G C A T T A C G G C A T genes Article A Missense Mutation in the KLF7 Gene Is a Potential Candidate Variant for Congenital Deafness in Australian Stumpy Tail Cattle Dogs Fangzheng Xu 1,† , Shuwen Shan 1,†, Susan Sommerlad 2, Jennifer M. Seddon 2 and Bertram Brenig 1,* 1 Institute of Veterinary Medicine, University of Goettingen, 37077 Göttingen, Germany;
[email protected] (F.X.);
[email protected] (S.S.) 2 School of Veterinary Science, The University of Queensland, Gatton, QLD 4343, Australia;
[email protected] (S.S.);
[email protected] (J.M.S.) * Correspondence:
[email protected]; Tel.: +49-551-3928383; Fax: +49-551-3933392 † These authors have equally contributed. Abstract: Congenital deafness is prevalent among modern dog breeds, including Australian Stumpy Tail Cattle Dogs (ASCD). However, in ASCD, no causative gene has been identified so far. Therefore, we performed a genome-wide association study (GWAS) and whole genome sequencing (WGS) of affected and normal individuals. For GWAS, 3 bilateral deaf ASCDs, 43 herding dogs, and one unaffected ASCD were used, resulting in 13 significantly associated loci on 6 chromosomes, i.e., CFA3, 8, 17, 23, 28, and 37. CFA37 harbored a region with the most significant association −21 (−log10(9.54 × 10 ) = 20.02) as well as 7 of the 13 associated loci. For whole genome sequencing, the same three affected ASCDs and one unaffected ASCD were used. The WGS data were compared with 722 canine controls and filtered for protein coding and non-synonymous variants, resulting in Citation: Xu, F.; Shan, S.; Sommerlad, four missense variants present only in the affected dogs.