Table 3. Tandem Duplicates fractions among terpenoid specialized biosynthetic module in 13 A genomes.
| Species | Genome-wide | core-TPS genes | MEP-pathway | MVA-pathway | IPP-isomerases | Prenyl-transferases | Triterpene synthases | Average B |
|---|---|---|---|---|---|---|---|---|
| A. thaliana | 15% | 94% * | - | 33% | - | 73% * | 68% * | 68% * |
| B. rapa | 20% | 51% * | - | 7% | - | 42% | 40% | 33% * |
| T. hasslerania | 17% | 62% * | 18% | 7% | - | 53% * | 20% | 37% * |
| C. papaya | 17% | 52% * | - | - | - | - | 54% * | 32% * |
| C. sinensis | 44% | 37% | 50% | 56% | 100% | 25% | 37% | 39% |
| E. grandis | 33% | 73% * | 18% | 19% | - | 60% | 75% * | 63% * |
| G. max | 73% | 42% * | 12% * | - | 50% | 7% * | 33% * | 20% |
| V. vinifera | 32% | 91% * | 21% | 35% | - | - | 96% * | 78% * |
| S. lycopersicum | 28% | 80% * | - | 13% | 50% | 55% | 55% | 56% * |
| S. tuberosum | 51% | 51% | - | 21% * | - | - | 25% | 36% * |
| S. bicolor | 35% | 68% * | 20% | - | - | 14% | 76% * | 52% * |
| Z. mays | 44% | 42% | 31% | 40% | 33% | 10% | 58% | 40% |
| A. trichopoda | 24% | 57% * | 18% | - | - | - | 67% | 34% |
| Average B | 32% | 59% | 13% | 17% | 17% | 25% | 53% | 46% * |
Minus indicates absence of tandem duplicates. Asterisks indicate significant enrichment compared to genome-wide tandem duplicate fraction based on fisher's exact test on count data (p-value threshold: 0.01). For absolute gene numbers and p-values, see S5 Table.
A C. Sativa, L. sativa and N. benthamiana and C. gynandraare excluded from this analysis due to technical reasons (see Materials & Methods section).
B Averages based on numbers of tandem and singleton genes, not on percentage values since gene counts in subsets are not equal.