#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 January 19, 2026; 11:39 GMT

TreeBASE (cc) 1994-2008

Study reference:
Tsutsumi C., Yatabe Y., Hirayama Y., Chiou W., & Kato M. 2021. Molecular analyses
of the disjunctly distributed Osmunda regalis and O. japonica (Osmundaceae), with
particular reference to introgression and hybridization. Plant Systematics and
Evolution, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S26988]

[ The following blocks are input data for analysis step 27357 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep27357;
        DIMENSIONS NTAX=16;
        TAXLABELS
            Claytosmunda_claytoniana_CL1
            Claytosmunda_claytoniana_CL2_USA_Japan
            Osmunda_hybrida_H1H4
            Osmunda_japonica_J1J2J3J4J5J6J7J8
            Osmunda_lancea_L1L2
            Osmunda_lancea_L3
            Osmunda_regalis_Ger
            Osmunda_regalis_R10
            Osmunda_regalis_R11R12
            Osmunda_regalis_R13R14R15R16R17R18USA
            Osmunda_regalis_R1R2R3H2H3H5
            Osmunda_regalis_R4
            Osmunda_regalis_R5R6R7R8R9NI
            Plenasium_banksiifolium
            Plenasium_javanicum
            Plenasium_vachellii
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M56330]

	TITLE Osmundaceae_trnLF;
	LINK TAXA = TaxaForAnalysisStep27357;
	DIMENSIONS NCHAR=413;
	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   ]
[                                                   .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .   ]
Claytosmunda_claytoniana_CL1               --------AAGATGAATCTCGTTCGGAAGATTCATTTTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TATATA---GAACTCGGAATTGGGGCTATAGAATCTGGATTTCTATATATATTTCTTCTATTTCCCC-----------TATCTAAAATGCACGTTCATCTTCTTCACTCATTTCTGCATCAAATGGAATTAATAACTCGTTCTATTCTTTCTACACCAAATGTACCACAAATGAACCATTAGGTAAATCTACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCAATATGTTTCTCATTCTCCCTCTGATTGACGGAAAACAGGAATTTGTAATACAATATA
Claytosmunda_claytoniana_CL2_USA_Japan     AACTGAGCAAGATGAATCTCGTTCGGAAGATTCATTTTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TATATA---GAACTCGGAATTGGGGCTATAGAATCTGGATTTCTATATATATTTCTTCTATTTCCCC-----------TATCTAAAATGCACGTTCATCTTCTTCACTCATTTCTGCATCAAATGGAATTAATAACTCGTTCTATTCTTTCTACACCAAATGTACCACAAATGAACCATTAGGTAAATCTACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCAATATGTTTCTCATTCTCCCTCTGATTGACGGAAAACAGGAATTTGTAATACAATATA
Osmunda_hybrida_H1H4                       AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAAATAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCAATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_japonica_J1J2J3J4J5J6J7J8          AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATTTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_lancea_L1L2                        AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATTTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCAATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_lancea_L3                          AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAAATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATTTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_regalis_Ger                        AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCCGGCAGATTCTCTGGTACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTC------------------------------------
Osmunda_regalis_R10                        AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCCGGCAGATTCTCTGGTACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTAGAATACAATATA
Osmunda_regalis_R11R12                     AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGGCAGATTCTCTGGTACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCT-ATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_regalis_R13R14R15R16R17R18USA      AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATTTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-CCGGATATCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_regalis_R1R2R3H2H3H5               AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_regalis_R4                         -----------------------------------------------------------------------------------------------------------------------------AATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Osmunda_regalis_R5R6R7R8R9NI               AACTGAGCAAGACGAATATCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAGATTCATTCAATAGTATTTATTCAATCCATCAGATTCTCCGGCAGATTCTCTGGTACATAAGGGAACTCGGAATTGGGGCTATAGAATCTGGATCTCCATAT-TATTTCTTCTATTTTCCCTATCTAAAATCTATCTAAAATGCACGTTCAATCTCTTCACTCATTGCTCCATCAAATGGAATTAATAACTCGTTCTCTTCTTTCTAC-CCGGATGTCCCACAAATGAACCATTAGGAAAATCCACAAGATTCTATCAATGGTTCATTTATGGATTCTGGATAAGGAATAATAGCTTTCCCGATATGTTTCTCATTCTCCGTCTGATTGACAGAGAACAAGAATTTATAATACAATATA
Plenasium_banksiifolium                    AACTGAGCAAGATGAATCTCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAAATTCATTTAATAGTAGTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGTACTTGGAGTTGGGGCTATAGAATCTAGATCTCCATCTATATTTCTTCTATTTCCCG---------TGTATCTAGAATACACGTTCATTTTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-TCGGATATCCCACAAATGAACCATTAGGAAAATCTACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAAGAGCTTTCCCAATATGTTTCTCATTCGCCCTATGATTGACGGAGAACAGGAATTTCTAATACAATAAA
Plenasium_javanicum                        AACTGAGCAAGATGAATCTCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAAATTCATTTAATAGTAGTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGTACTTGGAGTTGGGGCTATAGAATCTAGATCTCCATCTATATTTCTTCTATTTCCCG---------TGTATCTAGAATACACGTTCATTTTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-TCGGATATCCCACAAATGAACCATTAGGAAAATCTACAAGATTCTATCAATGGTTCATTTATGGATTCTCGAGAAGGAATAAGAGCTTTCCCAATATGTTTCTCATTCGCCCTATGATTGACGGAGAACAGGAATTTCTAATACAATAAA
Plenasium_vachellii                        AACTGAGCAAGATGAATCTCGTTCGGAAGATTGATTCTGAGTCATGATGGATCAAATTCATTTAATAGTAGTTATTCAATCCATCAGATTCTCTGG------------TACATAAGGGTACTTGGAGTTGGGGCTATAGAATCTAGATCTCCATCTATATTTCTTCTATTTCCCG---------TGTATCTAGAATACACGTTCATTTTCTTCACTCATTGCTCCATCAAATGGAATTAATACCTCGTTCTCTTCTTTCTAC-TCGGATATCCCACAAATGAACCATTAGGAAAATCTACAAGATTCTATCAATGGTTCATTTATGGATTCTGGAGAAGGAATAAAAGCTTTCCCAATATGTTTCTCATTCGCCCTATGATTGACGGAGAACAGGAATTTCTAATACAATGAA
;
END;

[ The following blocks are output data for analysis step 27357 ]
BEGIN TREES;
      TITLE Osmundaceae_trnLF;
      LINK TAXA = TaxaForAnalysisStep27357;
      TREE con_50_majrule = [&R] ((Claytosmunda_claytoniana_CL1:0.001256508,Claytosmunda_claytoniana_CL2_USA_Japan:0.001244996):0.015333745,((Plenasium_banksiifolium:0.001196249,Plenasium_javanicum:0.002906157,Plenasium_vachellii:0.004444161):0.03561354,(Osmunda_lancea_L1L2:0.001516412,(Osmunda_japonica_J1J2J3J4J5J6J7J8:0.001201305,Osmunda_lancea_L3:0.002864073,Osmunda_regalis_R13R14R15R16R17R18USA:0.002845157,(Osmunda_regalis_R11R12:0.002841207,Osmunda_regalis_R4:0.001472584,Osmunda_regalis_R1R2R3H2H3H5:0.001191858,Osmunda_hybrida_H1H4:0.004428353,(Osmunda_regalis_R10:0.002442265,Osmunda_regalis_R5R6R7R8R9NI:0.001176128,Osmunda_regalis_Ger:0.001242997):0.002614556):0.006282358):0.002798969):0.01916109):0.015333745);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr126285]


END;