Results: 5

1.
Figure 1

Figure 1. Performance of the Codon Assignment Method. From: Parallel Evolution of the Genetic Code in Arthropod Mitochondrial Genomes.

The number of assignments concordant (diamonds) and non-concordant (squares) with GenBank annotations, as well as the number of codons left unpredicted (because there were no observations for them; triangles) at different thresholds of entropy are shown.

Federico Abascal, et al. PLoS Biol. 2006 May;4(5):e127.
2.
Figure 2

Figure 2. Codon-Usage and Strength of Prediction. From: Parallel Evolution of the Genetic Code in Arthropod Mitochondrial Genomes.

The number of codons used for each codon assignment and the frequency of the predicted amino acid are shown. Blue diamonds indicate assignments that are concordant with GenBank annotations; pink crosses, discordant assignments; and yellow triangles, discordant assignments where AGG is assigned to lysine.

Federico Abascal, et al. PLoS Biol. 2006 May;4(5):e127.
3.
Figure 5

Figure 5. The Molecules of tRNA-Lys and -Ser in Arthropods Having Either the AAMGC or the IMGC. From: Parallel Evolution of the Genetic Code in Arthropod Mitochondrial Genomes.

The tRNA-Lys and -Ser anticodons in species decoding AGG as Lys or Ser, as well as the predicted translation of AGN and AAR mRNA-codons, are shown. Note that anticodons are depicted in 3′ to 5′ sense, i.e. UUC in tRNA-Lys corresponds to the anticodon CUU in standard notation.

Federico Abascal, et al. PLoS Biol. 2006 May;4(5):e127.
4.
Figure 3

Figure 3. Usage of the TCN and AGN Codons in the 24 Arthropod Mitochondrial Genomes Predicted to Translate AGG as Lys. From: Parallel Evolution of the Genetic Code in Arthropod Mitochondrial Genomes.

The overall usage of the TCN/AGN codons (A), and their particular usage at protein sites where Ser (B) or Lys (C) are conserved across more than 80% of the 626 analyzed metazoan mtDNAs are shown. N=A, C, G, or T; H=A, C, or T.

Federico Abascal, et al. PLoS Biol. 2006 May;4(5):e127.
5.
Figure 4

Figure 4. Evolution of the Mitochondrial Genetic Code in Arthropods. From: Parallel Evolution of the Genetic Code in Arthropod Mitochondrial Genomes.

This figure merges two independent most-parsimonious ancestral character state reconstructions: the presence (transparent) or absence (light grey) of the AGG codon, and the predicted translation of AGG as Lys (purple) or Ser (yellow). Species in which AGG was not predicted and species in which we determined that the assignment was unreliable (nodes without a rectangle) were treated as ambiguous states. The number of AGG codons, and the anticodons of tRNA-Lys and tRNA-Ser are indicated next to the species name.

Federico Abascal, et al. PLoS Biol. 2006 May;4(5):e127.

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