#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 April 20, 2024; 6:25 GMT TreeBASE (cc) 1994-2008 Study reference: Coleman A., Jaenicke L., & Starr R. 2001. Genetics and sexual behavior of the pheromone producer, Chlamydomonas allensworthii (Chlorophyceae). Journal of Phycology, 37: 345-349. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S708] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=14; TAXLABELS Chlamydomonas_allensworthii_21A Chlamydomonas_allensworthii_266 Chlamydomonas_allensworthii_88.10 Chlamydomonas_allensworthii_Cat Chlamydomonas_allensworthii_Chile Chlamydomonas_allensworthii_Flam Chlamydomonas_allensworthii_Hon2 Chlamydomonas_allensworthii_Hon9 Chlamydomonas_allensworthii_Krueger Chlamydomonas_allensworthii_LCA Chlamydomonas_allensworthii_LCH Chlamydomonas_allensworthii_LCN Chlamydomonas_allensworthii_Neb Chlamydomonas_reinhardtii_Crein ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M3686] TITLE ITS; LINK TAXA = Taxa1; DIMENSIONS NCHAR=629; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=- GAP= #; MATRIX [ 10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220 230 240 250 260 270 280 290 300 310 320 330 340 350 360 370 380 390 400 410 420 430 440 450 460 470 480 490 500 510 520 530 540 550 560 570 580 590 600 610 620 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Chlamydomonas_allensworthii_21A AATCTATCAATACCAACACCGAGAACCAATTCGTCTGACC-CCGTC-GTGGCGCAAGCG---ACGACGG-CGCTTGCCGATCCG----TTTATT-CTGATCGGCGATCGGGCTCCGGGGCCTCAAAACCCTAGGGTCGGTCTCT----GTCCAACAACAACACCAAACCAATACCTCTAACTAAAC-TGCATTCGGCTC--AGCCGGTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGATCTGGCAGTCTCAGTTTGC------------AAAGACTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_266 AATCTATCAATAACAACACCGAGAACCATTTCGTCTGACC-CTTTTATAAGCCTTTGGGTTTATAACGG-CGCCTGTTGTTTGG----TTAATT-CCAAGCACCAGGTGGGCTC---GGCTT-------GCCGAGTTGGTCTCT----GTCCAACAACAACACCAAACCAATAATTCTAATTATCC-TGCATTCGGCAT--AGCCGATGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCCCAA-------------------TTGGAACGGATCTGGCAGTCTCAGCTTTTTC--------AATAGAGCTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_88.10 AATCTATCAATAACAACACCGAGAACCATTTCGTCTGACC-CTTTTATAAGCCTTTGGGTTTATAACGG-CGCCTGTTGTTTGG----TTAATT-CCAAGCACCAGGTGGGCTC---GGCTT-------GCCGAGTTGGTCTCT----GTCCAACAACAACACCAAACCAATAATTCTAATTATCC-TGCATTCGGCAT--AGCCGATGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCCCAA-------------------TTGGATCGGATCTGGCAGTCTCAGCTTTTTC--------AATAGAGCTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Cat AATCTATCAATACCAACACCGAGAACCGATTCGTCTGACC-CCGTC-GTGGCGCAAGCG---ACGACGG-CGCTTGCCGATCCG----TAAATT-CGGATCGGCGATCGGGCTCCGGGGCCTCAAAACCCTAGGGTCGGTCTCT----GTCCAACAACAACACCAAACCAATACCTCTAACTAAAC-TGCATTCGGCTC--AGCCGGTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGATCTGGCAGTCTCAGTCTGC------------AAAGACTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACT----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Chile AATCTATCAATAACAACACCGAGAACCATTTCGTCTGACC-CT-TTATAAGCCTTTGGGTTTATAACGG-CGCCTGTTGTTTGG----TTAATT-CCAAGCACCAGGTGGGCTC---GGCTT-------GCCGAGTTGGTCTCT----GTCCAACAACAACACCAAACCAATAATTCTAATTATCC-TGCATTCGGCAT--AGCCGATGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCCCAA-------------------TTGGAACGGATCTGGCAGTCTCAGCTTTTTC--------AATAGAGCTGGGCCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Flam AATCTATCAATAACAACACCGAGAACCATTTCGTCTGACC-CT-TTATAAGCCTTTGGGTTTATAACGG-CGCCTGTTGTTTGG----TTAATT-CCAAGCACCAGGTGGGCTC---GGCTT-------GCCGAGTTGGTCTCT----GTCCAACAACAACACCAAACCAATAATTCTAATTATCC-TGCATTCGGCAT--AGCCGATGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCCCAA-------------------TTGGAACGGATCTGGCAGTCTCAGCTTTTTC--------AATAGAGCTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Hon2 AATCTATCAATACCAACACCGAGAACCGATTCGTCTGACC-CCGTC-GTGGCGCAAGCG---ACGACGG-CGCTTGCCGATCCG----TTTATT-CGGATCGGCGATCGGGCTCCGGGGCCTCAAAACCCTAGGGTCGGTCTAT----GTCCAACAACAACACCAAACCAATACCTCTAACTAAAC-TGCATTCGGCTC--AGCCGGTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGATCTGGCAGTCTCAGTTTGC------------AAAAACTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACT----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Hon9 AATCTATCAATACCAACACCGAGAACCAATTCGTCTGACC-CTGTT-GATGCGCAAGCA---GCAACGG-CGCTTGCCGATGCG----TTAACT-CGGGTCGGTGATCGGGCTCTAGGGCTTAACAACCCTAGGGTCGGTCCCT----GTCCAACAACAACACCAAACCAATACCTCTAACTAAAC-TGCATTCGGCTC--AGCCGGTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGATCTGGCAGTCTCGGTTTGC------------AAAAACCGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACA----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Krueger AATCTATCAATAACAACACCGAGAACCATTTCGTCTGACC-CTTTTATAAAC-TTCGGGTTTATAACGG-CGCCTGTTGTTTGG----TTAATT-CTAAGCACCAGGTGGGCTC---GGCTT-------GCCGAGTTGGTCTCT----GTCCAACAACAACACCAAACCAATAATTCTAATTATCC-TGCATTCGGCAT--AGCCGATGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCCCAA-------------------TTGGAACGGATCTGGCAGTCTCAGCTTTTTC--------AATAGAGCTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACC----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_LCA AATCTATCAATACCAACACCGAGAACCATTTCGTCTGACC-CTCCTAT--GCTTTCGGG--TATAGAAG-CGCTCGGAGCCTAG----TTAATT-CTAAGCTCCGGGTGGGCTC---GGCTTC-----GGCTGGGTTGGTTCCT----GTCCAACAACAACACCAAACAAATAATTCTAAATAATC-TGCATTCGGCA---ATCGGCTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATACCACA--------------------TTGGAACGGACCTGGCAGTCTCAGTTCTTTG--------ATTAGAGCTGGGTCTGCTGAAGTGCAGAGATTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGATCCTCAACAGGAAAAC-----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_LCH AATCTATCAATACCAACACCGAGAACCATTTCGTCTGACC-CTTCTAT--GCTTTCGGG--TATAGAGG-CGCTCGTTGCCTAG----TTAATT-CTAAGCTCCGGGTGGGCTC---AGCTTC-----GGCTGGGTTGGTTCTT----GTCCAACAACAACACCAAACAAATAATTCTAAATAATC-TGCATTCGGCA---ATCGGCTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGACCTGGCAGTCTCAGTTCTTTT--------AATAGAGCTGGGTCTGCTGAAGTGCAGAGATTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGATCCTCAACAGGAAAAC-----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_LCN AATCTATCAATACCAACACCGAGAACCATTTCGTCTGACC-CTTCTAT--GCTTTCGGG--TATAGAGG-CGCTTGGAGCCTAG----TTAATT-CTAAGCTCCGGGTGGGCTC---GGCTTC-----GGCTGGGTTGGTCCTT----GTCCAACAACAACACCAAACAAATAATTCTAAATAATC-TGCATTCGGCA---ATCGGCTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATACCACA--------------------TTGGAACGGACCTGGCAGTCTCAGTTCTTTG--------ATTAGAGCTGGGTCTGCTGAAGTGCAGAGATTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGATCCTCAACAGGAAAAC-----------------ATTAACCTATTTTC Chlamydomonas_allensworthii_Neb AATCTATCAATACCAACACCGAGAACCGATTCGTCTGACC-CCGTC-GTGGCGCAAGCG---ACGACGG-CGCTTGCCGTTCCG----TTTATT-CGGATCGGCGATCGGGCTCCGGGGCCTCAAAACCCTAGGGTCGGTCTAT----GTCCAACAACAACACCAAACCAATACCTCTAACTAAAC-TGCATTCGGCTC--AGCCGGTGC-ATCTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGCAACGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAAACCGTGAACCATCGAATCTTTGAACGCATATTGCGCTCGACCCTTCGGGGAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCTCCAATTCCACA--------------------TTGGAACGGATCTGGCAGTCTCAGTTTGC------------AAAGACTGGGTCTGCTGAAGTGCAGAGGTTGATGTA-GGACCCGC-TATGGGCCGCAACTGGGTAGGCA-CTCGT-GCTAATTCTT-AGTTGTTGGCTTGGGACT-TGCT-GTCGACCCTCAACAGGAAAACT----------------ATTAACCTATTTTC Chlamydomonas_reinhardtii_Crein AATCTATCACAATCCACACCGCGAACTAACACTGTTGGCCTCCGTCTGTG-TAAAAGCA-----AACGGGCCAGGTCTGGGCGCAATGTAAAAGTTACGCCTGGCCTGGGT------TGCCGCAA------GGCATCGGTCTCTTATACTAACCAACCAACACCAAACCAAAACTAAATTAAAACCGAGTATCTAGCTTAGAGCTAGTGCTCACTAACCAAGA-CAACTCTCAACAACGGATATCTTGGCTCTCGGATCGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAAATACGTGAATCATCGAATCTTTGAACGCATATTGCGCTCGAGGCTTCGGCCAAGAGCATGTCTGCCTCAGCGTCGGGTT-AATACTCGCCCTA-CTCCAACATACACTTGTGTGTTTGGAGCAAGAGCGGACCTGGCTGTCTCGGTGTTTGATTTTCGGATCAGACGCCGGGTCAGCTGAAGTACAGAGGTTGATGCATGGACCCGCTTATGGGCCTCTACTGGGTAGGCAACTCGTTGCTAATGCTTTAGTAGATGGCTTGGAGCTGTGCTTGTCGACCCAAACCAGGAACTTTGGCCCTGTGCCGAAGCAAACCCCTATTTTC ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = ITS) = N: 1-629; CODONPOSSET CodonPositions (CHARACTERS = ITS) = N: 1-629; END; BEGIN TREES; TITLE Tb5853; LINK TAXA = Taxa1; TRANSLATE 1 Chlamydomonas_reinhardtii_Crein, 2 Chlamydomonas_allensworthii_Cat, 3 Chlamydomonas_allensworthii_21A, 4 Chlamydomonas_allensworthii_Neb, 5 Chlamydomonas_allensworthii_Hon2, 6 Chlamydomonas_allensworthii_Hon9, 7 Chlamydomonas_allensworthii_Chile, 8 Chlamydomonas_allensworthii_Flam, 9 Chlamydomonas_allensworthii_88.10, 10 Chlamydomonas_allensworthii_266, 11 Chlamydomonas_allensworthii_Krueger, 12 Chlamydomonas_allensworthii_LCA, 13 Chlamydomonas_allensworthii_LCH, 14 Chlamydomonas_allensworthii_LCN; TREE Fig._2 = [&R] (((((14,12),13),(11,(10,9,8,7))),(6,((5,4),3,2)))Chlamydomonas_allensworthii,1)Chlamydomonas; END;