#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 01, 2025; 8:00 GMT

TreeBASE (cc) 1994-2008

Study reference:
Shaffer J.P., Sarmiento C., Zalamea P., Gallery R.E., Davis A.S., Baltrus D.A., &
Arnold A. 2016. Diversity, specificity, and phylogenetic relationships of endohyphal
bacteria in fungi that inhabit tropical seeds and leaves. Frontiers in Ecology
and Evolution, 4(116).

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S19714]

[ The following blocks are input data for analysis step 19290 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep19290;
        DIMENSIONS NTAX=15;
        TAXLABELS
            'Fusarium_concolor_*_DQ767593.1'
            'Fusarium_concolor_*_GQ505763.1'
            'Fusarium_oxysporum_f._sp._rapae_*_AB586994.1'
            'Fusarium_oxysporum_f._sp._raphani_*_AB586993.1'
            'Fusarium_polyphialidicum_*_FJ884098.1'
            'Fusarium_sp._*_EF687946.1'
            'Fusarium_sp._*_KF746127.1'
            'P0057_Fusarium_*_Psychotria_limonensis_BCI_*_EF687946.1'
            'P0150B_Fusarium_*_Garcinia_madruno_BCI_*_KF746127.1'
            'P0178B_Fusarium_*_Chrysophyllum_cainito_BCI_*_KF746127.1'
            'P0179B_Fusarium_*_Chrysophyllum_cainito_BCI_*_EF687946.1'
            'P0265_Fusarium_*_Hybanthus_prunifolius_BCI_*_FJ884098.1'
            'P0305_Fusarium_*_Xylopia_macrantha_BCI_*_EF687946.1'
            'P0451_Fusarium_*_Eugenia_oerstediana_BCI_*_KF746127.1'
            'P0538_Fusarium_*_Chrysophyllum_argenteum_BCI_*_EF687946.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M38338]

	TITLE 'Fusarium concolor / Hypocreales';
	LINK TAXA = TaxaForAnalysisStep19290;
	DIMENSIONS NCHAR=469;
	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       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460         ]
[                                                                      .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         ]
'Fusarium_concolor_*_DQ767593.1'                              TCCCAAACCCCTGTGAACATACCTTAATGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGA--CCCAAACTCTAATGTTTCTTA-TTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCTACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCTGGTATTCCGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCCCGGGTTTGGTATTGGGGATCGGCTCTGCCCTTCTGGGC-GGTGC--------CGCCCCCGAAATACATTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTAACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTAAAA-CCCCAACTT-
'Fusarium_concolor_*_GQ505763.1'                              TCCCAAACCCCTGTGAACATACCTATTTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGACCCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTCG-----------TGAGGTAAACTCA-------CGGTCCCCAAATTGATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'Fusarium_oxysporum_f._sp._rapae_*_AB586994.1'                TCCCAAACCCCTGTGAACATACCAC-TTGTTGCCTCGGCGGATCAGCCCGCTCCCGGTAAAACGGGACGGCCCGCCAGAGGACCCCTAAACTCTG----TTTCTATATGTAACTTCTGAGTAAAAC-CATAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCTCGGGTTTGGTGTTGGGGATCG-----------GCGAGC-CCTTGCGGCAAGCCGGCCCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGTAAAACCCTCGCAACTGGAACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTT-
'Fusarium_oxysporum_f._sp._raphani_*_AB586993.1'              TCCCAAACCCCTGTGAACATACCAC-TTGTTGCCTCGGCGGATCAGCCCGCTCCCGGTAAAACGGGACGGCCCGCCAGAGGACCCCTAAACTCTG----TTTCTATATGTAACTTCTGAGTAAAAC-CATAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCCCTCGGGTTTGGTGTTGGGGATCG-----------GCGAGC-CCTTGCGGCAAGCCGGCCCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGTAAAACCCTCGCAACTGGAACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTT-
'Fusarium_polyphialidicum_*_FJ884098.1'                       TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTCG-----------TGGAGC-AATCCA-------CGGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'Fusarium_sp._*_EF687946.1'                                   TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'Fusarium_sp._*_KF746127.1'                                   TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0057_Fusarium_*_Psychotria_limonensis_BCI_*_EF687946.1'     TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0150B_Fusarium_*_Garcinia_madruno_BCI_*_KF746127.1'         TCCC-AGCCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0178B_Fusarium_*_Chrysophyllum_cainito_BCI_*_KF746127.1'    TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0179B_Fusarium_*_Chrysophyllum_cainito_BCI_*_EF687946.1'    TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0265_Fusarium_*_Hybanthus_prunifolius_BCI_*_FJ884098.1'     TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTCG-----------TGGAGC-AATCCA-------CGGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0305_Fusarium_*_Xylopia_macrantha_BCI_*_EF687946.1'         TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0451_Fusarium_*_Eugenia_oerstediana_BCI_*_KF746127.1'       TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
'P0538_Fusarium_*_Chrysophyllum_argenteum_BCI_*_EF687946.1'   TCCCAAACCCCTGTGAACATACCTA-TTGTTGCCTCGGCGGATCAGCCCGGCCCCGGTAAAACGGGACGGCCCGCCAGAGGA-CCCTAAACTCTG----TTTTTA-GTGTAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCAC---AGCTTGGTGTTGGGATTTG-----------CGGAGT-AATTCG-------CAGTCCCCAAATCTATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATTACA-CCTCGTTACTGGTAATCGTCGCGGCCACGCCGTTAAA-CCCCAACTT-
;
END;

[ The following blocks are output data for analysis step 19290 ]
BEGIN TREES;
      TITLE 'Fusarium concolor - ITS MLT';
      LINK TAXA = TaxaForAnalysisStep19290;
      TREE 'Fusarium concolor - ITS ML Tree' = [&R] (('P0178B_Fusarium_*_Chrysophyllum_cainito_BCI_*_KF746127.1':2.0E-6,('P0179B_Fusarium_*_Chrysophyllum_cainito_BCI_*_EF687946.1':2.0E-6,('P0538_Fusarium_*_Chrysophyllum_argenteum_BCI_*_EF687946.1':2.0E-6,(('P0451_Fusarium_*_Eugenia_oerstediana_BCI_*_KF746127.1':2.0E-6,'Fusarium_sp._*_EF687946.1':2.0E-6):2.0E-6,('P0305_Fusarium_*_Xylopia_macrantha_BCI_*_EF687946.1':2.0E-6,'P0057_Fusarium_*_Psychotria_limonensis_BCI_*_EF687946.1':2.0E-6):2.0E-6):2.0E-6):2.0E-6):2.0E-6):2.0E-6,('P0150B_Fusarium_*_Garcinia_madruno_BCI_*_KF746127.1':0.006369,('Fusarium_concolor_*_GQ505763.1':0.034747,(('Fusarium_polyphialidicum_*_FJ884098.1':2.0E-6,'P0265_Fusarium_*_Hybanthus_prunifolius_BCI_*_FJ884098.1':2.0E-6):2.0E-6,('Fusarium_concolor_*_DQ767593.1':0.254555,('Fusarium_oxysporum_f._sp._raphani_*_AB586993.1':2.0E-6,'Fusarium_oxysporum_f._sp._rapae_*_AB586994.1':2.0E-6):0.086759):0.319411):0.012341):0.027077):2.0E-6,'Fusarium_sp._*_KF746127.1':2.0E-6);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr98680]


END;