#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 July 11, 2025; 15:55 GMT

TreeBASE (cc) 1994-2008

Study reference:
Chang M., & Maisey J.G. 2003. Redescription of † Ellimma branneri and † Diplomystus
shengliensis , and Relationships of Some Basal Clupeomorphs. American Museum
Novitates, (3404): 1-36.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S12883]

[ The following blocks are input data for analysis step 9460 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep9460;
        DIMENSIONS NTAX=21;
        TAXLABELS
            Armigatus
            Armigatus_brevissimus
            Clupea
            Clupea_harengus
            Denticeps
            Diplomystus
            Diplomystus_dentatus
            Diplomystus_shengliensis
            Ellimma
            Ellimma_branneri
            Ellimma_riacensis
            Ellimmichthys
            Ellimmichthys_longicostatus
            Elops
            Knightia
            Knightia_bohaiensis
            Onchorhynchus
            Onchorhynchus_mykiss
            Paraclupea
            Paraclupea_chetungensis
            Santanaclupea
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M13358]

	TITLE Character_Matrix;
	LINK TAXA = TaxaForAnalysisStep9460;
	DIMENSIONS NCHAR=30;
	FORMAT DATATYPE=Standard SYMBOLS= "0 1 2" MISSING=? GAP= -;
	CHARSTATELABELS
		1  Recessus_lateralis,
		2  Otophysic_connection_involving_a_diverticulum_of_the_swimbladder_that_penetrates_the_exoccipital_and_extends_into_the_prootic_within_the_lateral_wall_of_the_braincase,
		3  Preepiotic_fossa,
		4  Parietals,
		5  Frontal_fontanelle,
		6  Supratemporal_commissure,
		7  Anterodorsal_process_of_hyomandibular,
		8  Supramaxillae,
		9  Teeth_on_entopterygoid,
		10  Tooth_patch_on_posterior_part_of_parasphenoid,
		11  Basipterygoid_process,
		12  Bericiform_foramen_in_anterior_ceratohyal,
		13  Angular,
		14  Dorsal_scutes,
		15  Ornamentation_on_dorsal_scutes,
		16  Abdominal_scutes,
		17  Caudal_scutes,
		18  First_ural_centrum,
		19  Neural_spine_of_first_preural_centrum,
		20  Parhypural,
		21  Number_of_hypurals,
		22  Second_hypural,
		23  Number_of_epurals,
		24  First_uroneural,
		25  First_uroneural,
		26  Third_hypural,
		27  First_hypural,
		28  'Semicircular to almost vertical fine surface ridges (circuli) on scales',
		29  Lateral_line_scales,
		30  Neural_spines_of_a_few_posterior_preurals,
		;

MATRIX
[                                       10        20        30]
[                                        .         .         .]
Armigatus                       ??????????????????????????????
Armigatus_brevissimus           0010010010001101000101000100?0
Clupea                          ??????????????????????????????
Clupea_harengus                 11111110011110-111000111101110
Denticeps                       11010101011110-110011110100000
Diplomystus                     ??????????????????????????????
Diplomystus_dentatus            001001001000120100010100010100
Diplomystus_shengliensis        001001001000120100010100010100
Ellimma                         ??????????????????????????????
Ellimma_branneri                0??0010001?01211000101000000?0
Ellimma_riacensis               0??0010001?01211000101000000?0
Ellimmichthys                   ??????????????????????????????
Ellimmichthys_longicostatus     0??001?001?01211000101000000?0
Elops                           00000000001100-000000000000000
Knightia                        ??????????????????????????????
Knightia_bohaiensis             11?111110111120101000101101110
Onchorhynchus                   ??????????????????????????????
Onchorhynchus_mykiss            00000000011110-010100000000001
Paraclupea                      ??????????????????????????????
Paraclupea_chetungensis         0??0110001001211000101000000?0
Santanaclupea                   0111?1001100?0-100010100101000
;
END;

[ The following blocks are output data for analysis step 9460 ]
BEGIN TREES;
      TITLE Ellimma_branneri_and_Diplomystus_shengliensis;
      LINK TAXA = TaxaForAnalysisStep9460;
      TREE 'Fig. 13A+' = [&R] (((((Armigatus,Diplomystus),(Ellimma,Ellimmichthys,Paraclupea)),(((Clupea,Knightia),Santanaclupea),Denticeps)),Onchorhynchus),Elops);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr53734]


END;
BEGIN TREES;
      TITLE Ellimma_branneri_and_Diplomystus_shengliensis;
      LINK TAXA = TaxaForAnalysisStep9460;
      TREE 'Fig. 13B+' = [&R] (((((Armigatus,Diplomystus),(Ellimma,Ellimmichthys,Paraclupea)),(((Clupea,Knightia),Denticeps),Santanaclupea)),Onchorhynchus),Elops);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr53735]


END;