Additional file 8.

Estimates of unique genes in the genomes of close relatives under three different criteria: hu, the number of unmapped BESs that matched nr database proteins; hm, the number of mapped BESs that matched nr database proteins; nu, the number of genes in the close relative-specific regions. Because the numbers of unique genes depend on the ratio of hu to hm, we examined two other thresholds for similarity searches against the nr database, an E-value of < 1.0 × 10-20 and < 1.0 × 10-50, in addition to an E-value of < 1.0 × 10-10. Although the ratios slightly decreased with stringent thresholds, the numbers of unique genes did not drastically change, suggesting that the three close relatives possess ~1,000 unique genes that are missing from the genomes of Oj and Oi.

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Sakai and Itoh BMC Genomics 2010 11:121   doi:10.1186/1471-2164-11-121