Polymorphisms of CYP7A1 and HADHB Genes and Their Effects on Milk Production Traits in Chinese Holstein Cows
Abstract
:Simple Summary
Abstract
1. Introduction
2. Materials and Methods
2.1. Animal Selection and Phenotypic Data Collection
2.2. Genomic DNA Extraction
2.3. Identification and Genotyping of SNPs in Candidate Genes
2.4. Linkage Disequilibrium (LD) Estimation
2.5. Association Analysis between SNP/Haplotype and Milk-Production Traits
2.6. Prediction of Transcription Factor Binding Sites
2.7. Prediction of mRNA Structure
3. Results
3.1. SNPs Identification
3.2. Single-Marker Association Analysis
3.3. Haplotype Association Analysis
3.4. Changes of Transcription Factor Binding Sites Caused by SNPs in 5′ Region
3.5. mRNA Structural Stability Altered by the Mutation in Untranslated Region
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Acknowledgments
Conflicts of Interest
References
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Gene | SNP | rs ID | Gene Region | Genotype | Genotypic Frequency | Allele | Allelic Frequency |
---|---|---|---|---|---|---|---|
CYP7A1 | 14:g.24676921A>G | rs42765357 | 5′ flanking region | AA | 0.1341 | A | 0.3511 |
AG | 0.4340 | G | 0.6489 | ||||
GG | 0.4319 | ||||||
14:g.24676224G>A | rs109454495 | 5′ flanking region | AA | 0.3073 | A | 0.5433 | |
AG | 0.4720 | G | 0.4567 | ||||
GG | 0.2207 | ||||||
14:g.24675708G>T | rs42765359 | 5′ flanking region | GG | 0.3083 | G | 0.5444 | |
GT | 0.4720 | T | 0.4566 | ||||
TT | 0.2196 | ||||||
14:g.24665961C>T | rs108958186 | 3′ UTR | CC | 0.2218 | C | 0.4683 | |
CT | 0.4931 | T | 0.5317 | ||||
TT | 0.2851 | ||||||
14:g.24664026A>G | rs109680813 | 3′ flanking region | AA | 0.4298 | A | 0.6584 | |
AG | 0.4572 | G | 0.3416 | ||||
GG | 0.1130 | ||||||
HADHB | 11:g.73256269T>C | rs110033443 | 5′ flanking region | CC | 0.6410 | C | 0.8031 |
CT | 0.3242 | T | 0.1969 | ||||
TT | 0.0348 | ||||||
11:g.73256227A>C | rs134856746 | 5′ UTR | AA | 0.0201 | A | 0.1605 | |
AC | 0.2809 | C | 0.8395 | ||||
CC | 0.6990 | ||||||
11:g.73242290C>T | rs137211407 | Intron | CC | 0.1373 | C | 0.2450 | |
CT | 0.2154 | T | 0.7550 | ||||
TT | 0.6473 |
Gene | SNP | Lactation | Genotype (No.) | Milk Yield (kg) | Fat Yield (kg) | Fat Percentage (%) | Protein Yield (kg) | Protein Percentage (%) |
---|---|---|---|---|---|---|---|---|
CYP7A1 | 14:g.24676921A>G | 1 | AA (118) | 10,289 ± 64.59 | 345.06 ± 2.27 | 3.37 ± 0.03 | 306.85 ± 2.73 | 2.98 ± 0.01 |
AG (391) | 10,308 ± 43.99 | 344.94 ± 1.55 | 3.36 ± 0.03 | 308.93 ± 2.17 | 2.30 ± 0.01 | |||
GG (389) | 10,299 ± 43.98 | 345.75 ± 1.55 | 3.37 ± 0.03 | 308.37 ± 2.18 | 3.00 ± 0.01 | |||
p value | 0.9512 | 0.8719 | 0.8957 | 0.6648 | 0.3686 | |||
2 | AA (79) | 11,067 A ± 103.8 | 396.65 A ± 4.38 | 3.59 ± 0.04 | 330.55 Aa ± 4.38 | 2.99 ± 0.01 | ||
AG (272) | 10,660 B ± 69.92 | 378.52 B ± 3.10 | 3.56 ± 0.03 | 317.36 Bb ± 3.10 | 2.98 ± 0.01 | |||
GG (260) | 10,717 B ± 71.91 | 383.4 B ± 3.17 | 3.59 ± 0.03 | 319.70 ABb ± 3.17 | 2.99 ± 0.01 | |||
p value | 0.0003 | <0.0001 | 0.5719 | 0.0059 | 0.5828 | |||
14:g.24676224G>A | 1 | AA (278) | 10,287 ± 50.05 | 346.51 ± 1.73 | 3.38 ± 0.03 | 308.51 ± 2.31 | 3.01 ± 0.01 | |
GA (422) | 10,277 ± 43.34 | 343.81 ± 1.49 | 3.36 ± 0.03 | 307.49 ± 2.15 | 2.99 ± 0.01 | |||
GG (198) | 10,370 ± 53.54 | 346.97 ± 1.85 | 3.37 ± 0.03 | 310.12 ± 2.41 | 3.00 ± 0.01 | |||
p value | 0.1972 | 0.1421 | 0.574 | 0.3774 | 0.2884 | |||
2 | AA (181) | 10,755 B ± 78.19 | 385.15 AB ± 3.38 | 3.59 ± 0.03 | 321.69 AB ± 3.38 | 3.00 ± 0.01 | ||
GA (293) | 10,622 B ± 69.32 | 378.07 B ± 3.05 | 3.58 ± 0.03 | 315.65 B ± 3.05 | 2.97 ± 0.01 | |||
GG (137) | 10,942 A ± 84.75 | 389.83 A ± 3.63 | 3.57 ± 0.03 | 326.73 A ± 3.63 | 2.98 ± 0.01 | |||
p value | 0.0006 | 0.0011 | 0.8325 | 0.0029 | 0.0677 | |||
14:g.24675708G>T | 1 | GG (279) | 10,271 ± 50.23 | 346.01 ± 1.73 | 3.38 ± 0.03 | 308.12 ± 2.31 | 3.01 ± 0.01 | |
GT (422) | 10,282 ± 43.57 | 343.92 ± 1.49 | 3.36 ± 0.03 | 307.55 ± 2.15 | 2.99 ± 0.01 | |||
TT (197) | 10,378 ± 53.8 | 347.33 ± 1.86 | 3.37 ± 0.03 | 310.48 ± 2.41 | 3.00 ± 0.01 | |||
p value | 0.1313 | 0.1635 | 0.5444 | 0.2926 | 0.244 | |||
2 | GG (181) | 10,755 AB ± 78.19 | 385.15 AB ± 3.38 | 3.59 ± 0.03 | 321.69 AB ± 3.38 | 3.00 ± 0.01 | ||
GT (293) | 10,622 B ± 69.32 | 378.07 B ± 3.05 | 3.58 ± 0.03 | 315.65 B ± 3.05 | 2.97 ± 0.01 | |||
TT (137) | 10,942 A ± 84.76 | 389.83 A ± 3.63 | 3.57 ± 0.03 | 326.73 A ± 3.63 | 2.98 ± 0.01 | |||
p value | 0.0006 | 0.0011 | 0.8325 | 0.0029 | 0.0677 | |||
14:g.24665961C>T | 1 | CC (198) | 10,355 ± 53.37 | 348.72 A ± 1.87 | 3.39 ± 0.03 | 310.35 A ± 2.42 | 3.00 ± 0.01 | |
CT (438) | 10,250 ± 42.29 | 341.82 B ± 1.48 | 3.35 ± 0.03 | 306.39 B ± 2.14 | 2.99 ± 0.01 | |||
TT (262) | 10,354 ± 50.21 | 348.93 A ± 1.76 | 3.38 ± 0.03 | 310.43 A ± 2.33 | 3.00 ± 0.01 | |||
p value | 0.0443 | <0.0001 | 0.2811 | 0.0258 | 0.369 | |||
2 | CC (136) | 10,975 Aa ± 85.38 | 394.69 Aa ± 3.66 | 3.60 ± 0.03 | 328.62 Aa ± 3.66 | 2.99 ± 0.01 | ||
CT (305) | 10,604 Bb ± 67.5 | 377.09 Bc ± 2.99 | 3.57 ± 0.03 | 315.25 Bb ± 2.99 | 2.98 ± 0.01 | |||
TT (170) | 10,813 ABa ± 80.72 | 385.16 ABb ± 3.49 | 3.57 ± 0.03 | 322.85 ABa ± 3.49 | 2.99 ± 0.01 | |||
p value | <0.0001 | <0.0001 | 0.5643 | 0.0001 | 0.1667 | |||
14:g.24664026A>G | 1 | AA (385) | 10,251 ± 42.60 | 344.86 ± 1.48 | 3.38 ± 0.03 | 306.82 ± 2.16 | 3.00 ± 0.01 | |
AG (410) | 10,358 ± 42.67 | 346.02 ± 1.49 | 3.36 ± 0.03 | 309.88 ± 2.17 | 2.99 ± 0.01 | |||
GG (103) | 10,284 ± 68.88 | 344.17 ± 2.41 | 3.36 ± 0.04 | 309.52 ± 2.90 | 3.01 ± 0.01 | |||
p value | 0.0583 | 0.6425 | 0.5414 | 0.1429 | 0.5095 | |||
2 | AA (261) | 10,798 ± 70.29 | 386.32 Aa ± 3.10 | 3.59 ± 0.03 | 322.31 ± 3.10 | 2.99 ± 0.01 | ||
AG (286) | 10,676 ± 69.67 | 378.68 Ab ± 3.09 | 3.57 ± 0.03 | 317.79 ± 3.09 | 2.98 ± 0.01 | |||
GG (64) | 10,758 ± 113.28 | 389.85 Aa ± 4.75 | 3.62 ± 0.05 | 320.94 ± 4.75 | 2.99 ± 0.02 | |||
p value | 0.2012 | 0.0037 | 0.4078 | 0.2597 | 0.7069 | |||
HADHB | 11:g.73256269T>C | 1 | CC (580) | 10,345 ± 40.5 | 345.52 ± 1.40 | 3.36 ± 0.03 | 309.82 ± 2.08 | 3.00 ± 0.01 |
TC (287) | 10,249 ± 49.36 | 346.32 ± 1.72 | 3.39 ± 0.03 | 306.67 ± 2.30 | 3.00 ± 0.01 | |||
TT (31) | 10,100 ± 118.79 | 338.41 ± 4.16 | 3.35 ± 0.06 | 302.28 ± 4.45 | 2.99 ± 0.02 | |||
p value | 0.0236 | 0.1926 | 0.2617 | 0.0461 | 0.8674 | |||
2 | CC (370) | 10,873 A ± 66.55 | 387.93 Aa ± 2.95 | 3.58 ± 0.03 | 324.74 A ± 2.95 | 2.99 ± 0.01 | ||
TC (214) | 10,626 B ± 74.67 | 380.21 Ab ± 3.26 | 3.60 ± 0.03 | 315.93 B ± 3.26 | 2.98 ± 0.01 | |||
TT (27) | 10,091 C ± 162.53 | 351.42 Bc ± 6.68 | 3.50 ± 0.07 | 299.92 B ± 6.68 | 2.98 ± 0.02 | |||
p value | <0.0001 | <0.0001 | 0.3795 | <0.0001 | 0.585 | |||
11:g.73256227A>C | 1 | AA (18) | 10,532 AB ± 156.37 | 349.98 ± 5.49 | 3.31 ± 0.08 | 313.59 b ± 5.73 | 3.00 ± 0.03 | |
AC (250) | 10,178 B ± 51.16 | 344.16 ± 1.81 | 3.40 ± 0.03 | 304.93 a ± 2.36 | 3.00 ± 0.01 | |||
CC (630) | 10,333 A ± 39.75 | 345.45 ± 1.42 | 3.36 ± 0.03 | 309.37 b ± 2.07 | 3.00 ± 0.01 | |||
p value | 0.0015 | 0.499 | 0.2506 | 0.0184 | 0.9941 | |||
2 | AA (19) | 9958.5 Ac ± 193.86 | 335.25 A ± 7.93 | 3.42 ± 0.08 | 294.18 B ± 7.93 | 2.98 ± 0.03 | ||
AC (184) | 10,540 Bb ± 78.1 | 377.62 B ± 3.39 | 3.60 ± 0.03 | 312.87 B ± 3.39 | 2.97 ± 0.01 | |||
CC (408) | 10,883 Aa ± 65.13 | 388.71 C ± 2.90 | 3.58 ± 0.03 | 325.20 A ± 2.90 | 2.99 ± 0.01 | |||
p value | <0.0001 | <0.0001 | 0.0665 | <0.0001 | 0.404 | |||
11:g.73242290C>T | 1 | CC (123) | 10,254 AB ± 65.02 | 344.89 ± 2.30 | 3.38 ± 0.04 | 306.77 ab ± 2.73 | 2.99 ± 0.01 | |
CT (189) | 10,168 B ± 54.74 | 344.54 ± 1.95 | 3.40 ± 0.03 | 304.97 b ± 2.47 | 3.00 ± 0.01 | |||
TT (586) | 10,358 A ± 40.35 | 345.66 ± 1.45 | 3.36 ± 0.03 | 309.91 a ± 2.08 | 3.00 ± 0.01 | |||
p value | 0.0012 | 0.8134 | 0.2182 | 0.0206 | 0.7748 | |||
2 | CC (88) | 10,476 B ± 99.09 | 368.81 Bc ± 4.20 | 3.54 ± 0.04 | 308.42 B ± 4.20 | 2.96 ± 0.01 | ||
CT (147) | 10,545 B ± 82.76 | 379.36 ABb ± 3.58 | 3.62 ± 0.03 | 315.16 B ± 3.58 | 2.99 ± 0.01 | |||
TT (376) | 10,884 A ± 66.08 | 387.96 Aa ± 2.95 | 3.57 ± 0.03 | 325.03 A ± 2.95 | 2.99 ± 0.01 | |||
p value | <0.0001 | <0.0001 | 0.1681 | <0.0001 | 0.0674 |
Gene | SNP Name | Lactation | Effect | Milk Yield (kg) | Fat Yield (kg) | Fat Percentage (%) | Protein Yield (kg) | Protein Percentage (%) |
---|---|---|---|---|---|---|---|---|
CYP7A1 | 14:g.24676921A>G | 1 | Additive Effect (a) | −5.0162 | −0.3432 | −0.00126 | −0.7593 | −0.00757 |
Dominance Effect (d) | 14.2908 | −0.467 | −0.00879 | 1.3145 | 0.007425 | |||
Allele Substitution Effect (α) | −9.3289 | −0.2023 | 0.001392 | −1.156 | −0.00981 | |||
2 | Additive Effect (a) | 174.61 ** | 6.6291 ** | 0.00234 | 5.4211 * | −0.00187 | ||
Dominance Effect (d) | −232.24 ** | −11.5028 ** | −0.02803 | −7.7643 ** | −0.00847 | |||
Allele Substitution Effect (α) | 243.41 ** | 10.0366 ** | 0.01064 | 7.7212 ** | 0.000633 | |||
14:g.24676224G>A | 1 | Additive Effect (a) | −41.8497 | −0.2291 | 0.006524 | −0.8039 | 0.004882 | |
Dominance Effect (d) | −51.9072 | −2.9335 * | −0.018 | −1.8257 | −0.00847 | |||
Allele Substitution Effect (α) | −46.4739 | −0.4904 | 0.00492 | −0.9666 | 0.004128 | |||
2 | Additive Effect (a) | −93.7702 * | −2.34 | 0.009039 | −2.5205 | 0.007237 | ||
Dominance Effect (d) | −226.82 ** | −9.4213 ** | −0.00727 | −8.5594 ** | −0.01769 | |||
Allele Substitution Effect (α) | −110.1 * | −3.0184 | 0.008515 | −3.1369 | 0.005963 | |||
14:g.24675708G>T | 1 | Additive Effect (a) | −53.7569 | −0.6575 | 0.0065 | −1.1824 | 0.004344 | |
Dominance Effect (d) | −42.5283 | −2.7457 | −0.01911 | −1.7491 | −0.00997 | |||
Allele Substitution Effect (α) | −57.6403 | −0.9082 | 0.004755 | −1.3421 | 0.003434 | |||
2 | Additive Effect (a) | −93.7702 * | −2.34 | 0.009039 | −2.5205 | 0.007237 | ||
Dominance Effect (d) | −226.82 ** | −9.4213 ** | −0.00727 | −8.5594 ** | −0.01769 | |||
Allele Substitution Effect (α) | −110.1 * | −3.0184 | 0.008515 | −3.1369 | 0.005963 | |||
14:g.24665961C>T | 1 | Additive Effect (a) | 0.911 | −0.106 | 0.002497 | −0.04286 | −0.00055 | |
Dominance Effect (d) | −104.99 * | −6.9981 | −0.03212 | −3.9993 * | −0.01024 | |||
Allele Substitution Effect (α) | 8.3937 | 0.3928 | 0.004787 | 0.2422 | 0.000182 | |||
2 | Additive Effect (a) | 80.7445 | 4.764 * | 0.01721 | 2.8865 | 0.001474 | ||
Dominance Effect (d) | −289.97 ** | −12.8359 ** | −0.01506 | −10.4784 ** | −0.0176 | |||
Allele Substitution Effect (α) | 96.8803 * | 5.4783 ** | 0.01805 | 3.4696 | 0.002453 | |||
14:g.24664026A>G | 1 | Additive Effect (a) | −16.3957 | 0.3409 | 0.009981 | −1.3534 | −0.00523 | |
Dominance Effect (d) | 89.7199 | 1.5028 | −0.0135 | 1.7121 | −0.00847 | |||
Allele Substitution Effect (α) | 11.7791 | 0.8128 | 0.005741 | −0.8157 | −0.00789 | |||
2 | Additive Effect (a) | 20.2446 | −1.7674 | −0.01594 | 0.6858 | −0.00119 | ||
Dominance Effect (d) | −101.99 | −9.407 ** | −0.03741 | −3.8298 | −0.00827 | |||
Allele Substitution Effect (α) | −14.8297 | −5.0024 | −0.0288 | −0.6313 | −0.00403 | |||
HADHB | 11:g.73256269T>C | 1 | Additive Effect (a) | 122.03 * | 3.5596 | 0.003985 | 3.7702 | 0.004206 |
Dominance Effect (d) | 26.4066 | 4.3527 | 0.03899 | 0.6195 | 0.001006 | |||
Allele Substitution Effect (α) | 104.04 ** | 0.5932 | −0.02259 | 3.348 * | 0.003521 | |||
2 | Additive Effect (a) | 390.89 ** | 18.2568 ** | 0.03657 | 12.4128 ** | 0.001967 | ||
Dominance Effect (d) | 143.14 | 10.5408 ** | 0.05419 | 3.5935 | −0.00841 | |||
Allele Substitution Effect (α) | 471.25 ** | 24.1742 ** | 0.067 | 14.4302 ** | −0.00275 | |||
11:g.73256227A>C | 1 | Additive Effect (a) | 99.5398 | 2.2649 | −0.02704 | 2.1125 | −0.00149 | |
Dominance Effect (d) | −254.17 ** | −3.5579 | 0.05961 * | −6.5477 * | 0.001585 | |||
Allele Substitution Effect (α) | 272.76 * | 4.6897 | −0.06766 | 6.5749 | −0.00257 | |||
2 | Additive Effect (a) | −462.42 ** | −26.7305 ** | −0.08246 * | −15.5101 ** | −0.0063 ** | ||
Dominance Effect (d) | 118.71 | 15.6455 ** | 0.1017 * | 3.184 | −0.00734 | |||
Allele Substitution Effect (α) | −538 ** | −36.6914 ** | −0.1472 * | −17.5372 ** | −0.00162 ** | |||
11:g.73242290C>T | 1 | Additive Effect (a) | −51.7106 | −0.383 | 0.01289 | −1.5714 | −0.00237 | |
Dominance Effect (d) | −137.38 | −0.7373 | 0.02938 | −3.3741 | 0.0067 | |||
Allele Substitution Effect (α) | 19.1215 | −0.00287 | −0.00226 | 0.1682 | −0.00583 | |||
2 | Additive Effect (a) | −203.9 ** | −9.573 ** | −0.01824 | −8.3062 ** | −0.01506 * | ||
Dominance Effect (d) | −135.25 | 0.9699 | 0.06063 | −1.5693 | 0.01771 | |||
Allele Substitution Effect (α) | −140.15 * | −10.0302 ** | −0.04682 | −7.5665 ** | −0.02341 * |
Block | Lactation | Haplotype Combination | Milk Yield (kg) | Fat Yield (kg) | Fat Percentage (%) | Protein Yield (kg) | Protein Percentage (%) |
---|---|---|---|---|---|---|---|
BLOCK1 | 1 | H1H1 (197) | 10,410 A ± 53.81 | 352.81 ABa ± 1.9 | 3.41 ± 0.03 | 312.82 A ± 2.41 | 3.01 ± 0.01 |
H1H2 (282) | 10,329 A ± 46.52 | 346.8 Bb ± 1.64 | 3.38 ± 0.03 | 310.03 AB ± 2.23 | 3.01 ± 0.01 | ||
H1H3 (155) | 10,125 B ± 57.38 | 343.65 Bb ± 2.02 | 3.41 ± 0.03 | 304.38 B ± 2.52 | 3.01 ± 0.01 | ||
H2H2 (102) | 10,314 AB ± 68.66 | 351.65 ABab ± 2.42 | 3.41 ± 0.04 | 310.75 AB ± 2.85 | 3.02 ± 0.01 | ||
H2H3 (127) | 10,466 A ± 63.22 | 356.37 Aa ± 2.23 | 3.42 ± 0.04 | 313.93 A ± 2.68 | 3.00 ± 0.01 | ||
p value | <0.0001 | <0.0001 | 0.6801 | 0.0011 | 0.7621 | ||
2 | H1H1 (136) | 10,937 Aa ± 86.81 | 392.63 Aa ± 3.73 | 3.60 ± 0.03 | 327.99 A ± 2.71 | 3.00 ± 0.01 | |
H1H2 (201) | 10,539 Bb ± 76.03 | 374.21 Bb ± 3.31 | 3.57 ± 0.03 | 316.09 B ± 2.40 | 3.00 ± 0.01 | ||
H1H3 (104) | 10,453 Bb ± 91.26 | 372.18 Bb ± 3.89 | 3.57 ± 0.04 | 311.78 B ± 2.83 | 2.99 ± 0.01 | ||
H2H2 (64) | 10,560 ABb ± 108.83 | 379.53 ABb ± 4.56 | 3.60 ± 0.04 | 319.76 AB ± 3.32 | 3.04 ± 0.02 | ||
H2H3 (85) | 10,971 Aa ± 98.06 | 385.25 ABab ± 4.15 | 3.52 ± 0.04 | 329.89 A ± 3.02 | 3.01 ± 0.014 | ||
p value | <0.0001 | <0.0001 | 0.3899 | <0.0001 | 0.1286 | ||
BLOCK2 | 1 | H1H1 (118) | 10,243 B ± 66.47 | 349.59 b ± 2.33 | 3.43 ± 0.04 | 309.81 B ± 2.90 | 3.00 ± 0.01 |
H1H3 (71) | 10,679 A ± 80.86 | 359.13 a ± 2.84 | 3.39 ± 0.04 | 323.14 A ± 3.30 | 3.02 ± 0.02 | ||
H2H2 (278) | 10,336 B ± 52.06 | 353.69 ab ± 1.83 | 3.45 ± 0.03 | 312.8 B ± 2.45 | 3.02 ± 0.01 | ||
p value | <0.0001 | 0.017 | 0.329 | 0.0004 | 0.3323 | ||
2 | H1H1 (79) | 10,988 Aa ± 108.25 | 391.81 Aa ± 4.58 | 3.58 ± 0.04 | 327.91 a ± 3.33 | 2.99 ± 0.02 | |
H1H3 (50) | 10,544 Bb ± 131.80 | 369.04 Bb ± 5.51 | 3.51 ± 0.05 | 316.52 b ± 4.02 | 3.00 ± 0.02 | ||
H2H2 (181) | 10,597 Bb ± 83.65 | 379.16 ABb ± 3.64 | 3.58 ± 0.03 | 319.04 b ± 2.65 | 3.02 ± 0.01 | ||
p value | 0.0007 | 0.0006 | 0.4171 | 0.0088 | 0.1168 | ||
BLOCK3 | 1 | H1H2 (239) | 10,194 ± 73.90 | 345.47 b ± 3.22 | 3.40 ± 0.03 | 305.64 B ± 2.34 | 3.00 ± 0.01 |
H2H2 (580) | 10,292 ± 62.97 | 346.25 b ± 2.82 | 3.38 ± 0.03 | 308.43 AB ± 2.05 | 3.00 ± 0.01 | ||
H2H3 (48) | 10,439 ± 118.76 | 357.32 a ± 4.93 | 3.43 ± 0.05 | 315.61 A ± 3.59 | 3.03 ± 0.02 | ||
p value | 0.06 | 0.0315 | 0.3858 | 0.0103 | 0.2938 | ||
2 | H1H2 (176) | 10,456 Ab ± 79.36 | 312.66 b ± 3.40 | 3.58 ± 0.03 | 312.67 C ± 2.50 | 2.99 ± 0.01 | |
H2H2 (370) | 10,700 Aa ± 67.79 | 320.34 a ± 2.97 | 3.55 ± 0.03 | 320.34 B ± 2.19 | 3.00 ± 0.01 | ||
H2H3 (37) | 10,860 Aa ± 138.53 | 327.69 a ± 5.71 | 3.60 ± 0.06 | 327.69 A ± 4.18 | 3.02 ± 0.02 | ||
p value | 0.0005 | 0.0052 | 0.3623 | <0.0001 | 0.496 |
Gene | SNP | Allele | Transcription Factor | Relative Score (≥0.80) | Predicted Binding Site Sequence |
---|---|---|---|---|---|
CYP7A1 | 14:g.24676921A>G | A | - | - | - |
G | EBF1 | 0.89 | ATTCCAGGGA | ||
SP1 | 0.88 | GGGACGGGG | |||
14:g.24675708G>T | G | ELK1 | 0.80 | GGCACTGAAA | |
T | FOXC1 | 0.82 | TTTGTAAATGC | ||
ZNF354C | 0.82 | ATGCAC | |||
HADHB | 11:g.73256269T>C | T | PAX2 | 0.84 | GGTCGTGC |
NR2F1 | 0.82 | GAAGGGTCGTGCG | |||
C | TFAP2A | 0.92 | GCCGTGCGC |
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Chen, A.; Yang, Q.; Ye, W.; Xu, L.; Wang, Y.; Sun, D.; Han, B. Polymorphisms of CYP7A1 and HADHB Genes and Their Effects on Milk Production Traits in Chinese Holstein Cows. Animals 2024, 14, 1276. https://doi.org/10.3390/ani14091276
Chen A, Yang Q, Ye W, Xu L, Wang Y, Sun D, Han B. Polymorphisms of CYP7A1 and HADHB Genes and Their Effects on Milk Production Traits in Chinese Holstein Cows. Animals. 2024; 14(9):1276. https://doi.org/10.3390/ani14091276
Chicago/Turabian StyleChen, Ao, Qianyu Yang, Wen Ye, Lingna Xu, Yuzhan Wang, Dongxiao Sun, and Bo Han. 2024. "Polymorphisms of CYP7A1 and HADHB Genes and Their Effects on Milk Production Traits in Chinese Holstein Cows" Animals 14, no. 9: 1276. https://doi.org/10.3390/ani14091276
APA StyleChen, A., Yang, Q., Ye, W., Xu, L., Wang, Y., Sun, D., & Han, B. (2024). Polymorphisms of CYP7A1 and HADHB Genes and Their Effects on Milk Production Traits in Chinese Holstein Cows. Animals, 14(9), 1276. https://doi.org/10.3390/ani14091276