#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 25, 2024; 5:04 GMT TreeBASE (cc) 1994-2008 Study reference: Pazoutova S. 2001. The phylogeny and evolution of the genus Claviceps. Molecular Ecology, 105(3): 275-283. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S659] BEGIN TAXA; TITLE Taxa1; DIMENSIONS NTAX=17; TAXLABELS Claviceps_africana Claviceps_citrina Claviceps_fusiformis Claviceps_gigantea Claviceps_grohii Claviceps_paspali Claviceps_phalaridis Claviceps_purpurea Claviceps_pusilla Claviceps_sorghi Claviceps_sorghicola Claviceps_sp._PM Claviceps_sp._SG Claviceps_sulcata Claviceps_viridis Claviceps_zizaniae Epichloe_amarillans ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2827] TITLE Claviceps; LINK TAXA = Taxa1; DIMENSIONS NCHAR=559; FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=N 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Claviceps_africana ATCATTACCGAGTTTACACTCCCAAACCCCATGTGAACCTCTACCGAAACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCCTCT-GGGGTG-CCGGAACCAAGGCGGCCCGCCGGGGGACCCCAACCACTCTGTAACACCTCCGGGAACGTCTGAGTGGATTTNNNACCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCCCCGGGCCTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCACGCGCGGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAGCATACCACCTCGCAGGCGGCGGACCGGCGCGGCCACGGCCGTAAAACGCCCAACNN-NTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_citrina ATCATTAACGAGTTTACACTCCCAAACCCACTGTGAACCTGTACCT-ANNGTTGCCTCGGCGTGNNNCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNTAGGCGCCCGCCGGGGGACCCAAACTCTTCTGTATCTTCTAGGGGCATGTCTGAGTGGATTTTAAATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCGCC-CGCCTGGTGTTGGGGGACGGCACCCGNNNNNNN-NNNNNNNNNNNNNNNCTGCCGCCCCTGAAATAGATCGGCGGCCCCGCCGCGGCCTTCCCTTGCGCAGTAACATACCACCTCGCAAACAGGAGCCCGGCGCGGCCACTGCCGTAAAACGCACGACTC-CTCCAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_fusiformis ATCATTACCGAGTTTACACTCCCAAACCCAATGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCC-CGCAAGGGAGGCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGACCGACCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGTGTCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_gigantea ATCATTACCGAGTTTACACTCCCAAACCCCATGTGAACCTCTACCG-AACGTTGCCTCGGCGGGACGCGTCCCGGCCCCGCCCCTTCTCGGGGTG-CCGGAGCCGAGCCCGCCCGCCGGGGGACCCCAACCACTCTGCATATATCATNGGCATGTCTGAGTGGATTTAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGGGTTTGGTGTTGGCGACCGGCACACGGGGAGGGGCCACGTGCCCCCCCCGCGCCGTCGCCCAAATGGATCGGCGGCCACGCCGCGGCATCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGCGGCCCGGCCCGGTCTCTGCCGTAAAACCCCCAACTTTCTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_grohii ATCATTACCGAGTTTACACTCCCNAACCCATTGTGAACTTCTACCCCAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCCCCGCAAGGGG-GCCAAGGC--GCCCGCCCGCCAGGGGACCCCAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACCAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAACCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCGC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGTTTCGGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAACCAGGAGCGCGGCGCGGCCACGGCCGTAAAACGCCCAACTTTTTC-AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_paspali ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACATATACCCAAACGTTGCCTCGGCGGGCTCCGNNN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGNGCCNGCCGGGGGTCCCGAACCC-TCTGTTTTCTCCAGCGGCACGTCTGAGTGGATATAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_phalaridis ATCATTACCGAGTTGCAACTCCCCAACCCCCTGTGAACCTCTACCGAACCGTTGCCTCGGCGGGNNCCGCCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGCGCCCGCCGGGGGACCCCAACCATCCTGTATNTCTTAGCGGCGTGTCTGAGTGGATTTAGTATCGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCACTCTGGCGNGCATGCCTGTTCGAGCGTCGTTTCAACCCTCAAGCCCTGGGCTTGGTGTTGGGGACCGGCACCCNNNNNNNN-NNNNNNNNNNNNNNNNNGCCGCCCCCGAAATGCATCGGCGGCCACGCCGCGGCCTCCCCCCGCGCAGTAGCGTACCACCTCGCGGGCGGGATCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTT-CNCACGAGTTGACCTCGAATCAGGCAGGAATACCCGCTGAA Claviceps_purpurea ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCN-CGCAAGGGA-GCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTAAAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_pusilla ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCC-AACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCATCGCAGGGTG-CCGGA-CCAAGGCGGCCCGCCGGGGGACCCAAACT-CACTGTATCTCTTTTTGGCATGTCTGAGTGGATTANNNCACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCTNNGCTTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCTCGCGCGGGCG-CCTGCCGCCCCCTAAATCGATCGGCGGCCACGACGCGGCCCCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGNAGCCCGCCGCGGCCACTGCCGTAAAACGCCCAACTT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_sorghi ATCATTACCGAGTTTACACTCCCNAACCCCATGTGAACCTCTACCG-AACGTTGCCTCGGCGGGACGCGCCCCGGCC-CGCCCCCCCCAGGGGCGCCGGGAACCAGGGCCGCCCGCCGGGGGACCAAAACC-CTCTGTATCTCNCANNGGAACGTCTGAGTGGATTTAGTATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGCTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGGGCTTGGTGCTGGGGACCGGCTCCCGGGGGGGGGAAAANNNCCCCCCCCCTGNCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACATACTNNCTCGCAGGCGGCGGCCCGGCGCGGCCACTGCCGCAAAAAGCCCAACTC-CTCACGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_sorghicola ATCATTACCGAGTTTACACTCCCAAACCCCCTGTGAACCTCTACCG-AACGTTGCCTCGGCGGGGNNNGCNGCGGACGCGCGCCGTCNNNNNNNNNNNNNNNCCNNGNCCNCCCGCCGGGGGACCCAAACCCTCTTGTATCTCCTCGTGGCATGTCTGAGTGGATTTNNNATCAAATGAATCAAAACTTTCAACAACGGATCTCTAGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCCCCGGGCCTGGTGTTGGGGACCGGCTCCCCGGGGCCCGGTCTGACCCGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACATACCACCTCGCAGGCGGCGGCTCGGCGCGGCCACNGCCGTAAAACGCCCAACTT-CTCCAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_sp._PM ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCG-AACGTTGCCTCGGCGGGACCCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-CCGCCGGGGGACCCAAANNCTCCTGTATCTCTTNGCGGCATGTCTGAGTGGATTTNNNTACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTNTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCGTGCTTGGTGTTGGGGACCGGCTCCCGGGGGCCCGCCTCGCGCGGGCGCCCTGCCGCCCCCCAAATGGATCGGCGGCCACGACGCGGCCTCCCCCTGCGCAGTAACATACCACCTCGCAGGCGGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_sp._SG ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACCT-TACCC-AACGTTGCCTCGGCGGGACCCGTCN-NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN-CCGCCGGGGGACCNGAACACTCCTGTATCTCTTCGCGGCTTGTCTGAGTGGATTTTCTTACGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAGGCGCCGCGCCTGGTGTTGGGGACCGGCTCCCGGGGGGGGGCATTGCGGGGGCGCCCTGCCGCCCCCCAAATAGATCGGCGGCCACGACGCGGCCTCCCCCTGCGCAGTAACGTACCACCTCGCAGGCGGGAGCGCGGCGCGGCCACCGCCGTAAAACGCCCAACTT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCAGCTGAA Claviceps_sulcata ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGCACAGCGGTACCCGAGCCCCCCCGCAAGGGAGGCAGAGGC--GCCCGCCCGCCAGGGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCAGCGGGTGCGGGCTTCGGCCCGTCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCAGCCTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGATGAA Claviceps_viridis ATCATTACCGAGTTTACACTCCCAAACCCCCTGTGAACCTCTACCG-AACGTTGCCTCGGCGGGATGCGTCCCGGCC-CG-CCCCTCGCGGGGCG-CCGGAGCCATGGCCGCCCGCCGGGGGACCCAAACC-NNCTGTATCTCTNCGCGGCATGTCTGAGTGGATTTNNNATCAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTACTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCNNGGCTTGGTGTTGGGGACCGGCTCCCGGGGGGCCGCCACGCGCGGGCGCCCTGCCGCCCCCTAAATGGATCGGCGGCCACGCCGCGGCCTCC-CCTGCGCAGTAACGTACCANNNCGCAGGCGGCGGCTCGGCGCGGCCACTGCCGTAAAACGCACAACCT-CTCAAGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Claviceps_zizaniae ATCATTACCGAGTTTACACTCCCAAACCCACTGTGAACTTATACCCAAACGTTGCCTCGGCGGGTACCCTCGTCGACGACCCCCCTCCCACGGGGCGACAAGGA--GCCCCCCCGCCAGAGGACCAAAACTCTTCTGTATACCCTAGCGGCATGTCTGAGTGGATTTACAAACAAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCCGCGGGTGCGGGCTTCGGCCCGCCCCGTGCCGCCCCCGAAATGGATCGGCGGTCTCGTCGCANCNTTC-TTTGCGTAGTAACATACCACCTCGCAA-CAGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTTTT--AGAGTTGACCTCGAATCAGGTAGGAATACCCGCTGAA Epichloe_amarillans ATCATTACCGAGTTTACACTCCCAAAACCCCTGTGCACCTATACCCTACTGCTGCCTCGGCGGGCACGGCCGCGGAC-NGCCCCCTCGC-GGGGGCGCCGGGGC-TAGGCGCCCGCCGGGGGACCCAAACCCTTCTGTATTTTCTTACNGCATGTCTGAGTGGATTGAATATCGAATGAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATANGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCC--TGCTTGGTGTTGGGGACCGGCTCNNNNNNGCCCGCCTCGCGGCGGNNNCGNGCCGCCCCTGAAATGAATCGGCGGTCTCGTCGCAGCCTCC-TTTGCGTAGTAACACACCACCTCGCAACCGGGAGCGCGGCGCGGCCACTGCCGTAAAACGCCCAACTTCTCCAAGAGTTGACCTCGAATCAGGTAGGACTACCCGCTGAA ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = Claviceps) = N: 1-559; CODONPOSSET CodonPositions (CHARACTERS = Claviceps) = N: 1-559; END; BEGIN TREES; TITLE Tb5759; LINK TAXA = Taxa1; TRANSLATE 1 Claviceps_purpurea, 2 Claviceps_fusiformis, 3 Claviceps_sulcata, 4 Claviceps_grohii, 5 Claviceps_zizaniae, 6 Claviceps_paspali, 7 Claviceps_citrina, 8 Claviceps_sp._PM, 9 Claviceps_sp._SG, 10 Claviceps_phalaridis, 11 Claviceps_sorghicola, 12 Claviceps_viridis, 13 Claviceps_pusilla, 14 Claviceps_africana, 15 Claviceps_gigantea, 16 Claviceps_sorghi, 17 Epichloe_amarillans; TREE Fig._5 = [&R] (17,((6,(5,(4,(3,(1,2))))),(7,(10,(9,8),(11,(12,(13,(14,(15,16))))))))Claviceps); END;