S1 Text - Mucci JS et al (2017) This supporting file contains information on the conservation of the selected epitopes. We have tried to compile information from complete T. cruzi genomes from different evolutionary lineages (Discrete Typing Units, DTUs). For each peptide (naming/numbering follows Table 1), we provide a small multiple sequence alignment showing presence and conservation of the peptide in other strains/isolates. In the case of hybrid lineages more than one representative sequence may have been included in the alignment. p1 Tc00.1047053507071.20 mucin-associated surface protein (MASP) TcVI CL-Brener LQVAGIKTTTATTGDS TcVI CL-Brener LQVAGIKTTTATSGDS TcV Tulacl2 LQVAGIKTTTATTGDS TcV Tulacl2 LQVAGIKTTTATSGDS TcI SylvioX10 VEVAGIKTATVTTGDS TcI JRcl4 VEVAGIKTATATTGDS TcI Dm28c VEVAGIKTATVTTGDS TcII Esmeraldo LQVAGIKTATVTSGDA + ****** *+*+**+ // p2 Tc00.1047053506401.320 60S ribosomal protein L7a, putative, antigenic protein (Carmona SJ et al 2012) TcVI CL-Brener AKPAAKPAAKPAAKP TcV Tulacl2 AKPAAKPAAKPAAKT TcI SylvioX10 AKPAAKPAAKPAAKT TcI JRcl4 AKPAAKPAAKPAAKT TcI Dm28c AKPAAKPAAKPAAKP TcII Esmeraldo AKPAAKPAAKPAAKP ************** // p3 Tc00.1047053506973.30 mucin-associated surface protein (MASP) TcVI CL-Brener EKQQQSDEAQVQQHQ TcV Tulacl2 EKQQQSDEAQVQQHQ TcI SylvioX10 EKQQQSDEAQVQQHQ TcI JRcl4 EKQQQSDEAQVQQHQ TcI Dm28c EKQQQSDEAQVQQHQ TcII Esmeraldo EKQQQSDEAQVQQHQ *************** // p4 Tc00.1047053511727.290 RNA-binding protein, putative TcVI CL-Brener PASKPAAKPAAKAPA TcV Tulacl2 PASKPANKPAPKPAA TcI SylvioX10 PASKPAAKPAAKPAA TcI JRcl4 PASKPAAKPAAKPAA (pseudogene) TcI Dm28c --------------- TcII Esmeraldo PASKPANKPAPKPAA ****** *** * * // p5 Tc00.1047053507083.109 hypothetical protein, conserved TcVI CL-Brener WFEREVDGHDFIREH TcV Tulacl2 WFEREVDGHDFIREH TcI SylvioX10 WFEREVDGHDFIREH TcI JRcl4 WFEREVDGHDFIREH TcI Dm28c WFEREVDGHDFIREH TcII Esmeraldo WFEREVDGHDFIREH *************** // p6 Tc00.1047053507071.170 mucin TcMUCII, putative TcVI CL-Brener TTNAPSRLREIDGSL TcVI CL-Brener TTSAPSRIREMDGSL TcV Tulacl2 TTNAPSRLREIDGSL TcI SylvioX10 TTHAPSRLREIDGSL TcI JRcl4 TTHAPSRLREIDGSL TcI Dm28c --------------- TcII Esmeraldo TTRAPSRLREIDGSL ** ****+**+**** // p7 Tc00.1047053509793.50 hypothetical protein, conserved TcVI CL-Brener KLGKSVGLTAALSPR TcVI CL-Brener KLGKSVGLTAALSPK TcV Tulacl2 KLGKSVGLTAALSPK TcV Tulacl2 KLGKSVGLTAALSPR TcI SylvioX10 KLGKSVGLTAALSPR TcI JRcl4 KLGKSVGLTAALSPR TcI Dm28c KLGKSVGLTAALSPR TcII Esmeraldo KLGKSVGLTAALSPK **************+ // p8 Tc00.1047053510101.430 40S ribosomal protein S21, putative TcVI CL-Brener GRDAPQARKQQGRNE TcVI CL-Brener GRDAPQARRQQGRNE TcV Tulacl2 GRDAPQARKQQGRNE TcV Tulacl2 GRNEPQARRQQGRNE TcI SylvioX10 GRNEPQARKQQGRNE TcI JRcl4 GRNEPQARKQQGRNE TcI Dm28c VRDAPQARKQQGRDA TcII Esmeraldo GRDAPQARKQQGRNE * ********* // p9 Tc00.1047053511679.10 mucin TcSMUGS, putative TcVI CL-Brener EGQYDAADVEAGDGP TcV Tulacl2 EGQYDAADVEAGDGP TcI SylvioX10 EGQYDAADVEAGDGP TcI JRcl4 EGQYDAAVVEAGDVQ TcI Dm28c EGQYDAADVEAGDGP TcII Esmeraldo EGQYDAADVEAGDGP ************* // p10 Tc00.1047053506391.30 EF-hand protein 5, putative TcVI CL-Brener LMTREVDDTMADELR TcV Tulacl2 LMTREVDDTMADELR TcI SylvioX10 LMTREVDDTMADELR TcI JRcl4 LMTREVDDTMADELR TcI Dm28c LMTREVDDTMADELR TcII Esmeraldo LMTREVDDTMADELR *************** // p11 Tc00.1047053511529.80 kinetoplast DNA-associated protein, putative TcVI CL-Brener ALRVSPYSIFLQELA TcV Tulacl2 ALRVSPYSIFLQELA TcI SylvioX10 ALRVSPYSIFLQELA TcI JRcl4 ALRVSPYSIFLQELA TcI Dm28c ALRVSPYSIFLQELA TcII Esmeraldo ALRVSPYSIFLQELA *************** // p12 Tc00.1047053511633.79 microtubule-associated protein, putative TcVI CL-Brener EEEEDVGPRHVDPDH TcVI CL-Brener EEQEDVGPRHVDPDH TcV Tulacl2 EEEEDVGPRHVDPDH TcV Tulacl2 EEQEDVGPRHVDPDH TcI SylvioX10 EEEEDVGPRHVDPDH TcI JRcl4 QEEEDVGPRHVDPDH TcI Dm28c --------------- TcII Esmeraldo QEEEDVGPRHVDPDH +*+************ // p13 Tc00.1047053506961.25 trans-sialidase, putative TcVI CL-Brener DSAKGKATGSSAGED TcV Tulacl2 DSAKGKATGSSAGED TcI SylvioX10 DSAKGKATGSSAGEE TcI JRcl4 DSAKGKATGSSAGED TcI Dm28c --------------- TcII Esmeraldo DSAKGKATGSSAGED **************+ // p14 Tc00.1047053511287.120 40S ribosomal protein S2, putative TcVI CL-Brener RDPTDEHSDFLTMGS TcV Tulacl2 RDPTDEHSDFLTMGS TcI SylvioX10 RDPTDEHSDFLTMGS TcI JRcl4 RDPTDEHSDFLTMGS TcI Dm28c --------------- TcII Esmeraldo RDPTDEHSDFLTMGS *************** // p15 Tc00.1047053506563.40 beta tubulin, putative TcVI CL-Brener PTGTYQGDSDLQLER TcV Tulacl2 PTGTYQGDSDLQLER TcI SylvioX10 PTGTYQGDSDLQLER TcI JRcl4 PTGTYQGDSDLQLER TcI Dm28c PTGTYQGDSDLQLER TcII Esmeraldo PTGTYQGDSDLQLER *************** // p16 Tc00.1047053504159.10 hypothetical protein, antigenic protein n126 (Carmona SJ et al 2012) TcVI CL-Brener TSAPAAGGFGSATTT TcV Tulacl2 TSAPAAGGFGSATTT TcI SylvioX10 TSTPAAGGFGSATTT TcI JRcl4 TSAPAAGGFGSATTT TcI Dm28c --------------- TcII Esmeraldo TSAPAVGGFGSATTT ** ************ // p17 Tc00.1047053511633.79 microtubule-associated protein, putative TcVI CL-Brener PTTSARRLRTRTGPL TcV Tulacl2 PTTSARRLRTRTGPL TcI SylvioX10 PTTSARRLRTRTGPL TcI JRcl4 PTTSARRLRTRTGPL TcI Dm28c --------------- TcII Esmeraldo PTTSARRLRTRTGPL *************** // p18 Tc00.1047053510421.330 hypothetical protein, conserved TcVI CL-Brener ILDRFLAAAMDKVFT TcV Tulacl2 ILDRFLAAAMDKVFT TcV Tulacl2 ILDQFLAAAMDKVFT TcI SylvioX10 ILVRFLAAAMDKVFT TcI JRcl4 ILVRFLAAAMDKVFT TcI Dm28c ILVRFLAAAMDKVFT TcII Esmeraldo ILDRFLAAAMDKVFT ** +*********** // p19 Tc00.1047053506989.190 heat shock protein 90 / glucose regulated protein 94 TcVI CL-Brener PVDNDGDESSDKEDA TcV Tulacl2 PVDNDGDESSDKEDA TcI SylvioX10 PVDNDGDESTEKEDA TcI JRcl4 PVDNDGDESSEKEDA TcI Dm28c PVDNDGDESSEKEDA TcII Esmeraldo PVDNDGDESSDKEDA *********++**** // p20 Tc00.1047053511633.79 microtubule-associated protein, putative TcVI CL-Brener VDPSAYKRALPLEEQ TcVI CL-Brener VDPSAYKRALPQEEE TcV Tulacl2 VDPSAYKRALPLEEQ TcV Tulacl2 VDPSAYKRALPQEEE TcI SylvioX10 VDPSAYKRALPQEEE TcI JRcl4 VDPSAYKRALPQEEE TcI Dm28c --------------- TcII Esmeraldo VDPSAYKRALPQEEQ *********** **+ // p21 Tc00.1047053509157.120 hypothetical protein, conserved TcVI CL-Brener SGAVPEGEEYPTEAE TcV Tulacl2 SGAVPEGEEYPTEAE TcV Tulacl2 SSAVPEGEEYPTEAE TcI SylvioX10 SGAVPEGEEYPAEAE TcI JRcl4 SGAVPEGEEYPAEAD TcI Dm28c --------------- TcII Esmeraldo SGAVPKGEEYPTEAE * ***+********+ // p22 Tc00.1047053507071.100 mucin-associated surface protein (MASP) TcVI CL-Brener SEREDDEENDEEEDG TcV Tulacl2 SEREDDEENDEEEDG TcI SylvioX10 --------------- TcI JRcl4 --------------- TcI Dm28c --------------- TcII Esmeraldo --------------- // p23 Tc00.1047053511727.290 RNA-binding protein, putative TcVI CL-Brener GAAKAPAPKAAAPAP TcV Tulacl2 GAAKAPAPKAAAPAP TcI SylvioX10 GAAKAPAPKAAAPAP TcI JRcl4 GAAKAPAPKAAAPAP TcI Dm28c --------------- TcII Esmeraldo --------------- // p24 Tc00.1047053511671.50 hypothetical protein, antigenic protein n96 (Carmona SJ et al 2012) TcVI CL-Brener AKPPAESPFKSVFGA TcV Tulacl2 AKPPAESPFKSVFGA TcV Tulacl2 AKSPAETPFKSVFGA TcI SylvioX10 AKPPAESPFKSVFGA TcI JRcl4 AKPPAESPFKSVFGA TcI Dm28c --------------- TcII Esmeraldo AKPPAESPFKNVFGA ** ***+***+**** // pc1 Tc00.1047053508831.140 B13 / Ag2 / CA-2 / PEP2 TcVI CL-Brener APFGQAAAGDKPSPF TcV Tulacl2 APFGQAAAGDKPSPF TcI SylvioX10 SPFGQAAAGDKPSPF TcI JRcl4 SPFGQAAAGDKPSPF TcI Dm28c PFGQAAAGDKPSPF TcII Esmeraldo APFGQAAAGDKPSPF +************** // pc2 Tc00.1047053509149.40 Ribo L19 TcVI CL-Brener AAAPAKAAAAPAKAA TcV Tulacl2 --------------- TcI SylvioX10 AAAPAKAAAAPAKAA TcI JRcl4 --------------- TcI Dm28c --------------- TcII Esmeraldo --------------- *************** // pc3 Tc00.1047053505975.20 TcD / Ag13 TcVI CL-Brener EPKSAEPKPAEPKSA TcV Tulacl2 EPKSAEPKPAEPKSA TcV Tulacl2 EPKSAEPKPAEPKPA TcI SylvioX10 --------------- TcI JRcl4 EPKSAEPKSAEPKSA TcI Dm28c EPKSAEPKSAEPKSA TcII Esmeraldo EPKSAEPKPAEPKSA ******** ****** // pc4 X57235 Trans-sialidase (SAPA) TcVI CL-Brener TPADSSAHSTPSTPA TcV Tulacl2 TPADSSAHSTPSTPA TcI SylvioX10 TPADSSAHSTPSTPV TcI JRcl4 TPVDSSAHSTPSTPA TcI Dm28c TPADSSAHSTPSTPA TcII Esmeraldo TPADNGAHSTPSTPA ** *+ ********