Table 1.
Summary of genome assembly and annotation of Asian rapeseed NY7 and its parental lines
| NY7 | ||||
|---|---|---|---|---|
| Sequencing | Insert libraries | Illumina | PacBio RS II | HiC |
| 160 bp‐20 Kb | ~200× | ~30× | ~100× | |
| Scaffolds | N50 size (Mb) | L50 | The maximum (Mb) | Total non‐N size (Mb) |
| 1.27 | 229 | 7.41 | 956.9 | |
| Super‐scaffolds by HiC | 6.91 | 37 | 33.78 | 956.9 |
| Chromosomes by two genetic maps | Total anchored/non‐N size (Mb) | Unique marker No. | Darmor‐bzh c Anchored/non‐N size | ZS11cAnchored/non‐N size |
| 892.0/874.0 | 13,164 | 645.4/553.4 | 855.0/797.7 | |
| Annotation | Gene models | BUCSOs/CEGMA (%) | Supported by EST and Swiss‐protein, etc. (%) | Repetitive elements (%) |
| 104,179 | 98.5/98.4 | 97.0 | 45.0 | |
| Parental lines in the NY7 pedigree | ||||
|---|---|---|---|---|
| Parental linesa | 300 bp‐10 Kb Illumina data (Gb)b | K‐mer estimate size (Gb) | Genome assembly (Mb) | Scaffold N50 size (Kb) |
| SL‐1 | 147.4 | 1.175 | 860.7 | 331.0 |
| CDA | 106.6 | 0.514 | 412.2 | 178.9 |
| NY1 | 153.0 | 1.221 | 845.7 | 369.6 |
| CY2 | 118.1 | 1.178 | 869.5 | 293.2 |
a
For details, see Figure 1a.
b
including the libraries with 3 and 10 Kb insertion sizes.
c
Comparison of assemblies indicates that while NY7 included only 2% (18 Mb) of ‘N’, Darmor‐bzh and ZS11 included 14% (92 Mb) and 7% (57 Mb), respectively.