1 Supplementary File S2 for 2 3 4 A taxonomic reassessment of Piramys auffenbergi, a neglected turtle 5 from the late Miocene of Piram Island, Gujarat, India 6 7 Gabriel S. Ferreira, Saswati Bandyopadhyay, Walter G. Joyce 8 correspondece to: Walter G. Joyce, [email protected], [email protected] 9 10 11 12 13 14 This PDF file includes additional information of the phylogenetic analyses 15 1. List of changes to Ferreira et al. (2018)’s matrix 16 2. Strict consensus tree with node numbers 17 3. Bootstrap, Jacknife & Bremer support information 18 4. List of common synapomorphies for Stereogenyina 19 20 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 21 1. Changes to Ferreira et al. (2018)’s matrix 22 Char. 5: PF, preorbital skull broad 23 Scoring: Lemurchelys diasphax – 1 > 0 24 Stereogenys cromeri – 1 > 0 25 Shweboemys pilgrimi – 1 > 0 26 Brontochelys gaffneyi – 1 > 0 27 28 Char. 9: FR, interorbital groove 29 Scoring: Mogharemys blackenhorni – 0 > ? 30 Brontochelys gaffneyi – 0 > ? 31 32 Char. 12: FR, prefrontal/frontal 33 Scoring: Bairdemys sanchezi – 1 > 0 34 35 Char. 14: Anteroventral emargination 36 Scoring: Cordichelys antiqua – 1 > 0 37 38 Char. 15: QJ, quadratojugal 39 Scoring: Stereogenys cromeri – ? > 1 40 41 Char. 19: PA, dorsal portion in relation to adductor fossa 42 Scoring: Stereogenys cromeri – 0 > ? 43 44 Char. 23: PA, PA-JU contact 45 Scoring: Shweboemys pilgrimi – 0 > ? 46 47 Char. 25: PA, parietal contacts pterygoid at base of processus trochlearis pterygoidei 48 Scoring: Mogharemys blackenhorni – 0 > 1 49 Brontochelys gaffneyi – 0 > 1 50 Lemurchelys diasphax – 0 > 1 51 Stereogenys cromeri – 0 > 1 1 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 52 Cordichelys antiqua – 0 > 1 53 Latentemys plowdeni – 0 > 1 54 Bairdemys thalassica – 0 > 1 55 Bairdemys sanchezi – 0 > 1 56 Bairdemys hartsteini – 0 > ? 57 Bairdemys venezuelensis – 0 > ? 58 Shweboemys pilgrimi – 0 > ? 59 60 Char. 26: PA, PA-PT contact in septum orbitotemporale 61 Scoring: Caninemys tridentata – 2 > 0 62 63 Char. 27: PA, interparietal scale 64 Scoring: Bairdemys sanchezi – 1 > ? 65 66 Char. 29: PA, interparietal scale meeting medially 67 Scoring: Bairdemys winklerae – 1 > ? 68 69 Char. 41: PM, pinched snout 70 Scoring: Cordichelys antiqua – 0 > 1 71 Bairdemys hartsteini – 0 > 1 72 73 Char. 43: PM, protrudes cranially in lateral view beyond apertura narium interna dorsal ridge 74 Statement: this character refers to the premaxilla protruding beyond the dorsal ridge (in lateral 75 view) of the apertura narium externa, not interna as originally stated. 76 Scoring: Shweboemys plilgrimi – ? > 1 77 78 Char. 57: MX, triturating surface shape 79 Scoring: Brontochelys gaffneyi – 1 > 2 80 Shweboemys pilgrimi – 1 > 2 81 Stereogenys cromeri – 1 > 2 82 Cordichelys antiqua – 1 > 2 2 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 83 Latentemys plowdeni – 1 > 2 84 Bairdemys venezuelensis – 1 > 2 85 Bairdemys hartsteini – 1 > 2 86 Bairdemys sanchezi – 1 > 2 87 Bairdemys winklerea – 1 > 2 88 89 Char. 114: EX-QU contact 90 Scoring: Cordichelys antiqua – 1 > 0 91 Latentemys plowdeni – 1 > 0 92 Bairdemys thalassica – 1 > 0 93 Bairdemys venezuelensis – 1 > 0 94 Bairdemys hartsteini – 1 > 0 95 Bairdemys sanchezi – 1 > 0 96 Bairdemys winklerae – 1 > 0 97 98 New character: 246. PM, median notch in upper jaw: 0, notch absent, mx and pm ventral ridge 99 runs anteroventrally, forming an anterior hook (Peltocephalus dumerilianus); 1, notch absent or 100 very shallow, mx and pm ventral ridge runs anteriorly to the midline (Euraxemys essweini); 2, 101 notch present, mx and pm ventral ridge runs anterodorsally to the midline (Podocnemis unifilis) 102 103 104 105 3 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 106 2. Strict consensus tree with node numbers Strict consensus of 270 trees (0 taxa excluded) 0 Proganochelys_quenstedti 2 Notoemys_laticentralis 103 1 Platychelys_oberndorferi 7 Emydura_macquarii 8 Myuchelys_latisternum 102 115 113 6 Elseya_dentata 112 5 Pseudemydura_umbrina 9 Acanthochelys_radiolata 116 Platemys_platycephala 104 111 10 117 13 Mesoclemmys_nasuta 119 Phrynops_geoffroanus 118 12 110 11 Phrynops_hilarii 16 Chelus_fimbriatus 120 15 Chelus_colombianus 109 14 Chelodina_colliei Hydromedusa_maximilliani 114 108 121 18 17 Hydromedusa_tectifera 107 4 Prochelidella_cerrobarcinae 106 3 Bonapartemys_bajobarrealis 105 20 Yaminuechelys_gasparinii 122 19 Yaminuechelys_maior Dirqadim_schaefferi 129 27 26 Euraxemys_essweini 128 Laganemys_tenerensis 127 25 24 Araripemys_barretoi 23 Pelomedusa_subrufa 126 124 22 Pelusios_castanoides 123 21 Pelusios_castaneus 28 Sokatra_antitra 125 29 Atolchelys_lepida 34 Sankuchemys_sethnai 33 Kurmademys_kallamedensis 35 Kinkonychelys_rogersi 130 135 30 Cearachelys_placidoi 132 32 Galianemys_whitei 137 134 31 Galianemys_emringeri 58 Nigeremys_gigantea 158 57 Arenila_krebsi 131 155 51 Acleistochelys_maliensis 133 154 52 Azabbaremys_moragjonesi 153 53 Labrostochelys_galkini 56 Rhothonemys_brinkmani 152 157 55 Ummulisani_rutgersensis 156 151 54 Phosphatochelys_tedfordi 140 50 Taphrosphys_congolensis 150 Taphrosphys_ippolitoi 149 49 136 48 Taphrosphys_sulcatus 38 Polysternon_provinciale 138 37 Foxemys_trabanti 36 Foxemys_mechinorum 139 41 Rosasia_soutoi 143 40 Zolhafah_bella 142 39 Araiochelys_hirayamen 47 Chedighaii_barberi 141 148 46 Chedighaii_hutchisoni 146 45 Bothremys_kellyi 147 44 Bothremys_arabicus 145 Bothremys_cooki 144 43 42 Bothremys_maghrebiana 59 Brasilemys_josai 159 60 Hamadachelys_escuilliei 160 61 Portezueloemys_patagonica 63 Cambaremys_langertoni 161 62 Bauruemys_elegans 163 64 Peiropemys_mezzalirai 164 66 Pricemys_caiera 166 162 65 Lapparentemys_vilavilensis 75 Caninemys_tridentata 168 67 Cerrejonemys_wayuunaiki 167 71 Podocnemis_erythrocephala 165 171 68 Podocnemis_vogli 170 72 Podocnemis_expansa 70 Podocnemis_unifilis 172 69 Podocnemis_lewyana Podocnemis_bassleri 169 173 74 73 Podocnemis_sextuberculata 79 Carbonemys_cofrinii 78 UCMP_42008 174 77 Dacquemys_paleomorpha 76 Stupendemys_geographicus 87 Papoulemys_laurenti 175 86 Neochelys_franzeni 85 Neochelys_arenarum 84 Neochelys_fajumensis 177 81 Kenyemys_williamsi Erymnochelys_madagascariensis 178 83 82 Turkanemys_pattersoni 80 Peltocephalus_dumerilianus 176 88 Mogharemys_blackenhorni 179 93 Cordichelys_antiqua 184 94 Latentemys_plowdeni 96 Bairdemys_healeyorum 183 89 Brontochelys_gaffneyi 182 180 90 Lemurchelys_diasphax 185 101 Piramys_auffenbergi 186 92 Stereogenys_cromeri 181 91 Shweboemys_pilgrimi 100 Bairdemys_winklerae 99 Bairdemys_sanchezi 188 98 Bairdemys_hartsteini Bairdemys_venezuelensis 187 97 107 95 Bairdemys_thalassica 108 Figure S2-1. Strict consensus tree from 270 most parsimonious tress with 1134 steps 109 4 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 110 3. Bootstrap, Jacknife & Bremer support information GC values, 1000 replicates, cut=1 (tree 1) - Standard Bootstrap Proganochelys_quenstedti Notoemys_laticentralis 41 Platychelys_oberndorferi Pseudemydura_umbrina 5 Emydura_macquarii 39 Myuchelys_latisternum 62 Elseya_dentata Acanthochelys_radiolata 21 39 Platemys_platycephala 100 21 Mesoclemmys_nasuta 59 Phrynops_geoffroanus 81 15 Phrynops_hilarii Prochelidella_cerrobarcinae Chelus_fimbriatus 85 Chelus_colombianus 2 Chelodina_colliei 73 Hydromedusa_maximilliani 11 99 Hydromedusa_tectifera Bonapartemys_bajobarrealis 19 Yaminuechelys_gasparinii 58 Yaminuechelys_maior Pelomedusa_subrufa 93 Pelusios_castanoides 46 Pelusios_castaneus Laganemys_tenerensis 27 95 Araripemys_barretoi Sokatra_antitra Dirqadim_schaefferi 66 1 Euraxemys_essweini Atolchelys_lepida Sankuchemys_sethnai 15 Kurmademys_kallamedensis 4 Kinkonychelys_rogersi 11 Cearachelys_placidoi 57 Galianemys_whitei 57 Galianemys_emringeri 5 Nigeremys_gigantea 79 Arenila_krebsi 31 30 Azabbaremys_moragjonesi 13 4 Acleistochelys_maliensis 27 Labrostochelys_galkini Rhothonemys_brinkmani 45 55 Ummulisani_rutgersensis 57 21 Phosphatochelys_tedfordi Taphrosphys_congolensis 13 22 Taphrosphys_ippolitoi 23 Taphrosphys_sulcatus 4 Polysternon_provinciale 57 Foxemys_trabanti 3 13 Foxemys_mechinorum Rosasia_soutoi 22 Zolhafah_bella 11 Araiochelys_hirayamen Chedighaii_barberi 38 43 Chedighaii_hutchisoni 54 Bothremys_kellyi 32 Bothremys_arabicus 23 Bothremys_cooki 40 Bothremys_maghrebiana Brasilemys_josai Hamadachelys_escuilliei 5 Cambaremys_langertoni Bauruemys_elegans 7 8 Portezueloemys_patagonica Peiropemys_mezzalirai 6 18 Pricemys_caiera 23 Lapparentemys_vilavilensis Caninemys_tridentata 14 Cerrejonemys_wayuunaiki 25 41 Podocnemis_erythrocephala Podocnemis_vogli 29 Podocnemis_unifilis 8 Podocnemis_lewyana Podocnemis_expansa 18 9 Podocnemis_bassleri 47 Podocnemis_sextuberculata Stupendemys_geographicus Peltocephalus_dumerilianus Carbonemys_cofrinii 2 UCMP_42008 6 27 Dacquemys_paleomorpha Neochelys_franzeni Neochelys_arenarum 3 Neochelys_fajumensis 1 Papoulemys_laurenti 3 13 Kenyemys_williamsi Erymnochelys_madagascariensis 23 Turkanemys_pattersoni Mogharemys_blackenhorni Bairdemys_healeyorum Latentemys_plowdeni 36 Cordichelys_antiqua Brontochelys_gaffneyi Lemurchelys_diasphax 52 3 Piramys_auffenbergi 20 Stereogenys_cromeri 7 Shweboemys_pilgrimi Bairdemys_winklerae 15 Bairdemys_hartsteini Bairdemys_sanchezi 3 Bairdemys_venezuelensis 111 45 Bairdemys_thalassica 112 Figure S2-2. GC Bootstrap value of 1000 replicates (cut = 1) 113 5 Taxonomic reassessment of Piramys auffenbergi: Supplementary File S2 Group freqs., 1000 replicates, cut=50 (tree 0) - Standard Bootstrap Proganochelys_quenstedti Notoemys_laticentralis