Table 1.
List of the 44 Psittaciformes species used for comparative analysis in this study with their GenBank accession numbers.
Fig 1.
Circular map of the Psittacula cyanocephala mitochondrial genome.
Various genes are represented with different colour blocks. Gene transcription direction is indicated by arrows. Colour codes and legends are displayed at the upper right side of the figure. Black sliding window indicated the GC content of all the regions and GC skew through green and violet colour sliding windows. The figure was drawn by CGView Online server (http://stothard.afns.ualberta.ca/cgview_server/) and edited in PaintDotnet tool.
Table 2.
Summary of Psittacula cyanocephala mitogenome.
Table 3.
Nucleotide composition and skew values for Psittacula cyanocephala mitogenome.
Table 4.
Comparative nucleotide composition and skew values for five Psittacula species compared in this study.
Fig 2.
(A) Position-specific nucleotide usage in P. cyanocephala mitogenome. (B) Roseplot based on codon usage of P. cyanocephala mitogenome. (C) Roseplot based on amino acid usage of P. cyanocephala mitogenome. (D) RSCU analysis of P. cyanocephala mitogenome. X-axis represents the codon families with different colour patches. Cumulative codon fraction is plotted on Y-axis. (E) ENC vs GC3 plot revealed the analyzed mitogenomes are translationally efficient and natural selection was playing a crucial role on their evolution.
Fig 3.
Heatmaps based on (A) codon usage and (B) amino acid usage of all the 45 species compared in this study.
Fig 4.
Putative secondary structures of the 22 tRNA genes of P. cyanocephala.
Fig 5.
ML tree based on the phylogenetic relationships of 45 Psittaciformes species determined using concatenated nucleotide sequences of 13 mitochondrial PCGs.
The tree was constructed in IQ-TREE employing TVM+F+G4 nucleotide substitution model, bootstrapped for 10000 replicates. P. Cyanocephala mitogenome is highlighted with red asterisk mark.