptide sequences. In this study, we compare the generated phylogenetic trees constructed using nucleotide and peptide sequences from mitochondrial genomes of fourteen mammals. Our results confirmed that different orthologous nucleotide sequences may result in different phylogenetic trees with 20.5% of pairwise comparisons being significantly different (p-value < 0.05). This result is extrapolatable to orthologous peptide sequences with 33.3% of the pairwise comparisons being significantly different. In addition, the phylogenetic tree constructed using core genome is significantly different (paired t-test p-value = 5.52E-7) from the phylogenetic tree constructed using core proteome.