Table 4.
Secondary metabolite backbone genes not assigned to A. flavus SMURF-identified gene clusters.
| Type | A. flavus NRRL3357 | A. flavus AF70 gene | A. oryzae RIB40 | A. parasiticus BN9 | |||||
|---|---|---|---|---|---|---|---|---|---|
| aa a | Domains b | Gene | RPKM c | Gene | RPKM | Gene | RPKM | Gene | RPKM |
| Polyketide synthase | |||||||||
| 2595 | KS-AT-DH-M-ER-PP | AFLA_005320 | 3.4 | not found | not found | not found | |||
| 1481 | KS-DH-ER-ER-KR-PP | AFLA_038310 | 1.7 | 186.m000172 | 0.4 | AO090011000015 | 0.6 | 4.m008944 | 0.9 |
| 2895 | KS-AT-DH-M-ER-NADP-SDR_e1 | AFLA_053870 | 0.7 | 76.m000261 | 0.5 | AO090009000071 | 1.1 | 9.m006082 | 0.9 |
| 2574 | KS-A-DH-MT-ER-ER-FabG-PP | AFLA_054090 | 0.0 | 76.m000280 | 0.0 | AO090009000052 | 0.0 | 9.m006060 | 0.1 |
| 1254 | KS-AT-PP | AFLA_060020 | 0.1 | 407.m000089 | 2.9 | AO090701000530 | 4.7 | 13.m005208 | 0.2 |
| 2581 | KS-AT-DH-M-ER-ER-KR-PP | AFLA_080490 | 0.0 | 34.m000394 | 0.0 | AO090005000798 | 0.0 | 8.m006222 | 0.0 |
| 2390 | KS-AT-DH-ER-KR-FabG-PP | AFLA_137870 | 2.7 | 35.m000427 | 0.5 | AO090026000149 | 4.3 | 5.m007445 | 4.0 |
| 2569 | KS-AT-DH-M-ER-KR | not foundd | 220.m000181 | 0.0 | not found | not found | |||
| 2609 | KS-AT-M-ER-KR | not found | 59.m000347 | 0.0 | not found | not found | |||
| 2648 | KR-KS-AT-PP-TE | not found | 71.m000353 | 0.0 | not found | 9.m006148 | 0.0 | ||
| 2122 | KS-AT-PP-PP | not found | not found | not found | 4.m008736 | 0.0 | |||
| 2482 | KS-AT-DH-M-ER-KR-PP | not found | not found | not found | 3.m008413 | 0.0 | |||
| 2441 | KS-AT-DH-M-ER-KR-PP | not found | not found | not found | 2.m009777 | 0.0 | |||
| Non-ribosomal peptide synthase | |||||||||
| 1000 | A-T-TE | AFLA_017840 | 3.4 | 53.m000365 | 2.4 | not found | 2.m009629 | 14.8 | |
| 950 | A-T-NADB | AFLA_041610 | 0.1 | 75.m000340 | 0.0 | AO090011000328 | 0.1 | 4.m008622 | 0.5 |
| 677 | A-T-TE | AFLA_082050 | 0.0 | 8.m000601 | 0.1 | AO090005000952 | 0.0 | 3.m008680 | 0.0 |
| 4760 | A-C-A-C-A-C-C-C | AFLA_109430 | 2.7 | 119.m000213 | 0.2 | AO090023000528 | 5.6 | 16.m003972 | 1.1 |
| 1048 | A-TE | AFLA_118440 | 0.2 | 137.m000247 | 0.0 | AO090010000349 | 0.0 | 11.m006507 | 0.0 |
| 690 | A-SDR_e1 | AFLA_119820 | 2.2 | 2.m000879 | 0.3 | AO090010000498 | 1.6 | 11.m006651 | 0.0 |
| 1068 | CaiC-A-TE | AFLA_128170 | 0.4 | 182.m000155 | 1.9 | AO090001000516 | 1.8 | 6.m007553 | 0.0 |
| 2465 | A-T-C-T-C-TE-T-C | AFLA_139670 | 0.0 | not found | not found | 12.m006359 | 0.1 | ||
| 3987 | A-C-A-M-C-A-TE | not found | not found | not found | 6.m007274 | 0.0 | |||
| 476 | A | not found | not found | not found | 4.m008952 | 0.0 | |||
| 1015 | A-T-C | not found | not found | not found | 4.m008858 | 0.0 | |||
| 986 | A-T-R | not found | not found | not found | 6.m007176 | 0.0 | |||
| 1338 | A-T-C | not found | not found | not found | 5.m007834 | 0.0 | |||
| 1848 | A | not found | 281.m000120 | not found | 6.m007331 | 0.0 | |||
| Dimethylallyltryptophan synthase | |||||||||
| 435 | DMATS | AFLA_083250 | 0.2 | 118.m000246 | 1.5 | AO090005001079 | 0.2 | 7.m006674 | 0.0 |
| 290 | DMATS | AFLA_084080 | 0.0 | 83.m000321 | 0.0 | AO090005001168 | 0.0 | 3.m008454 | 0.0 |
| 354 | DMATS | AFLA_090190 | 0.0 | 215.m000248 | 0.0 | AO090120000023 | 0.0 | 3.m008862 | 0.0 |
| 435 | DMATS | AFLA_083250 | 0.2 | not found | 1.5 | not found | 0.2 | 3.m008784 | 0.0 |
| 474 | DMATS | not found | not found | not found | 14.m004413 | 0.0 | |||
| Geranylgeranylpyrophosphate synthase | |||||||||
| 389 | GGPS | AFLA_018310 | 18.5 | 357.m000134 | 8.3 | AO090012000573 | 16.0 | 2.m009580 | 31.8 |
| 444 | GGPS | AFLA_038720 | 6.9 | 248.m000185 | 0.5 | AO090011000054 | 18.4 | 2.m009476 | 3.4 |
| 369 | GGPS | AFLA_053620 | 2.1 | 169.m000225 | 3.3 | AO090009000093 | 6.2 | 7.m007224 | 5.7 |
| 728 | GGPS | AFLA_056820 | 23.9 | 235.m000158 | 9.6 | not found | 4.m008907 | 29.7 | |
| 387 | GGPS | AFLA_066780 | 0.6 | not found | AO090001000268 | 1.3 | not found | ||
| 271 | GGPS | AFLA_070370 | 0.0 | 138.m000238 | 0.0 | not found | 19.m002158 | 0.0 | |
| 497 | GGPS | AFLA_070380 | 0.0 | 138.m000238 | 0.2 | AO090038000495 | 0.0 | 13.m004891 | 0.0 |
| 315 | GGPS | AFLA_073740 | 9.7 | 369.m000106 | 37.8 | AO090005000132 | 13.0 | 8.m006850 | 51.0 |
| 273 | GGPS | AFLA_090640 | 0.0 | 143.m000255 | 0.7 | AO090120000064 | 0.0 | 4.m008906 | 2.3 |
Notes: a aaa-length in amino acids; b Domains: KS-ketosynthase; AT-acyltransferase; DH-dehydratase; ER-enoyl reductase; KR-ketoreductase; PP-Phosphopantetheine attachment site; M-methyltransferase; TE-thioesterase. A-adenylation; C-condensation; T-thiolation; R-reductase; SDR_e1-short-chain dehydrogenases/reductase; FabG-3-oxoacyl-(acyl-carrier-protein) reductase; CaiC-carnitine CoA ligase; NADB-NAD-binding; c RPKM values were determined for cultures grown for 40 h on PDA medium; d not found-tBlastX search did not give hits with E value = 0.