Table 4. Comparison of giant sequoia v2.0 assembly and annotation to selected gymnosperm genome projects.
A | Sequoiadendron giganteum | Abies alba | Picea glauca | Pinus lambertiana | Pinus taeda | Pseudotsuga menzesii | Ginkgo biloba | Gnetum montanum |
---|---|---|---|---|---|---|---|---|
Reference | Mosca et al., 2019 | Warren et al., 2015 | Stevens et al., 2016 | Neale et al., 2014 | Neale et al., 2017 | Guan et al., 2016 | Wan et al., 2018 | |
Genome size (Mbp) | 8,114 | 18,167 | 20,000 | 31,000 | 20,613 | 15,700 | 10,610 | 4,110 |
Chromosomes | 11 | 12 | 12 | 12 | 12 | 12 | 12 | 22 |
TE content (%) | 79 | 78 | N/A | 79 | 81 | 72 | 77 | 86 |
N50 scaffold size (kb) | 690,549 | 14.05 | 71.50 | 246 | 107 | 340 | 1,360 | 475 |
B | Sequoiadendron giganteum | Abies alba | Picea glauca | Pinus lambertiana | Pinus taeda | Pseudotsuga menzesii | Ginkgo biloba | Gnetum montanum |
Number of genes | 37,936 | 94,209 | 14,462 | 38,518 | 51,751 | 46,688 | 41,840 | 27,493 |
Average overall CDS size (bp) | 1,084 | 629 | 1,421 | 1,102 | 1,131 | 1,180 | 1,186 | 1,290 |
Average size introns (bp) | 4,067 | 315 | 603 | 11,468 | 5,596 | 4,685 | 7,884 | 1,769 |
Maximum intron size length (kb) | 1,399.11 | 36.01 | 119.32 | 1,254.69 | 758.52 | 351.90 | 1,272.92 | 342.13 |
Assembly (A) and annotation (B) statistics for giant sequoia v2.0 compared to recent gymnosperm genome projects. A Genome size, TE content, and N50 scaffold size are as reported in the literature. B Number of genes, average coding sequence (CDS) size, average intron size, and maximum intron length as calculated by gFACs.