#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 17, 2024; 10:36 GMT

TreeBASE (cc) 1994-2008

Study reference:
Hudspeth D., Nadler S., & Hudspeth M. 2000. A COX2 molecular phylogeny of the Peronosporomycetes.
Mycologia, 92(4): 674-684.

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S616]

BEGIN TAXA;
        TITLE  cox2_aa_MP;
        DIMENSIONS NTAX=18;
        TAXLABELS
            Achlya
            Aphanomyces
            Apodachlya
            Cyanidium
            Dictyuchus
            Hyphochytrium
            Lagenidium
            Leptolegnia
            Leptomitus
            Peronophythora
            Phytophthora
            Plectospira
            Prototheca
            Pythiopsis
            Pythium
            Saprolegnia
            Sapromyces
            Thraustotheca
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M2821]

	TITLE cox2_prot;
	LINK TAXA = cox2_aa_MP;
	DIMENSIONS NCHAR=193;
	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       130       140       150       160       170       180       190   ]
[                           .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .   ]
Achlya             ATPVMEGIINFHHDLVFFLVLIVIFVSWILARCIFFFNENTNKKAETFVHGTVLEIVWTITPALILIIIAIPSFSLLYAMDEVIDPVLTVKVIGSQWYWSYEYSDA---VEDSIFFDSYMILDEDLDKGQFRLLEVDNRVVVPTNTHVRLIVTATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Aphanomyces        ATPVMEGIINFHHDLVFFLVLIVVFVSWILGRCIFFYNENVNKKAEIFVHGTVLEIVWTITPAIILIIIAIPSFSLLYAMDEVIDPILTLKVIGNQWYWSYEYSDA---VDDSIFFDSYMILEEDLDKGQFRLLEVDNRVVVPVNTHVRVIITATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Apodachlya         ATPVMEGIINFHHDLVFFLILIVVFVSWILARCIYFFDEDKHKIAETFVHGTVLEIVWTITPALVLIIIAIPSFSLLYAMDEVIDPITTVKVIGSQWYWSYEYSDSYTDTNESIFFDSYMVLEDDLDIGQFRLLEVDNRVVVPTNTHIRMIITASDVLHSWAVPSLGIKLDACPGRLNQTSMFIKREGVFYGQ
Cyanidium          ATPIMEGIVNLHHDIIFFLIIIIIFVSWILFRTLFLFNSKTNPVAYNFSHGTFIELLWTLTPSLVLIGIAVPSFALLYSIDEIIDPAITIKAVGRQWYWSYEYSDYVNEENEFLAFHSYILPEEDLELGQFRLLEVDNRIIIPVNTHIRIIVTGADVIHSWAVPSLGVKCDAIPGRLNQISFFIKREGIYYGQ
Dictyuchus         ATPVAEGIINFHHDLVFFLVLIVIFVSWLLARCIFFFNENTNKKAETFVHGTVVEIVWTITPAIILIIIAIPSFSLLYAMDEVIDPILTVKVIGSQWYWSYEYSDA---TDDSIFFDSYMVLDEDLDKGQFRLLEVDNRVVVPTNTHVRLIVTATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Hyphochytrium      ATPVAEGIFDFHHELFNIIVFIVVFVGILLARCIQLFNSKQNPVPAKFVHNTMAEIIWTLTPAYLLLVIAIPSFALLYSMDECIDPQITIKAIGHQWYWSYEYSDYNTKEKDDFAFDSYMINDDDLQKGQLRLLEVDRRVVVPINTHVRVLTTSADVIHSWAVPSLGVKIDACPGRINQTSFFIKRGGTFYGQ
Lagenidium         ATPVMEGIINFHHDLIFFLIIVTVFVGWMLFRVITLFDEKKNPIPATFVHGATIEIIWTTIPALILLTVAVPSFALLYSMDEVIDPVITLKVIGSQWYWTYEYSDNLEYADEPLIFDSYMIQEDDLEIGQLRLLEVDNRIVVPTNTHIRVLITASDVLHSWAVPSLGVKLDACPGRLNQTSMFIKREGVFYGQ
Leptolegnia        ATPVMEGIINFHHDLFFFLVLIVVFVSWILGRCIFFYNENVNKKAETFVHGTVLEIVWTITPAIILIIIAIPSFSLLYAMDEVIDPILTLKVIGNQWYWSYEYSDA---IDDSIFFDSYMILEEDLDKGQFRLLEVDNRVVVPVNTHVRVIITATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Leptomitus         ATPVMEGIISFHHDLFFFLVLIVIFVSWILARLIYFFDEDKQKVADTFVHGTTVEIVWTITPALILVFIAIPSFSLLYAMDEVIDPILTVKVIGSQWYWSYEYSDSYTDTNESIFFDSYMVAEDDLEIGQFRLLEVDNRIVVPTNTHIRLIITASDVLHSWAVPSLGIKLDACPGRLNQTSMFIKREGVFYGQ
Peronophythora     ATPVMEGIINFHHDLMFFLIMITVFVCWMLFRVITLFDEKKNKIPSTIVHGATIEIIWTSIPALILLTVAIPSFALLYSMDEVIDPIITLKVIGSQWYWSYEYSDNLEFSDEPLIFDSYMVQGDDLAIGQFRILEVDNRVVVPTNSHIRVLITASDVLHSWAIPSLGIKLDACPGRLNQTSMFIKREGVFYGQ
Phytophthora       ATPVMEGIINFHHDLMFFLISIVVFVCWMLFRVITLFDEKKNKIPATVVHGATIEIIWTSIPALILLTVAVPSFALLYSMDEVIDPIITLKVIGSQWYWSYEYSDNLEFSDEPLIFDSYMIQEDDLAIGQFRILEVDNRVVVPTNSHIRVLITASDVLHSWAIPSLGIKLDACPGRLNQTSMFIKREGVFYGQ
Plectospira        ATPVMEGIINFHHDLFFFLVLIVVFVSWILGRCIFFYNENVNKKAETFVHGTILEIVWTITPALILIIIAIPSFSLLYAMDEVIDPVLTLKVIGNQWYWSYEYSDA---VDDSIFFDSYMILEEDLDKGHFRLLEVDNRVVVPVNTHIRVIITATDVLHSWAVPSLGVKLDACPGRLNQTSMFIKREGVFYGQ
Prototheca         ATPIMQGLIDLHHDIQFFLIAVLVFVVWMVSRALYLFHYTRNPLPEKIIHGTLIEIVWTITPSLILIFIAVPSFALLYSLDEVVDPAVTIKAIGHQWYWSYEYSDYSIADDQSIAFDSYMIPDDDLELGQYRLLEVDNRVVVPVDTHIRVIITAADVLHSWAIPSLGVKCDAVPGRLNQIPMFIKREGVFYGQ
Pythiopsis         ATPVMEGIINFHHDLFFFLVLIVIFVSWILARCIFFFNENTNKKAETFVHGTVLEIVWTITPALILIIIAIPSFSLLYAMDEVIDPILTLKVIGSQWYWSYEYSDA---MDDSIFFDSYMVLEEDLDKGQFRLLEVDNRIVVPTNTHIRVIITATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Pythium            ATPVMEGIINFHHDLMFFLIVVTVFVCWMLFRVITLFDEKKNKIPSTVVHGATIEIIWTTIPALILLTVAVPSFALLYSMDEVIDPIITLKVIGSQWYWSYEYSDNLEFSDEPLIFDSYMVQENDLEIGQFRLLEVDNRVVVPTNSHIRVLITASDVLHSWAIPSLGVKLDACPGRLNQTSMFIKREGVFYGQ
Saprolegnia        ATPVMEGIINFHHDLVFFLVLIVIFVSWILARCIFFFNENTNKKAETFVHGTVLEIVWTITPALILIIIAIPSFSLLYAMDEVIDPILTLKVIGSQWYWSYEYSDA---MDDSIFFDSYMVLEEDLDKGQFRLLEVDNRVVVPTNTHIRVIITATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
Sapromyces         ATPVMEGIINFHHDLMFFLVITVIFVCWILIRCIYFFDEEKNKIPSTTVHGSTIEIIWTTIPALILLSVAVPSFALLYSMDEVIDPIITLKVIGSQWYWSYEYSDNLEFSDEPLIFDSYMVQEDDLDIGKFRLLEVDNRVVVPTNSHIRVVITASDVLHSWAIPSLGIKLDACPGRLNQTSMYIKREGVFYGQ
Thraustotheca      ATPVMEGIINFHHDLFFFLVLIVIFVSWILARCIFFFNENTNKKAETFVHGTVLEIVWTITPALILIIIAIPSFSLLYAMDEVIDPVLTVKVIGSQWYWSYEYSDT---VDDSIFFDSYMILDEDLDKGQFRLLEVDNRVVVPTNTHIRLIITATDVLHSWAVPSLGVKLDACPGRLNQTSIFIKREGVFYGQ
;
END;