10.25387/g3.10423904.v1
Imtiaz A.S. Randhawa
Imtiaz A.S.
Randhawa
Brian M. Burns
Brian
M. Burns
Michael R. McGowan
Michael R.
McGowan
Laercio R. Porto-Neto
Laercio
R. Porto-Neto
Ben J. Hayes
Ben J.
Hayes
Ryan Ferretti
Ryan
Ferretti
Karen M. Schutt
Karen M.
Schutt
Russell E. Lyons
Russell E.
Lyons
Supplemental Material for Randhawa et al., 2020
GSA Journals
2019
poll gene
bovine
dehorning
genetic testing
animal welfare
Animal Breeding
Animal Management
Veterinary Diagnosis and Diagnostics
2019-11-25 16:52:53
Dataset
https://gsajournals.figshare.com/articles/dataset/Supplemental_Material_for_Randhawa_et_al_2020/10423904
<p><b>Table S1</b>
Comparison of SNP-based current poll testing (CPT) and the optimized poll
testing (OPT) assays on 20,636 samples for the frequency of “No results” in
various cattle breeds.</p>
<p><b><br></b></p><p><b>Table S2</b>
List of 14 microsatellites mapped within the Poll locus on chromosome 1.</p>
<p><b><br></b></p><p><b>Table S3</b>
Call rate of 10 SNPs in different cattle breeds and cross-bred populations.</p>
<p><b><br></b></p><p><b>Table S4</b>
Results of targeted DNA sequences of 55 Brahman samples showing 60bp genome
region around SNP rs800947704[C/T=Y] (marked as 0) and upstream variant SNP
rs381418143 [A/G=R] (marked as -3). Two types of errors were observed in the
genotyping assays, 1: genotype failed (--) when -3=G (yellow highlights), 2:
wrong genotypes when -3=R and 0=Y (purple highlights).</p>
<p><b><br></b></p><p><b>Figure S1</b>
Distribution (%) of MSAT and SNP based poll gene testing results for Horned
(HH), Hybrid (HP), Polled (PP) and failing (“Not Determined” or “No Results” )
samples across 10 Australian beef breeds (n=16,941).</p>
<p><b><br></b></p><p><b>Figure S2</b>
Breed-wise distribution (%) of Optimized Poll Testing (OPT) assay results (HH =
Horned, HP = Hybrids, PP = Polled, No Results = Failed assay) in first column
and Allele Frequencies (AF) of Horn (H), Poll-Celtic (P<sub>C</sub>) and Poll-Friesian
(P<sub>F</sub>) mutations in column 2 across ten Australian beef breeds (n
= 16,903). Note that presence of H alleles in Angus and P<sub>C</sub>/P<sub>F</sub>
alleles in Wagyu is indicative of cross-bred individuals. Overall, the results
show that polled animals of Australian beef breeds predominantly carry P<sub>C</sub> as
compared to P<sub>F</sub>, except for Shorthorn.</p>
<p><b><br></b></p><p><b>Data
1</b>
Validation population phenotypes and Poll markers genotypes data file: Data_1_project_validation_populations_phenotypes_and_poll_locus_SNPs.csv</p>
<p><b><br></b></p><p><b>Data
2 </b>Commercial
population Poll markers genotypes and BREEDPLAN phenotypes data file: </p>
Data_2_project_poll_locus_10_SNPs_genotypes_and_BREEDPLAN_phenotypes.csv