TABLE 2.
Core genes of secondary metabolism clusters in N. crassa
| SMC no. | Chromosome | antiSMASH clustersa | JGIb | SMC typec | CRGSd | Notese |
|---|---|---|---|---|---|---|
| 1 | I (7914549–7932266) | NCU00583 to -00587 (NCU00583) | Not identified | PKS | BM, PDA, BM37 | NCU00582, -00589 (BM) |
| 2 | I (8432960–8474209) | NCU03000 to -03016 | NCU03010 | NRPS-like | BM, SCM | None |
| 3 | I (88672729–8717074) | NCU16468, -02913 to -02926 | NCU02927 to -02918 | PKS | VM, SCM | NCU02908, -02910, -02930, -02931 (SCM) |
| 4 | II (3937420–3969336) | NCU08402 to -08403, -16586, -08404 to -08409, -16588, -08410 | NCU08404 to -08407 | NRPS-like | BM | NCU08411 to -08413 (BM); NCU08411, -08412 (SCM) |
| 5 | II (4062839–4096852) | NCU08436 to -08443, -08445 (NCU08442) | NCU08439 to -08443 | NRPS | No condition | None |
| 6 | IV (1967–36181) | NCU10285, -09635 to -09641, -10572, -09642 | NCU10285, -09635 to -09640 | PKS | BM, BM37, VM | NCU09627 to -09630, -09633, -09634 (BM) |
| 7 | IV (508445–548448) | NCU04860 to -04862, -04865 to -04867 (NCU04867) | NCU04865 | PKS | PDA | None |
| 8 | IV (4422480–4439201) | Not identified | NCU07307 to -07308 | PKS-like | All conditions | NCU07310 (BM) |
| 9 | V (1702664–1723869) | NCU03583 to -03585 | Not identified | PKS | PDA, BM37 | NCU03582 (SCM) |
| 10 | V (4020488–4031764) | NCU01423 to -01427 | Not identified | Terpene | PDA | None |
| 11 | VI (59272–103867) | NCU07119 to -07126, 07117 (NCU07122) | NCU07119 | NRPS | VM | None |
| 12 | VI (398436–416452) | NCU04692, -17064, -12075, -04694 to -04695 | NCU12075 | DMAT | MSM, BM37 | NCU04699 (BM); NCU04690, -04691, -04697 (SCM) |
| 13 | VI (854581–890466) | NCU04797 to -04806 (NCU04804) | Not identified | PKS-like | BM | NCU04796 (BM) |
| 14 | VI (3080467–3107588) | NCU06013, -17123, -06007 to -06012 | NCU06013 | PKS | BM37 | NCU06001, -06005, -06019 (BM) |
| 15 | VI (4070819–4105738) | NCU05007 to -05014 | NCU05011 | PKS | BM, PDA, BM37 | NCU05006, -05015 (SCM) |
| 16 | VI (4116143–4157329) | NCU05005 to -05004, -10597, -05001, -12150 to -12152, -05000, -12154, -04998 to -04996, -10537, -04994, -12156 (NCU04998) | NCU05000, -12154 | NRPS-like | No condition | NCU04992 (BM); NCU04991, -04992 (SCM) |
| 17 | VII (1083585–1110519) | NCU08395 to -08399, -12034 | NCU08399 | PKS | BM37 | NCU08390 (BM) |
| 18 | VII (1529996–1574489) | NCU04528 to -04535, -12022 to -12021, -06170 | NCU04531 | NRPS | BM37, SCM | NCU04520 to -04524, -04537 (BM) |
| 19 | VII (1954064–1973561) | NCU06054 to -06056, -10683, -06052 to -06051 | Not identified | Terpene | BM, VM | NCU06057 (BM) |
| 20 | VII (3720911–3763243) | NCU05755 to -05763, -17267, -05764, -17268 to -17271, -05766 to -05769 (NCU05759) | Not identified | RiPPf | MSM, VM, SCM | NCU05770 (BM); NCU05751, -05752, -05773, -05774 (SCM) |
Orphan genes are listed in parentheses with a bold font.
SMCs reported at the JGI MycoCosm database (Grigoriev et al. [18]).
SMC-type identification follows the glossary in the antiSMASH documentation.
Environmental and developmental conditions in which coordinately regulated gene sets (CRGS) were identified, including asexual growth on BM, MSM, and PDA at 25°C, asexual growth on BM at 37°C (BM37), conidiation on Vogel’s medium (VM), and sexual development on SCM at 25°C (as in Fig. S1).
An additional five genes on each side of the predicted SCM were examined to ascertain whether they exhibited the same expression patterns as any two or more of the SCM core genes during asexual growth on BM at 25°C and/or during sexual development on SCM at 25°C.
RiPP, post-translationally modified peptides.