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In order to obtain satisfactory reliabilities of genomic predictions for CH cattle, it is necessary to increase the size of the CH reference population or to include foreign Holstein cattle in the reference population.
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In some countries or in some cattle populations where the number of progeny-tested bulls is small, one solution is to include cows in the reference population.
It should be noted that non-reference alleles predicted as "deleterious" could just be different from reference alleles (in cattle, the reference genome was constructed from a beef breed rather than a dairy breed), which could exhibit substantial effects on amino acid change.
Thus, the one-step blending is a promising approach for practical genomic selection in Chinese Holstein cattle, where the reference population mainly consists of cows.
In dairy cattle, the reference population usually consists of progeny-tested bulls.
Including genotyped Holstein cattle from other countries in the reference population could improve the accuracy of genomic prediction of the Chinese Holstein population.
A multi-breed reference population is a potential solution, and here we investigate the accuracies of GEBV in Holstein dairy cattle and Jersey dairy cattle when the reference population is single breed or multi-breed.
In current applications of genomic selection in dairy cattle, the number of animals included in the reference population may be as high as 16,000 [ 24].
We isolated three Salmonella serogroups from cattle feces within the reference CAFO with C1 (53%) comprising the majority of the cattle fecal isolates.
Only one of these (variant 1, which is found in the reference T. parva Muguga isolate) was shared by the cattle-derived and buffalo-derived isolates.
An improvement of this step-wise approach could be to use information of all individuals in the reference population in both steps instead of using disjoint reference sets as was done in this study, to mimic dairy cattle breeding practice.
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