#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 July 09, 2025; 18:03 GMT TreeBASE (cc) 1994-2008 Study reference: Guo L., Hyde K.D., & Liew E. 2001. Detection and taxonomic placement of endophytic fungi within frond tissues of Livistona chinensis based on rDNA sequences. Molecular Phylogenetics and Evolution, 20(1): 1-13. TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S683] BEGIN TAXA; TITLE 6_Clones; DIMENSIONS NTAX=24; TAXLABELS Achlya_bisexualis Chlorella_ellipsoidea Cicer_reticulatum Eurotium_rubrum Gelasinospora_nigeriensis Ginkgo_biloba Glomerella_graminicola Glomus_mosseae Lentinula_edodes Lilium_parryi Morchella_crassipes Mycosphaerella_graminicola 'P1-9' 'P2-6' 'P3-2' 'P4-4' 'P4-5' 'P4-7' Phytophthora_ilicis Pleurotus_pulmonarius Pteridium_aquilinum Puccinia_caricina Tremella_foliacea Xylaria_hypoxylon ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2262] TITLE 5.8_and_6_clones; LINK TAXA = 6_Clones; DIMENSIONS NCHAR=160; 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] [ . . . . . . . . . . . . . . . .] Achlya_bisexualis CAACTTTCAACAGTGGATGTCTAGGCTCGCACATCGATGGAGGACGCTGCGGACTGCGATACGTAATGCGATTTGAAGAAT-CAGTGAGTCACCGAAATTTGGAACGCATATTGAACTTGCGGGTT-AGCCCTGGGAGTATGTTTGTTCCAGTGTCCGTA Chlorella_ellipsoidea CAACTCTCAACAACGGATATCTTGGCTCCCGCATCGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAATTCCGTGAATCATCGAATCTTTGAACGCATATTGCGCTCGAGACCT--CGGTCAAGAGCATGTCTGGCTCAGCGTCGGCT Cicer_reticulatum TGACTCTCGGCAACGGATATCTAGGCTCTTGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGATGCCATTAGGTTGAGGGCACGTCTGCCTGGGTGTCACAT Eurotium_rubrum AAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAATTAATGTGAATTGCAGAATTCAGTGAATCATCGAGTCTTTGAACGCACATTGCGCCCCCTGGT--ATTCCGGGGGGCATGCCTGTCCGAGCGTCATTG Gelasinospora_nigeriensis AAACTTTCAACAACGGATCTCTTGGTTCCGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCTCGCCAGT--ATTCTGGCGAGCATGCCTGTTCGAGCGTCATTT Ginkgo_biloba CGACTCTCGGCAACGGATATCTTGGCTCTTACCACGATGAAGAACGTAACGAAATGCGATATTTAGTGTGAATTGTAGAATCCCATGAATCATCAAGTCTTTGAACGCAAGTTGTGGCCGAGGCT----GGT-GAGGGCACATCTACTTTGGCATTGCAT Glomerella_graminicola AAACTTTTAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGC--ATTCTGGCGGGCATGCCTGTTCGAGCGTCATTT Glomus_mosseae TCACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAGTGTGAATTGCATAATTTTGTGAATCATCGAATCTTTGAACGCAAATTGCACTCCCTGGT--ATTCCGGGGAGTATGCCTGTTTGAGGGTCGTTA Lentinula_edodes CAACTTTCAGCAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCCCTCTGGT--ATTCCG-GAGGCATGCCTGTTTGAGTGTCATTA Lilium_parryi CGACTCTCGGCAACGGATATCTCGGCTCTCGCATCGATGAAGAACGTAGCGAAATGCGATACTTGGTGTGAATTGCAGAATCCCGTGAACCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCCTTTCGGTTGAGGGCACGCCTGCCTGGGCGTCACGC Morchella_crassipes AAACTTTCAACAACGGATCTCTTGGTTCCCACATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTCTGGT--ATTCCGGAGGGCATGCCTGTTCGAGCGTCATAA Mycosphaerella_graminicola AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCCTGGT--ATTCCGGGGGGCATGCCCGTTCGAGCGTCATTA 'P1-9' TAACTTTTGACAACGGATCTCTTGGTTCTCCCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGT--ATTCCTTGGAGCATGCCTGTTTGAGTGTCATGA 'P2-6' AAACTTTTAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGC-AAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGC--ATTCTGGCGGGCATGCCTGTTCGAGCGTCATTT 'P3-2' AAACCCCTAACAACGGATGTCTTGGCTCTCGCAACGAGGAAGAACGCAGCGAAGTGCGATATGTAGTGTGAATTGCAGAATTACGTGAATCATCGAATCTTTGAACGCATATGGCACCCGAGACCT--CGGTCGAGGGTATGTCTGCCTAAGAGTCGCCG 'P4-4' AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGCGAATTGCAGAATTCCGTGAGTCATCGAATCTTTGAACGCACATTGCGGCCTTTGGC--ATTCCGAAGGGCATGCCTGTTCGAGCGTCATTA 'P4-5' AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCCGTGGT--ATTCCGCGGGGCATGCCTGTTCGAGCGTCATTT 'P4-7' AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGAACATTGCGCCCTTTGGC--ATTCCGAGGGGCATGCCCGTTCGAGCGTCATTA Phytophthora_ilicis CAACTTTCAGCAGTGGATGTCTAGGCTCGCACATCGATGAAGAACGCTGCGAACTGCGATACGTAATGCGAATTGCAGGATTCAGTGAGTCATCGAAATTTTGAACGCATATTGCACTTCCGGGTT-AGTCCTGGGAGTATGCCTGTATCAGTGTCCGTA Pleurotus_pulmonarius CAACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCCCCTTGGT--ATTCCGAGGGGCATGCCTGTTTGAGTGTCATTA Pteridium_aquilinum TGACGCTCGGCAACGGATATCTTGGCTCTTGCAACGATGAAGAACGCAGCGAAATGCGATACGTGGTGTGAATTGCAGAATTCCGTGAATCATCGAGTCTTTGAACGCAAGTTGCGCCCGAGGCTT---GTCCGAGGGCACGCCTGCCTGAGCGTCTCAC Puccinia_caricina TAACTTTTAACAATGGATCTCTTGGCTCTCACATCGATGAAGAACACAGTGAAATGTGATAAGTAATGTGAATTGCAGAATCCAGTGAATCATTGAATCTTTGAACGCATCTTGCACCTTTTGGT--ATTCCAAAAGGTACACCTGTTTGAGTGTCATGA Tremella_foliacea AAACTTTTAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCATCTTGCGCCCTTTGGT--ATTCCGAAGGGCATGCCTGTTTGAGTGTCATGA Xylaria_hypoxylon AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGT--ATTCTAGTGGGCATGCCTGTTCGAGCGTCATTT ; END; BEGIN CODONS; CODONPOSSET * CodonPositions (CHARACTERS = 5.8_and_6_clones) = N: 1-160; CODONPOSSET CodonPositions (CHARACTERS = 5.8_and_6_clones) = N: 1-160; END;