Table 3.

Statistical summary of genomic variants in SS/JrHsd/Env, SS/JrHsd/Mcwi, and SS/Jr compared with the Rnor_6.0 reference genome

Genomic Variants	SS/JrHsd/Env	SS/JrHsd/Mcwi	SS/Jr
Total variants	7,499,496	5,435,826	5,625,201
SNPs	5,431,851	3,929,796	4,145,324
Insertions	1,029,983	838,117	833,806
Deletions	1,037,662	667,913	646,071
Total heterozygous-to-homozygous ratio	0.31	0.10	0.10
SNP heterozygous-to-homozygous ratio	0.30	0.08	0.08
Insertion heterozygous-to-homozygous ratio	0.35	0.17	0.16
Deletion heterozygous-to-homozygous ratio	0.30	0.13	0.10

Whole genome sequence for the salt-sensitive SS/JrHsd/Env rats was obtained from Novogene, and the raw next-generation sequencing data of SS/JrHsd/Mcwi and SS/Jr were obtained from European Bioinformatics Institute’s European Nucleotide Archive (SS/JrHsd/Mcwi: ERS207928; SS/Jr: ERS207927). Genomic sequences of these three strains were each compared with the Rnor_6.0 rat reference genome for cataloging variants. SNP, single-nucleotide polymorphism; SS/JrHsd/Env, salt-sensitive rats developed by John Rapp, distributed by Harlan, and purchased from Envigo; SS/JrHsd/Mcwi, salt-sensitive rats developed by John Rapp and bred in Milwaukee; SS/Jr, salt-sensitive rats developed by John Rapp and bred in Toledo.