#NEXUS [!This data set was downloaded from TreeBASE, a relational database of phylogenetic knowledge. TreeBASE has been supported by the NSF, Harvard University, Yale University, SDSC and UC Davis. Please do not remove this acknowledgment from the Nexus file. Generated on May 14, 2024; 12:53 GMT TreeBASE (cc) 1994-2008 Study reference: Chang D., & Duda T.F. 2014. Application of community phylogenetic approaches to understand gene expression: Differential exploration of venom gene space in predatory marine gastropods. BMC Evolutionary Biology, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S15827] [ The following blocks are input data for analysis step 13801 ] BEGIN TAXA; TITLE TaxaForAnalysisStep13801; DIMENSIONS NTAX=30; TAXLABELS Conus_diadema_1 Conus_diadema_10 Conus_diadema_3 Conus_lividus_10 Conus_lividus_11 Conus_lividus_2 Conus_lividus_24 Conus_lividus_25 Conus_lividus_26 Conus_lividus_27 Conus_lividus_29 Conus_lividus_3 Conus_lividus_32 Conus_lividus_41 Conus_lividus_42 Conus_lividus_45 Conus_lividus_46 Conus_lividus_47 Conus_lividus_48 Conus_lividus_51 Conus_lividus_9 Conus_quercinus_1 Conus_quercinus_6 Conus_quercinus_7 Conus_quercinus_8 Conus_sanguinolentus_1 Conus_sanguinolentus_2 Conus_sanguinolentus_3 Conus_sanguinolentus_4 Conus_sanguinolentus_8 ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M22395] TITLE 'Additional File 2: Alignment of expressed alleles'; LINK TAXA = TaxaForAnalysisStep13801; DIMENSIONS NCHAR=117; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 ] [ . . . . . . . . . . . ] Conus_diadema_1 CTGCAGCCGACTACAAACGGTCTGACTGGTTCGCTTGGGTCATC---CATAGTTGCTGCAGCAATCCACCCTGTGCCCATGTAAAT---------TGTCGTCGAAGACGCTGATGCT Conus_diadema_10 CCGCAGCCAACAACAAAGCGACTGACCTGATGGCTCTGCGTTAC---CATGAATGCTGTAAACATCCTCCCTGTAGAAACACTCGCCCAGACTTGTGTGGCGGAAGACGCTGATGCT Conus_diadema_3 CCGCAGCCAAAGTCAAATATTCTCTGACGCCGGCG---------------GAATGCTGTCCCAATCCTCCCTGTTTCGCGCAACATTCGGATCTTTGTGGCGCAAGACGTTGATGCT Conus_lividus_10 CCGCAGCCAACGCCAAATTGTCTGAGCGGTTGGAT---------------CCATGCTGTAGGGAGCCTCCCTGTGCCTCGACACATATTGATCGTTGTGGCTGAAGACGTTGATGCT Conus_lividus_11 CCGCAGCCAACGCCAAATTGTCTGAGCGGTTGGAT---------------CCATGCTGTAGGGACCCTCCCTGTGCCTCGACTCATATTGATCGTTGTGGCTGAAGACGTTGATGCT Conus_lividus_2 CTGCAGCCAAAGTCAAATATTCTAAGACGCCGGAG---------------GAATGCTGTCCCAATCCTCCCTGTTTCGCGACAAATTCGGATATTTGTGGCGGAAGACGCTGATGCT Conus_lividus_24 CTGCAGCCAGCGACAAAGCGTCTGAGCTGATGGCTCTGGCCGTCAGG---GGATGCTGTTCCAATCTTGCCTGTGCTGGGAATAATCTACATATCTGTGGCAGAAGACGCTGATGCT Conus_lividus_25 CTGCAGCCAGCGACAAAGCGTCTGAGCTGATGGCTCTGGCCGTCAGG---GGATGCTGTTCCAATCTTGCCTGTGCTGGGAATAATCTACATATTTGTGGCAGAAGACGCTGATGCT Conus_lividus_26 CTGCAGCCAGCGACAAAGCGTCTGAGCTGATGGCTCTGGCCGTCAGG---GGATGCTGTTCCAATCCTGCCTGTGCTGGGAGTAATGCACATATCTGTGGCAGAAGACGCTGATGCT Conus_lividus_27 CTGCAGCCAGCGACAAAGCGTCTGAGCTGATGGCTCTGGCCGTCAGG---GGATGCTGTTCCCATCCTGCCTGTGCTGGGAGTAATGCACATATCTGTGGCAGAAGACGCTGATGCT Conus_lividus_29 CCGCAGCCAAATTCAAAGCGCCTGCCCTGATGAAGCGGACCGACAGCGAAGAATGCTGTTTAGACTCTCGCTGTGCCGGGCAACATCAAGACCTGTGTAGCTGAAGACGCTGATGCT Conus_lividus_3 CTGCAGCCAAAGTCAAATATTCTAATACGCGGGAG---------------GAATGCTGTCCCAATCCTCCCTGTTTCGCGACACATTCGGAAATTTGTGGCGGAAGACGCTGATGCT Conus_lividus_32 CCGCAGCCAACGACAAAGCATCTGTCCAGATCGCTCTGACAGTG---CAGGAGTGCTGTGCCGATTCTGCCTGTAGCCTGACGAATCCACTCATTTGTGGA---AGACGCTGATGCT Conus_lividus_41 CCGCAGCCAACGCCAAATTGTTTGAC---------------GTCAGGCAATCATGCTGTTCTACTCCTCCCTGTGCCCTCCTCTATATGGAGATGTGTGGCTGAAGACGCTGATGCT Conus_lividus_42 CCGCAGCCAACGCCAAATTGTTTGCC---------------GTCAGGCAATCATGCTGTTCTACTCCTCCCTGTGCCCTCCTCTATATGGAGATGTGTGGCTGAAGACGCTGATGCT Conus_lividus_45 CCGCAGCCAACGACAAAACGTCTGCCTGGACCACTCGGACCGTCAGGCAGTCATGCTGTGCTACTCCTTCCTGTGCCAGGCTTTATGAGAAGGTGTATGGCAGAAGATACTGATGCT Conus_lividus_46 CCGCAGCCAACGACAAAACGTCTGCCTGGACCACTCGGACCGTCAGGCAGTCATGCTGTGCTACTCCTTCCTGTGCCAAGCTTTATAAGAAGCTGTATGGCACAAGACACTGATGCT Conus_lividus_47 CCGCAGCCAACGACAAAACGTCTGCCTGGATCGCTTGGGCCGGCAGCCAGTCATGCTGTGCTACTCCTTCCTGTGCCAGGCTTTATAAGAAGCTGTATGGCACAAGACACTGATGCT Conus_lividus_48 CCGCAGCCAACGACAAAACGTCTGCCTGGATCGCTTGGGCCGGCAGCCAGTCATGCTGTGCTACTCCTTCCTGTGCCAAGCTTTATAAGAAGCTGTATGGCACAAGACACTGATGCT Conus_lividus_51 CCGCAGCCAACGACAAAGCGTCTGCCTGGATCGCTCGGACCGTCAGGCAGTCATGCTGTGCTGCTCCTTCCTGTTTCATGCTTTGTTAGAAGGTGTATGGCGGAAGACACTGATGCT Conus_lividus_9 CCGCACCCAACGTCAAAGATTCTAAGGCGTCGGGT---------------TCATGCTGTGACAATCCTTCCTGTGCCGTGAATAATCGCCAT---TGTGGCAGAAGACGTTGATGCT Conus_quercinus_1 CTGCAGCCGACGACAAACCGTCTGACTGGATCGCTCTGGCCATCAAG---CAATGCTGCGCCAATCCACCCTGTAAACATGTAAAT---------TGTCGTTGAAGACACTGATGCT Conus_quercinus_6 CTGCAGCCAAATTCAAAGCGCCTGCCCTGATGGAGCTGTCCGTCAGGCAAGGATGCTGTTCATATCCTGCCTGTGCCGTGAGCAATCCAGACATCTGTGGCGGAGGACGCTGATGCT Conus_quercinus_7 CCGCAGCCAACGACAAAGCGTCTGACCTGATGGCTCTT------AGGGGAGGATGCTGTTCCAGACCTCCCTGTATCCTGAAGCATCCAGAGATTTGTGGCAGAAGACGCTGATGCT Conus_quercinus_8 CCGCAGCCAACGACAAAGCGTCTGACCTGATGGCTCTT------AGGGGAGGATGCTGTTCCAGACCTCCCTGTATCCTGGAGCATCCAGAGATTTGTGGCAGAAGACGCTGATGCT Conus_sanguinolentus_1 CTGCAGCCAAAGTCAAATATTCTAAGACGCCGGAG---------------GAATGCTGTCCCAATCCTCCCTGTTTCGCGACAAATTCGGATATTTGTGGCGGAAGACGCTGATGCT Conus_sanguinolentus_2 CTGCAGCCAAAGTCAAATATTCTAATACGCCGGAG---------------GAATGCTGTCCCAATCCTCCCTGTTTCGCGACACATTCGGAAATTTGTGGCGTTAGACGCTGATGCT Conus_sanguinolentus_3 CCGCAGCCAACGCCAAATTGTCTGAGCGGTTGGAT---------------CCATGCTGTAGGGAGCCTCCCTGTGCCTCGACACATATTGATCGTTGTGGCTGAAGACGTTGATGCT Conus_sanguinolentus_4 CCGCAGCCAACGCCAAATTGTCTGAGCGGTTGGAT---------------CCATGCTGTAGGGAGCCTCCCTGTGCCTCGACACATACTGATATTTGTACCAGAAGGCGTTGATGCT Conus_sanguinolentus_8 CCGCAGCCAACAACAAAGCGACTGACCTGATGGCTCTGCGTTAC---CATGAATGCTGTAAAAATCCTCCCTGTAGAAACAAGCACCCAGACTTGTGTGGCGGAAGACGCAGATGCT ; END; [ The following blocks are output data for analysis step 13801 ] BEGIN TREES; TITLE Additional_File_2; LINK TAXA = TaxaForAnalysisStep13801; TREE 'con 50 majrule+' = [&R] ((Conus_diadema_1:0.128962,Conus_quercinus_1:0.063558)0.57:0.169428,(((Conus_lividus_41:0.014998,Conus_lividus_42:0.014834)0.98:0.101008,(Conus_lividus_51:0.073598,(Conus_lividus_45:0.039311,(Conus_lividus_46:0.015524,(Conus_lividus_47:0.015225,Conus_lividus_48:0.010889)1.00:0.055983)0.52:0.033862)0.82:0.040753)0.99:0.135989)0.94:0.141576,(Conus_lividus_32:0.215688,(Conus_diadema_10:0.039818,Conus_sanguinolentus_8:0.025571)1.00:0.260155,(Conus_lividus_29:0.255514,Conus_quercinus_6:0.053835)1.00:0.130001,(Conus_quercinus_7:0.010042,Conus_quercinus_8:0.018036)1.00:0.099747,((Conus_lividus_24:0.010111,Conus_lividus_25:0.016122)0.93:0.032843,(Conus_lividus_26:0.009368,Conus_lividus_27:0.017893)0.87:0.027296)0.98:0.088667,((Conus_sanguinolentus_4:0.055314,(Conus_lividus_10:0.00977,Conus_lividus_11:0.029583,Conus_sanguinolentus_3:0.009863)0.89:0.045852)1.00:0.232248,(Conus_lividus_9:0.180759,(Conus_diadema_3:0.098862,(Conus_lividus_2:0.010152,Conus_sanguinolentus_1:0.010015,(Conus_lividus_3:0.020198,Conus_sanguinolentus_2:0.031181)0.99:0.03681)0.65:0.041839)1.00:0.181182)0.88:0.118725)0.79:0.124849)0.57:0.08995)0.79:0.213421); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr75186] END;