#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 19, 2024; 5:42 GMT TreeBASE (cc) 1994-2008 Study reference: Burns J.H., Faden R.B., & Steppan S. 2011. Phylogenetic studies in the Commelinaceae subfamily Commelinoideae inferred from Nuclear Ribosomal and Chloroplast DNA Sequences. Systematic Botany, 36(2): 268-276. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S10425] BEGIN TAXA; TITLE Untitled_Taxa_Block; DIMENSIONS NTAX=20; TAXLABELS Commelina_africana_var._villosior_1 Commelina_africana_var._villosior_2 Commelina_capitata Commelina_coelestis Commelina_communis_1 Commelina_communis_2 Commelina_communis_3 Commelina_communis_4 Commelina_congesta Commelina_dianthifolia Commelina_diffusa Commelina_diffusa_1 Commelina_diffusa_2 Commelina_diffusa_6 Commelina_fluviatilis Commelina_purpurea Commelina_schliebenii Commelina_sp. Commelina_virginica Commelina_welwitschii ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M5228] TITLE Commelina_2_5S_NTS; LINK TAXA = Untitled_Taxa_Block; DIMENSIONS NCHAR=461; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=? GAP= -; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Commelina_africana_var._villosior_1 CCCCTTTTT?????GCCACGC???????????????????GTTGC???GCTCGCCGCAGTCGAAACGTACGCAACTTTTTGCTCGAGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCAGCACGATTGACCTTTAGATCCATCGTGGCGTTTTTGG??GCCCAAAATAGGTCGTTTCGGACCGTTTCGCGCACCTTTTTCGTTCTCAGT???CTCCCCAAAATGCCGGAGCCGGA??????GCCGGAGCCGGAGCCGCCACCG????????CCGTCGGAGAAG??GAAGCCGTCACTTTT?TGACGTGGGGCCCGTTTGATCC?CCGCGCCGTAG??CGTAGCG?????GAGAATA?AGACTCGAGCACTTTCGCGGCCGTGCGGATCGAGAGCACAAAATATATGCATTCTTAGGCATTGGGACTT?CGGG Commelina_africana_var._villosior_2 CCCCTTTTT?????GCCACGC???????????????????GTTAC???GCTCGCCGCAGTCGAAACGTACGCAACTTTTTGCTCGAGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCAGCACGATTGACCTTTAGGTCCATCGTGGCGTTTTCGG??GCCCAAAATAGGTCGTTTCGGACCGTTTCGCGCACCTTTTTCGTTCTCAGT???CTCCCCAAAATGCCGGAGCCGAA??????GCCGGAGCCGGAGCCGCCACCG????????CCGTCGGAGAAG??GAAGCCGTCCCTTTC?TGATGTAGGGCCCGTTAGATCC?CCGCGCCGTAG??CGTAGTG?????GGGAATA?AGACTCGAGCAATTTCGCGGTCGTGCGGATCGAGAGCACAAATTATATGCATTCTGAGGCATTGGGACTT?CGGG Commelina_capitata CCCCTTTTT?????GGCGCGC???????????????????GTTGT???GGTCACTACGGCGGAAGCGTACTTAACTTCTAGCTCGGGTGTCGGA?ACGGGGCGTGAGGCCCCAATTCGGAAAGCTCGAC??GCGGGCCCCTGG?TGCTGCACGATTGACCCTTAGGTCGATCGTGGCATTTTCGG??ACCCTAAATCGGCCGTTTCGCACGACTTCGGAAACC?TTTTGGGCCGTGGCGGATTTTTTTTAGCGCCGACGCCACCGGAAAAGGAGAAAGGGGAACGGAGAACGGAGAACGGAGACCGGAATCGGTGAAGACGTCGCTGT???GGCGTGGGGCCCGCTCGCTCC?ACGGGTCGTGG????CGGCG?????????????AGGT?TGAGCACTGTCGGGTTCG????GAACGAGAGAACAAA?????TACGATCCGAGGCGTTGGGACTT?TGGG Commelina_coelestis CCCCTTTTT?????GTCCCGT???????????????????GTTGC???ACTAACCGCCGCCAAAACGTACGTAACTTTTTGATAGGGCGTCGGA?ACGGGGCGTGCGACAAATAAGCTGCGAGCAC??T??ATCGCATTCGTA?CGGATCGAGAGC?ACAAATATATGTATTCTGATGCGTTGGG??GCT?????????TCGTGTGCGATCA?TACCAGCGCGAC???????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? Commelina_communis_1 CCCCTTTTT?????GCC?????????TTAT??????????GCTGC???ACTCGCTGCAGCCGAAACATTCGTAGCTTTTCGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCGCAACG?TGTTGCACGATTGACCTTTAGGTCGATCGTGGTGTTTTCGG??GCCCGAAATTGGTCGTTTCGCACCATTACGGGCACCTTTTTCGTTCTCGGC???CTCGCCGTCACGCCG??????????????????GAGCCG??????CCACCG????????CCACC??????G??GAAGGCGTCGCTTTTTCGAAGTGGGACCCGCTATGTCC?TCGCGCCGTAG??CGTAGCG?????TCGAATA?AGCTGCGAGCACTACCACATTCCTACCGATCGAGAGCACAAA?TATATGCATTCCGAGGAGTTGGGACTT?CGGG Commelina_communis_2 CCCCTTTTT?????GCCGCGCTGCTCTTATTCTCTCGTTCGTTGT???ACACGCCGCAGC?AGAACGCTCGTAACTCTTAGCACGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCTACACGATTGACCGCTAGGTCGATCGTGGCATTTTCGG??GCCCCAAATAGGTCGTTTCGGACCGTTACGGGCACCTTTTTCGTTCTCGGT???CTCCCCGTCACACCGCA????????????GACGGAGCCG??????CCACCG????????CCACCGCCACCG??GAAGGCGTCGCTTTT?CGAAGTGGGACCCGCTATGTCC?TCGCGCCGTAG??CGTAGCG?????TCGAATA?AGCTGCGAGCACTACCGCATTCCTACCGATCGAGAGCACAAA?TATATGCATTCCGAGGAGTTGGGACTT?CGGG Commelina_communis_3 CCCCTTTTT?????ACCGCACTGCTTTTATTCGCTCGTTTGTTGTTGCATCCACCGCCGC?GGAACGTACGTAACTTTTGGCACGGGTGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCTGCACGATTGACCGTTAGGTCCATCGTGGCATTTTTCG??GCCCCAAATAGGTCATTTCGGACCGTTACGAGCCCCTTTTTCGTTCTCGGT???CTCCCCGTCACGCCGCA????????????GACGGAGCCGTCACCGCCACCG????????CCACCGGAGAAG??GAAGGCGTCGCTTTT?CGAAGTGGGACCCGCTAGATCC?CCGCGCCATAG??CATAGCG?????TCGAATA?AGCTGCGAGCACTACCGTATTCCTACCGATCGAGAGCACAAA?TATATGCGTTCTGAGGCGTTAGGACTT?TGGG Commelina_communis_4 CCCCTTTTT?????GCCGCGCTGCTCTTATTCGCTTGTTCGTTGT???ACTCGCTGCAGC?AGAACATTCGTAACTCTTAGCACGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCTACACGATTGACCGCTAGGTCGATCGTGGCATTTTCGG??GCCCCAAATAGGTCGTTTCGGACCGTTACCGGCACCTTTTTCGTTCCCGGT???CTCCCCGTCACGCCGTA????????????GACGGAGCCG??????CCACCG????????CCACCGGAGAAG??GAAAGCCGGGCTTTT?TGACGTGGGACCCGCTAGATCAATTAGGCGGTAG??CATAGCG?????TCGAATA?GGCTACGAGCACTACAGCATTCCTGCCGATCGAGACCACAAA?TGTATGCATTCCGAGGCGTTGGGTCTT?CGGG Commelina_congesta CCCCTTTTTTGTTCGGTTCGC???????????????????ATTGT???GATCACCGAGACGGGAACGTACCTAACTTTTTGCTCGTTAGCCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGCC??GCGGGCCCCACG?CCGTGCACGATTGACCGTTAGGTCCATCGTGGCGTTTTCGG??GCCCGAAACCGGCCGTTTCGGACGACTTCGGGCACCGTTTTGCTTCGGGGCGC?CCGGTTTTTCCGCCGCCGTCGTCGTAACCGTCCGC???????CGGCCG??????????????TCGCAACCGGTAGAGCCGTCGCTAT???GACGTGGGGCCCGCTTGATCC?ACGTGCCGCGG????CAGCA?????????????AGGT?CGAGCGCCGCCGCGTTCG????AAACGAGAGCACAAA?????TAAATTTCGAGGCGTTGGGACTT?TGGG Commelina_dianthifolia CCCCTTTTT?????GCCGAGT???????????????????GTTGC???GCTCACCATCGCAGAAACGTACGCAACTTTTTGCTCGTGCATCGGA?ACGGAGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCCACG?CGCTGCACGATTAACCTTTAGGTCGATCGTGGCATTTTCGG??GCCCCAAATAGGTCATTTCGGACCGTTACGTGCACCTTTTTCGTTCTCGGT???CTGCCTGTCACGTC??????????????????GGAGCCGGAGCCGGAGCCG?????????????GAGAA?G??GAAAGCGTCATTTTTTTGAAGTGGGGCTCGTTAGATCC?CCGTGCAATAG??TGT??????????????TA?AGCTGCGAGCACTATCGCGTTCGTACGGATCGAGAGCACAAA?TATATGCATTCTGAGGCGTTGGGGCTT?CGGG Commelina_diffusa CCCTCTTTT?????GCCGCGT???????????????????GCTGC???ACTCGCCGCCGCCGAAACGTGCGTAACTTTTCGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCAACG?CGCTGCGCGATTGACCTCTAGGTCCATCGTGGCGTTTTCGG??GCTTGAAATTGGTCGTTTCGGACCGTTACGCACACATTTTTCGTTCTCAGT???CTCCCC?????GTC????????????????CCGGAGCCGCCACCGCCACCG????????CCTCCTGAGAAGG?AAAGGCGTCGGTTTC?TGACGTGGGGCCCGCTAGATCC?CCGCGCCGCAG??CGTAGCG?????G?GGATA?AGCTGCGAGCACTGTCGCTTCCGCACGGATCTAGAGCGCAAA?TATATCCGTTACGAGGCGTTGGTCCTT?CGGG Commelina_diffusa_1 CCCTCTTTT?????GCCGCGT???????????????????GCTGC???ACTCGCCGCCGCCGAAACGTGCGTAACTTTTCGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCAACG?CGCAGCACGATTGACCTTTAGGTCCATCGTGGCGTTTTCGG??GCTCAAAATTGGCCGTTTCGGACCGTTACGCGCACATTTTTCGTTCTCAGT???CTCCCC?????GTC????????????????CCGGAGCCGCCACCGCCACCG????????CCTCCTGAGAAGG?AAAGGCGTCGGTTTC?TGACGTGGGGCCCGCTAGATCC?CCGCGCCGCAG??CGTAGCG?????GCGGATA?AGCTGCGAGCACTGTCGCTTCCGCACGGATCTAGAGCGCAAA?TATATCCGTTACGAGGCGTTGGTCCTT?CGGG Commelina_diffusa_2 CCCCTTTAT?????GCCGCGC???????????????????GCTGC???ACTCGCCGCCGCCGAAACGTGCGTAACTTTTCGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCAACG?CGCTGCACGATTGACCTTTAGGTCCATCGTGGCGTTTTCGG??GCCCGAAATTGGCCGTTTCGGACCGTTACGTGCATATTTTTCGTTCCCGAT???CTCCCC?????GTCGC?????????????GCCGGAGCCGCCACCGCCACCG????????CTTCCCGAGAAG??AAAGGCGTCGGTTTC?TGACGTGGGGCCCGCTAGATCC?CCGCGCCGCAG??CGTAGCG?????GCGGATA?AGCTGCGAGCACTGTCGCTTCCGCACGGATCTAGAGCGCAAA?TATATGCGTTACGAGGCGTTGGTCCTT?CGGG Commelina_diffusa_6 CCCTCTTTT?????GCCGCGT???????????????????GCTGC???ACTCGCCGCCGCCGAAACGTGCGTAACTTTTCGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGGCCCCAACG?CGCTGCGCGATTGACCTCTAGGTCCATCGTGGCGTTTTCGG??GCTTGAAATTGGTCGTTTCGGACCGTTACGCACACATTTTTCGTTCTCAGT???CTCCCC?????GTC????????????????CCGGAGCCGCCACCGCCACCG????????CCTCCTGAGAAGG?AAAGGCGTCGGTTTC?TGACGTGGGGCCCGCTAGATCC?CCGCGCCGCAG??CGTAGCG?????G?GGATA?AGCTGCGAGCACTGTCGCTTCCGCACGGATCTAGAGCGCAAA?TATATCCGTTACGAGGCGTTGGTCCTT?CGGG Commelina_fluviatilis CCCCTTTTT?????GC????????????????????????????????GCACGCCGCCTCCGAAACGCACGTAACTTTATGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTC??GCGTCCCCCACG?CGCTG?AAGAATGACCTTTAGGTCCATCGTGGATTTTCGGG??CCC?AAAATAGGCCGTTTCGGACCGTTACGGGCACCTTTTTCGTTGTCGGT???CTCCCCGCCGAGCCATAGCCGCCGCCGCCACCGCCACCGCCTCCGTCACCG????????CCACCGAAGGAG??GAATTCTTCCCTTTT?CGAAGTGGGGCCCGCTAGACCC?TTTCTCCGTAG??CGCATCG?????ACGGTTTCAGCTTCGAGCACTATCACGATCGTACGCACCGAGAGCACAAA?TTTATGCATTCTGAGGCGTTGGGACTT?CGGG Commelina_purpurea CCCCTTTTT?????GC????????????????????????????????GCGCGCCGCCTCCGAAACGCACGTAACTTTTTGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCCAATTCGGAAAGCTCGTT??GCGTCCCCCACG?CGCTG?ACGATTGACCTTTAGGTCCATCGTGGATTTTCGGG??CCC?AAAATAGGCCGTTTCGGACCGTTACGGGCACCTTTTCCGTTATCGGT???CTCCCCGCCGCGCCGGAGCCGCCACCGCCACCGCCACCGCCACCGCCACCG????????CCACTGGAGGAG??GAATGCCCCGCTTTT?CGTTATCGG??????????TCC?TTGCGCCGTAG??CGCATCG?????ACGGTTTCAGCTTCGAGCACTATCGCGGTCGCACGCGCCGAGAGCACAGA?TTTATGCATTTTGAGGCGTTGGGACTT?CGGG Commelina_schliebenii CCCCTCTCTTTTTCTTCGGATTTTTTTTTC??????????GTCGTCGGGCCTACGACGCCCGCTCCGTATGCTTAGTCTGCACCGGGCGAAAAATACGAGCCGC?TGATCTC?GTTCTGGGAGCAAATTCGGTGGCGGCGATATCGAAATCCCCTCGGGTTGCACCTCCCTGGTGTTAGAGTGCGTCGCTGCATTCGGATCCTTTATAAGAATTTAACGCGCTTATGCTGATGGGTGCGATCATACCAGCACGAC?????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????????? Commelina_sp. CCCCTTTTT?????CCCGCTT???????????????????GTTCC???ACTCGCAGTCGCCGAAACGTACGCAACTTTTTGCTCGGGCATCAGA?ACGGGGCGTGCGACCCCAATTCAGAAACCTCGTC??GCGGCCCCCACG?CACTGCACGATTGACCTTTAGGTCCATCGTGGCATTTTCGG??GCCCTAAATAGGTCGTTTCGGACCGTTACGTGCACCTTTTTTGTTCTCGGT???CTCCCTGTCACGCC??????????????????GGAGCAGGAGCCGGAGCCG????????CCGCCGACACCG??GAAAGGGTCGCATTTC?GAAGTGGGACCCGCTAGATCC?CCGCGCTGTAGGCTGTAGCGTAGCAGCAAATA?GGCCGTGAGCATTATCGCATTCGTACGGACCGAGAGCACAAA?TATATGCACTCCGAGGCATTGGGGCTTTCGGG Commelina_virginica CCCCCTTTTTGTTCGGCTCGC???????????????????GTTGT???AATCACCGAGACGGAAACGTACCTAACTTTTTGCTCGGGCGCCGGA?ACGGGGCGTGCGACCCCAATTCGGAGAGCTCGTC??GCGGGCCCCACC?CCTTGCACGATTGACCGTTAGGTCGATCGTGGCGTTCCGGG??GCCCGAAATTGGCCGTTTCGCACAACTTCGGGCACCTTTTTGCTTCGCGGCGC?CCGCTTTTACCGCCGACGGCGTCGGAACCGGCGGC???????CGGCCGCCGGCCATCGACCGTCGGAATCGGTAGAGGCGTCGCTAT???GGCGCGGGGCCCGCTTGCTCC?ACGTGCCGCGG????CGGCG?????????????AGGT?CGAGCGCCGCCGCGTTCG????GAACGAGAGCACTGA?????TACATTTTGAGGCGTTGCGACTT?CGGG Commelina_welwitschii CCCCTTTTT?????GCCGCGC???????????????????GTTGC???GCACACCGCCTC?GAAACGCACGTAACTTTTTGCTCGGGCGTCGGA?ACGGGGCGTGCGACCCTAATTCGGAAAGCTCGTC??GCGTCCCCCACG?CGATGCACGATTGACCTTTAGGTCGATCGTGGCATTTCGGG??CCCCAGAAAAGGCCGTTTCGGACCGTTACGGGCACCTTTTTCGTTATCGGT???CTCCCCGTCACGCCGTAGACGGAGCCTCCACCGCCACCGCCACCGCCACCG????????CCACCGTAGGAG??GAAGGCATCGCTTTT?CAAAGTGGGCCCCGCTAGACCC?TTGCGCCGCAG??CGTAGCG?????GCGG?????????????CGCTATCGCAATCGTACGCACCGAGAGCACAGA?TATATGCATTTCGAGGCATTAGGCCTT?CGGG ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Commelina_2_5S_NTS) = N: 1-461; CODONPOSSET CodonPositions (CHARACTERS = Commelina_2_5S_NTS) = N: 1-461; END;