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Table 4 Associations of haplotype blocks with milk production traits in two lactations in Chinese Holstein (LSM ± SE)

From: Identification of single nucleotide polymorphisms of PIK3R1 and DUSP1 genes and their genetic associations with milk production traits in dairy cows

Block Lactation Haplotype combination (n) Milk yield, kg Fat yield, kg Fat percentage, % Protein yield, kg Protein percentage, %
PIK3R1 1 H1H1 (130) 10,360 ± 89.61bc 343.34 ± 3.81ab 3.33 ± 0.04 304.19 ± 2.78abcd 2.94 ± 0.01Aa
H1H2 (144) 10,048 ± 84.93Aa 337.91 ± 3.63a 3.38 ± 0.03 298.02 ± 2.64Aa 2.97 ± 0.01abc
H1H3 (192) 10,187 ± 79.12ac 336.9 ± 3.41Aa 3.33 ± 0.03 300.14 ± 2.49ACa 2.95 ± 0.01Aac
H1H4 (130) 10,474 ± 86.18Bb 350.09 ± 3.68Bb 3.36 ± 0.04 312.38 ± 2.68Bb 2.99 ± 0.01bc
H2H3 (124) 10,238 ± 87.58abc 335.93 ± 3.73Aa 3.3 ± 0.04 301.63 ± 2.72ACDacd 2.95 ± 0.01ac
H2H4 (65) 10,327 ± 109.41abc 346.65 ± 4.57ab 3.37 ± 0.04 310.8 ± 3.33BCbd 3.01 ± 0.02Bb
H3H3 (68) 10,150 ± 107.13abc 335.16 ± 4.49a 3.32 ± 0.04 299.42 ± 3.27ACDad 2.95 ± 0.02abc
H3H4 (111) 10,448 ± 93.43Bbc 347.85 ± 3.97ab 3.35 ± 0.04 310.36 ± 2.89BDbc 2.98 ± 0.01abc
P value <.0001 0.0002 0.4417 <.0001 0.0002
2 H1H1 (96) 11,118 ± 100.05Aa 390.74 ± 4.23 3.53 ± 0.04a 328.3 ± 3.08Aa 2.96 ± 0.01ab
H1H2 (106) 10,643 ± 95.67Bb 392.23 ± 4.06 3.69 ± 0.04b 315.26 ± 2.96Bb 2.97 ± 0.01ab
H1H3 (126) 11,056 ± 91.29Aa 395.21 ± 3.9 3.58 ± 0.04ab 324.96 ± 2.84ab 2.95 ± 0.01a
H1H4 (86) 10,863 ± 100.55ab 395.32 ± 4.26 3.64 ± 0.04ab 322.5 ± 3.11ab 2.98 ± 0.01ab
H2H3 (89) 10,920 ± 98.93ab 393.52 ± 4.19 3.6 ± 0.04ab 325.88 ± 3.05b 2.99 ± 0.01ab
H2H4 (42) 10,915 ± 133.11ab 385.35 ± 5.5 3.52 ± 0.05ab 328.33 ± 4.01ab 3.01 ± 0.02b
H3H3 (52) 10,841 ± 124.39ab 388.26 ± 5.19 3.6 ± 0.05ab 321.81 ± 3.78ab 2.97 ± 0.02ab
H3H4 (73) 10,726 ± 110.54ab 387.3 ± 4.64 3.6 ± 0.04ab 319.54 ± 3.38ab 2.99 ± 0.02ab
P value 0.0006 0.4862 0.0305 0.003 0.0142
DUSP1 1 H1H1 (136) 10,202 ± 87.64ab 333.67 ± 3.74 3.29 ± 0.04 301.78 ± 2.72ab 2.96 ± 0.01ab
H1H2 (240) 10,309 ± 73.31ab 343.11 ± 3.19 3.35 ± 0.03 303.68 ± 2.32ab 2.95 ± 0.01ab
H1H3 (241) 10,235 ± 74.22ab 339.15 ± 3.22 3.34 ± 0.03 300.48 ± 2.34Aa 2.94 ± 0.01Aa
H2H2 (112) 10,261 ± 90.23ab 338.92 ± 3.83 3.33 ± 0.04 305.83 ± 2.79ab 2.99 ± 0.01Bb
H2H3 (238) 10,203 ± 73.37a 341.72 ± 3.19 3.38 ± 0.03 301.47 ± 2.33a 2.96 ± 0.01ab
H3H3 (79) 10,526 ± 104.21b 344.29 ± 4.37 3.29 ± 0.04 311.35 ± 3.18Bb 2.96 ± 0.01ab
P value 0.0364 0.0678 0.109 0.0054 0.0131
2 H1H1 (101) 11,043 ± 98.24ADa 402.02 ± 4.16Aa 3.66 ± 0.04 329.32 ± 3.03ACa 2.97 ± 0.01
H1H2 (165) 10,632 ± 82.2Bb 384.09 ± 3.55BCb 3.62 ± 0.03 316.74 ± 2.59BDd 2.97 ± 0.01
H1H3 (156) 10,995 ± 82.56Aa 398.32 ± 3.55Aa 3.62 ± 0.03 327.79 ± 2.58Aa 2.98 ± 0.01
H2H2 (77) 10,248 ± 106.51Cc 376.09 ± 4.48Bb 3.65 ± 0.04 306.23 ± 3.26Bb 2.98 ± 0.01
H2H3 (167) 10,798 ± 82.69ab 395.31 ± 3.57ACa 3.66 ± 0.03 321.26 ± 2.6ADad 2.97 ± 0.01
H3H3 (59) 11,485 ± 118.31Dd 408.46 ± 4.93Aa 3.57 ± 0.05 341.32 ± 3.6Cc 2.97 ± 0.02
P value <.0001 <.0001 0.4432 <.0001 0.9643
  1. Note: H means haplotype; the number in the bracket represents the number of cows for the corresponding haplotype combination; PIK3R1: H1 (GCTTTA), H2 (GTATTG)), H3 (ATACCG), H4 (GCTTTG), and H5 (GTATTA); DUSP1: H1 (CCGG), H2 (CCGT), and H3 (GTAT); P value shows the significance for genetic effects among the haplotype blocks; a, b, c, d within the same column with different superscripts means P value < 0.05; A, B, C, D within the same column with different superscripts means P value < 0.01