Table 2.
Mutations identified by whole-exome sequencing
| (SnpEff§) High | Moderate | Low | Modifier | |||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Clone name | Responsible genes* | Total no. of mutations | Nonsense mutations | Splice site alterations | Frameshift mutations | Loss of start codon | Nonsynonymous mutations etc. || | Synonymous mutations | Others¶ | |
| B3-1 | Pigt | 220 | 6 | 5 | 0 | 0 | 115 | 39 | 1 | 54 |
| B5-1 | Dpm1 | 297 | 6 | 3 | 0 | 1 | 128 | 60 | 2 | 97 |
| B7-2 | Pigo | 218 | 5 | 1 | 0 | 0 | 103 | 38 | 1 | 70 |
| B102 | Pigb | 10 | 0 | 0 | 1 | 0 | 4 | 0 | 0 | 5 |
| B201 | Pigk† | 41 | 1 | 1 | 0 | 0 | 14 | 7 | 0 | 18 |
| B502 | Dpm1, Pigv | 511 | 13 | 12 | 1 | 1 | 241 | 110 | 5 | 128 |
| B1001 | Pigv | 306 | 8 | 2 | 0 | 0 | 127 | 55 | 1 | 113 |
| B1002 | Pigs | 330 | 10 | 2 | 1 | 0 | 152 | 63 | 0 | 102 |
| B1007 | Gpaa1 | 23 | 1 | 1 | 0 | 0 | 9 | 2 | 1 | 9 |
| F-43 | Pigo‡ | 375 | 12 | 4 | 2 | 0 | 153 | 83 | 2 | 119 |
| Average | 233.1 | 10 | 104.6 | 47 | 71.5 | |||||
*Genes whose mutations are responsible for the host cell phenotypes.
†All exons are deleted (Additional file 7: Figure S4).
‡Undetectable because of an exome design defect (Additional file 2: Figure S2).
§Also explained in Additional file 6: Table S12.
||The remainder: one codon insertion in clone B102.
¶Others: start gained; synonymous stop.