Table 1.
Avian species for which rearranged mitochondrial genomes and gene order have been reported in the literature; genomes sequenced for this study are also included. Gene orders are named following the suggestions of Gibb et al. (2007), and letters indicate the panel in Figure 1 that illustrates the gene arrangement.
| Gene order | Fig. 1 | Species | Reference |
|---|---|---|---|
| Duplicate tRNAThr-CR | B | Thalassarche albatrosses | Abbott et al. 2005 |
| Black-browed albatross (Diomedea melanophris) | Slack et al. 2006 and Gibb et al. 2007 | ||
| Black-faced spoonbill (Platalea minor) | Cho et al. 2009 | ||
| Chinese egret (Egretta eulophotes) | Zhou et al. 2014 | ||
| Eastern reef heron (Egretta sacra) | Zhou et al. 2014 | ||
| Little egret (Egretta garzetta) | Zhou et al. 2014 | ||
| Striated heron (Butorides striatus) | Zhou et al. 2014 | ||
| Chinese pond heron (Ardeola bacchus) | Zhou et al. 2014 | ||
| Black-crowned night heron (Nycticorax nycticorax) | Zhou et al. 2014 | ||
| Eurasian bittern (Botaurus stellaris) | Zhou et al. 2014 | ||
| Yellow bittern (Ixobrychus sinensis) | Zhou et al. 2014 | ||
| Schrenck’s bittern (Ixobrychus eurythmus) | Zhou et al. 2014 | ||
| Black bittern (Ixobrychus flavicollis) | Zhou et al. 2014 | ||
| Brown booby (Sula leucogaster) | Morris-Pocock et al. 2010 | ||
| Red-footed booby (Sula sula) | Morris-Pocock et al. 2010 | ||
| Blue-footed booby (Sula nebouxii) | Morris-Pocock et al. 2010 | ||
| Duplicate tRNAPro-CR | C | Ruffs (Philomachus pugnax) | Verkuil et al. 2010 |
| Duplicate CR I | D | Eastern great egret (Ardea modesta) | Zhou et al. 2014 |
| Intermediate egret (Ardea intermedia) | Zhou et al. 2014 | ||
| Cattle egret (Ardea ibis) | Zhou et al. 2014 | ||
| Osprey (Pandion haliaetus) | Gibb et al. 2007 | ||
| Ivory-billed aracari (Pteroglossus azara) | Gibb et al. 2007 | ||
| Amazona parrots | Eberhard et al. 2001 | ||
| Green-rumped parrotlet (Forpus passerinus) | This study | ||
| African grey parrot (Psittacus erithacus) | This study | ||
| Budgerigar (Melopsittacus undulatus) | Guan et al. unpub. (NC 009134) | ||
| Tachycineta swallows | Cerasale et al. 2012 | ||
| Gray-breasted martin (Progne chalybea) | Cerasale et al. 2012 | ||
| Reed warbler (Acrocephalus scirpaeus) | Singh et al. 2008 | ||
| Blackcap (Sylvia atricapilla) | Singh et al. 2008 | ||
| Duplicate CR II | E | Green racquet-tailed parrot (Prioniturus luconensis) | This study |
| Duplicate tRNAGlu-CR | F | Grey heron (Ardea cinerea) | Zhou et al. 2014 |
| Purple heron (Ardea purpurea) | Zhou et al. 2014 | ||
| Duplicate tRNAThr-tRNAPro and CR | G | Cinnamon bittern (Ixobrychus cinnamomeus) | Zhou et al. 2014 |
| Remnant CR2 | H | Bearded vulture (Gypaetus barbatus) | Roques et al. 2004 |
| Egyptian vulture (Neophron percnopterus) | Roques et al. 2004 | ||
| Bonelli’s eagle (Hieraaetus fasciatus) | Cadahía et al. 2009 | ||
| Common buzzard (Buteo buteo) | Haring et al. 2001 | ||
| Peregrine falcon (Falco peregrinus) | Mindell et al. 1998 | ||
| Forest falcon (Falco gilvicollis) | Gibb et al. 2007 | ||
| American kestrel (Falco sparverius) | Gibb et al. 2007 | ||
| Pileated woodpecker (Dryocopus pileatus) | Gibb et al. 2007 | ||
| Fuscous flycatcher (Cnemotriccus fuscatus) | Slack et al. 2007 | ||
| Superb lyrebird (Menura novaehollandiae) | Slack et al. 2007 | ||
| Petroica robins (P. phoenicea, P. boodang, P. goodenovii) | Cooke et al. 2012 | ||
| Phylloscopus warblers | Bensch and Härlid 2000 | ||
| Eastern orphean warbler (Sylvia crassirostris) | Singh et al. 2008 | ||