Table 5.
Classification of pseudogenes according to their possible origin.
| Species | Species-specific duplicationa | Ancestral duplicationb | Function lossc |
duplicated pseudosd |
duplicated segmente | retrosf |
|---|---|---|---|---|---|---|
| S. cerevisiae | 73 | 1 | 3 | 1 | 0 | 1, 6 |
| C. glabrata | 27 | 3 | 8 | 1 | 1 | 3, 0 |
| Z. rouxii | 71 | 20 | 14 | 6 | 41 | 1, 3 |
| K. thermotolerans | 39 | 11 | 18 | 0 | 17 | 0, 16 |
| S. kluyveri | 65 | 23 | 29 | 4 | 13 | 1, 12 |
| K. lactis | 35 | 12 | 14 | 5 | 7 | 0, 4 |
| D. hansenii | 153 | 14 | 8 | 2 | 62 | 1, 3 |
| Y. lipolytica | 213 | 11 | 6 | 6 | 19 | 2, 8 |
a. number of pseudogenes originating from mutational inactivation of a duplicated gene copy formed after speciation.
b. number of pseudogenes originating from mutational inactivation of a duplicated gene copy formed before speciation.
c. number of pseudogenes originating from mutational inactivation of a single copy gene.
d. number of duplicated pseudogenes among the first category (a).
e. number of pseudogenes being part of a duplicated segment involving other adjacent genes among the first category (a).
f. number of retro-processed pseudogenes, among the first category (a), identified by: either the presence of a 3' poly(A)-tail (first number) or the proximity of retrotransposon-related sequence (second number). In each species, the candidates identified by these 2 criteria are different.