Table 1.
Single-gene deletion strains of N. crassa with altered cellulase production compared to the parental wild-type strain
| Phenotype | Deleted locus | Categorya | Fold changeb | Gene annotation | Conservation | S. cerevisiae homologc |
|---|---|---|---|---|---|---|
| Increased secreted cellulases | NCU00541 | B | 1.9 | Hypothetical protein | Asco | None |
| NCU01291 | D | 2.5 | Hypothetical protein | Asco | None | |
| NCU02336 | D | 1.9 | Capsule associated protein | Asco | None | |
| NCU03459 | D | 2.9 | UBA domain-containing protein Ucp14 | Asco, Basidio | DSC2 (4.7e−17)d | |
| NCU03740 | D | 4.2 | Hypothetical protein | Asco | TUL1 (1.6e−28) | |
| NCU06650 | D | 2.3 | Secretory phospholipase A2 | Asco, Gram+ | None | |
| NCU07788 | B | 1.9 | Colonial-26 | Asco | YFL052W (9.8e−16) | |
| Decreased secreted cellulases | NCU00566 | A | 0.4 | Synaptobrevin | Asco, Basidio | SNC2 (1.2e−20) |
| NCU00600 | A | 0.2 | Rho-type GTPase-3 | Asco | RHO3 (6.7e−66) | |
| NCU00761 | D | 0.6 | Triacylglycerol lipase | Asco, Basidio | None | |
| NCU01739 | D | 0.3 | Hypothetical protein | Asco, Basidio | None | |
| NCU02017 | B | 0.0 | All development altered-2 | Asco, Basidio | NCB2 (3.7e−26) | |
| NCU02152 | B | 0.4 | RRM domain-containing protein | Asco, Basidio | None | |
| NCU02182 | B | 0.7 | Hypothetical protein | Asco, Basidio | None | |
| NCU04593 | D | 0.6 | Lcc9 | Asco | FET5 (2.9e−100) | |
| NCU04952 | C | 0.2 | Glycosylhydrolase family 3–4 | Asco, Basidio | None | |
| NCU05213 | A | 0.2 | Hypothetical protein | Asco | TRS85 (4.8e−18) | |
| NCU05547 | D | 0.5 | Hypothetical protein | Asco | None | |
| NCU05720 | A | 0.6 | Chitin synthase export chaperone | Asco, Basidio | CHS7 (1.6e−62) | |
| NCU05890 | D | 0.3 | Hypothetical protein | Euk | None | |
| NCU06086 | D | 0.1 | Regulatory protein suaprga1 | Asco, Basidio | MAM33 (2.3e−31) | |
| NCU06703 | D | 0.4 | Mating pheromone-induced death-1 | Asco | MID1 (3.4e−28) | |
| NCU07062 | A | 0.3 | Serine/threonine protein kinase-49 | Asco, Basidio | SCH9 (4.9e−48) | |
| NCU08339 | D | 0.4 | Endosomal P24B protein | Asco | EMP24 (9.8e−49) | |
| NCU08909 | C | 0.6 | Beta-1,3-glucanosyltransferase | Asco | GAS1 (3e−111) |
Neuro Neurospora genus, Asco ascomycete fungi, Basidio basidiomycete fungi, Gram + Gram-positive bacteria, Euk higher eukaryotes.
aCategory A: Proteins potentially involved in cellular secretion apparatus (e.g., tether and SNARE proteins, GTPases, GPI-anchored and myristoylated proteins). Category B: Homologs of T. reesei genes that vary between wild type and the hyper-producing RUT-C30 strain as identified in [22, 23]. Category C: Known and predicted cellulases, hemicellulases and other proteins secreted in response to cellulose as identified in [8]. Category D: Proteins that traverse the secretory pathway as predicted using the SignalP (score >0.5) and TargetP (score = 1) algorithms.
bFold-change relative to wild type for secreted protein as measured by Bradford assay (n = 6). When deletions were available in both the mat A and mat a mating type backgrounds, the two values were averaged.
cDefined as nearest homolog with an E value <1e−10 using BlastP.
dOnly protein for which reciprocal BlastP using S. cerevisiae sequence against N. crassa genome does not return original locus; homology with Ucp14p of Schizosaccharomyces pombe.