TABLE 3.
Functional categories of genes showing a statistically significant decrease in transcript accumulation of twofold or greater in the Δcch1 mutant compared to wild typea
| FunCat code | Category name (description) | % of genome | Relative decrease in transcript of the mutant and statistical significance at the indicated time point
|
|||||
|---|---|---|---|---|---|---|---|---|
| 0 h
|
96 h
|
144 h
|
||||||
| No. of genes (%) | P | No. of genes (%) | P | No. of genes (%) | P | |||
| 01 | Metabolism | 13.7 | 95 (24.2) | 9.43E-09 | 172 (20.7) | 6.54E-09 | 37 (9.86) | 1 |
| 02 | Energy | 2.96 | 22 (5.62) | 0.003189 | 44 (5.3) | 0.000129 | 4 (1.06) | 1 |
| 10 | Cell cycle and DNA processing | 4.36 | 32 (8.18) | 0.000491 | 79 (9.52) | 3.05E-11 | 32 (8.53) | 0.000235 |
| 11 | Transcription | 4.77 | 20 (5.11) | 0.408944 | 55 (6.63) | 0.008169 | 31 (8.26) | 0.002126 |
| 12 | Protein synthesis | 2.84 | 4 (1.02) | 1 | 26 (3.13) | 0.32809 | 9 (2.4) | 1 |
| 14 | Protein fate (folding, modification, destination) | 6.44 | 38 (9.71) | 0.007318 | 124 (14.9) | 1.79E-19 | 31 (8.26) | 0.091332 |
| 16 | Protein with binding function or cofactor requirement (structural or catalytic) | 7.36 | 39 (9.97) | 0.032521 | 101 (12.1) | 2.53E-07 | 25 (6.66) | 1 |
| 18 | Regulation of metabolism and protein function | 1.14 | 10 (2.55) | 0.014227 | 27 (3.25) | 6.93E-07 | 10 (2.66) | 0.010869 |
| 20 | Cellular transport, transport facilities and transport routes | 7.5 | 40 (10.2) | 0.027795 | 107 (12.9) | 1.35E-08 | 27 (7.2) | 1 |
| 30 | Cellular communication/signal transduction mechanism | 1.86 | 9 (2.3) | 0.307383 | 29 (3.49) | 0.000818 | 17 (4.53) | 0.000686 |
| 32 | Cell rescue, defense and virulence | 4.73 | 23 (5.88) | 0.16665 | 61 (7.35) | 0.000378 | 16 (4.26) | 1 |
| 34 | Interaction with the environment | 3.29 | 15 (3.83) | 0.308379 | 42 (5.06) | 0.003558 | 19 (5.06) | 0.042005 |
| 36 | Systemic interaction with the environment | 0.18 | 3 (0.76) | 0.035313 | 4 (0.48) | 0.065461 | 1 (0.26) | 0.508159 |
| 40 | Cell fate | 1.49 | 9 (2.3) | 0.131456 | 33 (3.98) | 2.15E-07 | 14 (3.73) | 0.001518 |
| 41 | Development (systemic) | 0.3 | 2 (0.51) | 0.34069 | 5 (0.6) | 0.110039 | 1 (0.26) | 1 |
| 42 | Biogenesis of cellular components | 4.34 | 20 (5.11) | 0.257292 | 74 (8.92) | 2.12E-09 | 18 (4.8) | 0.366487 |
| 43 | Cell type differentiation | 2.5 | 16 (4.09) | 0.037512 | 47 (5.66) | 1.15E-07 | 15 (4) | 0.050677 |
| 99 | Unclassified proteins | 69.3 | 215 (54.9) | 1 | 413 (49.8) | 1 | 259 (69) | 0.568122 |
a
As some genes can be classified in more than one FunCat category, percentages sum to >100.