#NEXUS BEGIN TAXA; TITLE Taxa; DIMENSIONS NTAX=37; TAXLABELS Burkholderia_pseudomallei_T6SS1 Burkholderai_pseudomallei_T6SS3 Burkholderia_pseudomallei_T6SS2 Burkholderia_pseudomallei_T6SS6 Burkholderia_pseudomallei_T6SS4 Burkholderai_pseudomallei_T6SS5 Burkholderia_thailandensis_T6SS1 Burkholderia_thailandensis_T6SS6 Burkholderia_thailandensis_T6SS2 Burkholderia_thailandensis_T6SS4 Burkholderai_thailandensis_T6SS5 Burkholderia_glumae_BGR1_YP_002910292 Burkholderia_glumae_BGR1_YP_002907865 Burkholderia_glumae_BGR1_YP_002908402 Burkholderia_glumae_BGR1_YP_002908734 Burkholderia_glumae_BGR1_YP_002907919 Burkholderia_gladioli_BSR3_YP_004359059 Burkholderia_gladioli_BSR3_YP_004362835 Burkholderia_gladioli_BSR3_YP_004348376 Burkholderia_glumae32525_contig64 Burkholderia_glumae32525_contig36 Burkholderia_glumae32525_contig300 Burkholderia_glumae32525_contig468 Burkholderia_gladioli3848s_contig16 Burkholderia_gladioli3848s_contig265 Ralstonia_eutropha_YP_841946 Ralstonia_eutropha_YP_725168 Agrobacterium_tumefaciens_C5A Vibrio_cholerae_O1 Burkholderia_glumae_AU6208_1 Burkholderia_glumae_AU6208_2 Burkholderia_glumae_AU6208_3 Burkholderia_glumae_AU6208_4 Burkholderia_glumae_LMG2196_1_Contig156 Burkholderia_glumae_LMG2196_2_Contig4 Burkholderia_glumae_LMG2196_3_Contig26 Burkholderia_glumae_LMG2196_4_Contig199 ; END; BEGIN CHARACTERS; TITLE Burkholderia_T6SS; DIMENSIONS NCHAR=217; FORMAT DATATYPE = Protein GAP = - MISSING = ?; MATRIX Burkholderia_pseudomallei_T6SS1 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEIKELPFVVGVVGDLAG--Q-SEIEQPKLRDRKFVNIDRDNFDDVMKAIEPRATFQVENRLSEA---GGKFAVDLK--------FRSINDFNPDEVVGQVEPLRRLLEARSKLADLRNKLAGNDKLEDLLSEVLSNTQQLE----------------ALKKSADGGDKQGE----------- Burkholderai_pseudomallei_T6SS3 MSAS----SSSQKFIARNRAPRVQIEYDVEVYGSEKKVELPFVMGVLADLSGK---PVAPLPAVADRRFLDIDIDNFDERMKAIKPRVAFAVDNTLSGD---GQLM-VDMT--------FESIEDFSPAAIARMVGPLRQLLEARTQLANLQTYMDGKSGAETLVNQLLQDPALLRS------LAAAPKPQLAGGPDAGNARGAKDAPDTANHDSDA Burkholderia_pseudomallei_T6SS2 MAIS----NSSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PLEPLPAVGDRKFFSIDIDNFDERMKAMKPRVAFSVPNTLSGD---GQLM-VDIT--------FESMDDFSPAAIAKKVDALSQLLDARTQLANLQTYMDGKSGAENLVSKVLKDPALLSA------LAKAPKPVAEQAENRESKEKH------------- Burkholderia_pseudomallei_T6SS6 MTSKYKASASGQKFIARNRAPRVQIEYDVETYGAERKVQLPFVMGVIADLAGK---RAEPLPDLPERKFLEIDVDNFDERMKSIAPRVAFQVPNTLSGD---GMLS-VDMT--------FESIDDFSPAAIARNVDALRRLLDARTELSNLLSYMDGKHGAEQLIENAINDPALLAS------LVRQPLAADAEGGARQPV-TGTEDDPEIRHE--- Burkholderia_pseudomallei_T6SS4 MVRQ----KDGQKFIGESRAPRVQIEYDVEVYGSQKKVELPFVAGVMADLSGD---NVEPLGPVEDRRFQEIDVENFDERMAQIAPSLSYHVKNVLTND---GTLIPIDLT--------FTSMESFEPADVVKRIPELSTLLEARNRLKELLTYMDGKAAAEDVIQELLKSPQWANE------ADAA-EQSGGAGEGGDHQPEEGAK---------- Burkholderai_pseudomallei_T6SS5 ----------MTTNGSVAPKERVNIVYRPATGDAQAEVELPLKVLVLGEFSTA-----ADKPPLEELSPVNVDKDDFNDVMRAQNLQLTLSVPNLLDDQAGEDDRLSVTLG--------FDSVHDFSPDAIVEKVPELKQLIALRDALKALKSPIGNIPGFRRRIQEIVADKGARKQ------------LLDEL----GLDEQ-------------- Burkholderia_thailandensis_T6SS1 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEIKELPFVVGVVGDLAG--Q-SEVEQPKLRDRKFVNIDRDNFDDVMKAIEPRATFQVENRLSDA---GGKFAVDLK--------FRSINDFNPDEVVGQVEPLRRLLEARSKLADLRNKLAGNDKLEDLLSEVLSNTQQLE----------------ALKKGADGGDKQGE----------- Burkholderia_thailandensis_T6SS6 MTSKYKASASGQKFIARNRAPRVQIEYDVETYGAERRVQLPFVMGVIADLAGK---RAEPLPDLPERKFLEVDVDNFDERMKSIAPRVAFQVPNTLSGD---GMLS-VDMT--------FESIDDFSPAAIARNVDALRRLLEARTELSNLLSYMDGKHGAEQLIENAINDPELLKT------LVRQPLAASADGGAPAVADTGTADDSEIRHE--- Burkholderia_thailandensis_T6SS2 MAIS----NSSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PIEPLPAVGDRKFFSIDIDNFDERMKAMKPRVAFSVPNTLSGD---GQLM-VDIT--------FESMDDFSPAAIAKKVDALSQLLDARTQLANLQTYMDGKSGAENLVSKVLKDPALLSA------LAKAPKPAAQQAENRESKEKH------------- Burkholderia_thailandensis_T6SS4 MVRQ----KDGQKFIGESRAPRVQIEYDVEVYGSQKKVELPFVAGVMADLSGD---NTEPLGPVEDRRFQEVDVENFDERMAQIAPSLSYHVKNVLTND---GTLIPIDLT--------FTSMESFEPAAVVKRIPELSTLLEARNRLKELLTYMDGKAAAEDVIQELLKSPQWANE------ADAAPEQSGGAGEGADHQPEEGAK---------- Burkholderai_thailandensis_T6SS5 ----------MTTNGSVAPKERVNIVYRPATGDAKAEVELPLKVLVLGEFSTA-----DDKPPIEELAPVNVDKDDFNDVMKAQRLTLALSVPNLLDDQAGEDDRLSVALG--------FESIADFSPDAIVETVPELKQLVALRDALKALKGPLGNIPGFRKRIQEIVADKGARKQ------------LLDEL----GLDEQ-------------- Burkholderia_glumae_BGR1_YP_002910292 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAIEPRAAYQVENKLSED---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKMAGNDKLEDLLSEVLSNTQQLE----------------ALAKQSGEADGKPDDGKNSGE---- Burkholderia_glumae_BGR1_YP_002907865 MSVS----NNSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PIEALPAVAERKFFNIDIDNFDERMKAMKPRVAFSVPNTLTNQ---GELM-VDMT--------FESMDDFSPAAVARKVDALAQLLDARTQLANLQTYMDGKAGAESLVSKVLRDPALLEA------LAKAPKPRSASSDDATAGE--------------- Burkholderia_glumae_BGR1_YP_002908402 MS------ESVQKKLLRIRPPRVRITYDVETGGAIEKTELPFIVGILADLKGERE-DAEHYPSLKERSMIEIDRDNFDDVMKKIQPRATFTQLK---QD---DAALKALLVQDGDNALIFPNMEAFEPLKVIKALPSLNDIYVNRGKIRDLQARAETSDPVSKVLDAMIQGAVLGQAAVAAQPAVPDQPEVPAVPAVPADGDKPAVEAVPGKPAVKG Burkholderia_glumae_BGR1_YP_002908734 ----------MDSFQREIPKSRVSITLDLHTGGARKKVELPLKLLVAGDFSAG-----REQAPLAERKKINIDKNNFDAVLADYAPDLKISAENTLAGD---GSALPVNLS--------FRSMKDFEPEQVARQIPELQAMLAMRNLLRDLKSNLLDNGTFRREFEKILKDKHLSDK------------LRSELAQVATAATQPEGQA--------- Burkholderia_glumae_BGR1_YP_002907919 ----------------------------MHTGGARKKVELPLKLLVAGDFSAG-----REQAPLAERKKINIDKNNFDAVLADYAPDLKISAENTLAGD---GSALPVNLS--------FRSMKDFEPEQVARQIPELQAMLAMRNLLRDLKSNLLDNGTFRREFEKILKDKHLSDK------------LRSELAQVATAATQPEGQA--------- Burkholderia_gladioli_BSR3_YP_004359059 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAIEPRAAYQVENKLSEE---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKLAGNDKLEDLLSEVLSNTQQLQ----------------ALAKQSGGGDKEGE----------- Burkholderia_gladioli_BSR3_YP_004362835 MSAS----SSSQKFIARNRAPRVQIEYDVEVYGSEKKVELPFVMGVLADLSGK--HPSEPLPAVTDRRFLEIDIDNFDERMKAIRPRVAFAVPNTLTGE---GQMM-VDMT--------FESMEDFSPAAIARKVEPLRQLLEARTQLANLQTYMDGKSGAEALVTQLLQDPALLKS------LAAAPKPERH---DAGAAD-----PSEAN----- Burkholderia_gladioli_BSR3_YP_004348376 MATR----QSSQKFIARNRAPRVQIEYDVELYGAQKKVQIPFVMGVMSDLSGA---NAGELPPIEERKALEIDVDNFDSRMQSMKPRVNFTVPNTLTGE---GNLE-VDIS--------FESMDDFSPAAVARKVDSLARLLEARTQLANLGTYLDGKVGAEKLIAQALKDPALLQS------LSSAPKAADTEPGQE------------------- Burkholderia_glumae32525_contig64 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAIEPRAAYQVENKLSED---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKMAGNDKLEDLLSEVLSNTQQLE----------------ALAKQSGEADGKPDDGKNSGE---- Burkholderia_glumae32525_contig36 MSVS----NNSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PLEALPAVAERKFFNIDIDNFDERMKAMKPRVAFSVPNTLTNQ---GELM-VDMT--------FESMDDFSPAAVARKVDALAQLLDARTQLANLQTYMDGKAGAESLVSKVLRDPALLEA------LAKAPKPRSASSDDATAGE--------------- Burkholderia_glumae32525_contig300 MS------ESVQKKLLRIRPPRVRITYDVETGGAIEKTELPFIVGILADLKGERE-DAEHYPSLKERSMIEIDRDNFDDVMKKIQPRATFTQLK---QD---DAALKALLVQDGDNALIFPNMEAFEPLKVIKALPSLNDIYVNRGKIRDLQARAETSDPVSKVLDAMIQGAVLGQAAVAAQPAVPDQPEVPAVPAVPADGDKPAVEAVPGKPAVKG Burkholderia_glumae32525_contig468 ----------MDSFQREIPKSRVSITLDLHTGGARKKVELPLKLLVAGDFSAG-----REQAPLAERKKINIDKNNFDAVLADYAPDLKISAENTLAGD---GSALPVNLS--------FRSMKDFEPEQVARQIPELQAMLAMRNLLRDLKSNLLDNGTFRREFEKILKDKHLSDK------------LRSELAQVATAATQPEGQA--------- Burkholderia_gladioli3848s_contig16 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAMEPRAAYQVENKLSEE---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKLAGNDKLEDLLSEVLSNTQQLQ----------------ALAKQSGGGDKEGE----------- Burkholderia_gladioli3848s_contig265 MATR----QSSQKFIARNRAPRVQIEYDVELYGAQKKVQIPFVMGVMSDLSGA---NAGELPPIEERKALEIDVDNFDSRMQSMKPRVNFTVPNTLTGE---GNLE-VDIS--------FESMDDFSPAAVARKVDSLARLLEARTQLANLGTYLDGKVGAEKLIAQALKDPALLQS------LSSAPKAADTEPGQE------------------- Ralstonia_eutropha_YP_841946 MS------NSLQKWVGRNRPPRVQISYDVEVGDAVEKRELPMVVGLLADLSG--Q-PAVPPPKLKERRFIEIDRDNFDGIMGKIAPRLELSVPDTM-KG---DTNLKVELR--------FDKFSDFHPESLVAQVPRLAKLLEARQQLRDLLGKLDGNDELDVLLERIVNNADELK-------LVRSEADSGAAAAQPETGDATPA----------- Ralstonia_eutropha_YP_725168 MSVV----NSSQKFIARNRAPRVQIEYDVEVYGSEKRIELPFVMGVLADLSGR---PAEPLPAVADRKFLEIDIDNFDERMKAMKPRVAFAVPNTLSGD---GQLM-VDMT--------FESIEDFSPAAVAGKVDALRQLLEARTQLANLQTYMDGKSGAESLINQLLQDPALLQS------LAKAPKPR------AGDDE-----PQSPQS---- Agrobacterium_tumefaciens_C5A MA-------SVHEKLERVRKPRVHIKYEVETEGAMVVKELPFVVGVLGDFSGN---PTQPLKPFGERKFVQIDRDNFDEVMRRMTPGLNISVANTLQKD---GTDMQVNLK--------FESMDDFEPGAVVQQVPALKALLDARNELRDLLSKADRSEDLERMLEGILQNKTDLAT------------LVSELKEKSGAGE--------------- Vibrio_cholerae_O1 ----------MSKEGSVAPKERINIKYIPATGDAQAEVELPLKTLVVGDFKGH-----AEQTPLEERATVTVDKNNFEAVMRESELKITATVKNKLTDD--ENAELPVELN--------FKSLADFAPDAVASQVPELKKLIELREALVALKGPLGNIPAFRERLQSLLNSEESREK------------LLAELNLLSGQEEPQA------------ Burkholderia_glumae_AU6208_1 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAIEPRAAYQVENKLSED---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKMAGNDKLEDLLSEVLSNTQQLE----------------ALAKQSGEADG-------------- Burkholderia_glumae_AU6208_2 -S------ESVQKKLLRIRPPRVRITYDVETGGAIEKTELPFIVGILADLKGERE-DAEHYPSLKERSMIEIDRDNFDDVMKKIQPRATFTQLK---QD---DAALKALLVQDGDNALIFPNMEAFEPLKVIKALPSLNDIYVNRGKIRDLQARAETSDPVSKVLDAMIQGAVL------------------------------------------- Burkholderia_glumae_AU6208_3 MSVS----NNSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PLEALPAVAERKFFNIDIDNFDERMKAMKPRVAFSVPNTLTNQ---GELM-VDMT--------FESMDDFSPAAVARKVDALAQLLDARTQLANLQTYMDGKAGAESLVSKVLRDPALLEA------LAKAPKPRSASSDDA------------------- Burkholderia_glumae_AU6208_4 ------------------PKSRVSITLDLHTGGARKKVELPLKLLVAGDFSAG-----REQAPLAERKKINIDKNNFDAVLADYAPDLKISAENTLAGD---GSALPVNLS--------FRSMKDFEPEQVARQIPELQAMLAMRNLLRDLKSNLLDNGTFRREFEKILKDKHLSDK------------LRSELA---------------------- Burkholderia_glumae_LMG2196_1_Contig156 MAKK----ESIQKRLQKVRPPRVQLTYEVERGDAIEVKELPFVVGVVGDLAG--Q-SEVEMPKLRDRKFVNIDRDNFDDVMKAIEPRAAYQVENKLSED---GGKFAVDLK--------FRSLDDFDPDQVVNQIEPLRRLIEARSKLADLRNKMAGNDKLEDLLSEVLSNTQQLE----------------ALAKQSGEAD--------------- Burkholderia_glumae_LMG2196_2_Contig4 MSVS----NNSQKFIARNRAPRVQIEYDVEIYGSEKKVELPFVMGVLADLSGK---PIEALPAVAERKFFNIDIDNFDERMKAMKPRVAFSVPNTLTNQ---GELM-VDMT--------FESMDDFSPAAVARKVDALAQLLDARTQLANLQTYMDGKAGAESLVSKVLRDPALLEA------LAKAPKPRSASSDDA------------------- Burkholderia_glumae_LMG2196_3_Contig26 -----------DSFQREIPKSRVSITLDLHTGGARKKVELPLKLLVAGDFSAG-----REQAPLAERKKINIDKNNFDAVLADYAPDLKISAENTLAGD---GSALPVNLS--------FRSMKDFEPEQVARQIPELQAMLAMRNLLRDLKSNLLDNGTFRREFEKILKDKHLSDK------------LRSELA---------------------- Burkholderia_glumae_LMG2196_4_Contig199 MS------ESVQKKLLRIRPPRVRITYDVETGGAIEKTELPFIVGILADLKGERE-DAEHYPSLKERSMIEIDRDNFDDVMKKIQPRATFTQLK---QD---DAALKALLVQDGDNALIFPNMEAFEPLKVIKALPSLNDIYVNRGKIRDLQARAETSDPVSKVLDAMIQGAVL------------------------------------------- ; END; BEGIN TREES; Title Burkholderia_T6SS_NJ; LINK Taxa = Taxa; TRANSLATE 1 Burkholderia_pseudomallei_T6SS1, 2 Burkholderai_pseudomallei_T6SS3, 3 Burkholderia_pseudomallei_T6SS2, 4 Burkholderia_pseudomallei_T6SS6, 5 Burkholderia_pseudomallei_T6SS4, 6 Burkholderai_pseudomallei_T6SS5, 7 Burkholderia_thailandensis_T6SS1, 8 Burkholderia_thailandensis_T6SS6, 9 Burkholderia_thailandensis_T6SS2, 10 Burkholderia_thailandensis_T6SS4, 11 Burkholderai_thailandensis_T6SS5, 12 Burkholderia_glumae_BGR1_YP_002910292, 13 Burkholderia_glumae_BGR1_YP_002907865, 14 Burkholderia_glumae_BGR1_YP_002908402, 15 Burkholderia_glumae_BGR1_YP_002908734, 16 Burkholderia_glumae_BGR1_YP_002907919, 17 Burkholderia_gladioli_BSR3_YP_004359059, 18 Burkholderia_gladioli_BSR3_YP_004362835, 19 Burkholderia_gladioli_BSR3_YP_004348376, 20 Burkholderia_glumae32525_contig64, 21 Burkholderia_glumae32525_contig36, 22 Burkholderia_glumae32525_contig300, 23 Burkholderia_glumae32525_contig468, 24 Burkholderia_gladioli3848s_contig16, 25 Burkholderia_gladioli3848s_contig265, 26 Ralstonia_eutropha_YP_841946, 27 Ralstonia_eutropha_YP_725168, 28 Agrobacterium_tumefaciens_C5A, 29 Vibrio_cholerae_O1, 30 Burkholderia_glumae_AU6208_1, 31 Burkholderia_glumae_AU6208_2, 32 Burkholderia_glumae_AU6208_3, 33 Burkholderia_glumae_AU6208_4, 34 Burkholderia_glumae_LMG2196_1_Contig156, 35 Burkholderia_glumae_LMG2196_2_Contig4, 36 Burkholderia_glumae_LMG2196_3_Contig26, 37 Burkholderia_glumae_LMG2196_4_Contig199; TREE PAUP_1 = (((29:0.40711947,(6:0.03810632,11:0.09196695):0.50894638):0.79428342,(33:1.0E-8,(16:0.00660975,(36:1.0E-8,(15:1.0E-8,23:1.0E-8):1.0E-8):1.0E-8):1.0E-8):0.73818541):0.452485275,(28:0.35027539,(((26:0.69813897,(37:1.0E-8,(31:1.0E-8,(14:1.0E-8,22:1.0E-8):1.0E-8):1.0E-8):1.22303201):0.06512232,((1:0.00680258,7:0.01179299):0.08476632,((17:1.0E-8,24:0.00615127):0.00345232,(34:1.0E-8,(30:1.0E-8,(12:1.0E-8,20:1.0E-8):0.0):0.0):0.05611689):0.04564691):0.75143147):8.238E-5,((5:0.01483915,10:0.00788774):0.78277786,(((4:0.02990545,8:0.05109981):0.33847917,(19:1.0E-8,25:1.0E-8):0.32639067):0.07484782,((27:0.08326113,(2:0.09233847,18:0.08362348):0.10427088):0.03728609,((3:0.00317853,9:0.01432403):0.13501016,(32:1.0E-8,(21:1.0E-8,(13:1.0E-8,35:1.0E-8):0.00587792):0.0):0.09289003):0.0951252):0.14645545):0.21202266):0.66047434):0.24763107):0.452485275)[% ] [% ] [% setBetweenBits = selected ]; END;