Minimal Strain Sets Explaining All Diagnostic Classes (Number of Markers Explained):
Solution 1: 129S1/SvImJ and 129S2/SvPasOrlRj
129S1/SvImJ: 61 / 103 (59.2%)
129S2/SvPasOrlRj: 19 / 37 (51.4%)
129S1/SvImJ or 129S2/SvPasOrlRj: 2 / 2 (100.0%)
Strain Reproducibility
Strain Reproducibility Samples: RB5465, DV3710
Inbreeding Level: 55.6%
Y Chromosome: Donor
Congenicity Level: 30.3%
Donor Contribution in Linked Interval: 82.8Mb
The genome of this strain is not reproducible because there are regions that are still segregating (at least 44.4%) at the strain level.
The estimation of contribution of primary and secondary background depends on the number of samples genotyped.
The impact of this on the published phenotype(s) is unknown.
Notes
Genetic QC analysis (GQC) was performed on representative samples from the donor submission and provides a baseline reference. Regardless of the material ordered (live mice, sperm, embryos, resuscitated animals), the provided material is guaranteed to contain the primary genetic alteration of interest; however, the composition of the genetic background may vary (See Reproducibility sections of the report for details). The impact of genetic background on previously reported phenotypes has not been evaluated.
GQC analysis was done on two samples RB5465 (XY), DV3710 (XX) at the time of importation and the conclusions are consistent in all samples. The results of the analysis are congruent with the SDS and RB5465 is the representative sample selected for the report. The genetic background is a mix of 129S1, 129S2, and a third strain. The mitochondrial genome is consistent with the 129S1 background. The Y chromosome is consistent with at least one backcross to a male from the 129S2 background. The region containing the allele of interest has the expected background from the 129X1/S1 ES cells. Both samples are heterozygous for the donor background at the locus. The bpA construct is detected in both samples.
The genome of the MMRRC: 43505 strain is 55.6 % inbred at the strain level. 44.4% of the genome is segregating for the secondary background.
The estimated inbreeding, congenicity, and the relative strain/substrain contribution depend on the number of samples genotyped. The genomes of strains that are not fully inbred are not completely reproducible.