Deafness in Australian Cattle Dogs associated to QTL on chromosome 20 in GWAS analyses

Hearing status was confirmed in Australian Cattle Dogs by means of the brainstem auditory evoked response (BAER). In Australia, blood samples were collected into EDTA at the time of BAER testing. Samples were genotyped using the Illumina CanineHD BeadChip array. This array is a chip that contains more than 170,000 single nucleotide polymorphisms (SNPs) and was mapped to the CanFam3.1 reference genome. SNPs with a call rate lower than 0.8 or a minor allele frequency (MAF) lower than 0.05 were removed from the analyses.

本研究通过脑干听觉诱发电位（brainstem auditory evoked response, BAER）确认了澳大利亚牧牛犬的听力状态。在澳大利亚，研究人员于开展BAER检测时，采用乙二胺四乙酸（EDTA）抗凝管采集血液样本。使用Illumina犬类高密度分型芯片（Illumina CanineHD BeadChip array）对样本进行基因分型；该芯片包含超过170,000个单核苷酸多态性（single nucleotide polymorphisms, SNPs），且其探针序列已比对至犬参考基因组CanFam3.1。分析阶段剔除了检出率低于0.8或次要等位基因频率（minor allele frequency, MAF）低于0.05的SNP位点。