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Supplementary Material SUPPORTING INFORMATION Tracing the history and biogeography of the Australian blindsnake radiation Julie Marin, Stephen C. Donnellan, S. Blair Hedges, Paul Doughty, Mark N. Hutchinson, Corinne Cruaud and Nicolas Vidal Journal of Biogeography Appendix S2 Additional results (phylogenetic trees and estimated divergence times) This appendix comprises the maximum likelihood (ML) phylogram, the ML bootstrap majority-rule consensus tree (1000 replicates) and the Bayesian consensus tree (10,000,000 generations) obtained with our data set. Ingroup sampling included 107 individuals belonging to 28 Ramphotyphlops (R.) species (Appendix S1 in Supporting Information lists the taxa, localities, and accession numbers of the specimens used in the study). For outgroups, we used Epictia columbi (Leptotyphlopidae), Gerrhopilus mirus (Gerrhopilidae), Xenotyphlops grandidieri (Xenotyphlopidae), Typhlops reticulatus, T. arator, T. jamaicensis, T. vermicularis, Ramphotyphlops acuticaudus, R. braminus, an undescribed species of Ramphotyphlops from Moyo Island, Lesser Sundas (hereafter, ‘R. sp.’), and Acutotyphlops subocularis (all Typhlopidae), Anilius scytale and Tropidophis sp. (Alethinophidia: Amerophidia), Boa constrictor and Laticauda colubrina (Alethinophidia: Afrophidia), and the lizard Shinisaurus crocodilurus (Anguimorpha: Shinisauridae). This appendix also includes the Bayesian topology with the node numbers used for timing analysis and the time estimates obtained. R ligatus 1 R ligatus 2 R ligatus 3 R ganei 1 R ganei 2 R ligatus 4 R troglodytes R kimberleyensis 1 R kimberleyensis 2 R kimberleyensis 3 R kimberleyensis 4 R polygrammicus 1 R polygrammicus 2 R unguirostris 1 R unguirostris 2 R unguirostris 3 R unguirostris 4 R unguirostris 5 R wiedii 1 R wiedii 2 R howi R guentheri 6 R grypus 1 R affinis R nigrescens 1 R nigrescens 2 R nigrescens 3 R nigrescens 4 R nigrescens 5 R nigrescens 6 R nigrescens 7 R nigrescens 8 R nigrescens 9 R nigrescens 10 R bituberculatus 1 R bituberculatus 2 R bituberculatus 3 R bituberculatus 4 R bituberculatus 5 R diversus 5 R diversus 4 R diversus 2 R diversus 1 R diversus 3 R diversus 8 R diversus 6 R diversus 7 R diversus 9 R ammodytes 1 R ammodytes 2 R ammodytes 3 R ammodytes 4 R ammodytes 6 R ammodytes 5 R ammodytes 8 R ammodytes 7 R ammodytes 9 R guentheri 1 R guentheri 2 R guentheri 3 R guentheri 4 R guentheri 5 R leptosoma 1 R leptosoma 2 R leptosoma 3 R leptosoma 4 R leptosoma 5 R leptosoma 6 R grypus 2 R grypus 3 R grypus 4 R longissimus R leptosoma R grypus 5 R grypus 6 R grypus 7 R grypus 8 R grypus 9 R grypus 10 R grypus 11 R grypus 12 R proximus 1 R proximus 2 R silvia R hamatus 1 R hamatus 2 R hamatus 3 R hamatus 6 R hamatus 4 R hamatus 5 R hamatus 7 R endoterus 1 R endoterus 2 R endoterus 3 R endoterus 4 R pilbarensis 1 R pilbarensis 2 R waitii 1 R waitii 2 R centralis 1 R centralis 2 R australis 1 R australis 2 R pinguis 1 R pinguis 2 R bicolor 1 R bicolor 2 R. sp Acutotyphlops subocularis Ramphotyphlops braminus Ramphotyphlops acuticaudus Typhlops vermicularis Typhlops reticulatus Typhlops arator Typhlops jamaicensis Xenotyphlops grandidieri Gerrhopilus mirus Epictia columbi Anilius scytale Tropidophis sp. Laticauda colubrina Boa constrictor Shinisaurus crocodilurus 0.1 ML phylogram 83 R ligatus 1 100 R ligatus 2 99 R ligatus 3 100 R ganei 1 70 R ganei 2 89 R ligatus 4 85 R troglodytes 78 R kimberleyensis 1 99 100 R kimberleyensis 2 93 R kimberleyensis 3 R kimberleyensis 4 100 R polygrammicus 1 37 R polygrammicus 2 100 R unguirostris 1 53 R unguirostris 2 13 51 100 R unguirostris 3 R unguirostris 4 R unguirostris 5 12 100 R wiedii 1 R wiedii 2 100 R howi 20 R guentheri 6 44 R grypus 1 R affinis 96 R nigrescens 1 49 45 R nigrescens 2 89 81 R nigrescens 3 R nigrescens 4 R nigrescens 5 100 99 R nigrescens 6 30 R nigrescens 7 66 95 R nigrescens 8 40 R nigrescens 9 R nigrescens 10 93 89 R bituberculatus 1 96 R bituberculatus 2 100 R bituberculatus 3 R bituberculatus 4 R bituberculatus 5 27 88 R diversus 1 11 R diversus 2 21 53 R diversus 4 R diversus 5 47 R diversus 3 71 R diversus 6 99 45 R diversus 7 R diversus 8 R diversus 9 70 R ammodytes 1 100 54 83 R ammodytes 2 R ammodytes 3 72 R ammodytes 4 100 R ammodytes 5 100 R ammodytes 6 58 33 72 R ammodytes 7 R ammodytes 9 R ammodytes 8 99 R guentheri 1 99 75 100 R guentheri 2 100 R guentheri 3 R guentheri 4 R guentheri 5 99 85 R leptosoma 1 91 R leptosoma 2 88 R leptosoma 3 100 R leptosoma 4 R leptosoma 5 95 R leptosoma 6 81 R grypus 2 44 99 R grypus 3 32 R grypus 4 R longissimus R leptosoma 98 95 R grypus 5 54 R grypus 6 100 R grypus 7 95 R grypus 8 91 91 67 R grypus 9 76 R grypus 10 R grypus 11 93 R grypus 12 100 R proximus 1 R proximus 2 50 61 R hamatus 1 R hamatus 2 100 R hamatus 3 43 R hamatus 4 100 33 R hamatus 5 R hamatus 6 100 R hamatus 7 28 R endoterus 1 100 100 R endoterus 2 59 R endoterus 3 84 R endoterus 4 57 100 R pilbarensis 1 R pilbarensis 2 99 R waitii 1 98 100 R waitii 2 100 R centralis 1 R centralis 2 100 66 82 R australis 1 R australis 2 100 R pinguis 1 52 99 R pinguis 2 70 100 R bicolor 1 R bicolor 2 R silvia 100 R. sp Acutotyphlops subocularis 61 Ramphotyphlops braminus 100 Ramphotyphlops acuticaudus Typhlops vermicularis 100 91 82 Typhlops jamaicensis Typhlops arator 100 Typhlops reticulatus 82 Xenotyphlops grandidieri Gerrhopilus mirus Epictia columbi 79 Anilius scytale 100 Tropidophis sp. 91 Laticauda colubrina Boa constrictor Shinisaurus crocodilurus ML bootstrap majority-rule consensus tree (1000 replicates) 78 R ligatus 1 100 R ligatus 2 100 R ligatus 3 100 50 R ganei 1 R ganei 2 99 R ligatus 4 100 R troglodytes 100 R kimberleyensis 1 100 100 R kimberleyensis 2 100 R kimberleyensis 3 R kimberleyensis 4 100 R polygrammicus 1 79 R polygrammicus 2 100 72 R unguirostris 1 52 R unguirostris 2 100 R unguirostris 3 63 R unguirostris 4 R unguirostris 5 100 R howi 76 R guentheri 6 42 68 R grypus 1 R affinis 100 R wiedii 1 R wiedii 2 93 100 R nigrescens 1 51 R nigrescens 2 98 100 R nigrescens 3 R nigrescens 4 100 R nigrescens 5 100 R nigrescens 6 46 R nigrescens 7 100 66 R nigrescens 8 81 R nigrescens 9 R nigrescens 10 100 100 R bituberculatus 1 100 R bituberculatus 2 100 R bituberculatus 3 R bituberculatus 4 R bituberculatus 5 100 48 R diversus 1 22 R diversus 2 72 R diversus 3 84 R diversus 4 69 R diversus 5 99 100 R diversus 6 67 R diversus 7 R diversus 8 R diversus 9 88 R ammodytes 1 100 90 100 R ammodytes 2 R ammodytes 3 100 R ammodytes 4 100 R ammodytes 5 100 R ammodytes 6 94 35 R ammodytes 7 99 R ammodytes 8 R ammodytes 9 99 100 R guentheri 1 100 100 R guentheri 2 100 R guentheri 3 R guentheri 4 R guentheri 5 100 R leptosoma 1 99 100 R leptosoma 2 100 R leptosoma 3 100 R leptosoma 4 R leptosoma 5 100 R leptosoma 6 92 R grypus 2 75 100 R grypus 3 50 R grypus 4 R longissimus R leptosoma 100 100 R grypus 5 50 R grypus 6 100 R grypus 7 100 R grypus 8 100 100 98 R grypus 9 97 R grypus 10 R grypus 11 100 R grypus 12 100 R proximus 1 R proximus 2 67 88 R hamatus 1 R hamatus 2 100 R hamatus 3 59 42 R hamatus 4 100 R hamatus 5 R hamatus 6 100 R hamatus 7 66 R endoterus 1 100 100 R endoterus 2 98 R endoterus 3 94 R endoterus 4 50 100 R pilbarensis 1 R pilbarensis 2 100 R waitii 1 100 100 R waitii 2 100 R centralis 1 R centralis 2 93 99 100 R australis 1 R australis 2 47 R pinguis 1 100 R pinguis 2 90 100 R bicolor 1 R bicolor 2 R silvia 100 R. sp Acutotyphlops subocularis 78 Ramphotyphlops acuticaudus 100 Ramphotyphlops braminus Typhlops vermicularis 100 100 Typhlops jamaicensis 95 Typhlops arator 100 Typhlops reticulatus 95 Xenotyphlops grandidieri Gerrhopilus mirus Epictia columbi 100 Laticauda colubrina 100 Boa constrictor 76 Anilius scytale Tropidophis sp. Shinisaurus crocodilurus Bayesian consensus tree (10,000,000 generations) 221 R ligatus 1 222 R ligatus 2 225 R ligatus 3 223 R ganei 1 224 R ganei 2 226 R ligatus 4 218 R troglodytes 219 R kimberleyensis 1 227 220 R kimberleyensis 2 217 R kimberleyensis 3 R kimberleyensis 4 216 R polygrammicus 1 228 R polygrammicus 2 212 213 R unguirostris 1 214 R unguirostris 2 229 215 R unguirostris 3 R unguirostris 4 R unguirostris 5 209 R wiedii 1 211 R wiedii 2 210 R grypus 1 R affinis 199 R nigrescens 1 230 201 R nigrescens 2 202 200 R nigrescens 3 R nigrescens 4 R nigrescens 5 207 203 R nigrescens 6 205 R nigrescens 7 206 204 R nigrescens 8 R nigrescens 9 208 R nigrescens 10 195 R bituberculatus 1 196 197 R bituberculatus 2 198 R bituberculatus 3 R bituberculatus 4 R bituberculatus 5 180 R diversus 1 181 231 R diversus 2 182 R diversus 3 179 R diversus 4 183 R diversus 5 177 R diversus 6 184 178 R diversus 7 R diversus 8 R diversus 9 188 R ammodytes 1 193 189 190 R ammodytes 2 R ammodytes 3 191 R ammodytes 4 187 R ammodytes 5 192 R ammodytes 6 185 186 R ammodytes 7 194 R ammodytes 8 R ammodytes 9 171 R guentheri 1 172 173 R guentheri 2 232 174 R guentheri 3 176 R guentheri 4 R guentheri 5 175 R howi R guentheri 6 161 R leptosoma 1 162 R leptosoma 2 163 164 R leptosoma 3 165 R leptosoma 4 R leptosoma 5 166 R leptosoma 6 159 R grypus 2 167 160 R grypus 3 168 R grypus 4 R longissimus R leptosoma 169 152 R grypus 5 154 R grypus 6 153 R grypus 7 158 R grypus 8 170 155 R grypus 9 156 R grypus 10 157 R grypus 11 233 R grypus 12 151 R proximus 1 R proximus 2 139 140 R hamatus 1 R hamatus 2 143 R hamatus 3 141 R hamatus 4 144 142 R hamatus 5 R hamatus 6 145 R hamatus 7 136 R endoterus 1 138 146 R endoterus 2 137 R endoterus 3 234 R endoterus 4 147 135 R pilbarensis 1 R pilbarensis 2 132 R waitii 1 148 134 R waitii 2 133 R centralis 1 R centralis 2 235 149 131 R australis 1 R australis 2 128 R pinguis 1 150 130 R pinguis 2 129 R bicolor 1 236 R bicolor 2 R silvia 237 R.
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