#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; 14:04 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  'P1-9';
        DIMENSIONS NTAX=16;
        TAXLABELS
            'Ceratobasidium oryzae-sativae'
            Cystofilobasidium_capitatum
            Gigaspora_albida
            Glomerella_graminicola
            Glomus_mosseae
            Hypocrea_rufa
            'P1-9'
            Phaffia_rhodozyma
            Pleospora_herbarum
            Saccharomyces_cerevisiae
            Sorosporium_saponariae
            Sporisorium_sorghi
            Thanatephorus_cucumeris
            Ustilago_vaillantii
            Xanthophyllomyces_dendrorhous
            Xylaria_hypoxylon
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2269]

	TITLE '5.8S P1-9';
	LINK TAXA = 'P1-9';
	DIMENSIONS NCHAR=158;
	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        ]
[                                          .         .         .         .         .         .         .         .         .         .         .         .         .         .         .        ]
'Ceratobasidium oryzae-sativae'   AAAGTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATTCCTTGGAGCATGCCTGTTTGAGTATCATGA
Cystofilobasidium_capitatum       TAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCATCTTGCGCTCTTTGGTATTCCGAAGAGCATGCCTGTTTGAGTGTCATGA
Gigaspora_albida                  AAACTTTCAACAATGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATATGAATTGCAGAATTCCGTGAATCATCAAATTTTTGAACGCAAATTGCACTTCTTGGTATTCCAAGGAGTACACATGCTTGAGGGTCGTTA
Glomerella_graminicola            AAACTTTTAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGCATTCTGGCGGGCATGCCTGTTCGAGCGTCATTT
Glomus_mosseae                    TCACTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAGTGTGAATTGCATAATTTTGTGAATCATCGAATCTTTGAACGCAAATTGCACTCCCTGGTATTCCGGGGAGTATGCCTGTTTGAGGGTCGTTA
Hypocrea_rufa                     AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTCCGAGCGTCATTT
'P1-9'                            TAACTTTTGACAACGGATCTCTTGGTTCTCCCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATTCCTTGGAGCATGCCTGTTTGAGTGTCATGA
Phaffia_rhodozyma                 AAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATGA
Pleospora_herbarum                CAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATACGTAGTGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCTTTGGTATTCCAAAGGGCATGCCTGTTCGAGCGTCATTT
Saccharomyces_cerevisiae          AAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAAATGCGATACGTAATGTGAATTGCAGAATTCCGTGAATCATCGAATCTTTGAACGCACATTG-?CCCCTTGGTATTCCAGGGGGCATGC-TGTTTGAGCGTCATTT
Sorosporium_saponariae            CAACTTTCGGCAACGGATCTCTAGGTTCTCCTATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGACATCAGTGAATCATCGAATCTTTGAACGCATCTTGCGCCCTTTGGTATTCCTTAGGGCATGCCTGTTTGAGTGTCACGA
Sporisorium_sorghi                CAACTTTTGGCAACGGATCTCTTGGTTCTCCCATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGA----AGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCCTGCTAATCTGGGGAGCATGCCTGTTTGAGGGCCGCGA
Thanatephorus_cucumeris           TAAGTTTCAACAACGGATCTCTTGGCTCTCGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATTCCTTGGAGCATGCCTGTTTGAGTATCATGA
Ustilago_vaillantii               CAACTTTCGGCAATGGACCTCTTGGTTCTCCTATCGATGAAAAACCCAGCGAATTGCAATAAGTAATGTGAATTGCAAAATTCATTGAACCATTGATTTTTTGAACGCATCTTGCCCCCTTTGGTATTCCTTAGGGCATGCCTGTTTGAGTGTCATGA
Xanthophyllomyces_dendrorhous     AAACTTTCAACAACGGATCTCTTGGTTCTCGCATCGATGAAGAACGCAGCGAATTGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACCTTGCGCTCCTTGGTATTCCGAGGAGCATGCCTGTTTGAGTGTCATGA
Xylaria_hypoxylon                 AAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCGAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCATTAGTATTCTAGTGGGCATGCCTGTTCGAGCGTCATTT
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = '5.8S P1-9') = 
		N: 1-158;
CODONPOSSET  CodonPositions (CHARACTERS = '5.8S P1-9') = 
		N: 1-158;
END;