Figure 1
Gene organizations of mitogenomes for (A) many vertebrates including Tropiocolotes steudneri , Lepidodactylus lugubris, and Phelsuma guimbeaui (the typical vertebrate gene arrangement), (B) Tropiocolotes tripolitanus , (C) Stenodactylus petrii , (D) Uroplatus fimbriatus , and (E) Uroplatus ebenaui . Circular mitogenomes are represented linearly as bars and genes encoded by the H-strand and L-strand are shown, respectively, above and below the bar. Genes with an asterisk are probable pseudogenes. Several genes relevant to our discussions on gene rearrangements are highlighted with colors. For gene names, ND1-6 and 4L represent NADH dehydrogenase subunits 1-6 and 4L. CO1-3 stand for cytochrome oxidase subunit 1-3. cytb, A6 and A8 represent cytochrome b, ATPase subunit 6 and 8, respectively. 12S and 16S stand for 12S rRNA and 16S rRNA, respectively. Transfer RNA genes are depicted with the corresponding single-letter amino acid and, in T. tripolitanus, two glutamine tRNA genes are discriminated by Q1 and Q2. L1 and L2 represent tRNALeu(UUR) and tRNALeu(CUN) genes, respectively, and S1 and S2 represent tRNASer(UCN) and tRNASer(AGY) genes, respectively. OL represents the putative L-strand replication origin. IGS stands for an intergenic sequence in the ND6/cytb gene boundary (see text). The position and orientation of several PCR primers (see Additional file 1: Table S1 for their sequences) that were used to amplify and sequence the rearrangement-related regions are also shown.