#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; 13:35 GMT

TreeBASE (cc) 1994-2008

Study reference:
Myllys L., Stenroos S., Thell A., & Ahti T. 2003. Phylogeny of bipolar Cladonia arbuscula
and Cladonia mitis (Lecanorales, Euascomycetes). Molecular Phylogenetics
and Evolution, 27(1): 58-69.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S939]

BEGIN TAXA;
        TITLE  TaxonLabelSet11007;
        DIMENSIONS NTAX=28;
        TAXLABELS
            Cladonia_arbuscula_202
            Cladonia_arbuscula_212
            Cladonia_arbuscula_215
            Cladonia_arbuscula_5122
            Cladonia_arbuscula_5124
            Cladonia_arbuscula_5300
            Cladonia_arbuscula_5323
            Cladonia_arbuscula_5372
            Cladonia_arbuscula_5429
            Cladonia_arbuscula_5471
            Cladonia_arbuscula_5536
            Cladonia_arbuscula_5537
            Cladonia_arbuscula_57095
            Cladonia_arbuscula_57256
            Cladonia_arbuscula_9910
            Cladonia_mitis_201
            Cladonia_mitis_216
            Cladonia_mitis_217
            Cladonia_mitis_218
            Cladonia_mitis_5304
            Cladonia_mitis_5339
            Cladonia_mitis_5376
            Cladonia_mitis_5381
            Cladonia_mitis_5500
            Cladonia_mitis_5501
            Cladonia_mitis_5524
            Cladonia_mitis_9915
            Cladonia_mitis_s.n.
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M446]

	TITLE 'Fig.2d, SSU rDNA intron';
	LINK TAXA = TaxonLabelSet11007;
	DIMENSIONS NCHAR=278;
	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        ]
[                                     .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .        ]
Cladonia_arbuscula_202       TAACAAGGTTTCCGTAGGTGAAC-GGTTTGCCTACCGAAGCCCTTGGCCAGCGACTCTAAAGAATTCAGCCCATAGTCGCCCC-TCCGGGGGCTGGCGACGCCGTCAATCTGTGTCTGGCAGTGCCTCTCTCAGGGGATACCATCAGCAGCTCGTTGTCCTTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACCTCGGTGGTTGAGATATGATCGGCCTCCAGTTCTCACCGAGCTGGCGAAAATTTGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_212       TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_215       TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5122      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5124      TAACAAGGTTTCCGTAGGTGATAAGGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGCTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATCTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5300      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5323      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5372      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5429      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5471      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5536      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_5537      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCTCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_57095     TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCGCTTAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-TGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAAATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_57256     TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCCCTCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGCCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_arbuscula_9910      TAACAAGGTTTCCGTAGGTGATA-GGTTTGCCTGCCGAAGCCCTGAGCCAGCGACTCTAAAGAATTCAGCC-ATAGTCGCCCC-TCCGGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGGTTGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_201           TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_216           TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_217           TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_218           TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5304          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5339          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5376          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5381          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5500          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5501          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_5524          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_9915          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAATAATTCAGCG-ATAGTCACCCC-TCCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCTTTAGGGGTTACCACCAGCAGCTCGT-CGCCCTGCGGCATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGCCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
Cladonia_mitis_s.n.          TAACAAGGTTTCCGTAGGTAATA-GGTTTGCCTGCCGAAGCCCCGAGCCAGCGACTCTAAAGAATTTAGCC-ATAGTCGCCCC-TTCAGGGGCTGGCGACGCCATCAATCTGTGTCTGGCAGTGCCTCCCTTAGGGGTTACCACCAGCAGCTCG------------CATTCGAGTTCACAGATCAAACGATAGCGGCCACTTCGGTGGTTGAGATATGATCGGTCCCCAGCTGTCACCCGGCTGGCGAGATTTAGCGGAACCTGCGGAAGGATCATTA
;
END;