Table 4.
SNP frequency in housekeeping genes in A. flavus
| Gene ID NRRL3357 | Gene ID TERIBR1 | Annotation | Gene length (nucl) | change in nucl | change in aa | status of SNPs |
|---|---|---|---|---|---|---|
| AFL2T_10032 | g899 | Calmodulin | 4047 | 0 | 0 | 0 |
| AFL2T_10117 | g962 | RPL5 (ribosomal protein) | 1071 | 0 | 0 | 0 |
| AFL2T_03358 | g2143 | Polyketide Synthase Acetate | 1692 | 0 | 0 | 0 |
| AFL2T_03019 | g2421 | Chitin Synthase 1 | 2655 | 0 | 0 | 0 |
| AFL2T_08232 | g3003 | cyclophilin | 522 | 0 | 0 | 0 |
| AFL2T_08160 | g3065 | Ubiquitin-conjugating enzyme | 450 | 0 | 0 | 0 |
| AFL2T_01340 | g5399 | Vacuolar protein sorting association protein | 324 | 0 | 0 | 0 |
| AFL2T_01191 | g5533 | Cytochrome oxidase | 348 | 0 | 0 | 0 |
| AFL2T_12005 | g6415 | Ubiquitin-conjugating enzyme | 510 | 0 | 0 | 0 |
| AFL2T_02547 | g6955 | Ubiquitin-conjugating enzyme | 513 | 0 | 0 | 0 |
| AFL2T_02762 | g7132 | L- Asparaginase | 690 | 0 | 0 | 0 |
| AFL2T_09767 | g7323 | ATP_D (ATP synthase subunit beta) | 1821 | 0 | 0 | 0 |
| AFL2T_06390 | g8072 | Polyketide Synthase Acetate | 2529 | 0 | 0 | 0 |
| AFL2T_09983 | g10276 | Ubiquitin-conjugating enzyme | 501 | 0 | 0 | 0 |
| AFL2T_09876 | g10370 | L- Asparaginase | 1677 | 0 | 0 | 0 |
| AFL2T_07389 | g10698 | Elongation Factor Alpha like protein | 1185 | 0 | 0 | 0 |
| AFL2T_06969 | g3347 | ATP_D (Atp synthase subunit beta) | 1539 | 0 | 0 | 0 |
| AFL2T_06937 | g3377 | Chitin Synthase 1 | 5283 | 0 | 0 | 0 |
| AFL2T_05991 | g6789 | GAPDH/Glyceraldehyde 3-phosphate dehydrogenase | 1524 | 0 | 0 | 0 |
| AFL2T_02677 | g7061 | Vacuolar protein sorting association protein | 1563 | 0 | 0 | 0 |
| AFL2T_05240 | g3927 | cyclophilin | 1122 | 0 | 0 | 0 |
| AFL2T_02454 | g5775 | TBPI (tata box binding protein) | 690 | 0 | 0 | 0 |
| AFL2T_03769 | g1786 | Actin interacting protein 3 | 2931 | 0 | 0 | 0 |
| AFL2T_05664 | g6503 | Histone | 807 | 0 | 0 | 0 |
| AFL2T_11201 | g8361 | Ubiquitin-conjugating enzyme | 333 | 0 | 0 | 0 |
| AFL2T_12447 | g9127 | Ubiquitin-conjugating enzyme | 837 | 0 | 0 | 0 |
| AFL2T_12048 | g11077 | DNA Topoisomerase II | 1032 | 0 | 0 | 0 |
| AFL2T_04711 | g9681 | Ubiquitin-conjugating enzyme | 450 | 0 | 0 | 0 |
| AFL2T_07021 | g3301 | Ubiquitin-conjugating enzyme | 474 | 0 | 0 | 0 |
| AFL2T_07052 | g3271 | Lactate Dehydrogenase A | 1065 | 0 | 0 | 0 |
| AFL2T_11998 | g6422 | Ubiquitin-conjugating enzyme | 456 | 0 | 0 | 0 |
| AFL2T_05713 | g6542 | Vacuolar protein sorting association protein | 387 | 0 | 0 | 0 |
| AFL2T_03033 | g2409 | Chitin Synthase 1 | 1671 | 0 | 0 | 0 |
| AFL2T_08388 | g2865 | Vacuolar protein sorting association protein | 2022 | 0 | 0 | 0 |
| AFL2T_08078 | g3130 | Histone | 429 | 0 | 0 | 0 |
| AFL2T_05673 | g6508 | 28 s rRNA | 450 | 0 | 0 | 0 |
| AFL2T_04621 | g9757 | cyclophilin | 630 | 0 | 0 | 0 |
| AFL2T_07907 | g4829 | Vacuolar protein sorting association protein | 351 | 0 | 0 | 0 |
| AFL2T_01105 | g5607 | Ubiquitin-conjugating enzyme | 1167 | 0 | 0 | 0 |
| AFL2T_09240 | g6218 | Ubiquitin-conjugating enzyme | 558 | 0 | 0 | 0 |
| AFL2T_09015 | g9269 | Polyketide Synthase Acetate | 6828 | 0 | 0 | 0 |
| AFL2T_10236 | g1076 | Vacuolar protein sorting association protein | 2313 | 0 | 0 | 0 |
| AFL2T_05795 | g6613 | 28 s rRNA | 1815 | 0 | 0 | 0 |
| AFL2T_03329 | g2169 | Ubiquitin-conjugating enzyme | 2631 | 0 | 0 | 0 |
| AFL2T_09350 | g6131 | 18 s rRNA | 2382 | 0 | 0 | 0 |
| AFL2T_00575 | g419 | Chitin Synthase 1 | 3588 | C150T | H50H | sSNPs |
| AFL2T_00433 | g530 | Vacuolar protein sorting association protein | 2562 | C1483G | P496A | nsSNPs |
| AFL2T_02076 | g8000 | Elongation Factor Alpha like protein | 3222 | A890C | K297Q | nsSNPs |
| AFL2T_09781 | g7310 | Vacuolar protein sorting association protein | 2925 | T1645C | S548S | sSNPs |
| AFL2T_09150 | g8774 | Polyketide Synthase Acetate | 7425 | T5820C | L1938 L | sSNPs |
| AFL2T_06936 | g3378 | Chitin Synthase 1 | 5574 | A315G, C2100T, A2841T | G105G, D700D, I947I | sSNPs |
| AFL2T_06204 | g8236 | Chitin Synthase 1 | 3315 | C1668T | L556 L | sSNPs |
| AFL2T_02195 | g6007 | Vacuolar protein sorting association protein | 4545 | A2925G, C4044T | E975E, F1348F | sSNPs |
| AFL2T_08239 | g2996 | Calmodulin | 5103 | A260G, T2232C, C2757G | D87G, T744 T, L919 L | nsSNPs, sSNPs, sSNPs |
| AFL2T_07518 | g5174 | Polyketide Synthase Acetate | 6366 | G1575A, G3053A | S525 N, S1018 N | nsSNPs |
| AFL2T_00612 | g388 | ATP_D (Atp synthase subunit beta) | 1671 | A1515C | A505A | sSNPs |
| AFL2T_05167 | g3861 | Vacuolar protein sorting association protein | 3528 | G456 T, G807A | G152G, T269 T | sSNPs |
| AFL2T_04317 | g9038 | Vacuolar protein sorting association protein | 1920 | T1383C | I461I | sSNPs |
| AFL2T_12048 | g6382 | DNA Topoisomerase II | 3183 | T1871C | V624A | nsSNPs |
| AFL2T_12403 | g9165 | Polyketide Synthase Acetate | 4944 | T1265C, C2231T, Y2271G | M422 T, T744I, X757K | nsSNPs |
| AFL2T_08114 | g3103 | Elongation Factor Alpha like protein | 1383 | T273A | I91I | sSNPs |
| AFL2T_02416 | g5810 | Vacuolar protein sorting association protein | 2124 | C1606T | L536 L | sSNPs |
| AFL2T_06144 | g8287 | aflatoxin regulatory protein | 945 | C46T | L16F | nsSNPs |
| AFL2T_07648 | g5058 | Ubiquitin-conjugating enzyme | 1278 | T570C | G190G | sSNPs |
| AFL2T_03037 | g2405 | secretory lipase | 1353 | W1271A | X424N | nsSNPs |
| AFL2T_05603 | g4255 | Vacuolar protein sorting association protein | 2757 | C1164T, G1491 T, C1884T | I388I, T497 T, I628I | sSNPs |
| AFL2T_09157 | g8767 | Ras protein | 6435 | C1509T, A2193G, G2304A, T2358C, G3018C, G4056A | S503S, S731S, L768 L, N786 N, T1006 T, P1352P | sSNPs |
| AFL2T_12399 | g9169 | Chitin Synthase 1 | 3222 | C1317G | V439 V | sSNPs |
| AFL2T_06989 | g3329 | Elongation Factor Alpha like protein | 2583 | T1461C | T487 T | sSNPs |
| AFL2T_11104 | g8446 | Polyketide Synthase Acetate | 7482 | T3962C, A5970G, A5981G | M1320 T, I1990M, D1994G | nsSNPs |
| AFL2T_01971 | g7909 | Vacuolar protein sorting association protein | 5862 | G281A, A2246T, A2316G, C2766T, T3135A | R94K, N749I, S772S, I922I, D1045E | nsSNPs, nsSNPs, sSNPs, sSNPs, nsSNPs |
| AFL2T_01302 | g5433 | Vacuolar protein sorting association protein | 2457 | C704T, T828C | A235V, G276G | nsSNPs |
| AFL2T_11645 | g4481 | ATP_D (Atp synthase subunit beta) | 1116 | T972C | I324I | sSNPs |
| AFL2T_04569 | g9796 | Elongation Factor Alpha like protein | 2400 | C546T, T1785C, T2253C | D182D, L595 L, F751F | sSNPs |
| AFL2T_05904 | g6711 | Elongation Factor Alpha like protein | 2730 | T146C, C1836T, G2002A, A2435G | F49S, P612P, V668I, D812G | nsSNPs, sSNPs, nsSNPs, nsSNPs |
| AFL2T_02030 | g7958 | Ubiquitin-conjugating enzyme | 1176 | T641C | V214A | nsSNPs |
| AFL2T_09952 | g10303 | TBPI (tata box binding protein) | 1338 | T789G | Y263Y | sSNPs |
| AFL2T_02696 | g7079 | Elongation Factor Alpha like protein | 2169 | T576C, A825T, G1332A, T1557C | D192D, I275I, E444E, F519F | sSNPs |
| AFL2T_12346 | g8605 | Elongation Factor Alpha like protein | 2874 | A1914G | E638E | sSNPs |
| AFL2T_10814 | g1537 | Ubiquitin-conjugating enzyme | 708 | C507T | D169D | sSNPs |
| AFL2T_07094 | g3237 | Polyketide Synthase Acetate | 6606 | T3478A, T4780C, G4927A, A5446G, G5677A, T5862C,T6264C | C1160S, Y1594H, E1643K, N1816D, A1893T, S1954S, C2088C | nsSNPs, nsSNPs, nsSNPs, nsSNPs, nsSNPs, sSNPs, sSNPs |
| AFL2T_02027 | g7956 | Vacuolar protein sorting association protein | 1044 | T663C | Y221Y | sSNPs |
| AFL2T_06635 | g3639 | L- Asparaginase | 1074 | A257G, C663A | D86G, N221 K | nsSNPs |
| AFL2T_09646 | g7430 | Ubiquitin-conjugating enzyme | 921 | T6C, G36C | S2S, A12A | sSNPs |
| AFL2T_01296 | g5440 | Vacuolar protein sorting association protein | 876 | C93T, G369A | T31 T, L123 L | sSNPs |
| AFL2T_05777 | g6597 | Vacuolar protein sorting association protein | 2058 | T538C, G1317A, G1438A, G1938C | Y180H, S439S, E480K, K646 N | nsSNPs, sSNPs, nsSNPs, nsSNPs |
| AFL2T_08606 | g2683 | Chitin Synthase 1 | 5172 | G3339A, G3618A, A3831G, G4764C, G4952A | T1113 T, L1206 L, L1277 L, P1588P, R1651Q | sSNPs, sSNPs, sSNPs, sSNPs, nsSNPs |
| AFL2T_09101 | g9340 | Elongation Factor Alpha like protein | 2859 | C1173T, G1275A, T1895C, G1947A, A2172G, C2670T | D391D, L425 L, V632A, R649R, V724 V | sSNPs, sSNPs, nsSNPs, sSNPs, sSNPs |
| AFL2T_08131 | g3088 | cyclophilin | 486 | C158T | A53V | nsSNPs |
| AFL2T_00781 | g238 | Polyketide Synthase Acetate | 6951 | G2689A, C3072T, A3121G, A3864G | V897I, F1024F, F1041A, K1288 K | nsSNPs, sSNPs, nsSNPs, nsSNPs |
| AFL2T_01027 | g12 | Vacuolar protein sorting association protein | 732 | K401C | X134A | nsSNPs |
| AFL2T_00198 | g739 | Ubiquitin-conjugating enzyme | 3240 | C849A, T852A, G1475C, T1905C, A2459G, G2659A | F283 L, I284I, R492P, G635G, N820S, A887T | nsSNPs, sSNPs, nsSNPs, sSNPs, nsSNPs, nsSNPs |
| AFL2T_11313 | g4750 | aflatoxin regulatory protein | 1164 | T208C, C889A, G922A | S70P, E297E, G308R | nsSNPs, sSNPs, nsSNPs |
| AFL2T_08488 | g2771 | Elongation Factor Alpha like protein | 3249 | G1398A, A1683A, G2161A, G2328A | E466E, V561 V, A721T, Q776Q | sSNPs, sSNPs, nsSNPs, sSNPs |
| AFL2T_07094 | g10842 | Polyketide Synthase Acetate | 1455 | G526A, T711C, T1113C, A295G | A176T, S237S, L371 L | nsSNPs, sSNPs, sSNPs |
| AFL2T_06011 | g6804 | Ubiquitin-conjugating enzyme | 504 | A210G | P70P | sSNPs |
| AFL2T_01283 | g5448 | Chitin Synthase 1 | 2589 | T1072C, A1536G | N358 N, K512 K | sSNPs |
| AFL2T_02416 | g10910 | Vacuolar protein sorting association protein | 370 | A55T | L18 L | sSNPs |
| AFL2T_05917 | g6723 | Ubiquitin-conjugating enzyme | 741 | A567G | K189 K | sSNPs |
| AFL2T_11034 | g8506 | GAPDH/Glyceraldehyde 3-phosphate dehydrogenase | 1077 | C237T, C357A | H79H, G119G | sSNPs |
| AFL2T_02787 | g7154 | Cytochrome oxidase | 1482 | A849G, C857T, A1003T, | E283E, T286I, T335F | sSNPs, nsSNPs, nsSNPs |
| AFL2T_03260 | g2222 | secretory lipase | 1365 | C936T, G985A, T990C, G1286A, T1291C | N312 N, G329R, T330 T, G429D, L431 L | sSNPs, nsSNPs, sSNPs, nsSNPs, sSNPs |
| AFL2T_07361 | g10719 | Lactate Dehydrogenase A | 933 | G702C, C753T, G879A | G234G, F251F, V293 V | sSNPs |
| AFL2T_09556 | g7507 | Ras protein | 1458 | C565T, G681A, T771C, T1047A | L189 L, T227 T, T257 T, P349P | sSNPs |
| AFL2T_03516 | g2002 | Vacuolar protein sorting association protein | 2853 | A1176C, C1180T | G392G, L394 L | sSNPs |
| AFL2T_04629 | g9750 | Elongation Factor Alpha like protein | 1443 | T475G, C543T, G1185C, T1302C | T181 T, V395 V, A434A | sSNPs |
| AFL2T_01738 | g8814 | cyclophilin | 1638 | A501C, A513G, A522G, A624G, T1011C, A1043G, T1176C | V167 V, E171E, V174 V, E208E, A337A, K348R, L392 L | sSNPs, sSNPs, sSNPs, sSNPs, sSNPs, nsSNPs, sSNPs |
| AFL2T_04801 | g9604 | Cytochrome oxidase | 555 | T207A, T463G | G69G, F155C | sSNPs, nsSNPs |
| AFL2T_12397 | g9171 | Vacuolar protein sorting association protein | 1758 | T1659C | G553G | sSNPs |
| AFL2T_08911 | g9862 | Polyketide Synthase Acetate | 7170 | T3097C, A3519C, G3689A, A3761T | W1033R, T1173 T, R1230Q, Y1254F | nsSNPs, sSNPs, nsSNPs, nsSNPs |
| AFL2T_00897 | g134 | cyclophilin | 1893 | G616 T, C855T, T1191C, A1222G | V206 L, F285F, Y397Y, T408A | nsSNPs, sSNPs, sSNPs, nsSNPs |
| AFL2T_04106 | g10177 | cyclophilin | 642 | A72T | T24 T | sSNPs |
| AFL2T_06925 | g3387 | Cytochrome oxidase | 348 | C63A | V21 V | sSNPs |
| AFL2T_07038 | g3286 | Chitin Synthase 1 | 2076 | G1794A | T598 T | sSNPs |
| AFL2T_08473 | g2782 | cyclophilin | 498 | C320G | T107 T | sSNPs |
| AFL2T_01646 | g2579 | secretory lipase | 909 | C10T, T309C, G509C, C646T | L4L, H103H, R170P, L216 L | sSNPs, sSNPs, nsSNPs, sSNPs |
| AFL2T_03998 | g10190 | Histone | 768 | C96T, A255G, C391T | F32F, S85S, P131S | sSNPs, sSNPs, nsSNPs |
| AFL2T_07224 | g5682 | aflatoxin regulatory protein | 1218 | C318G, G408C, G552 T, C581T, A794G, A979G, G1075A, C1137T | T106 T, P136P, S184S, A194V, Y265C, S327G, V359 M, S379S | sSNPs, sSNPs, sSNPs, nsSNPs, nsSNPs, nsSNPs, nsSNPs, sSNPs |
| AFL2T_00797 | g223 | L- Asparaginase | 1137 | T426C, T693C, G831C, C855T, T858C | G142G, G231G, Q277H, I285I, D286D | sSNPs, sSNPs, nsSNPs, sSNPs, sSNPs |
| AFL2T_08030 | g3169 | secretory lipase | 1269 | A642G, A795G, T903C, A904G, A913G, T927C, T933C, T963C, C1140T | A214A, L265 L, Y301Y, N302D, I305V, D309D, F311F, N321 N, G380G | sSNPs, sSNPs, sSNPs, sSNPs, nsSNPs, sSNPs, sSNPs, sSNPs, sSNPs |
| AFL2T_08467 | g2788 | cyclophilin | 1641 | T83C, C408A, G610A, G655A, T666C, C690T, T750A, A789G | V28A, L136 L, A204T, A219T, F222F, Y230Y, T250 T, E263E | nsSNPs, sSNPs, nsSNPs, nsSNPs, sSNPs, sSNPs, sSNPs, sSNPs |
| AFL2T_04948 | g9453 | Polyketide Synthase Acetate | 1977 | C1314G, T1444C, G1519A, A1590G, C1767A, C1854T, G1962A | R438R, W482R, V507I, L530 L, I589I, N618 N, R654R | sSNPs, nsSNPs, nsSNPs, sSNPs, sSNPs, sSNPs, sSNPs |
| AFL2T_07791 | g4925 | Vacuolar protein sorting association protein | 3813 | G39A, C213G, G234A, A291G, C354T | L13 L, S71S, Q78Q, E97E, H118H | sSNPs |
| AFL2T_12205 | g8728 | secretory lipase | 939 | T25C, G182A, T380C, C435T, T699C, T714G, G768A, G828A | L8L, S61 N, I127T, S145S, I233I, L238 L, P256P, A276A | sSNPs, nsSNPs, nsSNPs, sSNPs, sSNPs, sSNPs, sSNPs, sSNPs |
| AFL2T_01987 | g7921 | cyclophilin | 537 | A504G | ,K168 K | sSNPs |
| AFL2T_05263 | g3947 | Vacuolar protein sorting association protein | 891 | G301A, G401A, C558T, C654T, T749G, A750G, A775G | A101T, G134D, D186D, I218I, I250R, I250R, M259 V | nsSNPs, nsSNPs, sSNPs, sSNPs, nsSNPs, nsSNPs, nsSNPs |
| AFL2T_01745 | g8808 | GAPDH/Glyceraldehyde 3-phosphate dehydrogenase | 1041 | C192G, T222C, C345T, C348T, C393T, T474C | D64E, I74I,G115G, A116A, F113F, A158A | nsSNPs, sSNPs, sSNPs, sSNPs, sSNPs, sSNPs |
| AFL2T_04609 | g9767 | RPL5 (ribosomal protein) | 531 | C153T | Y51Y | sSNPs |
Frequency of SNPs = 0.9 SNPs/kb
Frequency of sSNPs = 0.7 SNPs/kb
Frequency of nsSNP = 0.4 SNPs/kb