Table 3.
Significant SNPs associated with H. contortus fecal egg count (FEC, eggs/gram), FAMACHA score, red blood cell count (RBC, M/μL), hemoglobin level (HGB, g/dL), white blood cell count (WBC, K/μL), neutrophil count (NEU, K/μL), lymphocyte count (LC, K/μL), monocyte count (MC, K/μL), basophil count (BC, K/μL), and eosinophil count (EC, K/μL) in Florida Native sheep1
| Trait | OAR | Position (bp) | Gene name | SNP | −log10 P-values | Estimate | Proportion of variance explained | MAF | Mutation |
|---|---|---|---|---|---|---|---|---|---|
| FEC (initial −10 d) | 2 | 127,159,353 | Exon 24 ITGA4 | G/A | 4.108 | 21.58 | 0.14 | 0.16 | Synonymous |
| FEC (initial −10 d) | 11 | 41,860,577 | Intron 13 STAT3 | G/C | 4.052 | 15.94 | 0.10 | 0.11 | Intronic |
| FEC (initial −10 d) | 15 | 55,310,482 | 5′UTR MUC15 | T/C | 3.773 | 24.22 | 0.11 | 0.12 | UTR |
| FEC (28 d) | 3 | 180,166,632 | 5′UTR IL12RB2 | G/A | 4.065 | 21.58 | 0.14 | 0.11 | UTR |
| FEC (28 d) | 3 | 180,167,554 | 5′UTR IL12RB2 | C/G | 3.531 | 15.94 | 0.13 | 0.12 | UTR |
| FEC (28 d) | 6 | 15,681,195 | Exon 6 CFI | G/A | 4.009 | 24.22 | 0.15 | 0.11 | Synonymous |
| FAMACHA (28 d) | 3 | 180,148,777 | Exon 12 IL12RB2 | G/A | 3.616 | −0.33 | 0.13 | 0.40 | UTR |
| FAMACHA (28 d) | 7 | 73,930,804 | 5′UTR GPX2 | A/G | 3.531 | −0.36 | 0.03 | 0.49 | Synonymous |
| RBC (28 d) | 18 | 26,116,868 | Exon 18 IL16 | C/T | 4.558 | −0.08 | 0.16 | 0.11 | Synonymous |
| HGB (28 d) | 18 | 26,116,868 | Exon 18 IL16 | C/T | 3.563 | −1.60 | 0.42 | 0.11 | Synonymous |
| WBC (0 d) | 3 | 162,039,038 | 3′UTR STAT6 | G/A | 3.42 | 0.06 | 0.02 | 0.46 | UTR |
| WBC (28 d) | 6 | 49,768,053 | 5′UTR PCDH7 | G/T | 4.781 | −0.008 | 0.17 | 0.11 | UTR |
| WBC (28 d) | 6 | 49,768,057 | 5′UTR PCDH7 | G/T | 3.61 | −0.006 | 0.12 | 0.11 | UTR |
| WBC (28 d) | 15 | 55,310,748 | 5′UTR MUC15 | C/T | 3.999 | 0.0005 | 0.14 | 0.38 | UTR |
| NEU (0 d) | 6 | 90,454,870 | 3′UTR CXCL10 | A/G | 3.809 | 0.46 | 0.14 | 0.12 | UTR |
| NEU (0 d) | 20 | 26,766,451 | 3′UTR TNF | C/T | 3.668 | 0.67 | 0.13 | 0.30 | UTR |
| BC (0 d) | 24 | 33,935,613 | 3′UTR CCL26 | C/T | 4.335 | −1.65 | 0.16 | 0.46 | UTR |
| EC (28 d) | 2 | 127,200,458 | Intron 10 ITGA4 | A/G | 3.687 | 0.25 | 0.13 | 0.12 | Intronic |
| EC (28 d) | 2 | 14,799,731 | Exon 2 TLR3 | T/C | 4.094 | 0.26 | 0.15 | 0.11 | Synonymous |
1For each SNP, the chromosome (OAR), chromosomal position (bp), gene name and region, base pair substitution (SNP), estimate of SNP effect, proportion of variance explained by SNP, minor allele frequency (MAF), and mutation type (UTR, synonymous or intronic) are presented.