Table 4. Dating the origin and fixation of diagnostic SNPs in five mouse inbred strains.
| Substrain | Cohort | Year | Number of samples | Range of alleles sampled | Diagnostic allele | ||
|---|---|---|---|---|---|---|---|
| Absent | Segregating | Fixed | |||||
| C57BL/6J | BXD E1 | 1971 | 22 | 11 | 156 | 0 | 0 |
| BXD E2 | 1996 | 4 | 0–4 | 84 | 72 | 0 | |
| BXD E3 | 2001–2009 | 24 (23) | 11.5 | 50 | 31 | 75 | |
| CC | 2004–2007 | 483 (72) | 4–18 | 8 | 30 | 118 | |
| Consensusa | 2010–2016 | 15 (1) | 15 | 0 | 20 | 136 | |
| DBA/2J | BXD E1 | 1971 | 22 | 11 | 105 | 7 | 0 |
| BXD E2 | 1996 | 4 | 0–4 | 37 | 62 | 13 | |
| BXD E3 | 2001–2009 | 24 (23) | 11.5 | 24 | 75 | 13 | |
| Consensusa | 2010–2016 | 3 (1) | 3 | 0 | 0 | 112 | |
| A/J | CC | 2004–2007 | 483 (72) | 2–22 | 2 | 11 | 47 |
| Consensusa | 2010–2016 | 10 (1) | 10 | 0 | 5 | 55 | |
| 129S1/SvImJ | CC | 2004–2007 | 483 (72) | 3–42 | 1 | 6 | 81 |
| Consensusa | 2010–2016 | 10 (1) | 10 | 0 | 4 | 84 | |
| NOD/ShiLtJ | CC | 2004–2007 | 483 (72) | 4–43 | 1 | 2 | 34 |
| Consensusa | 2010–2016 | 8 (1) | 8 | 0 | 1 | 36 | |
This table lists the name of the substrain, the cohorts used for dating the diagnostic SNPs, the approximate year(s) when these cohorts were derived from the main stock, the number of samples genotyped, and the range of alleles sampled. When the number of samples does not match the number of strains, the number of strains is shown in parentheses. Diagnostic alleles are classified as absent, segregating, and fixed for each substrain and cohort, and the table provides the total number in each category.
In this analysis, we excluded samples purchased from The Jackson Laboratory (the sample names include the suffix jaxDNA) over a decade ago in the consensus cohorts. Details are provided in the text. CC, Collaborative Cross; BXD, recombinant inbred BXD panel