Table 1.
Numbers of MiR Genes and Gene Families Identified in 12 Drosophila Species
| Number of Genes Under Different Criteria |
No. of Gene Familiesf | Average No. of Genes/Gene Familyf | ||||
| Species (MYAa) | Criterion 1 (Standard)b | Criterion 2c | Criterion 3d | Criterion 4e | ||
| Subgenus Sophophora | ||||||
| D. melanogaster (−) | 152 | 152 | 150 | 145 | 131 | 1.16 |
| D. simulans (5.4) | 143 | 141 | 137 | 132 | 124 | 1.15 |
| D. sechellia (5.4) | 149 | 147 | 145 | 139 | 127 | 1.17 |
| D. yakuba (12.8) | 148 | 148 | 144 | 137 | 120 | 1.23 |
| D. erecta (12.8) | 142 | 142 | 139 | 134 | 119 | 1.19 |
| D. ananassae (44.2) | 115 | 115 | 113 | 110 | 98 | 1.17 |
| D. pseudoobscura (54.9) | 106 | 106 | 103 | 100 | 87 | 1.22 |
| D. persimilis (54.9) | 107 | 107 | 106 | 103 | 84 | 1.27 |
| D. willistoni (62.2) | 123 | 123 | 121 | 120 | 86 | 1.43 |
| Subgenus Drosophila | ||||||
| D. mojavensis (62.9) | 103 | 103 | 101 | 97 | 88 | 1.17 |
| D. virilis (62.9) | 101 | 101 | 100 | 98 | 85 | 1.19 |
| D. grimshawi (62.9) | 112 | 112 | 111 | 109 | 85 | 1.32 |
a
Divergence time from D. melanogaster obtained by Tamura et al. (2004).
b
BlastN search with E-value ≤ 10−4 and ≤2 nt gaps in the mature region. This criterion was also applied for all other criteria.
c
FE of the predicted hairpin structure ≤−15 kcal/mol or P ≤ 0.2 in randomization test by RANDFOLD (Bonnet et al. 2004).
d
FE ≤ −15 kcal/mol and P ≤ 0.2.
e
FE ≤ −15 kcal/mol and P ≤ 0.05.
f
Based on criterion 1.