#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 April 19, 2024; 16:35 GMT

TreeBASE (cc) 1994-2008

Study reference:
Kubo H. 2009. Isolation of madA homologs in Pilobolus crystallinus. Mycoscience,
50(5): 400-406.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S10008]

[ The following blocks are input data for analysis step 5040 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep5040;
        DIMENSIONS NTAX=17;
        TAXLABELS
            Arabidopsis_thaliana_PHOT1
            Bipolaris_oryzae
            Coprinopsis_cinerea
            Gibberella_fujikuroi
            Hypocrea_jecorina
            Lentinula_edodes
            Mucor_circinelloides_MCWC1A
            Mucor_circinelloides_MCWC1B
            Mucor_circinelloides_MCWC1C
            Neurospora_crassa
            Phycomyces_blakesleeanus_MADA
            Phycomyces_blakesleeanus_WCOA
            Phycomyces_blakesleeanus_WCOB
            Pilobolus_crystallinus_PCMADA1
            Pilobolus_crystallinus_PCMADA2
            Pilobolus_crystallinus_PCMADA3
            Tuber_borchii
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M4411]

	TITLE PCMADA;
	LINK TAXA = TaxaForAnalysisStep5040;
	DIMENSIONS NCHAR=124;
	FORMAT DATATYPE=Protein SYMBOLS= "A C D E F G H I K L M N P Q R S T V W Y" MISSING=- GAP= #;

MATRIX
[                                          10        20        30        40        50        60        70        80        90        100       110       120    ]
[                                           .         .         .         .         .         .         .         .         .         .         .         .    ]
Arabidopsis_thaliana_PHOT1         QTFVVSDATKPDYPIMYASAGFFNMTGYTSKEVVGRNCRFLQGSG------------TDADELAKIRETLAAGNNYCGRILNYKKDGTSFWNLLTIAPIKDESGK-------VLKFIGMQVEVS
Bipolaris_oryzae                   CAFVVCDAELDDIPIVYCSENFERLTGYTRHMILGRNCRFLQAPDGKVESGIKR-NYVDDDSVYYLKNMIENRAEAQISLINYRRGGQPFMNLLTMIPIAWEPGGK------TKFFIGFQVDLV
Coprinopsis_cinerea                CSFVVVDTRRQDHPIVYCSPSFLKLTGYPEDEVIGRNCRFLQSPTGKMEQGEPRPDPATQTAAAQMKKCLNADKECQLVLTNYRKDGTPFTNLVTVIPIPGGLTGAAHEENEVVFHVGFQVDMT
Gibberella_fujikuroi               CAFVVCDVSMNDCPIIYVSDNFQNLTGYSRHEIVGQNCRFLQAPDGKVEAGSKR-EFVDDGAVYNLKKMVHEGREVQQSLINYRKGGKPFLNLLTMIPIPWD-TDE------IRYFIGFQIDLV
Hypocrea_jecorina                  CAFVVCDVTMNDCPIIYVSDNFQNLTGYSRHEIMGQNCRFLQAPDGKVEAGSKR-EFVDDGAVYNLKRMIQEGREVQQSLINYRKGGKPFLNLLTMIPIPWD-TDE------IRYFIGFQIDLV
Lentinula_edodes                   SSFVVIDVRRYDNPIIYCSRSFCRLTGYEEHEVIGKNCRFLQSPNGVQPKGEYR-RFTSNEAVSYLKKHLVADKECQTSIINYRKSGDAFINLVTVIPIKGGDISSPHEDDKVIYHVGFQVDLT
Mucor_circinelloides_MCWC1A        CSFLVTDARQYDCPIVYCSPTFENLTGYLANEIVGRNCRFLQAPDGQVTCGSRR-TYTDNQAVYHLKAQMLQNKEHQASIINYRKGGQPFVNLITVIPICNDNNE-------VAFFVGLQVDLV
Mucor_circinelloides_MCWC1B        CSFVVVDAKQYDFPLVYASPMFERLTGYAPSEVIGRNCRFLQAPDGRVAIGSRR-KYTDNTTVYHIKTHMVQGKESQSSIINYRKTGQPFVNLLTVIPIAWESSED------IDYFIGLQVDLV
Mucor_circinelloides_MCWC1C        CSFVVSDARQYDCPVIYCSPAFERLTGYTNNEIVGKNCRFLQSPDGQVTCGSRR-QHTDNQAVYHLKAQLNQGKEHQASIINYRKGGQPFVNLVTVIPILGDNGQ-------VDYFVGLQVDLV
Neurospora_crassa                  CAFVVCDVTLNDCPIIYVSDNFQNLTGYSRHEIVGRNCRFLQAPDGNVEAGTKR-EFVENNAVYTLKKTIAEGQEIQQSLINYRKGGKPFLNLLTMIPIPWD-TEE------IRYFIGFQIDLV
Phycomyces_blakesleeanus_MADA      CSFLVTDARQYDHPIVYCSPTFEHLTGYKGSEILGRNCRFLQAPDGRVTSGSRR-QHTDNQAVYHLKAQMLQSNEHQASIINYRKGGQAFVNLITVIPICNEFNE-------VAFFVGLQVDLV
Phycomyces_blakesleeanus_WCOA      CSFLVSDARQYDCPIIYCSPAFETLTGYSSNEILGKNCRFLQAPDGLVTGGSRR-RHTDNQAVYHLKAQLIQNREHQASIINYRKGGQAFVNLITVIPLLDNQGE-------VAYYVGLQVDLV
Phycomyces_blakesleeanus_WCOB      CSFVVVDAHQYDAPIVYASPTFEKLTGYTPSEVVGRNCRFLQAPDGRVALGSRR-KYTDNTAVCHIKTHISQGKESQASLINYRKTGQPFVNLLTVIPVAWESDE-------IDYFVGLQVDLV
Pilobolus_crystallinus_PCMADA1     CSFLVTDARQYDCPIVYCSPTFEHLTGYHANEIVGRNCRFLQAPDGQVTCGSRR-TYTDNQAVFHLKAQMLQNKEHQASIINYRKGGQPFVNLITVIPITNDNNE-------VAFFVGLQVDLV
Pilobolus_crystallinus_PCMADA2     CSFVVVDARQYDFPLVYVSPVFEKLTGYSPADVMGKNCRFLQSPDGHVAIGSRR-KYTDNTTVYHIKTHMVQGKESQSSIINYRKTGQPFVNLLTVIPISWDSDE-------IDYFMGLQVDLV
Pilobolus_crystallinus_PCMADA3     CAFVVSDAKQYDMPIIYCSPAFERLTGYTNKEIVGKNCRFLQSPDGKVTCGSRR-QHTDNQAVYHIKGQINQGKEHQASIINYRKDGQPFVNLVTVIPLWDENNT-------IELFVGLQVDLV
Tuber_borchii                      CSFVVTDARKFDNPIVYCSATFERLTGYTKHEILGRNCRFLQAPDAKIVPGVKR-KYVDDDAVYYLKNQIQAKKEAQTSLINYRKGGQPFTNLLTMIPITWD-SPE------VVYFVGFQVDLV
;
END;

[ The following blocks are output data for analysis step 5040 ]
BEGIN TREES;
      TITLE Tb10448;
      LINK TAXA = TaxaForAnalysisStep5040;
      TREE Fig._3 = [&R] (((Coprinopsis_cinerea,Lentinula_edodes),(((((Hypocrea_jecorina,Gibberella_fujikuroi),Neurospora_crassa),Bipolaris_oryzae),Tuber_borchii),((((Mucor_circinelloides_MCWC1A,Pilobolus_crystallinus_PCMADA1),Phycomyces_blakesleeanus_MADA),(Phycomyces_blakesleeanus_WCOA,(Pilobolus_crystallinus_PCMADA3,Mucor_circinelloides_MCWC1C))),((Mucor_circinelloides_MCWC1B,Pilobolus_crystallinus_PCMADA2),Phycomyces_blakesleeanus_WCOB)))),Arabidopsis_thaliana_PHOT1);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr6590]


END;