#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 May 13, 2024; 12:51 GMT

TreeBASE (cc) 1994-2008

Study reference:
Van poucke K., Franceschini S., Webber J.F., Vercauteren A., Judith T., Mccracken
A.R., Heungens K., & Brasier C. 2012. Discovery of a fourth evolutionary lineage
of Phytophthora ramorum: EU2. Fungal Biology, 116(11): 1178-1191.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S12540]

[ The following blocks are input data for analysis step 8869 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep8869;
        DIMENSIONS NTAX=9;
        TAXLABELS
            Phytophthora_hibernalis
            Phytophthora_lateralis
            Phytophthora_ramorum_EU1a
            Phytophthora_ramorum_EU1b
            Phytophthora_ramorum_EU2
            Phytophthora_ramorum_NA1a
            Phytophthora_ramorum_NA1b
            Phytophthora_ramorum_NA2a
            Phytophthora_ramorum_NA2b
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M14321]

	TITLE alignment_Avh121;
	LINK TAXA = TaxaForAnalysisStep8869;
	DIMENSIONS NCHAR=399;
	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         ]
[                                      .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         ]
Phytophthora_hibernalis       ATGCGTATGAACTAGTTGCTTCTGTTAGTGGTTGCCACCTTCGTTGTGCACTGCAATCCTATCGCGGCTGCCGAACGTTCGATCCAAGCTAACTCCTTGGTGACCGAAGCCATCGCCGAATCTGCTACCACCGGCCATCGCTATCTCAAGGGGAGCAAGACGGCAACAGATTTGGATGCAGCGGACGAAGAGAGAATTGGTGCCACTACTCCTAAGTTTGGCATGCTCAAAGGTTTGTTCAGGCTTCCAAAGTTCAAGAATCTCTCGAAGCTTCCTTTGGTCAAGCAGGTCGCTGCAATTAGCAAGAAGTTC------------GGCAACAAGGTTGGAGATGTATACCTGAAGTGGGCGAAGAAGCGCTACGAGTCCAACCCGCAGAACTTCATGTAA
Phytophthora_lateralis        ATGCGTATGAACCAGTTCCTTCTGTTAGTGGTCGCCACCTTCATTGCGTGCTGCAGTACCCTCGCGGACGCTGAACGCTCCATACAAGTTAACACCTTGACGACCGACTCCATCACCGAATCTGCTACCGAAGGCCACCGCTATCTCAAGGGGAGCAAAGCAACAACTGATTTGGATACTGTGGACGAAGAGCGAATTGGTGCCACTACCCCTAACTTTGGCATACTCAAAGCTTTGTTCAAGCTTCCGAAATTCGAGAGTCTCTCGAAGCTTCCTGTGATCAAGCAGCTCGCTGCGGCTAAAAAGAAGTTC------------GGCAAGAAGATTGTTGATTATTACCTGAAGAGGGAGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_EU1a     ATGCGCATGAACCAGTTGCTTCTGTTAGTGATCGCCATCTTCATTGCGCGCTGCAGTACTCTCGCGGACGCTGAACGCTCTATCCAAGTTGACACCTTGGCGACCGACTCCATCACCGAATCTGCTACCGTAGGCCACCGCTATCTCAAGGGGATCAAAACGGCAACTGCTTTGGACACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCGAAAGTCTCTCGAAACTTCCTTTGGTCAAGCAGCTCGTTGCAATTCAAAAGAAGGTCGGCAAGAAGGTCGGCAAGAAGATTGGTGATATATACCTGAAGTGGACGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_EU1b     ATGCGCATGAACCAGTTGCTTCTGTTAGTGATCGCCATCTTCATTGCGCGCTGCAGTACTCTCGCGGACGCTGAACGCTCTATCCAAGTTGACACCTTGGCGACCGACTCCATCACCGAGTCTGCTACCGTAGGTCACCGCTATCTCAAGGGGATCAAAACGGCAACTGCTTTGGACACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCGAAAGTCTCTCGAAGCTTCCTGTAATCAAGCAGCTCATTGCGGCTAAAAAGAAGTTC------------GGCACGAAGATTGTTGATAGTTACCTGAAGAGGGAGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_EU2      ATGCGCATGAACCAGTTGCTTCTGTTAGTGATCGCCATCTTCATTGCGCGCTGCAGTACTCTCGCGGACGCTGAACGCTCTATCCAAGTTGACACCTTGGCGACCGACTCCATCACCGAGTCTGCTACCGTAGGTCACCGCTATCTCAAGGGGATCAAAACGGCAACTGCTTTGGACACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCGAAAGTCTCTCGAAGCTTCCTGTAATCAAGCAGCTCATTGCGGCTAAAAAGAAGTTC------------GGCACGAAGATTGTTGATAGTTACCTGAAGAGGGAGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_NA1a     ATGCGTATGAACCAGTTGCTTTTGTTAGTGATCGCCACCTTCATTGCGCGCTGCAGTACTCTCACGGACGCTGAACGCTCCATCCAAGTTGACACCTTGGCGACCGACTCCATCACCGAATCTGCTATCGAAGGTCACCGCTATCTCAAGGGGAGCAAAACGACAACAGCTTTGGATACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCCAGAGTCTCTCGAAACTTCCTTTGGTCAAGCAGCTCGTTGCAATTCAAAAGAAGGTCGGCAAGAAGGTCGGCAAGAAGATTGGTGATATATACCTGAAGTGGACGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_NA1b     ATGCGTATGAACCAGTTGCTTTTGTTAGTGATCGCCACCTTCATTGCGCGCTGCAGTACTCTCACGGACGCTGAACGCTCCATCCAAGTTGACACCTTAGCGACCGACTCCATCACCGATTCTGCTATCGAAGGTCACCGCTATCTCAAGGGGAGCAAAACGACAACAGCTTTGGATACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCGAAAGTCTCTCGAAACTTCCTTTGGTCAAGCAGCTCGTTGCAATTCAAAAGAAGGTCGGCAAGAAGGTCGGCAAGAAGATTGGTGATATATACCTGAAGTGGGCGAAGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_NA2a     ATGCGTATGAACCAGTTGCTTTTGTTAGTGATCGCCACCTTCATTGCGCGCTGCAGTACTCTCACGGACGCTGAACGCTCCATCCAAGTTGACACCTTAGCGACCGACTCCATCACCGATTCTGCTATCGAAGGTCACCGCTATCTCAAGGGGAGCAAAACGACAACAGCTTTGGATACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCGAAAGTCTCTCGAAACTTCCTTTGGTCAAGCAGCTCGTTGCAATTCAAAAGAAGGTCGGCAAGAAGGTCGGCAAGAAGATTGGTGATATATACCTGAAGTGGGCGAAGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
Phytophthora_ramorum_NA2b     ATGCGTATGAACCAGTTGCTTTTGTTAGTGATCGCCACCTTCATTGCGCGCTGCAGTACTCTCACAGACGCTGAACGCTCCATCCAAGTTGACACCTTAGCGACCGACTCCATCACCGATTCTGCTATCGAAGGTCACCGCTATCTCAAGGGGAGCAAAACGACAACAGCTTTGGATACAGTGGACGAAGAGAGAATTGGTGCCACTACCCCTAACTTTGGCATGCTCAAAGGCTTGTTCAAGCTTCCAAAATTCCAAAGTCTCTCGAAACTTCCTTTGGTCAAGCAGCTCGTTGCAATTCAAAAGAAGGTCGGCAAGAAGGTCGGCAAGAAGATTGGTGATATATACCTGAAGTGGACGAGGAAGCGCTACGAGTCGAACCCGCAGAACTTCATGTAA
;
END;

[ The following blocks are output data for analysis step 8869 ]
BEGIN TREES;
      TITLE Avh121;
      LINK TAXA = TaxaForAnalysisStep8869;
      TREE Fig._3_Avh121 = [&R] ((((Phytophthora_ramorum_NA2a:0.0,Phytophthora_ramorum_NA1b:0.0)0.9590:0.00796545,Phytophthora_ramorum_NA2b:0.00263848)0.6370:0.00612293,Phytophthora_ramorum_NA1a:0.00195115)0.7520:0.02097264,(Phytophthora_ramorum_EU1a:0.0,((Phytophthora_ramorum_EU2:0.0,Phytophthora_ramorum_EU1b:0.0)0.9900:0.00980647,Phytophthora_lateralis:0.09122983)0.8840:0.04647537)0.6210:0.01661268,Phytophthora_hibernalis:0.20214305);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr57176]


END;