#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 04, 2025; 1:50 GMT

TreeBASE (cc) 1994-2008

Study reference:
Dentinger B., & Mclaughlin D. 2006. Reconstructing the Clavariaceae using nuclear
large subunit rDNA sequences and a new genus segregated from Clavaria. Mycologia,
98(5): 746-762.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1699]

[ The following blocks are input data for analysis step 3363 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep3363;
        DIMENSIONS NTAX=11;
        TAXLABELS
            Actiniceps_laevis
            Bioluminescent_mycenoid
            Calyptella_capula
            Chaetotyphula_hyalina
            Chaetotyphula_sp._BDCR0419_2C
            Hemimycena_delicatella
            Hemimycena_ignobilis
            Mycena_adonis
            Mycena_aurantiidisca
            Pistillaria_sp._DJM1031
            Pleurotopsis_longinqua
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M910]

	TITLE Chaetotyphula_clade_28S_rDNA;
	LINK TAXA = TaxaForAnalysisStep3363;
	DIMENSIONS NCHAR=863;
	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       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710       720       730       740       750       760       770       780       790       800       810       820       830       840       850       860   ]
[                                          .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .   ]
Actiniceps_laevis                 AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGT-CTTC----GGCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGGGCTT-TGTGATGCACTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGAAATCAACCTGGTTT----ACCTGGTGTACTTTCTAGTCAATGGGTCAACATCAGTTTTGAGTGCTGGATAAAGATTAGAGGAATGTGGCATCTTCGGGTGTGTTATAGCCTTTAGTTGTATACAGCATTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGGTTTTT--ACCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGGAAAACCCGAGTGCGCAATGAAAGTGAAAGTTGAGATCTCTGTCGTGGAGAGCATCGACGCCCGGCTCAGAACTTTTGGGACGATGCCGCGGTTGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Bioluminescent_mycenoid           AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGGTCCTT-GCGGTCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTATACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGATACGGACTACCAGGGCTTTTGTGATGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGGATCAACCTTGCTCTTTTGCTTGGCGTACTTCCCAGTTGATGGGTCAGCATCAGTTTTGACTGTTGGATAAAGGTCAAGGGAATGTGGCATCTTCGGATGTGTTATAGCCTTTGGTCGTATACAGCGGTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGGTACTTGTACCACGTAACGTGCTTAGGATGCTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGGAAAACCCGAGCGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCGTGGAGAGCATCGACGCCCGGACCTGAACTTCTGTGACGGCCCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Calyptella_capula                 AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCAG-TTTC----ACTGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGTGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGTGCTT-TGTGATGCGCTCTCAAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCACGTTGGCTGGGAATCAACCTTGCTTT---GCTTGGTGTACTTTCTAGTTAATGGGTCAGCATCAGTTTTGAGTGTTGGAAAAAGATTAGGGGAATGTGGCATCTTCGGATGTGTTATAGCCCTTGGTTGTATACA-CACTTGGGACTGAGGAACTCAGCACGCCGCAAGGCTGG-TCTTCG-GACACATA-CGTGCTTAGGATGCTG-CAAAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCAAGTATTTGGGTGGAAAACTCGAATGCGAAATGAAAGTGAAAGTTGAGATCCCTGTCGCGGGGAGCATCGACGCCCGGCTCTGAGCTTTTGTGACGATGCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Chaetotyphula_hyalina             A-CTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGG-CTTT----GTCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGTTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAAGGCTT-TGTGATGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGAAATCAACCTTGTTT----ACTTGGTGTACTTTCTAGTCAATGGGTCAACATCAGTTTTGAGTGTTGGATAAAGATTAGAGGAATGTGGCATCTTCGGATGTGTTATAGCCTTTAGTTGTATACAGCATTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGG-ATTTA-TCCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGGAAAACCCGAGTGCGCAATGAAAGTGAAAGTTACGATCTCTGTCGTGGAGAGCATTGACGCCCGGCGCAGAACTTTTGGGACGCTGCCGCGGTTGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Chaetotyphula_sp._BDCR0419_2C     AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGG-CTTC----GTCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGCCACGGACTACCAGGGCTT-TGTGATGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGAATCAACCTGGTTT----ACCTGGTGTACTTCCTAGTCAATGGGTCAACATCAGTTTTGAGTGCTGGATAAAGATTAGAGGAATGTGGCATCTTCGGATGTGTTATAGCCTTTAGTTGTATACAGCATTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGGTTTTT--ACCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGGAAAACCCGAGTGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCGTGGAGAGCATCGACGCCCGGCTCAGAACTTTTGGGACGATGCCGCGGTTGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Hemimycena_delicatella            AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCCGTCTTT---GATTGCCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGGGCTT-TGTGATATGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGGGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTAAAAGGGAAACGCTTGAAGTCAGTCGCATTTACTTGAAATCAACCTTGCTTTTT-GCTTGGTGTACTTTCTTGTCGATGGGTCAACATCAGTTTTGACTGCTGGATAAAGATTAAGGGAATGTGGCATCCTCGGATGTGTTATAGCCTTTAGTTGTATACAGTAATTGGGACTGAGGAACTCAGCACGCCGAAAGGCCGGGTACTTGTACCACGTT-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGGTAAACCCATATGCGCAATGAAAGTGAAAGTTGAGATCTCTGTCGTGGAGAGCATCGACGCCCGGGTCAGACCTTTTGTGACGATTCCGCGGTTGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Hemimycena_ignobilis              AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGG-CTTT----GTCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGCCACGGACTACCAGGGCTT-TGTGATGCACTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGAATCAACCTTACTTT---GTTTGGTGTACTTCCTAGTTAATGGGTCAACATCAGTTTTGAGTGTTGGATAAAGATTGAGGGAATGTGGCATCCTCGGATGTGTTATAGCCTTTAGTTGTATACAACACTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGGTCTTTG-ACCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTATTTGGGTGGAAAACCCGAGTGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCGCGGAGAGCATCGACGCCCGGTCCAGATCTTCTGTGACGGTACCGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Mycena_adonis                     AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGGTTCTT-GCAGCCGTCCGAGTTGTAATTTAGAGAAGTGCTATCCGCGCTGGACCGTATACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGATACGGACTGCCAGGGCTT-TGTGATGTGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTAAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGGATCATCCTTGCTTTTTTGCTTGGTGTACTTCCTAGTTGATGGGTCAACATCAGTTTTGACTGTTGGATAAAGTTCAGAGGAATGTGGCATCTTTAGATGTGTTATAGCCTTTGTTCGTATACAGCAGTTGGGATTGAGGAACTCAGCACGCCGCAAGGCCGGGTATTTATACCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGGAAAACCCGAGCGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCATGGAGAGCATCGACGCCCAGACTTGAGCTTTTGCGACGGTCCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Mycena_aurantiidisca              AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGGTTCTT-GCAGCCGTCCGAGTTGTAATTTAGAGAAGTGCTATCCGCGTTGGACCGTATACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGATACGGACTGCCAAGGCTT-TGTGATGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTAAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGGATCAACCTTGCCTTTT-GCTTGGTGTACTTCCTAGTCGATGGGTCAACATCAGTTTTGATTGCTGGATAAAGTTCAGGGGAATGTGGCATCTTTAGATGTGTTATAGCCCTTGTTCGTATACAGTGGTTGGGATTGAGGAACTCAGCACGCCGCAAGGCCGGGTTTTTA-ACCACGTA-CGTGCTTAGGATGTTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGGAAAACCCGAGCGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCATGGAGAGCATCGACGCCCAGACTTGAGCTTTTGTGACGGTCCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
Pistillaria_sp._DJM1031           AACTGCGAGTGAAGCGGGAAAAGCTCAAATTTAAAATCTGGCGG--CTC----GTCGTCCGAGTTGTAATTTAGAGAAGTGTTACCCGCGTTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAAGGCTT-TGTGGTGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGG-ATCAACCTGGTTT----ACCTGGTGTACTTCCTAGTCAATGGGTCAACATCAGTTTTGA-GGCTGGAAAAAGATTGGAGGAATGTGGCATCTTCGGATGTGTTATAGCCTT-AGTTGTATACAGCATTTGGGACTGAGGAACTCAGCAC------------------------------CGTGCTTAGGATG--GGCATAATGGCTTTAATCGACCGGTCTTGAAACACGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Pleurotopsis_longinqua            AACTGCGAGTGAAGAGGGAAAAGCTCAAATTTAAAATCTGGCGGTTCTT-GCAGCCGTCCGAGTTGTAATTTAGAGAAGTGTTATCCGCGCTGGACCGTGTACAAGTCTCCTGGAATGGAGCGTCATAGAGGGTGAGAATCCCGTCTTTGACACGGACTACCAGGGCTT-TGTGATGCGCTCTCGAAGAGTCGAGTTGTTTGGGAATGCAGCTCAAAATGGGTGGTAAATTCCATCTAAAGCTAAATATTGGCGAGAGACCGATAGCGAACAAGTACCGTGAGGGAAAGATGAAAAGAACTTTGGAAAGAGAGTTAAACAGTACGTGAAATTGTTGAAAGGGAAACGCTTGAAGTCAGTCGCGTTGGCTGGGGATCAACCTTGCTTTTTTGCTTGGCGTACTTCTCAGTTGATGGGTCAGCATCAGTTTTGACCGCTGGATAAAGATTGAGGGAATGTGGCATCCTCGGATGTGTTATAGCCCTTGGTTGTATACAGCGGTTGGGACTGAGGAACTCAGCACGCCGCAAGGCCGGGTCTTTG-ACCACGTA-CGTGCTTAGGATGCTGGCATAATGGCTTTAATCGACCCGTCTTGAAACACGGACCAAGGAGTCTAACATGCCTGCGAGTGTTTGGGTGGAAAACCCGAGCGCGTAATGAAAGTGAAAGTTGAGATCTCTGTCGTGGAGAGCATTGACGCCCAGACCAGACCTTTTGTGACGGACCTGCGGTAGAGCATGTATGTTGGGACCCGAAAGATGGTGAACTATGCCTGAATAGGGTGAAGCCAGAGGAAACTCTGGTGGAGGCTCGTAGCGATTCTGACGTGCAAATCGATCGTCGAATTTGGGTATAGGGGCGA
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = Chaetotyphula_clade_28S_rDNA) = 
		N: 1-863;
CODONPOSSET  CodonPositions (CHARACTERS = Chaetotyphula_clade_28S_rDNA) = 
		N: 1-863;
END;
[ The following blocks are output data for analysis step 3363 ]
BEGIN TREES;
      TITLE Tb8136;
      LINK TAXA = TaxaForAnalysisStep3363;
      TREE Fig._5 = [&R] (Mycena_aurantiidisca,(Mycena_adonis,(Bioluminescent_mycenoid,(Pleurotopsis_longinqua,(Hemimycena_delicatella,(Hemimycena_ignobilis,(Calyptella_capula,((Chaetotyphula_hyalina,Actiniceps_laevis),Chaetotyphula_sp._BDCR0419_2C,Pistillaria_sp._DJM1031))))))));
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr2637]


END;