MiniMUGA Sample Report - Initial Version |
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| MMRRC Strain Name | B6J.B6N-Mir205hgtm1Oers/Mmnc | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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| MMRRC Strain ID | 65422 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Sample ID | MY7581 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Genotyping Quality |
Excellent (1 N calls)
All reported results are dependent on genotyping quality. |
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| Chromosomal Sex | XY | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Genome Analysis |
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| Constructs Detected |
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Backgrounds Detected
(Diagnostic Alleles) |
Minimal Strain Sets Explaining All Diagnostic Classes (Number of Markers Explained):
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| Strain Reproducibility |
Strain Reproducibility Samples: MY7581, VK0802
Inbreeding Level: 95.1% Y Chromosome: Host Congenicity Level: 91.6% Donor Contribution in Linked Interval: 60.6Mb The genome of this strain is not reproducible because there are regions that are still segregating (at least 4.9%) 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. |
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| Substrain Reproducibility |
93.9% of the genome is distinguishable between two substrains contributing to the primary background. Of this:
Ideogram 1 Ideogram 2 |
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| 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.
This QC analysis was done on two samples MY7581 (XY), VK0802 (XX) and the following conclusions are consistent in all samples. The results of the analysis are consistent with the SDS (See Special Considerations for additional information). MY7581 is the representative sample shown in the report. There is positive evidence of C57BL/6J and C57BL/6NCrl substrains. C57BL6N is indicated as the donor background. There is also evidence of C3H, which is not indicated in the submission and the SDS. The mitochondrial genome is identical by descent to the primary and secondary strains. The Y chromosome is consistent with at least one backcross to a male from the C57BL/6J host background. The region containing the allele of interest has/ the expected donor background (C57BL/6N). Both (X#) sample(s) are homozygous for the donor background at the locus. None of the constructs detectable by MiniMUGA are present. The genome of the MMRRC: 65422 strain is 99.1 % inbred and 99.1% congenic at the strain level. 0.1% of the genome is segregating for the C3H background. The level of congenicity estimated by miniMUGA is inconsistent (at the substrain level) with the number of backcross generations reported in the SDS (11 generations). 4.3% of the genome is segregating for the two substrains (C57BL/6J and C57BL/6NCrl) that contribute to the primary (host) background. The contribution of C57BL/6J is 92.4%. The contribution of C57BL/6NCrl is 7.6%. 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. The use of wild type littermates is suggested for controls. |
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| Special Considerations | Based on this report, further guidance has been requested from the nomenclature committee on updating the strain name from B6J.B6N-Mir205hgtm1Oers/Mmnc to either B6J.B6N(Cg)-Mir205hgtm1Oers/Mmnc or B6 (Cg)-Mir205hgtm1Oers/Mmnc (March 3, 2023). | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
| Diplotype Intervals | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||