#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 19, 2024; 13:01 GMT

TreeBASE (cc) 1994-2008

Study reference:
Aguilera F., Mcdougall C., & Degnan B.M. 2013. Origin, evolution and classification
of type-3 copper proteins: Lineage-specific gene expansions and losses across
the Metazoa. BMC Evolutionary Biology, .

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S13985]

BEGIN TAXA;
        TITLE  Taxa;
        DIMENSIONS NTAX=46;
        TAXLABELS
            'Branchiostoma floridae tyr1/2a'
            'Branchiostoma floridae tyr1/2b'
            Branchiostoma_floridae_tyrA1
            Branchiostoma_floridae_tyrB1
            Branchiostoma_floridae_tyrC1
            Branchiostoma_floridae_tyra
            Branchiostoma_floridae_tyrb
            Branchiostoma_floridae_tyrc
            Branchiostoma_floridae_tyrd
            Branchiostoma_floridae_tyre
            Branchiostoma_floridae_tyrf
            Branchiostoma_floridae_tyrg
            Branchiostoma_floridae_tyrh
            Branchiostoma_floridae_tyri
            Branchiostoma_floridae_tyrj
            Branchiostoma_floridae_tyrk
            Branchiostoma_floridae_tyrl
            Branchiostoma_floridae_tyrm
            Capitella_teleta_tyr1
            Capitella_teleta_tyr2
            Ciona_intestinalis_tyr
            'Ciona intestinalis tyr1/2a'
            'Ciona intestinalis tyr1/2b'
            Clonorchis_sinensis_tyr2
            Clonorchis_sinensis_tyr3
            Clonorchis_sinensis_tyr4
            Clonorchis_sinensis_tyr5
            Clonorhis_sinensis_tyr1
            Homo_sapiens_TYR
            Homo_sapiens_TYRP1
            Homo_sapiens_TYRP2a
            Homo_sapiens_TYRP2b
            Mus_musculus_Tyr
            Mus_musculus_Tyrp1
            Mus_musculus_Tyrp2
            Saccoglossus_kowalevskii_tyra
            Saccoglossus_kowalevskii_tyrb
            Saccoglossus_kowalevskii_tyrc
            Saccoglossus_kowalevskii_tyrd
            Schistosoma_japonicum_tyr
            Schistosoma_mansoni_tyr1
            Schistosoma_mansoni_tyr2
            Schistosoma_mansoni_tyr3
            Schistosoma_mansoni_tyr4
            Schmidtea_mediterranea_tyr
            Suberites_domuncula_tyr
            ;
END;

BEGIN TREES;
      TITLE gamma_MLT;
      LINK TAXA = Taxa;
      TREE bootstrap_7 = [&R] (((((((((((((((Branchiostoma_floridae_tyrh:0.045588,Branchiostoma_floridae_tyrf:0.087669):0.006223,Branchiostoma_floridae_tyrg:0.02353):0.040919,(((Branchiostoma_floridae_tyrd:0.0,Branchiostoma_floridae_tyrc:0.0):0.211087,Branchiostoma_floridae_tyri:0.058259):0.015333,Branchiostoma_floridae_tyre:0.124622):0.014172):0.065152,(Branchiostoma_floridae_tyrb:0.107408,Branchiostoma_floridae_tyra:0.018401):0.065438):0.032805,((Saccoglossus_kowalevskii_tyrd:0.055506,Saccoglossus_kowalevskii_tyrc:0.174932):0.16557,(Saccoglossus_kowalevskii_tyra:0.030611,Saccoglossus_kowalevskii_tyrb:0.025736):0.341162):0.34949):0.087923,((Branchiostoma_floridae_tyrj:0.038889,Branchiostoma_floridae_tyrk:2.0E-6):0.326653,Branchiostoma_floridae_tyrl:0.11344):0.050894):0.040026,Branchiostoma_floridae_tyrm:0.677747):0.213646,((Mus_musculus_Tyr:2.1E-5,Homo_sapiens_TYR:0.097804):0.176754,(((('Ciona intestinalis tyr1/2b':0.065358,'Ciona intestinalis tyr1/2a':0.101161):0.057119,((Homo_sapiens_TYRP1:0.006689,Mus_musculus_Tyrp1:0.016115):0.311599,('Branchiostoma floridae tyr1/2b':1.0E-6,'Branchiostoma floridae tyr1/2a':0.082286):0.14995):0.122089):0.199139,((Homo_sapiens_TYRP2a:0.0,Homo_sapiens_TYRP2b:0.0):0.044736,Mus_musculus_Tyrp2:0.015848):0.253134):0.340333,((Branchiostoma_floridae_tyrA1:0.243298,(Branchiostoma_floridae_tyrC1:2.0E-6,Branchiostoma_floridae_tyrB1:0.014563):0.179328):0.056143,Ciona_intestinalis_tyr:0.339375):0.046239):0.099521):0.230162):0.039366,((Capitella_teleta_tyr2:0.622886,Capitella_teleta_tyr1:0.52549):0.131215,Suberites_domuncula_tyr:1.242702):0.164047):0.221847,(Schmidtea_mediterranea_tyr:0.507124,Clonorhis_sinensis_tyr1:0.557552):0.272065):0.478488,(Schistosoma_mansoni_tyr1:0.151988,Clonorchis_sinensis_tyr2:0.170942):0.325246):0.135224,(Clonorchis_sinensis_tyr3:0.356022,(Clonorchis_sinensis_tyr4:0.124364,Clonorchis_sinensis_tyr5:0.053035):0.254331):0.03374):0.313721,Schistosoma_japonicum_tyr:0.084436):0.233451,Schistosoma_mansoni_tyr2:0.0):0.0,Schistosoma_mansoni_tyr3:0.006873,Schistosoma_mansoni_tyr4:0.0);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr61767]


END;