#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; 7:59 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 19288 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep19288;
        DIMENSIONS NTAX=12;
        TAXLABELS
            '10399_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1'
            '10454_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1'
            'Endophyte_MS513_*_Amazonia_Hevea_sp._*_JX155911.1'
            'Fusarium_equiseti_*_AB586999.1'
            'Fusarium_equiseti_*_AB587000.1'
            'Fusarium_lateritium_*_AF310982.1'
            'Fusarium_lateritium_*_KC787693.1'
            'Fusarium_lateritium_*_herb_Thailand_*_AY266406.1'
            'Fusarium_sp._*_China_*_HM631978.1'
            'Fusarium_sp._*_KF746096.1'
            'Fusarium_sp._*_ant_nest_South_Africa_*_KJ817322.1'
            'Seed-associated_B141_*_C._insignis_Panama_*_FJ612934.1'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M38341]

	TITLE 'Fusarium lateritium / Hypocreales';
	LINK TAXA = TaxaForAnalysisStep19288;
	DIMENSIONS NCHAR=471;
	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       470 ]
[                                                                   .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         . ]
'10399_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1'    TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAATCCGTCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTTAAACACCCAACTTCTGAATGTTGACCTCG-
'10454_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1'    TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAATCCGTCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTTAAACACCCAACTTCTGAATG-TGACCTCG-
'Endophyte_MS513_*_Amazonia_Hevea_sp._*_JX155911.1'        TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCTCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAATCCGTCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTTAAACACCCAACTTCTGAATGTTGACCTCG-
'Fusarium_equiseti_*_AB586999.1'                           TCCCAAACCCCTGTGAACATACCTATACGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAAAGGGACGGCCCGCCCGAGGACCCCTAAACTCTGTT---TTTAGTGGAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC---AGCTTGGTGTTGGGACTCG------CGGTAACCCG--CGTTCCCCAAATCGATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATCATACACCTCGTTACTGGTAATCGTCGCGGCCACGCCGTAAAAC-CCCAACTTCTGAATGTTGACCTCG-
'Fusarium_equiseti_*_AB587000.1'                           TCCCAAACCCCTGTGAACATACCTATACGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAAAGGGACGGCCCGCCCGAGGACCCCTAAACTCTGTT---TTTAGTGGAACTTCTGAGTAAAACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAGCTC---AGCTTGGTGTTGGGACTCG------CGGTAACCCG--CGTTCCCCAAATCGATTGGCGGTCACGTCG-AGCTTCCATAGCGTAGTAATCATACACCTCGTTACTGGTAATCGTCGCGGCCACGCCGTAAAAC-CCCAACTTCTGAATGTTGACCTCG-
'Fusarium_lateritium_*_AF310982.1'                         TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCCA-AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGAGATCGGTTAGCTTCTGCTCA--CCGGCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGATA-ACACCTCGCAACTGGAACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTTCTGAATGTTGACCTCG-
'Fusarium_lateritium_*_KC787693.1'                         TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAGTCCGGCCCCGAAATCTAGTGGCGGTCACGCTGCAGCTTCCATTGCGTAGTAGATA-ACACCTCGCAACTGGTACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTTCTGAATGTTGACCTCG-
'Fusarium_lateritium_*_herb_Thailand_*_AY266406.1'         TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGGC---TGCTAGTCAGCCCGGCCCCGAAATCTAGTGGCGGTCACGCTGCAGCTTCCATTGCGTAGTAGATA-ACACCTCGCAACTGGTACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTTCTGAATGTTGACCTCG-
'Fusarium_sp._*_China_*_HM631978.1'                        TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAC---TGCTAGTCAGCCCGGCCCCGAAATCTAGTGGCGGTCACGCTGCAGCTTCCATTGCGTAGTAGATA-ACACCTCGCAACTGGTACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTTCTGAATGTTGACCTCG-
'Fusarium_sp._*_KF746096.1'                                TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCTCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAATCCGTCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTTAAACACCCAACTTCTGAATGTTGACCTCG-
'Fusarium_sp._*_ant_nest_South_Africa_*_KJ817322.1'        TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCTCCCCGTAACACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGATG--GATTCGTCCAGCCGGCCCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCAAGCCGTTAAACCCCCAACTTCTGAATGTTGACCTCG-
'Seed-associated_B141_*_C._insignis_Panama_*_FJ612934.1'   TCCCAAACCCCTGTGAACATACCTTATTGTTGCCTCGGCGGATCAGCCCGCGCCCCGTAAAACGGGACGGCCCGCCAGAGGACCC--AAACTCTATTGTATTTAGTGTATCTTCTGAGTAACACAAACAAATAAATCAAAACTTTCAACAACGGATCTCTTGGTTCTGGCATCGATGAAGAACGCAGCAAAATGCGATAAGTAATGTGAATTGCAGAATTCAGTGAATCATCGAATCTTTGAACGCACATTGCGCCCGCCAGTATTCTGGCGGGCATGCCTGTTCGAGCGTCATTTCAACCCTCAAACCCCCGGGTTTGGTGTTGGGGATCGGAT---TGCTAGTCAATCCGTCTCCGAAATCTAGTGGCGGTCTCGCTGCAGCCTCCATTGCGTAGTAGCTA-ACACCTCGCAACTGGAACGCGGCGCGGCCATGCCGTTAAACACCCAACTTCTGAATGTTGACCTCG-
;
END;

[ The following blocks are output data for analysis step 19288 ]
BEGIN TREES;
      TITLE 'Fusarium lateritium - ITS MLT';
      LINK TAXA = TaxaForAnalysisStep19288;
      TREE 'Fusarium lateritium - ITS ML Tree' = [&R] (('Fusarium_sp._*_China_*_HM631978.1':1.0E-6,('Fusarium_lateritium_*_herb_Thailand_*_AY266406.1':1.0E-6,('Fusarium_equiseti_*_AB586999.1':1.0E-6,'Fusarium_equiseti_*_AB587000.1':1.0E-6):0.691708):0.010149):0.020265,('Fusarium_lateritium_*_AF310982.1':0.063877,('Fusarium_sp._*_ant_nest_South_Africa_*_KJ817322.1':0.100241,(('Endophyte_MS513_*_Amazonia_Hevea_sp._*_JX155911.1':1.0E-6,'Fusarium_sp._*_KF746096.1':1.0E-6):0.009793,(('10399_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1':1.0E-6,'Seed-associated_B141_*_C._insignis_Panama_*_FJ612934.1':1.0E-6):1.0E-6,'10454_Fusarium_*_C._insignis_BCI_[12-12]_*_KF746096.1':1.0E-6):1.0E-6):0.034944):0.011243):0.047884,'Fusarium_lateritium_*_KC787693.1':1.0E-6);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr98710]


END;