#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 22, 2024; 4:13 GMT

TreeBASE (cc) 1994-2008

Study reference:
Nabeel-shah S., Ashraf K., Pearlman R.E., & Fillingham J.S. 2014. Molecular evolution
of NASP and conserved histone H3/H4 transport pathway. BMC Evolutionary Biology,
14(139).

TreeBASE Study URI:  http://purl.org/phylo/treebase/phylows/study/TB2:S15931]

[ The following blocks are input data for analysis step 13929 ]
BEGIN TAXA;
        TITLE  TaxaForAnalysisStep13929;
        DIMENSIONS NTAX=15;
        TAXLABELS
            Ciona_intestinalis_
            Danio_rerio
            Gasterosteus_aculeatus_NASP1
            Gasterosteus_aculeatus_NASP2
            Halocynthia_roretzi
            Oreochromis_niloticus_NASP1
            Oreochromis_niloticus_NASP2
            Oryzias_latipes_NASP1
            Oryzias_latipes_NASP2
            Takifugu_rubripes_NASP1
            Takifugu_rubripes_NASP2
            Tetraodon_nigroviridis_NASP1
            Tetraodon_nigroviridis_NASP2
            Xiphophorus_maculatus_NASP1
            Xiphophorus_maculatus_NASP2
            ;
END;

BEGIN CHARACTERS;
[! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M22769]

	TITLE NASP_Amino_acids_Fish_Paralogs_;
	LINK TAXA = TaxaForAnalysisStep13929;
	DIMENSIONS NCHAR=716;
	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       200       210       220       230       240       250       260       270       280       290       300       310       320       330       340       350       360       370       380       390       400       410       420       430       440       450       460       470       480       490       500       510       520       530       540       550       560       570       580       590       600       610       620       630       640       650       660       670       680       690       700       710      ]
[                                         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .         .      ]
Ciona_intestinalis_              MVVDASKVTEKE--------------ATQTETSEQDLENEYAINLANGKKNLLCGDFPEAVACFQATSALQSERFGETSHECAESFYFYGKALLELA--RVENGVLGNALKGVPQVEEASSESEGEGNQFEKTKNLP---VEKRKELREEVVAAMATENE------------DED---------------------------TQDESEKD-------------DKDEKKEKDENQEKKDENKEKKDENKEKKDENKEKKHENQEKKDENEKEEMECSEDKPTTEVPDAKQKE--------------SKDDSTKKSEDTKKEEK--------PADTSDVPMEADEPSTSGG---------------VKDEDVKDEDTEDP-------------------------------DDVPNMQLAWEMLELAKVLYQKKPKSEDNSLLVAQCHSKLGELGLEVENYSQSIGDFLESLVIHKELLAKHDRRLAETHYNLGLAYTFDKRYDNALEHYTASLNVLDARMEYLNERIDENDRKKENQSETLAECAEIGEIKDLLPDINSKIEDVIIMKRQ--------EGRLDGSPFRTPS----SAGAGGIGSKRYCC-----------------------------------------------------------------------------------------------------------
Danio_rerio                      MPEETGATSTAE-RMEEKPC------SSSTGDSSVDVAEEAKKLIGTGSRHLVMGDVVSAVSVFQEACAMLAEKYGDTADECGEVFFFCGKALLELA--RMENTVLGNALEGVP-EESSEEGEKQDDSKIESADNLD---EKTRDELRAQVYDAMSEDNTRSEVEKEECGEGERNNKEEVEKQVKVDEAPKEADTASKTEKPTEDEAKPA-------------ENQEKMAVDEEKPAEKQEKIAVDEAKPAENEKLAKDEAKPEEKPAEEKTKQAEDEAKPAENEERPPEDKAKPASIEKCG----NEDEKSKGEDEDASTNKDVTVSNGIAKKNKDESVEEKKGSEDTE----------EPMEEDGGDDDGDEDEDDD---------------DDEDAEGDAKDKESEEDEVGNLRLAWEMLEVAKVIYKRKD-DKEDQLMAAQIHLKLAEVGVESGNYSQALEDSNECLTLQLKHLPSHSRLLTETHYQLGTTYSYTTQYNQAIEHFSNSIKVIESRLAMLQEVIDKAEGEDAAKEEK----GEFEELKQLLPEIKEKIEDAKESQRTAAAASEAIHQTLAGASTSSAFP---TENGGPSSS----TAS--QIAVRPADGASSSKSASDISHLVRKKRKPDEE----SPKKDSDAKKTKQDTSVN---GS-DDSAHNGNGVQEKMEQEPAN-SSSVETSA--------------
Gasterosteus_aculeatus_NASP1     -------------------------------------MEEANKLIGSGKKHLVMGKVVEAVSALQEACGMLAQKYGDTADECGEAFFWCGKALLDLA--RMENSVLGNALEGVP-EDGEEDDEKPKDSNVDSTETID---EQTRDELRVQVYDAMAEKSD------------EAA---------------------------AEVKSDEA-------------AAEVKKSDDEASAAERRARSRRGE---------EGRDAAEVKKGGDKERGDEQQDSAEKDEEKTGICAK--------------NEDKEAEEKSSDEEKEK--------RPLVANGVLFILTRFIDTD---------------VSDAAEKGLSVSTH----------------------------VCFQEVGNLQLAWEMLEVAKVIYKRKE-NKEDQLMAAQAHSKLGEVSSESGNYTQALEDFQECLKLQVKHLDADSRLLAETHYQLGLTYSLDVQYGRAIEELKSSISVIKSRLDKLQELLNKAEGPDALPDER----KEMEELKALLPEIQEKVEDATEGLKMTNAAAEDGTGAADGGSTSSAFPVSVMKSADSSSSSTFAVTS--TSAVGSTNGHASKAPVSDISHLVRKKRKPEE-----SPVKEGAVKKAKQ------------------------------------------------------
Gasterosteus_aculeatus_NASP2     MPEET---SSCG-SVEEKPCSSSSSAAAAAADSSVDFVEEANKLIGTGNRHLVMGDVVSAVRVFQDACSMLAARYGDTAEECAEAFFLCGKSLLELA--RMENSVLGNALEGVP--EESEEEEQPHSSKIESANNLD---EKTRDDLRKQVYDAMAEGEK------------TEA---------------------------VDSKLESD-------------VKGNTEVDQENGAAKFPGKHDLNGSEASTDSPVSVKENGVEKSPCAPVASLGESLTTSPVKEAVMEKVK--------------AQNEEKAGGKDEESEPE--------AEQDTDEPEGSRSLHTEHD---------IKPFRLETQARDSRISQKKDFLALCNNPFTLREKSGQDKLSS----SFQEEDEVGNLQLAWEMLEVAKVIYKRKE-GKDDQLMAAQAYLKLGEVSAESGNYSQALEDFQECLALQLKHLAPHSRLLAETHYHVATTLCYMDQYSQAIQHYNSSIKVIETRLAMLQEAI-------GAAEEK----NEMEELKQLLPDIREKVEDAKESQRTARAASQAIQQTLGGASTSSAFH---CENGGPSAC---SSAS--LVTVKTCDSTSPAKAVSNISHLVRKKRKPEEE----SPVKDTGAKQSKQEATVN---GA-DSSAS--NGVQEGKSQEPAAQLTPDGSSA--------------
Halocynthia_roretzi              MVQDTEVVEAG---------------TSKETETTVDVEKEIQECMGAGKKDLLCNDYSEAVNCFQEACTLLSGKHGQMAEECCEAYYYYGVSLLELA--RLENGVLGNALKGVP-EEDADGDSDQEQEQFEKPD-LP---ETEREKLREEVEAAMA----------------------------------------------TEDEDTQE-------------ERGCPRRV-------------------------------EKKKEDDKPKESEKSAEKSDEKEKEEKQAK--------------VESSTVKDVKDEKSSDK--------PVESSNT----EEPGTSGT---------------SASSSKENESEEDP-------------------------------DDISNMQLAWEMLELAKVLYKKHDKSKTNKQMVAQCHLKLGELGLEVENHPQAIGDFLECLVIQKDLLPETDRKLAETYYNLGLAYSFEKRYDNALEHYQSALDVLEARVDMLNELIESNEGNKEKEKEIISECKEVGELKELIPDINSKIEDVILAKKQ--------MQKLDGSPFRQASEGESSSGLGASTSDDKPCSTIPIRKVAPTSVPVAKDSPSDITHLVRRKRPSPDEDNQPAESKENESKKAKQEETEEATNGHSAVKKDTDVTDKNGTNGHSKTPKKDAAKRR--------------
Oreochromis_niloticus_NASP1      -------------------------------------MEEANKLIGTGKKHLVMGKVVEAVSTLQEACGMLAKKFGDTADECGEAFFWYGKALLDLA--RMENSVLGNALEGVP---EEEEEEKPKDSNVESTENVD---EKTRDELRVQVYDAMAEKKT------------EDG---------------------------EKVEGKQS-------------EDPQEKTEGAEAGDEKEKTEKVEGEAEKDSKNDESKSESEDKKETSGEEVDAKDDSEPAAKQKEGDSAD--------------AKEEKEEDSTAEKDKTS--------AKEEEAAAEEEGDGEEDEE---------------EGGDDVEMEGDAEE--------------QGEGDSTGE---KDSDDEEVGHLQLAWEMLEVAKVIYKRKE-AKEDQLMAAQAHLKLGEVSAESGNYPQALEDFQECLKLQVKHLDSDSRLLAETHYQLGVTYSLNTQYSEAIESLKSSISIIKNRLDKLQEMLDKAEGPEALPEER----KELEELKALLPEIQEKVEDATESLKTASTASVAVKDALDGGSTSSAFDGSTVQNSDSSSTSEIKSTS-------TSNGNTSTAPVSDISHLVRKKRKPEE-----SPVKE-DVKKVKQDNSQL---GETPLANGDAGGHANDMEVESK------------------------
Oreochromis_niloticus_NASP2      MPEETSVASSSE-SAEEKPCSS----TAAAAGSSVEVMEEAKKLIGTGKRHLVMGDVVSAVSVFQEACGMLAEKYGDTADECGEAFFFCGKSLLELARNRMENSVLGNALEGVP--EESEEEEQPSSSNVESTDNLD---VYGRWELKLPLFTLSARFPE------------------------------------------KKKKKKKTLFDILVHYYSSFCQKSALAKSSEESAWWFLNRYLKDQVMCHSGAEKTRDELQQQVYDAMAEKEKAEDPHSPVTGDEKSLSQE--------------TEMDGVSSVKSVREGSL------GKETETEQKADGSEEQTGNGT-----------GVKPVSGCDEDKEETEGE-------------KNGQDKEGENLFLQIQEEEEVGNLQLAWEMLEVAKVIYKRKE-SKEDQLMAAQAYLKLGEVSAESGNYPQALDDFQECLALQLKHLPPHSRLLAETHYHVATTLCYMDQYSQAIQHYNSSIKVIETRLAMLQEVIDAAEGADGAAEEK----NELDELKLLLPDIREKVEDAKESQKTASAASQAIQQTLGGASTSSAFL---CENGSTSSAAFATTSQ----VPVKTESASSSKAVSDISHLVRKKRKPEDE----SPVKDTDAKQAKQEATVN---GTGDSSASNGNGVQEGKSQEPATQSASVESPA--------------
Oryzias_latipes_NASP1            -------------------------------------MEEANKLIGAGKKFLVMGKAVEAVSALQEACGMLAKQYGDTADECGEAFLWCGKALLDLA--RMENSVLGNALEGVP--EEDEEEDKPKDSNIESTESIDVWSEETRDELRVQVYDAMAE---------------------------------------------KKDEEEEK-------------AGENQSEGAEKPEGQQPK-------------------ADEGEEPNKDVSQEKTEDGKEADQEAAAEREE-----------------ESAPKDKPEEESEE--------AVEDFKCQNAVDDLSFNRW--------------CSSDDEGEDEAEEQG--------------DGAAE-------KDSEDEEVGNLQLAWEMLEVAKSIYKRKD-TKEAQLLAAQAHLKLGEVSAESGNYTQALEDFQECLKLQVKHLEANSRLLAETHYQLGLTYSLNLQYSPAIEALNNSISVIKSRLEKLEELMKTAEGPEALPDER----KEMEELKALLPEIQEKVEDATEGLKLVKAAVGGDQQ--DGGSL--------VNGGASSSSVNGTLSN---------GGQTSAVPVSNISHLVRKKRKPEE-----SPVKKNEVKKAKHDQDQE------PAATGDSNGHVDEILETEPASAALDGSSA--------------
Oryzias_latipes_NASP2            MPEETSTASSSS-STEEKPCSSS---AATAAESSVDVMEEAKKLIGTGKRHLVMGDVVSAVNVFQDACSILASKYGDTADECGEAVFLYGKSLLELA--RMENGVLGNALEGVP--EESEEEEQPSNSNIESADNLD---EKTRDELRKQVCDAMAEEAR------------SEE--------------------------KLLSEDGHD-------------ITQVKKEVEAEAVVKAGESLPEEEEESNSPLAQEKVIRNQTVQDADEEEKDKEPDDGKKEESDLEEERD--------------KDEPEVTGVGGLVSRAP--------QQHVSQGGLGEKLQGFFSFLHFLISIILCKLFPCSVLEKNGQENVRFF--------------------------PGMSEDDVGNLQLAWEMLEVAKLIYKRKE-GKEEQLMAAQAHLKLGEVGAETGNYPQALEDFQECLAIQLQHLPPHSRLLAETHYHVATTLCYMDEYRQAIQHYNSSIEVIENRLSVLQKAIDAAEGDGGAAEEK----SEMEELKQLLPEIREKVEDAKESLRTASAASQAIQQTLGGTSSSSAFL---RENGGPSSS----TAA--FADPGKCDSSSSSKAASDISHLVRKKRKPEEE----KPVKDADAKQAKQEVSVN---CSDDSSAS--NGVQEEKSQEAPTQSASVESSA--------------
Takifugu_rubripes_NASP1          -------------------------------------MEEANKLIGAGKKHLVMGKVVEAVNSLQEACGMLAKTFGDTADECGEAFFWCGKALLDLA--RMENSVLGNALEGVP-EEEEDEEKNPKDSVVDGTEDVD---------------------------------------------------------------------------------------------------------------------------------GEEEEEGEGDDDEMEDKTDEKGDCDK---------------------TEFMLQDSED---------------------------------------------------------------------------------------EEVGNLQLAWEMLEVAKVIYKRKE-AKDDQLMAAQAHLKLGEVSVESGNYTQALDDFEECLKLQLKHLEADSRLLAETHYQLGLTYGLNLQYNQAIAELNRSISVIKSRLDKLQELVDKAEGPEALAEER----KEMEELKALLPEIQEKVEDASESVKTLSMAA-------PSEEASSSFSGSTQKNGDSSEI-NGSVTN------GASS-TSGRASVSDISHLVRKKRKPEE-----SPVKEGEVKKVKHDG------GAIQTPNGDAPEAKVESEEEKKREGRKVKEGRVCREGGNAGKTTSG
Takifugu_rubripes_NASP2          MPEGTYTASSSGSSAEEQPCSSS--AAAAAEDSSVDVMEEAKKLVGAGNKYLVLGDVVSAVAVFQDACSMLAAKYGDTADECGEALFLCGKSLLELA--RMENSVLGNALEGVP--EESEGEEQPTDSKIESADNLD---EKTRDELRMQVYDAMAEKPK------------EVG---------------------------QESVAGSVK------------TDEKRENSDAQSPIKSVNSANHGAKGNGVEKSPVPPVNDVINKPATNEEEPDKDVNSNAEAEEEDEGAEG-------------SKLFGFRALFVNGSSQEALGHAAFNEEEGKNCSSPVFSSRADDD-----------------DSDEDDEAGEGN--------------------------GQAKEEEVGNLQLAWEMLEVAKVIYKRKD-DEDGQLTAAQIYLKLGEVSAESGNYPQALEDFQECLCLQLKHLPPHSRLLAETHYHVATTLCYMDKYSQAIQHYNSSIEVIEKRLGMLQEAIAKAEGEDGTAEEE----RELEELKQLLPEIREKVEDAAESQRTASAASQAIQQALVSTRFRRNRI-HVPSGSGSSDS-------------------PPSKMASDISHLVRKKRKPEE-----GRVKDTDAKQAKQETTVN---GSSDSTASNSNAVQGKSQEVSLIRGTSESTP---------------
Tetraodon_nigroviridis_NASP1     ---------------------------------------EANKLVGAGKKHLVMGKVVEAVNSLQEACGILAKTFGDTADECGEAFFWCGKALLDLA--RMENSVLGNALEGVPDEDEEDEEKTPKDSIVDSTENMD---EKTRDELRDQVYDAMDG-----------------------------------------------------------------------------------------------------------------------------------------------------AADKTCKCGFVVQDGED---------------------------------------------------------------------------------------EEVGNLQLAWEMLEVAKVIYKRKE-AKDDQLMAAQAHLKLGEVSVESGNYTQALDDFQECLKLQAK-LDADSRLLAETHYQLGLTHGLNLQHGAAVAELSRSISVIKSRLDKLQELVDKAEGPEELPEER----KEMEELKALLPEIQEKVEDANESLKTAKSVSQ-------NGDASSSFPGPSLQNDDSSKVTNGCVTN------GATSGHASTAAVSDISHLVRKKRKPE------SPKKEGEVKKMKQD-----------------------------------------------------
Tetraodon_nigroviridis_NASP2     MPEETSTASSSG-SAEEQPCSSS--AAAAAEDSSVDVMEEAKKLVGAGNKYLVLGDVVSAVGVFQDACSMLAAKYGDTADECGEALFLCGKSLLELA--RMENSVLGNALEGVP--EESEGEEQPTDSKIESADNLD---EKTRDELRKHVYDAMAEKPK------------EGV---------------------------QESDSGSL-------------GVDEKGNGDAQPPVQSSNAEVTE----------------VEKSPVPPVAEVGEGAATETTMKEGESPAQ--------------NEEKGVKSNTEEEQDDE--------DEEAEGSRLYGVSIGEGKH--------RVVALHVIRGVKEEKWAEEGN-------------------------EQEKEEEEVGNLQLAWEMLEVAKVIYKRKD-DKDGQLTAAQIYLKLGEVSAESGNYPQALEDFQECLCLQLKYLPPHSRLLAETHYHVATTLCYMDKYSQAIQHYNSSIEVIEKRLEMLQEAIAKTEAEDGAA-------RELEELKQLLPEIREKVEDAMESQRTASAASQAIQQALGGASTSSAFP---CENGGPSSSSSSSAPV--SQIPVKSSDSPPSKGVSDISHLVRKKRKPEEE----SPVKDTDAKQAKRETAVN---GSSDSTASNSNAVQ-GKSQESANQTSPVKSSS--------------
Xiphophorus_maculatus_NASP1      -------------------------------------MEEANKLVGTGKKFLVTGKVVEAVSALQEACGMLAKKYGDTADECGEAFYWCGKALLDLA--RMENSVLGNALEGVP----EEEEEKPKDSNVESVENVD---EKSRDELRVQVYDAMAEKK-------------------------------------------TDSEKQSE-------------ATEESKTEG------------------------------SEATPEKKEEEEDGEDESPAEEKEGESEAA--------------AEQEESTDKPEEAGGDE--------DEDDEETEAEVEELGEGEP---------------TADKDSED-------------------------------------EEVGNLQLAWEMLEVAKVIYRRKE-GKDDQLMAAQTHLKLGEVSAESGNYNQALEDFQECLKVQLKHLDPDSRLLAETHYQLGVTHSLNLQYVPAIQALNNSISVIKNRLEKLQEMMDKAESPEALEEER----KEMEELKALLPEIQEKVEDATEGMKSSAEAAQ------DGASSSSALPDSTVGPADSSSSPALQSTN-------STSVHPSTVPVSDISHLVRKKRKPE------SPVKEAEVKRVKQDDDQEPPANGIHKANGDSAKRTENMEVAK-------------------------
Xiphophorus_maculatus_NASP2      MPVETSTASGSG-SAEEKPCS-----STAAAETSGDVMEEAKKLIGTGKRHLVMGDVVSAVNVFQEACSMLAAKYGDTADECGEAFFLCGKSLLELA--RMENGVLGNALEGVP--EESEEEEQPKNPNLETADNLD---EKTREELRKQVCDAMAEKVE------------PKE--------------------------EVKNENAES-------------EEPVDPEAGETSGAADVGEEKSSVQATEEVRDASAEAVNEEEEEDEGIEESNAEAEQTDETSEGSRCLETKHRCFKLFFLTLYVKTSHMTSDDDDEDEDK--------ENTQDNVSSCLKKPAISGI------------FYMDSNYLISLWGEILK--------------------------RFQEEEDVGNLQLAWEMLEVAKVIFKRKE-SKDDQLMAAQAYLKLGEVSAETGNYPQALEDFQECLIIQLKLLPPHCRLLAETHYHVATTLVFMDQYDQAIKHYNSSVKVIETRLAMLQEVIDAAAGDDGAAEEK----SELEELRQLLPEIREKVEDTKESQRTASAASQAIQQTLGAPSTSSTFP---CENGGPSSSTAFASTS--QIPVKTSESALSSKAVSDISHLVRKKRKPEEE----SPVKDTDAKQLKQEATVN---GSGDSSASNSSETQEGKSKEPSKQSAAVESSS--------------
;
END;

[ The following blocks are output data for analysis step 13929 ]
BEGIN TREES;
      TITLE Fish_Para_Amino_Acid_MLT;
      LINK TAXA = TaxaForAnalysisStep13929;
      TREE Imported_tree_0 = [&R] (((((((Tetraodon_nigroviridis_NASP2,Takifugu_rubripes_NASP2)1.0000,Gasterosteus_aculeatus_NASP2)0.4800,(Xiphophorus_maculatus_NASP2,Oryzias_latipes_NASP2)0.5400)0.4000,Oreochromis_niloticus_NASP2)0.9900,Danio_rerio)0.7200,((Tetraodon_nigroviridis_NASP1,Takifugu_rubripes_NASP1)1.0000,(Oreochromis_niloticus_NASP1,(Gasterosteus_aculeatus_NASP1,(Xiphophorus_maculatus_NASP1,Oryzias_latipes_NASP1)0.5500)0.3400)0.3100)1.0000)1.0000,(Halocynthia_roretzi,Ciona_intestinalis_)1.0000);
[!  TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr75523]


END;