#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 16, 2024; 9:02 GMT TreeBASE (cc) 1994-2008 Study reference: Zhang L., & Simmons M. 2005. Phylogeny and delimitation of the Celastrales inferred from nuclear and plastid genes. Systematic Botany, null. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S1421] BEGIN TAXA; TITLE ITS1; DIMENSIONS NTAX=19; TAXLABELS Brexia_madagascariensis Canotia_holacantha Dicarpellum_pancheri Empleuridium_juniperinum Lepuropetalon_spathulatum Mortonia_greggii Parnassia_faberi Parnassia_glauca Parnassia_laxmanii Parnassia_palustris Parnassia_palustris_A Parnassia_tenella Parnassia_trinervis Peripterygia_marginata Quetzalia_occidentalis Siphonodon_celastrineus Stackhousia_monogyna Tripterococcus_brunonis Zinowiewia_concinna ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M1560] TITLE Celastrales_ITS1; LINK TAXA = ITS1; DIMENSIONS NCHAR=348; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Brexia_madagascariensis TCGAAACCTGCGA-GGCAGA--ACGACCCGTGAATCGGTAAAA????????CTAGGGAGGCAGGCCTCAGGGTTTGTCGCCCGAAGTCG????????GGCATCGGCTGTG?????????ACCACAACTTCTGTTGA---------????????????AACAA?-AAAACCCCGGCGCAGATCGCGCCAAGGAACCAAGAAAA??????????????????CCCTTGTCTCGGAAA-CGGT-G???????GGGATG----CGTCGTCGTTATCATAA????GAAACGACT-TCGGCAAC-------------------------------------AC?A???A?CCA? Canotia_holacantha TCGAACCCTGCAA-AGCAGA--AGGACCCGCGAACAAGTGAAA????????ATGGGTGGCGGAGCCTTTGGGCTAGCCG??---?AACG????????CTTAGGGGCTGTG?????????ACTGCAACCCCTTTGCT---------????????????CTAAA--CGAACCCCGGCGCGAATTGCGCCAAGGAACCAAAAGAA??????????????????CCCTCGTCCCGGAAA-CGGT-G???????GGGAGATTGCATCGTCGTTGATATCAC????GAAACGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGA-----------AC?A??CA?CCA? Dicarpellum_pancheri TCGAAACATG?-----CAGA--ACGACCCGTGAATCGATGATC????????CGCGGGGGGCTGGCCTTCGGGCCCGTCGTCCGAAGTCC????????GGCGAGGGCTGTT?????????ATCCCAACTCCCCTGCC---------????????????AACAA--CAAACCCCGGCGCGAGTTGCGCCAAGGAATCGAAAGAA??????????????????CTCTCGTCCTGGAAA-CAGT-G???????GGGGTTGCTTCGTCGTCGATAACGTAT????G??-TGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAA-CGTAGC?C?A??CA?CCA? Empleuridium_juniperinum TCGAAACCTGCAA-GGCAGA--ACAACCCGCGAATTCGTTAAA????????CGCGGACGGCGTGCCCCCGGGCAAGTCGTCCGAAGTCC????????GGTCGGGTCTGTG?????????AATCCACCTCCCGTGCC---------????????????AACAA--CAAACCCGGGCGCGAATTGCGCCAAGGAACAAGAAAAA??????????????????CCTTTGTCCCGGAAA-CGGT-G???????GGGGTTG---????GTCGTTACCAAGT????GAAACGACTCTCGGCAACGGATATCT-----------------------------AC?A??CA?CCA? Lepuropetalon_spathulatum TCGAAATCTGCAA-AGCAGG--ACGACTCGCGAACAAAGTGAAACCACTATGTTGAACGGAAAGAGTCGACGACT--?TTTACCCTTCAACCTGATCAT--???TTGGTTG----?GGCACTCGTGCCCCGTCCCT--------CTTGTGGTCC-CAAAAAA--CACACCTCAGCGCGGAATGCGCCAAGGAAA?-CAAACGAAATG--TGCGCA---ACCCTTTGCACCTTAAG-TGGTCGTT??----?GGATGCGTTACTTTGCTCAATCAAATTT-ACAACGACTCTCGGCAACG------------------------------------ACAAATCCCCAAC Mortonia_greggii TCGAAACCTGCAC-AGCAGA--ACGACCCGCGAATCTGTGGAA????????GTCTTCGTCCGTTGGGCGATGCGCGTCCTC?--TTTGT????????GTTGTGGTCGAGA?????????ACCCTTGCCCGCCCTCC---------????????????ATCAAATGAACCCCGGGCGCAAACCGCGCCAAGGAACACATGAAA??????????????????CCT?CACCTCGGAAA-CGGT-G???????AGGG?-?CGTAGTCGTCAATAGCTTTA????AAA?CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAA-CGTAGCAC?A??AA?CCA? Parnassia_faberi TCGAAATCTGCAA-AGCAGA--ATGACTTGCGAACAAGTGCAAA--CCATGGTTGAAAG-----GCACCACGGTCGCCT??-----??AACC-GATCATTGGAGGCGGT----------?CCCGT?-????????------------ATGGTCA-AAATCAACAAATACCTCAGCGCGGAATGCGCCAAGGAAAAACAAACATAAGGGGTACGCCTACGCCTCTTGCACCGTAAA-TGGTTGTGTGGTGTGGCTTGCGTATTTC-GCTTAATCTAATGTTACAACGAC-----------------------------------------------ACGCC?AAACACA Parnassia_glauca TCGAAATCTGCAA-AGCAGA--ATAACTTGCGAACAAGTGAAAAAT----------------------?ATGGTTGCCTTCTCATTTGAGTT-GATCATTGGGAG-GGCGGTCTCT---CATTGTGCCCCCAAATGTCGTCCCTCTCATGGTCC-CAATCAA--CACACCTCAGCGCGGAATGCGCCAAGGAAC?-CGAACTTAAGT--TATGTA---GCCTCTTGCATCGTAAA-TGGTTGTGCG---TGGCTTGCGTATTTT-GCTTAATCTAATGT-ACAACGACTCTCGGCAACGGAT---------------------------------ACA?CACCCCACC Parnassia_laxmanii TCGAAATCTGCAA-AGCAGA--ATGACTTGCGAACAAGTGAAAAATCCATGGTTGGAGG-----GCACCACGG????????------?AACC-GATGATCGCTGGAGGCGGCGGTTGGGCCTCGTGCCCCCCCTCC--GTACCTCTCACGGTCC-CAACCAA--CATACCTCAGCGCGGAATGCGCCAAGGAAA?-CAAACAGAAGG--TACGCT---GCCCCTTGCACCGTAAA-TGGTTGCGCG---TGGCTTGCGTATTTC-GCTTAATCTAATGTTACAACGACTCTCGGCAACGGA----------------------------------ACACCGCCCCACA Parnassia_palustris TCGAAATCTGCAA-AGCAGAGAATGACTTGCGAACAAGTGAAAA--TCATGGTTGGAAGAGGAGGCACCACGGTCGCCCTTGTCTTTCAACT-GATCATTGGAGGCGGCGGCGGTTGGGCCTCGTGCCCCCCCGTT-CGTGCCTCTCATGGTCC-CAATCCA-?CATACCTCAGCGCGGAATGCGCCAAGGAAA?-CAAACAGAAGG--TACGCT---GCCCCTTGCACCGAAAAATGGTTGTGTG---TGGCTTGCGTATTTC-GCTTAATCTAATGTTACAACGACTCTCGGCAACGGATATCTTGGCTCTCGCATCGATGAAGAA-CGTAGCAAGACCGCCAACA Parnassia_palustris_A TCGAAATCTGCAA-AGCAGAGAATGACTTGCGAACAAGTGAAAA--TCATGGTTGGAAGAGGAGGCACCACGGTCGCCCTTGTCTTTCAACT-GATCATTGGAGGCGGCGGCGGTTGGGCCTCGTGCCCCCTCGTC-CGTGCCTCTCATGGTCC-CAGTCCA-?CATACCTCAGCGCGGAATGCGCCAAGGAAA?-CAAACAGAAGG--TACGCT---GCCCCTTGCACCGTAAA-TGGTTGTGTG---TGGCTTGCGTATTTC-GCTTAATCTAATGTTACAACGACTCTCGGCAACGGA----------------------------------AAGACCGCCCACA Parnassia_tenella TCGAAATCTGCAA-AGCAGA--ATGACCTGCGAACAAGTGAAAAA-TCGTGGTTGAAAAAAGGCGCC-----???????????-----AACTGGGTCATTGGA?????------?TGGGCCTTGTG??????-----????CCTCTCGTGTTCC-CAATCTA-?TAAACCTCAGCGCGGAATGCGCCAAGGACA?-CAAACAGAAGG--TACGCTGATGCCCCTTGCACCGTAAA-TGGTTGTGCG---TGGCTTGCGTATTTT-GCTTAATCTAATGTTACAACGACTCTCGGCAACGGATATCTTGGCTCTCGCATCGATGAAGAAACGTAGCACCAA?GCACACA Parnassia_trinervis TCGAAATCTGCA{AG}-AGCAGA--ATGACTCGCGAACAAGTGTAAAA-TCATGGTTGAA?-?GGAGGCACCACGGTCGCCTTCTCCTTTCAACT-GATCATTGGA?????------?TGGGCATTGGGCCCGTCCCCT--G{CT}ACCTC{AC}{CT}GTGGTCCAC{AT}{AC}TCAA--CA{CT}A{CT}CTCAGCGC{AG}GACTGCG{AC}CAAGGAA{AC}?-CAAACATAAGG--T{AG}C{GT}CT---GCCCTTT{AG}CAC{CT}ATAAA-TGGATGCGTG---TGGCTTGCGTACTTCCG{AC}TCAATCTAACGTTACAACGACTCTCGGCAACG------------------------------------ACCACGCCCCAAA Peripterygia_marginata TCGAAACCCGCAA-CGCAGA--ACGACCCGCGAACCGGTGAAA????????CCCGGGCGGCCGCCCCACGGGCCGGTTGTC------CG????????GGCGGGGGCCGCG?????????CCGCACGCCCCCCGTCG---------????????????AACAA--CGAACCCCGGCGCGAATCGCGCCAAGGAACCGAAAGAA??????????????????CCCTCGTCCCGGAAATCGGC-G???????GGGGATGCGTCGTCGTGGATTTCATAT????AAAACGACT{CT}TCGGCAAC-------------------------------------AC?A??CA?ACA? Quetzalia_occidentalis TCGAAACCTGCCC-GGCAGC--ACGACCCGCGAATCGGTTAAT????????TGCGGTCGTCGAG????--??CGAGACGACTGCCAGCT????????GGTGGGAGCTGGG?????????ACGCCGACGCCCCCACC---------????????????AACAA--CGAACCCCGGCGCGGACTGCGCCAAGGAACACGAACTA??????????????????CCCCCGTCCCGGAAA-CGGT-G???????GGTTTTGTGCAGTCGTTGATGCCTTAA????AAAACGACTCTCAGCAACG------------------------------------AC?A??CA?CCA? Siphonodon_celastrineus TCGAAACCTG-----?CAGA--ACGACCCGCGAACCGTTCAAA????????CATGGGCGACGGGCCTCTCGGTCGGTCGCCTGACGGCT????????AGAGCGGACTGTG????????????????-?????????---------????????????AACAA--CGAACCCCGGCGTGAATTGCGCCAAGGAAT{CT}GAAGAAA??????????????????CCCCCGTCCCGGAAA-CGGA-G???????AGGGATGCGCGATCGTCGATATCGCAT????GAAATGACTCTCGGCAACG------------------------------------?C?A??CA?CCA? Stackhousia_monogyna TCGAAACCTGCCCTAACGGA--ACGA??-GCGAACCGGTTATA????????CAGTCGGTCGGGGAGCCGGTAACGGAACCCCGACCGCG????????GGCGATGTTGGGG?????????CCCGATGTCCATCGCCC---------????????????AAGAACAAAAAATTCGGCGCGAATTGCGCTAAGGAAT?-GTTACC??????????????????CCC-?GTGCCATTCT-CGGT-T???????GCGACGTCGAT---???AAATATTATA????CTAACGACTCTCGGCAACGGATATCTCGGCTCTCGC-------------------AC?A??AC?CC?? Tripterococcus_brunonis TCGAAACCTGCTCGAACGGA--ACGATCTGCGAACCGGTGCGA????????CTTGCGGGAGGAGGGCACAAAACCCCTCTTCCATCGCG????????GGCGAATCCGGTG?????????GCTCCGGACTCTAGCCC---------????????????AATAACAC???-???GGCGCGAATTGCGCCAAGGACT?-CAATTG??????????????????CCCACGCCCGGGATT-CGGT-A???????GCGGCGTTGATGTCGTCGTATATAGTA????TTAA---------------------------------------------------AC?A??AC?CCA? Zinowiewia_concinna TCGAAACCTGCCC-AGCAGA--ACGACCTGTGAATCGGTTATT????????TGTAGTCGCCAAGCTTT--??CAAGGTGGCTGCTAGTT????????GATGGGAGTTGGG?????????ACACTCATGCTCCCAGC---------????????????AACAA--CGAACCCCGGCGCGAACTGCGCCAAGGAAACACAAAAA??????????????????CCCTAGTCCCAGAAA-CGGT-G???????GGTTTTGCGTAGTCGTTGACGCCTTAA????AAAATGACTCTCGGCAACGGA----------------------------------CC?A??CA?CCA? ; END; BEGIN SETS; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 163-164 342; CHARSET gap_236 (CHARACTERS = Celastrales_ITS1) = 345; CHARSET ITS_gap_14 (CHARACTERS = Celastrales_ITS1) = 336; CHARSET gap_280 (CHARACTERS = Celastrales_ITS1) = 348; CHARSET gap_241 (CHARACTERS = Celastrales_ITS1) = 346; CHARSET gap_93 (CHARACTERS = Celastrales_ITS1) = 340; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 137-145 341; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 21-22 337; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 216-218 344; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 60-64 339; CHARSET gap (CHARACTERS = Celastrales_ITS1) = 45-46 338; CHARSET gap_265 (CHARACTERS = Celastrales_ITS1) = 347; CHARSET gap_196 (CHARACTERS = Celastrales_ITS1) = 343; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Celastrales_ITS1) = N: 1-348; CODONPOSSET CodonPositions (CHARACTERS = Celastrales_ITS1) = N: 1-348; END;