None of the infected horses had clinical signs of reproductive tract disease. asinigenitalis was isolated from the reproductive tract of 10 adult equids, including two donkey jacks, one Paint Quarter-horse stallion and seven draft-type breeding mares. An extensive regulatory effort was implemented to contain the outbreak including the tracing and testing of 232 horses and donkeys on 58 premises. In 1998, a newly identified bacterium Taylorella asinigenitalis was isolated from the external genitalia and reproductive tracts of nurse mares, a stallion and donkey jacks in Kentucky. Meade, B J Timoney, P J Donahue, J M Branscum, A J Ford, R Rowe, R Initial occurrence of Taylorella asinigenitalis and its detection in nurse mares, a stallion and donkeys in Kentucky. The genetic variants described here will be a useful resource for future studies of genetic variation regulating performance traits and diseases in equids. We have increased the catalog of genetic variants for use in equine genomics by the addition of novel SNPs, INDELs, and CNVs. This is the first sequencing of a horse genome by next-generation sequencing and the first genomic sequence of an individual Quarter Horse mare. Functional clustering analysis of genetic variants revealed that most of the genetic variation in the horse's genome was enriched in sensory perception, signal transduction, and immunity and defense pathways. Additionally, we genotyped this Quarter Horse for mutations of known diseases and for variants associated with particular traits. Genetic variants were annotated to determine their impact on gene structure and function. Using a stringent filtering method, we identified 3.1 million SNPs, 193 thousand INDELs, and 282 CNVs. Unmapped reads were de novo assembled resulting in 19.1 Mb of new genomic sequence in the horse. Reads were mapped to approximately 97% of the reference Thoroughbred genome. Using massively parallel paired-end sequencing, we generated 59.6 Gb of DNA sequence from a Quarter Horse mare resulting in an average of 24.7X sequence coverage. The purpose of this study was to identify genetic variants, including single nucleotide polymorphisms (SNPs), insertion/deletion polymorphisms (INDELs), and copy number variants (CNVs) in the genome of an individual Quarter Horse mare sequenced by next-generation sequencing. The catalog of genetic variants in the horse genome originates from a few select animals, the majority originating from the Thoroughbred mare used for the equine genome sequencing project. Whole-genome sequencing and genetic variant analysis of a Quarter Horse mare.ĭoan, Ryan Cohen, Noah D Sawyer, Jason Ghaffari, Noushin Johnson, Charlie D Dindot, Scott V
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