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Table 3 Haplotypes associateda with antibody responseb to PRRSV based on haplotype GWAS

From: Further host-genomic characterization of total antibody response to PRRSV vaccination and its relationship with reproductive performance in commercial sows: genome-wide haplotype and zygosity analyses

Approach 1

Haplotype

SSC

Initial pos (Mb)

End position (Mb)

% genetic variancec

PPI

Haplo1458 AA

4

108.884

108.898

2.55

0.82

Haplo2293 TT

7

25.004

25.015

30.72

1.00

Haplo2308 ATAAT

7

29.107

29.268

2.28

0.70

Approach 2

Haplotype

SSC

Initial pos (Mb)

End position (Mb)

Number of SNPsd

q-value

Haplo1458

4

108.884

108.898

2

0.076

Haplo2273

7

15.347

15.373

3

0.019

Haplo2287

7

21.166

21.181

3

0.005

Haplo2292

7

24.979

24.986

3

< 0.001

Haplo2293

7

25.004

25.015

2

< 0.001

Haplo2298

7

26.522

26.715

4

0.008

Haplo2304

7

27.708

27.906

5

0.019

Haplo2959

9

33.449

33.561

4

0.033

  1. SSC, Sus scrofa chromosome
  2. aPosterior probability of inclusion (PPI) > 0.70 (Approach 1) or q-value < 0.1 (Approach 2)
  3. bMeasured as sample-to-positive (S/P) ratio
  4. c% genetic variance: percentage of the genetic variance explained by a given haplotype
  5. dNumber of SNPs in each haplotype
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Genetics Selection Evolution

ISSN: 1297-9686