#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 18, 2024; 23:53 GMT

TreeBASE (cc) 1994-2008

Study reference:
Santos S., Shearer T., Hannes A., & Coffroth M. 2003. Fine-scale specificity and
diversity in the most prevalent lineage of symbiotic dinoflagellates (Symbiodinium,
Dinophyceae) in the Caribbean. Molecular Ecology, null.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1055]

BEGIN TAXA;
        TITLE  Taxa1;
        DIMENSIONS NTAX=8;
        TAXLABELS
            Aiptasia_pallida
            Briareum_asbestinum
            Gorgonia_ventilina
            Plexaura_kuna_Pk702_SB
            Plexaura_kuna_Pk704_SB
            Pseudoterogorgia_bipinnata
            Pseudoterogorgia_elisabethae_CI
            Pseudoterogorgia_elisabethae_RR
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M670]

	TITLE Concatenated_Microsatellite;
	LINK TAXA = Taxa1;
	DIMENSIONS NCHAR=277;
	FORMAT DATATYPE=DNA SYMBOLS= "A C G T" MISSING=N 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       ]
[                                            .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .       ]
Aiptasia_pallida                    GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAGTACTATAAGATTGCTTCCAAACAAAG---AAAGTAAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCGGTCGTGTCCACCTTGATTCACAATGCTATTACAGCCCTGTGTCATGACCCCCGAATATTCTTTG
Briareum_asbestinum                 GGAATTGGCCATCCCTCTATATCCCTCTGATTGCAGCAACTTCCACCGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAACAGAAGCCTAGTAGACACAACGGTCCTGTGTGCAGTAAGATAAGATTTCTTCCAAACAAAGCCGAAACCAAAGAAGTCACACAAAAGGTGATTGCATTGAAGGCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
Gorgonia_ventilina                  GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAATACTACAAGATTGCTTCCAAACAAAG---AAAGCGAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCGGTCGTTTCCACCTTGATTCACAATGCTATTACAGCCCTGTGGCATGACCCCCGAATATTCTTTG
Plexaura_kuna_Pk702_SB              GGAATTGGCCATCCCTCTATATCCATCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAAATGTGCAATGTCAATATCCAACAGAAGCCTAGTAGCCACAACGGTCCTGTGTGCAGTAAGACAAGATTTCTTCCAAACAAAG---AAAGCAAAGAAGTAACACAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCGCCGGTCGTTTCCACCTGGAATCATACTGCTTTTGCAGCCCTGTGTCATGACCCCCGAATATTCTTTG
Plexaura_kuna_Pk704_SB              GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAGTACTACAAGATTGCTTCCAAACAAAG---AAAGCAAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCGGTCGTGTCCACCTTGATTCACAATGCTATTACAGCCCTGTGTCATGACCCCCGAATATTCTTTG
Pseudoterogorgia_bipinnata          GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAGTACTACAAGATTGCTTCCAAACAAAG---AAAGCAAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCGGTCGTGTCCACCTTGATTCACAATGCTATTACAGCCCTGTGTCATGACCCCCGAATATTCTTTG
Pseudoterogorgia_elisabethae_CI     GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAATACTACAAGATTGCTTCCAAACAAAG---AAAGCGAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCATTCGTTTCCAC-------------GCTATTACAGCCCTGTGTCATGACCCCCGAATATTCTTTG
Pseudoterogorgia_elisabethae_RR     GGAATTGGCCATCCCTCTATATCTCTCTGATTGCAGCAACTTCCACTGGAGGGCTCGAGCAGATGTGCAATGTCAATATCCAAC-----------------AACGGTCCTGTGTGCAATACTACAAGATTGCTTCCAAACAAAG---AAAGCGAAGAAGGCACCCAAAAGGTGATTGCATTGAAGGCAGTTGATACGCCGGATGTGTGCTCCGGTCGTTTCCACCTTGATTCACAATGCTATTACAGCCCTGTGTCATGACCCCCGAATATTCTTTG
;
END;

BEGIN CODONS;
CODONPOSSET * CodonPositions (CHARACTERS = Concatenated_Microsatellite) = 
		N: 1-277;
CODONPOSSET  CodonPositions (CHARACTERS = Concatenated_Microsatellite) = 
		N: 1-277;
END;
BEGIN TREES;
      TITLE Tb6623;
      LINK TAXA = Taxa1;
         TRANSLATE
            1    Aiptasia_pallida,
            2    Briareum_asbestinum,
            3    Gorgonia_ventilina,
            4    Plexaura_kuna_Pk702_SB,
            5    Plexaura_kuna_Pk704_SB,
            6    Pseudoterogorgia_bipinnata,
            7    Pseudoterogorgia_elisabethae_CI,
            8    Pseudoterogorgia_elisabethae_RR;
      TREE NJTree = [&R] ((((8,3),7),((6,5),1)),2,4);



END;