Figure 1.
Location of sheep breeds sampled for the present study.
Table 1.
Details of candidate genes, chromosome location, genomic location and strand genotyped at 41 SNP loci under study.
Table 2.
Details of candidate genes under study and involved in different KEGG immune pathways.
Table 3.
Mean diversity indices and number of loci deviating from Hardy-Weinberg equilibrium in different sheep breeds at 41 SNP loci.
Figure 2.
UPGMA radial tree constructed using pair-wise allele sharing distance among different sheep breeds.
(Numbers at nodes indicate bootstrap values out of 10000 resampled datasets).
Figure 3.
Three dimensional scattergram of first three principal components derived from pairwise FST (a) across 41 SNP loci and (b) across 27 SNP loci among different sheep populations.
(BAN-Bangladeshi; COR-Corriedale; PAM-Pampinta; JUN-Junin; BER-Bergschaf; TEX-Texel; KSF-Krainersteinschaf; MUF-Mouflon; KAR-Karakachanska; SHU-Shumenska; KUL-Karakul; THA-Thalli; KAC-Kachi; KAJ-Kajli; HAM-Hamdani; SHA-Shal; PAT-Pattanam; NEL-Nellore; MRS-Madras Red; MEC-Mecheri; IFT-Indonesian Fat Tail; ITT-Indonesian Thin Tail).
Figure 4.
Bayesian clustering of 713 sheep under assumption of 2 to 6 clusters without a priori population information.
The breed names are given below the box plot and the geographical origin indicated above the box plot with the individuals of different breeds separated by vertical black lines.
Table 4.
Analysis of molecular variance among different sheep breeds based on (right) genotypes at 41SNP loci and (left) haplotypes reconstructed from genotypes at 13 immune SNP loci located in chromosome 3.
Figure 5.
Reduced Median network of haplotypes reconstructed from 13 SNP loci related to immune genes in sheep chromosome 3.
(Asia – Bangladeshi, Madras Red, Mecheri, Pattanam, Nellore, Indonesian Fat Tailed, Indonesian Thin Tailed, Shal, Hamdani, Thalli, Kachi, Karakul, Kajli; Europe – Krainersteinschaf, Texel, Bergschaf, Mouflon, Karakachanska, Shumenska; South America – Junin, Pampinta, Corriedale; South Asia - Bangladeshi, Madras Red, Mecheri, Pattanam, Nellore, Thalli, Kachi, Karakul, Kajli; South East Asia - Indonesian Fat Tailed, Indonesian Thin Tailed; South West Asia – Hamdani, Shal; India – Madras Red, Maecheri, Nellore, Pattanam).
Table 5.
Values of haplotype diversity and statistics for testing departures from neutrality (Haplotypes reconstructed from 13 SNPs in chromosome 3-R Method).
Figure 6.
Least squares mean and standard error of log transformed fecal egg count 42 days post challenge at significant SNP loci in two Argentinian (Pampinta and Corriedale) and two Indonesian (Indonesian Thin Tailed and Indonesian fat tailed) sheep breeds.
Table 6.
Least squares ANOVA of parasite resistance characteristics (log transformed fecal egg count, body weight change and packed cell volume change 42 days post challenge at different SNP loci in experimentally challenged sheep (Pampinta and Corriedale, Indonesian Thin Tailed and Indonesian fat tailed).