#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 18, 2025; 3:07 GMT

TreeBASE (cc) 1994-2008

Study reference:
Peever T., Su G., Carpenter-boggs L., & Timmer L. 2003. Molecular systematics of
citrus-associated Alternaria species. Mycologia, 96(1): 119-134.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1002]

[ The following blocks are input data for analysis step 1731 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep1731;
        DIMENSIONS NTAX=14;
        TAXLABELS
            Alternaria_alternata_1
            Alternaria_alternata_2
            Alternaria_alternata_4
            Alternaria_arborescens
            Alternaria_citrarbusti
            Alternaria_citri
            Alternaria_gaisen
            Alternaria_limoniasperae
            Alternaria_mali
            Alternaria_perangusta
            Alternaria_tangelonis_1
            Alternaria_tangelonis_2
            Alternaria_toxicogenica
            Alternaria_turkisafria
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M569]

	TITLE endopolygalacturonase;
	LINK TAXA = TaxaForAnalysisStep1731;
	DIMENSIONS NCHAR=464;
	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    ]
[                                     .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .    ]
Alternaria_alternata_1       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCAGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACTAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCTGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGGTGGCGCTAAGGTTTACAACCA
Alternaria_alternata_2       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCAGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACTAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCTGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_alternata_4       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACCGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCTGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATCGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_arborescens       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACCGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGCTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATCGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_citrarbusti       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_citri             GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACCGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATCGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_gaisen            GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATTCGAGGAAACAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGAGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTTACCGACTCCTCCATCACCGGCATTACCATCAAGAACCCTCCTGTCCAAGTCGTTAGCATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGATGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATCGGCTCCAGCAACAACGTCATCATCGATGGCGCTAAGGTTTACAACCA
Alternaria_limoniasperae     GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAATGGAAGGGTCCCCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAATCA
Alternaria_mali              GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAATGGAAGGGTCCCCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_perangusta        GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAATGGAAGGGTCCCCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTGCCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_tangelonis_1      GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATTGAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGCGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCTCCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGATGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_tangelonis_2      GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATTGAAGGAAAGAAGATCACTGTCAAGGGCGCTGAGGGATCTGTTCTCAACGGCGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCTCCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGATGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_toxicogenica      GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGTCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAGTGGAAGGGTCCTCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAATGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTACCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
Alternaria_turkisafria       GTTCTTTCCGACGTTGCCGTCCCTTCAGGCACAACTTTGGACCTCTCTAGCCTGGCTGACGGTACTACTGTCATCTTCGAGGGTACCACCACCTGGGGCTACTCGGAATGGAAGGGTCCCCTTCTTGACATCCAAGGAAAGAAGATCACTGTCAAGGGCGCCGAGGGATCTGTTCTCAACGGTGATGGTGCTCGTTGGTGGGACGGTAAGGGTGGAAATGGTGGAAAGACCAAGCCCAAGTTCTTCTCCGCTCACAAACTGACCGACTCCACCATCACCGGCATTGCCATCAAGAACCCTCCCGTCCAAGTCGTTAGTATCAACGGCTGCGATGGTCTTACCATTACAGACATGACTATTGATGCGTCCGACGGCGACAAGGACGAGCAGGGCCACAACACAGATGGTTTCGATATTGGCTCCAGCAACAACGTCATCATTGATGGCGCTAAGGTTTACAACCA
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = endopolygalacturonase) = 
		N: 1-464;
CODONPOSSET  CodonPositions (CHARACTERS = endopolygalacturonase) = 
		N: 1-464;
END;
[ The following blocks are output data for analysis step 1731 ]
BEGIN TREES;
      TITLE Tb6507;
      LINK TAXA = TaxaForAnalysisStep1731;
      TREE Fig._3 = [&R] (Alternaria_gaisen,(((((Alternaria_alternata_4,(Alternaria_arborescens,Alternaria_citri)),((Alternaria_mali,Alternaria_limoniasperae),(Alternaria_perangusta,Alternaria_turkisafria))),(Alternaria_toxicogenica,Alternaria_citrarbusti)),(Alternaria_alternata_2,Alternaria_alternata_1)),(Alternaria_tangelonis_1,Alternaria_tangelonis_2)));
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr4123]


END;