#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 31, 2025; 21:18 GMT TreeBASE (cc) 1994-2008 Study reference: Žižková E., Dobrev P., Muhovski Y., Hošek P., Hoyerová K., Haisel D., Procházková D., Lutts S., Motyka V., & Hichri I. 2015. Tomato (Solanum lycopersicum L.) SlIPT3 and SlIPT4 isopentenyltransferases mediate salt stress response in tomato. BMC Plant Biology, . TreeBASE Study URI: http://purl.org/phylo/treebase/phylows/study/TB2:S16841] [ The following blocks are input data for analysis step 15296 ] BEGIN TAXA; TITLE TaxaForAnalysisStep15296; DIMENSIONS NTAX=21; TAXLABELS Arabidopsis_thaliana_IPT1 Arabidopsis_thaliana_IPT3 Arabidopsis_thaliana_IPT4 Arabidopsis_thaliana_IPT5 Arabidopsis_thaliana_IPT6 Arabidopsis_thaliana_IPT7 Arabidopsis_thaliana_IPT8 Cucumis_sativus_IPT3 Fragaria_vesca_IPT3 Glycine_max_IPT3 Ipomoea_nil_IPT Malus_domestica_IPT Nicotiana_tabacum_IPT1 Solanum_lycopersicum_IPT1 Solanum_lycopersicum_IPT2 Solanum_lycopersicum_IPT3 Solanum_lycopersicum_IPT4 Solanum_lycopersicum_IPT5 Zea_mays_IPT4 Zea_mays_IPT6 Zea_mays_IPT7 ; END; BEGIN CHARACTERS; [! TreeBASE Matrix URI: http://purl.org/phylo/treebase/phylows/matrix/TB2:M25391] TITLE Plant_isopentenyltransferases; LINK TAXA = TaxaForAnalysisStep15296; DIMENSIONS NCHAR=431; 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 ] [ . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . ] Arabidopsis_thaliana_IPT1 MTELNFHLLPIISDRFTTTTTTSPSFSSHSSSSSSLLSFTKRRRKHQPLVSSIRMEQSRSRNRKDKVVVILGATGAGKSRLSVDLATRFP--SEIINSDKIQVYEGLEITTNQITLQDRRGVPHHLLGVINPEHG--ELTAGEFRSAASNVVKEITSRQKVPIIAGGSNSFVHALLAQRFDPKFDPFSSG--SCLISSDLRYECCFIWVDVSETVLYEYLLRRVDEMMDSGMFEELSRFYD---PVKSGLETRFG-IRKAIGVPEFDGYFKEYPPEK--KMIKWDALRKAAYDKAVDDIKRNTWTLAKRQVKKIEMLK-DAGWE-IERVDATASFKAVMMKSSS----EKKWRENWEEQVLEPSVKIVKRHLVQN-------------------------------------------------------- Arabidopsis_thaliana_IPT3 M------------------------IMKISMAMCKQPLPPSPTLDFPPARFGPNMLTLNPYGPKDKVVVIMGATGTGKSRLSVDIATRFR--AEIINSDKIQVHQGLDIVTNKITSEESCGVPHHLLGVLPPE---ADLTAANYCHMANLSIESVLNRGKLPIIVGGSNSYVEALVDDKE---------------NKFRSRYDCCFLWVDVALPVLHGFVSERVDKMVESGMVEEVREFFDFS------NSDYSRGIKKAIGFPEFDRFFRNEQ--FLNVED-----REELLSKVLEEIKRNTFELACRQREKIERLRKVKKWS-IQRVDATPVFTKRRSKM--------DANVAWERLVAGPSTDTVSRFLLDIASRRPLVEASTAVAAAMERELSRCLVA----------------------------- Arabidopsis_thaliana_IPT4 M------------------------------------------------------------KCNDKMVVIMGATGSGKSSLSVDLALHFK--AEIINSDKMQFYDGLKITTNQSTIEDRRGVPHHLLGELNPEAG--EVTAAEFRVMAAEAISEITQRKKLPILAGGSNSYIHALLAKSYDPENYPFSDH--KGSICSELKYDCCFIWIDVDQSVLFEYLSLRLDLMMKSGMFEEIAEFHR---SKK--APKEPLGIWKAIGVQEFDDYLKMYKWDN--DMDKWDPMRKEAYEKAVRAIKENTFQLTKDQITKINKLR-NAGWD-IKKVDATASFREAIRAAKEGEGVAEMQRKIWNKEVLEPCVKIVRSHLDQPINYYYYYFYLLKRFLSLN-------------------------------------- Arabidopsis_thaliana_IPT5 M--------------------------------KPCMTALRQVIQPLSLNFQGNMVDVPFFRRKDKVVFVMGATGTGKSRLAIDLATRFP--AEIVNSDKIQVYKGLDIVTNKVTPEESLGVPHHLLGTVHDTY--EDFTAEDFQREAIRAVESIVQRDRVPIIAGGSNSYIEALVNDCVD--------------FRLR--YNCCFLWVDVSRPVLHSFVSERVDKMVDMGLVDEVRRIFDPS------SSDYSAGIRRAIGVPELDEFLRSEMRNYPAET------TERLLETAIEKIKENTCLLACRQLQKIQRLYKQWKWN-MHRVDATEVFLRRG----------EEADEAWDNSVAHPSALAVEKFLSYSDDHHLEGANILLPEISAVPPLPAAVAAISR-------------------------- Arabidopsis_thaliana_IPT6 M--------------------QQLMTLLSPPLSHSSLLPTVTTKFGSPRLVTTCMGHAGRKNIKDKVVLITGTTGTGKSRLSVDLATRFFP-AEIINSDKMQIYKGFEIVTNLIPLHEQGGVPHHLLGQFHPQDG--ELTPAEFRSLATLSISKLISSKKLPIVVGGSNSFNHALLAERFDPDIDPFSPGSSLSTICSDLRYKCCILWVDVLEPVLFQHLCNRVDQMIESGLVEQLAELYD---PVVD--SGRRLGVRKTIGVEEFDRYFRVYPKEMD--KGIWDLARKAAYEETVKGMKERTCRLVKKQKEKIMKLI-RGGWE-IKRLDATAAIMAELNQSTAK-GEGKNGREIWEKHIVDESVEIVKKFLLEV-------------------------------------------------------- Arabidopsis_thaliana_IPT7 M-------------------------------KFSISSLKQVQPILCFKNKLSKVNVNSFLHPKEKVIFVMGATGSGKSRLAIDLATRFQ--GEIINSDKIQLYKGLDVLTNKVTPKECRGVPHHLLGVFDSEA--GNLTATQYSRLASQAISKLSANNKLPIVAGGSNSYIEALVNHSSG--------------FLLNN-YDCCFIWVDVSLPVLNSFVSKRVDRMMEAGLLEEVREVFNPK------AN-YSVGIRRAIGVPELHEYLRNES-LVDRAT------KSKMLDVAVKNIKKNTEILACRQLKKIQRLHKKWKMS-MHRVDATEVFLKRNV---------EEQDEAWENLVARPSERIVDKFYNNNNQLKNDDVEHCLAASYGGGSGSRAHNMI---------------------------- Arabidopsis_thaliana_IPT8 M----------------------QNLTSTFVSPSMIPITSPRLRLPPPRSVVPMTTVCMEQSYKQKVVVIMGATGSGKSCLSIDLATRFS--GEIVNSDKIQFYDGLKVTTNQMSILERCGVPHHLLGELPPDDS--ELTTSEFRSLASRSISEITARGNLPIIAGGSNSFIHALLVDRFDPKTYPFSS---ETSISSGLRYECCFLWVDVSVSVLFEYLSKRVDQMMESGMFEELAGFYD---PRYSGSAIRAHGIHKTIGIPEFDRYFSLYPPERKQKMSEWDQARKGAYDEAVQEIKENTWRLAKKQIERIMKLK-SSGWD-IQRLDATPSFG-------------RSSREIWDNTVLDESIKVVKRFLVKDKV------------------------------------------------------ Cucumis_sativus_IPT3 M--------------------------NVSSMFMSKITTQQPLINLPPGRLTTNPFSTLRKLQKEKVVIVIGPTGTGKSRLSIDIATRFP--SEVINSDKMQVYHGLDIVTNKITKQEQCGVPHHLLGIINPF---LDFSASNFSDMAMLSLDAISSHDRLPIIAGGSNSYIEALIDS------------------NFRLRYECCFLWVDVSMQVLQSFVSERVDKMVANGMVDEAEKFFDP-------ARDYSRGIKRAIGVPEFDSYFRYRS--LLDEEA-----QEKLLEESIAKVKEHTCKLALRQLGKIQRLRNVKGWN-IHRLDATEAFTKQGK----------EADEAWNKHVTIPSTTIIDQFLHQNVIATKFPTNLASLIGVPRKKSAAMAAATP--------------------------- Fragaria_vesca_IPT3 M-----------------------TMNMMPMCKQAQALPNVQLSNIGGGHSHNLLDVFNPRRQKDKVVIVMGATGTGKSKLSIDLATRFP--AEIINSDKMQFYEGLDIATNKITPQEQRDVPHHLLGVLDPN---VDFSADDFSNVTCLAVDSILNRNRLPIIVGGSNSYIETLVDGYD---------------NMFRSRYDCCFLWVDVSLSVLHSFVSDRVDQMVENGLVEEVREFFDP-------NADYTKGIRRAIGVPEFDDFFRYGP--FLDDET-----RAGLLERAINEVKDNTCKLACRQLEKIRRLR-NKGWS-LHQLDATEVFQKRGK----------ESHEAWDRLVSGPSAMIVRQFLYNNKAEVTTNAIRVPVAIETAALAAATY------------------------------- Glycine_max_IPT3 M--------------------------MNMLSVSAALCKPVASFNPASHSLRNMNSLSLFMNKKEKVVVIMGATGTGKSKLAIELATQFPP-AEIVNSDKMQVYEGLNITTNKVTEEERRGVPHHLLGTVNPN---TSFTAQDFCDQATLAVGSILGRDGLPIIAGGSNSFLDALVNHHTE--------------FRLR--YDCCFLWVDVSLPVLHSSLSARVDRMIHSGQLHEVRQSFQYH------NQDYTLGIRKAIGVPEFHDFFRAEADGADQRT------KQRLLQAAIASLKTNNCTLAKRQLQKIHRLYSMWKRN-MHRLDATEVFLKTTR---------QEAEEAWEDHVLSKTRRILHKFL-YEDTHVVPAGIASVVIASSPPPMPATAAAATH-------------------------- Ipomoea_nil_IPT M-----------------------SMRFAPTFMCKQKLPLLHMPNGG-----GIDLKILHRPQKEKVVVVMGATGAGKSRLSVDLATRFS--AEIVNADKMQVYQGFDVLTNKVTDEEAGGVPHHLLGIIDPE---KDFTAKNFCNAASRCIKSIAGRGRLPMIAGGSNSFIEALVEDED---------------SKMKSKYDWCFICVDVALPVLHSFVSERVDRMVEKGMIEEARGMFNPA------SRDYSKGLRRAIGMQELDRYFRIE----SDEEH-----RARLLEDAINDVKKNTRTLACRQLEKIKRLKHVKGWK-IHRLDATEAFLKRGGS---------EADQAWENLVVAPGTAILNRFLHSHASSGSLFFTANNLLIPPAAARATVAAAAIH-------------------------- Malus_domestica_IPT M---------------------------MPMCKQIQTLLHVPSSGHN-----HKMDVFNPHRQKEKVVIVMGATGTGKSRLSIDLATCFP--AEIINSDKMQVYEGLDIVTNKITKEEQRGVPHHLLGMLDPH---EDFTARDFCDLTSIAIESILGRDRLPIIVGGSNSYIEALIDDYD---------------YKFRSKYDCCFLWVDVSTPVLHSFVSKRVDHMVQNGMVDEAREYFDP-------NADYTKGIRRAIGVPEFDKYFRYGP--FLEEET-----RARLLRQAVDEIKDNTCKLACRQLEKIHRLRNIKGWN-LHPLDATEVFRKRGE----------EADEAWKKLVSGTSAMIVGQFLYNMTAEVPPHLGSLRVLEALAAATH---------------------------------- Nicotiana_tabacum_IPT1 M---------SKLSFLSKTNHSLCSNKILFPLTIPRKIFFPKPKWTRNVVTDSVLS-------PKKIVVIMGATGSGKSKLSIDLATRFFP-SEIINSDKIQVYNGLEITTNKISMPERKGIPHHLLGEFNASESHPEFSPSDYRSAASCRINEIINRGKIPLIVGGSNSFIYALLAKRFNPKIDFLEPFNPVQWVSNELRYKCCFIWVDVLGTVLNKYLDKRVDEMLRSGMVEELEEYFNKEGFSDSNSVSRNSGIRKAIGVPEFERYFKGEE----------------LYEEAAKEIKENTRVLAERQVGKILRLR-EAGWD-LQRVDATAAFTAVMTSE----SGKSAAMKIWEEQVSEPSEKIVKQFLLEQ-------------------------------------------------------- Solanum_lycopersicum_IPT1 M---------------RSFFHIHCKN----------FKFLRNNLCPSYVSYNIATTTVAPLTTTKKIVVIMGATGSGKSKLSIDLATRGFN-SEIINSDKIQVSKGLDITTNKISINEQSGVVHHLLGEFSGPE---LFSPSDFRHTADNRITDIINRRRLPLIVGGSNSFIYALLSNQFNPGVDVFDEINPVQCISKELRYHCCFILVDVLTPVLNRYLFQRVDEMMNSGMYEELEEFFAKNGFSDRNTG-----IRKAIGVPEMEGYFRNLKNCTT------VQEKCRLYEAALREIKENTKELAEKQIRKIQRLR-ESGWD-LQKVDATEALRAKMTPG----NSKIPATEIWERQVVLPSMKIVKQFLLE--------------------------------------------------------- Solanum_lycopersicum_IPT2 M---------RKLSFLSSANHSNT--------------LFFFPKWTRNVVISATSSNVPRLQRSKKIVVIMGATGCGKSKLSIELATHFFPSIEVINSDKIQVYNGLDITTNKISMNERCGIVHHLLGEFKSTESQPEFTPSDFRSAGDFRINEIVNRGKIPFIVGGSNSFIYALLVKRFDSRFDIFESLN---PVSEELRYQCCFIWVDAIAPVLNQYLDKRVDEMLDSEMFEELKEYFEKEGFSDSGSD----GIRKAIGVPEFEKYFKGKI----------------SYEEAAMEIKENTRVLAERQVKKIMRLR-EGGWN-IQRVDATETLTAKMVSEKMA-GGENPAGKIWEEEVLKPSAKIVKQFLLE--------------------------------------------------------- Solanum_lycopersicum_IPT3 M-------------------------NIVLQHIAPFVTCKHQLLINFRDSLTIDPFIPPRRK--DKVVIVMGATGTGKSRLSIDLAKQFS--AEVVNSDKMQIYEGLDIVTNKVTDKETCGIPHHLLSIIDPN---EVFTATDFCQRASKAVDSIISKGQLPIIAGGSNSYIKALVNDD----------------IEFKSRYECCFLWIDVNLKILQKFVSERVDKMVKEGLVDEAREFFNP-------DGDYTSGIRRAIGVPEMHQYFINENNKMINENT-----RDKMLQIAIENIKVNTCKLACCQRQNILRLESQLEWK-INRLDATEAFEKKDG----------EAHQAWNRIVYERSTQIVRHFRGEKLLNIPPPPPPSSSTSFLHKVATMTH------------------------------- Solanum_lycopersicum_IPT4 M------------------------------------IGMMNSAQMCKQVRWQNLLQLQNFLQKDKVVVVMGVTGAGKSKLSIDLATQFD--GEIINSDKIQVYKGLDIATNKITEEERCGVPHHCLGVIDPY---KEFTTKNFCNMASFTVNSITNRGKLPIIVGGSNSFIEAFVHNSNS--------------YNFSTRYDFCFLWVDASMNVLNSFLYERVDKMVDQGMVDEVRQIFNPK------NMDYTKGIRKAIGVPEFDSYFRAELSNSVDRQT-----LERMLEEAITEIKINNCILASKQLEKIKRLISVKGWK-IHRLDASEVFKKQRIAEE------KEAEEIWKNMVMGQSRKIVHKFLYENYRNSMVYKTDGTAIMAAASHY----------------------------------- Solanum_lycopersicum_IPT5 M---------------------------------------EIVEKLQNPNNGGEIKLNPTSNSKPKVVVIMGATGSGKSKLAIDLASHFP--IEIINADSMQVYQGLDVLTNKVTPQEQKGVPHHLLGTISPC---VEFTAKDFRDSTISIINEIWLRNRLPVIVGGTNYYIQALVSP---------------------------FLLDDSVEDAEANCLSDFQEDEKPDLEVELINEDYDCA---------------------------------------------YNRLKDIDPVAANRIHPNNGRKINQYLNLYARFGVIPSKLLQEKTVEGRTG------------VKLIIQDMIFASYA------------------------------------------------------------------ Zea_mays_IPT4 MSLYLAPTAAAATTTTTTLPRQLLPAPSIDLRRLERRGMALPLPPAPAPPPPLVSANNRHAGAKHKAVVVMGATGTGKSRLAVDLALRFG--GEVINSDKIQLHAGLDVTTNKVTEQERAGVPHHLLGVARPD---EEFTAADFRREATRAARAITARGRLPIVAGGSNSYVEELVDGDR---------------AAFRDRYDCCFLWVDVQRAVLHGCVARRVDEMRARGLVDEVAAAFDPR------RNDYSRGLWRAIGAPELDAYLRWPGPGVDGDAES-EGERDRLLAAAIEDIKSNTRRLSCRQRAKIQRLAKMWG---VRRVDATEVFRRRG----------DEADEAWQRLVAAPCIDAVRSFLRTDDAAATVASDLAVDGVVPVFAPAPAAAVAG--------------------------- Zea_mays_IPT6 M-----------------TLSMTAPAMAAAPPACSPMAARLTMPPLPDAAAPLSVVGCRRMAAKHKAVVVLGATGTGKSRLAIDLALRFG--GEVINSDKIQAYAGLDVATNKVGPAERAAVPHHLLGVVHPD---AEFTAADFRREAAGAAARVASRGRVPIIAGGSNSYVEELVEGDR---------------RAFRERYDCCFLWVDARLPVLHGFVARRVDEMCRRGLVDEVAAAFDPR------RTDYSRGIWRAIGVPEMDAYLRAGG-HGDGDGDE-QEQRARMLAAALDEIKVNTSRLALRQRGKIQRLARMWR---VRRVDATEVFLKRG----------HAADEAWQRLVAAPCIDAVRSFLLEEQEYSSSMVTASMFASTAAAAV----------------------------------- Zea_mays_IPT7 M-------------------------------------------------AGVNGATASGGDNKAKVVLVMGATATGKSKLAIDLALRFG--GEVVNSDKIQVHDGLDVVTNKVTAAERQGVPHHLIDGVAPD---ADYTTADFCRDAVRAVESILERGRVPIIAGGSNRYLEALLDGEPP--------------AGFRGRYECCFLWVDSDLAVLDRYIGSRVDCMLEQGLVREVRAFFRHD------DADYSRGIRRAIGVPEMDMYFRMEAAGALDGDDD-DQLRVRLLAAAVNEIKANTCGLARRQLQKIHRLHGLQGWSDIHRLDVTEVLQLKVGNAGNP----KAQRDAWETDVVSPAARIVGMFLAVEGARDKDKDRFLLTTPKEVAVPGICTATADWFGQQLDMTVMSPSKGFAGLGSAAAAV ; END; [ The following blocks are output data for analysis step 15296 ] BEGIN TREES; TITLE Plant_isopentenyltransferases; LINK TAXA = TaxaForAnalysisStep15296; TREE Imported_tree_1 = [&R] ((((((((Malus_domestica_IPT:0.12425827,Fragaria_vesca_IPT3:0.14209404)0.8200:0.02656308,Cucumis_sativus_IPT3:0.22740881)0.5030:0.01739297,Solanum_lycopersicum_IPT3:0.28627604)0.2850:0.01648837,(Arabidopsis_thaliana_IPT3:0.22931525,Ipomoea_nil_IPT:0.21417725)0.2060:0.00627364)0.1520:0.01561896,Solanum_lycopersicum_IPT4:0.25646135)0.1450:0.00979705,(Glycine_max_IPT3:0.25901675,((Arabidopsis_thaliana_IPT5:0.1525351,Arabidopsis_thaliana_IPT7:0.26042068)0.3050:0.00816266,(Zea_mays_IPT7:0.28350209,(Zea_mays_IPT6:0.1216581,Zea_mays_IPT4:0.09405047)1.0000:0.14129982)0.8890:0.05634749)0.3290:0.0114265)0.3110:0.01899193)0.7860:0.06315013,(((Solanum_lycopersicum_IPT2:0.14719378,Nicotiana_tabacum_IPT1:0.09986532)0.9800:0.05527092,Solanum_lycopersicum_IPT1:0.1869604)1.0000:0.12224849,(Arabidopsis_thaliana_IPT6:0.3303032,(Arabidopsis_thaliana_IPT8:0.20125683,(Arabidopsis_thaliana_IPT4:0.25263965,Arabidopsis_thaliana_IPT1:0.19085286)0.5960:0.02051947)0.5820:0.01806619)0.9380:0.05641608)0.9600:0.05940737)0.0000:0.10784286,Solanum_lycopersicum_IPT5:0.55396951); [! TreeBASE tree URI: http://purl.org/phylo/treebase/phylows/tree/TB2:Tr80220] END;