Table 2.
Inferred Origins of Orphan Genes in Different Data Sets and Investigated in Different Studies
| This Study | This Study | Toll-Riera et al. (2009) | Donoghue et al. (2011) | |
|---|---|---|---|---|
| Study | ||||
| Data set | Formicidae SSOGs | Attini SSOGs | Primate shared TSOGs | Arabidopsis thaliana SSOGs |
| Genome size (Mb) | 250–450 | 300–335 | 1,600–2,870 | 125 |
| Genomic TE content (%) | 8–30 | 25–28 | ∼50 | ∼10 |
| Origins (%) | ||||
| Gene duplication | 9.9 | 6.4 | 24 | 22 |
| Overlap with TE | 12.4 | 10.6 | 53 | 10 |
| Frame shift | 2.2 | 2.2 | NA | 7 |
| Overlapping genes | 11.1 | 13.3 | NA | 1 |
| Intergenic match | 43.5 | 61.2 | 6% de novo | 25 |
| HGT | 0.1 | 0.0 | NA | NA |
| Unexplained | 20.8 | 6.3 | 17 | 35 |
Note.—The Formicidae and Attini data sets consist of 12,054 and 4,614 SSOGss, respectively. Genome stats were obtained from the Arabidopsis Genome Initiative (2000), Lander et al. (2001), Bonasio et al. (2010), Nygaard et al. (2011), Smith CD, et al. (2011); Smith CR, et al. (2011), and Suen et al. (2011).