#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 September 01, 2025; 2:19 GMT

TreeBASE (cc) 1994-2008

Study reference:
Patterson T., & Givnish T. 2002. Phylogeny, concerted convergence, and phylogenetic
niche conservatism in the core Liliales: insights from rbcL and ndhF sequence
data. Evolution, 56(2): 233-252.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S1359]

[ The following blocks are input data for analysis step 2546 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep2546;
        DIMENSIONS NTAX=31;
        TAXLABELS
            Alstroemeria_sp.
            Androcymbium_ciliolatum
            Calochortus_albus
            Calochortus_apiculatus
            Calochortus_balsensis
            Calochortus_luteus
            Calochortus_weedii
            Campynema_linearis
            Cardiocrinum_giganteum
            Cardiocrinum_yunanense
            Clintonia_borealis
            'Erythronium albidum-japonicum'
            'Fritillaria meleagris-agrestis'
            Gagea_wilczekii
            'Lilium kelleyanum-superbum'
            Lloydia_serotina
            Medeola_virginiana
            Nomocharis_pardanthina
            Notholirion_bulbiferum
            Philesia_buxifolia
            Prosartes_maculata
            Ripogonum_elseyanum
            Scoliopus_bigelovii
            'Smilax hispida-glauca'
            Streptopus_amplexifolius
            Streptopus_roseus
            Tricyrtis_affinis
            'Tricyrtis latifolia-latifolius'
            Tulipa_kolpakowskiana
            Uvularia_sessilifolia
            'Veratrum viride-album'
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M1434]

	TITLE Liliales_Phenotypic;
	LINK TAXA = TaxaForAnalysisStep2546;
	DIMENSIONS NCHAR=45;
	FORMAT DATATYPE=Standard SYMBOLS= "0 1 2 3 4 5 6 7 8 9" MISSING=? GAP= -;

MATRIX
[                                          10        20        30        40        50        60]
[                                           .         .         .         .         .         .]
Alstroemeria_sp.                   --00011011111{01}001110101?002100001100901000000
Androcymbium_ciliolatum            --000?00{01}?00{01}100111110?1000000001?00{19}00000000
Calochortus_albus                  210111210000000001011101012000000011011000000
Calochortus_apiculatus             210111010000100001011101012000000011011000000
Calochortus_balsensis              210111210000000001011101012000000011111000000
Calochortus_luteus                 2101{01}1110000100001111101012000000111{01}11000000
Calochortus_weedii                 210111110000100001011101012000000111011000000
Campynema_linearis                 --00011000001101111000?2000000111?00?01000000
Cardiocrinum_giganteum             3101011111111100101110?0001001001111311001100
Cardiocrinum_yunanense             3101011111111100101110?0001001001111311001100
Clintonia_borealis                 --01000011100110{01}111100{01}001001012111400000001
'Erythronium albidum-japonicum'    110101001010011011111000002001001{01}11311000010
'Fritillaria meleagris-agrestis'   3{01}010110{01}00101001101101{01}00{12}00100111131{01}000000
Gagea_wilczekii                    1101010000001100111110?0002001001111311100010
'Lilium kelleyanum-superbum'       30010{01}1000{01}1{01}10010111010001001001111311000000
Lloydia_serotina                   110101000000{01}100111110?0002001001111311100000
Medeola_virginiana                 --01001011110110111110?10010?1012111200000001
Nomocharis_pardanthina             3001001000011000100110?0001001001111311000000
Notholirion_bulbiferum             310101100001010010111001001001001111311001100
Philesia_buxifolia                 --1111301111011111010010000{01}10?1{12}?00701000000
Prosartes_maculata                 --011020110111101111100{01}001000012011{19}000{01}0000
Ripogonum_elseyanum                --1111301111011111110000000100012?00800100000
Scoliopus_bigelovii                --01010011000010111110?11010?0003011{29}00010010
'Smilax hispida-glauca'            --1111301111011111110000000110012000800100000
Streptopus_amplexifolius           --01102011010110111110?0101000012011900010000
Streptopus_roseus                  --01102011010110111110?0101000012011900010000
Tricyrtis_affinis                  --0110201101{01}00001011011011000000111601000000
'Tricyrtis latifolia-latifolius'   --0110201101{01}00001011011011000000111601000000
Tulipa_kolpakowskiana              {13}10101001000110011111000002001001111311000000
Uvularia_sessilifolia              --01102011010110111110?0000000011000201000010
'Veratrum viride-album'            --000010{01}11011011111000100?0?0110100900300000
;
END;

BEGIN SETS;
	CHARSET ndhF (CHARACTERS = Liliales_Phenotypic) =  1;
	CHARSET molecular (CHARACTERS = Liliales_Phenotypic) =  1;
	CHARSET rbcL (CHARACTERS = Liliales_Phenotypic) = ;
END;
[ The following blocks are output data for analysis step 2546 ]
BEGIN TREES;
      TITLE Tb7321;
      LINK TAXA = TaxaForAnalysisStep2546;
      TREE Fig._3 = [&R] ((((((((Calochortus_albus,Calochortus_balsensis),Calochortus_apiculatus),Calochortus_luteus,Calochortus_weedii),(Tricyrtis_affinis,'Tricyrtis latifolia-latifolius')),((((Cardiocrinum_giganteum,Cardiocrinum_yunanense),Notholirion_bulbiferum),(('Fritillaria meleagris-agrestis',Nomocharis_pardanthina),'Lilium kelleyanum-superbum')),'Erythronium albidum-japonicum',(Gagea_wilczekii,Lloydia_serotina),Tulipa_kolpakowskiana),(((Clintonia_borealis,Medeola_virginiana),(((Philesia_buxifolia,Ripogonum_elseyanum,'Smilax hispida-glauca'),Uvularia_sessilifolia),Prosartes_maculata,(Streptopus_amplexifolius,Streptopus_roseus))),Scoliopus_bigelovii)),Alstroemeria_sp.,Androcymbium_ciliolatum),'Veratrum viride-album'),Campynema_linearis);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr4494]


END;