Exploration of the Polymorphism Distribution of Bovine HMGA2 Gene in Worldwide Breeds and Its Associations with Ovarian Traits
Abstract
:Simple Summary
Abstract
1. Introduction
2. Materials and Methods
2.1. Bovine Ovary Collection
2.2. InDel Loci Selection and Primer Design
2.3. PCR Amplification and Genotyping
2.4. Statistical Analysis
2.5. Worldwide Bovine Breeds’ Sample Information
3. Results
3.1. Identification of the Indels in Bovine HMGA2 Gene
3.2. Estimation of Polymorphism Parameters of Indel (P4-D22-bp) of HMGA2
3.3. Association Analysis of HMGA2 with Ovarian Traits
3.4. Analysis of HMGA2 Gene Distribution in 54 Bovine Breeds and 6 Core Bovine Breeds Worldwide
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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Loci | Rs Numbers | Primer Sequences (5′-3′) | Product Size (bp) | Tm (°C) | Region |
---|---|---|---|---|---|
P1-I8-bp | rs516271779 | F: GGATTTGCGAGCAAGTCT | 111/95 | TD-PCR | 5′UTR |
R: TACCCTCCTGGCAGATTG | |||||
P2-D12-bp | rs797520182 | F: CATTCTCCAGCCCTACCTCG | 172 | TD-PCR | 5′UTR |
R: GTTGTCCCTGGGCTGAAGTG | |||||
P3-I23-bp | rs797609300 | F: CAACGGTTCTGTTGAGCAGC | 120 | TD-PCR | Intron |
R: CACCGGTTGGCTCCTAGTTT | |||||
P4-D22-bp | rs133750033 | F:AGAGCCTTTCTAGCAGTAGGTG | 172/194 | TD-PCR | Intron |
R: CAAGGTAAAGGGGGCTTTGG |
Sample Size | Genotypic Frequencies | Allelic Frequencies | HWE p Value | Population Parameter Estimates | ||||||
---|---|---|---|---|---|---|---|---|---|---|
II | ID | DD | I | D | Ho | He | Ne | PIC | ||
634 | 0.180 | 0.340 | 0.480 | 0.350 | 0.650 | p < 0.05 | 0.543 | 0.457 | 1.840 | 0.352 |
Sample Sizes | Traits (Units) | Observed Genotypes (Mean ± SE) | p-Values | ||
---|---|---|---|---|---|
II (n) | ID (n) | DD (n) | |||
339 | Ovarian length (mm) | 42.65 A ± 0.60 | 40.68 B ± 1.11 | 37.67 AB ± 1.39 | 0.001 |
339 | Ovarian width (mm) | 26.59 a ± 0.50 | 25.38 b ± 0.65 | 25.03 ab ± 0.87 | 0.172 |
339 | Ovarian height (mm) | 24.70 B ± 0.58 | 25.31 AB ± 0.72 | 27.82 A ± 1.13 | 0.026 |
338 | Ovarian weight (g) | 11.91 ± 0.38 | 11.52 ± 0.55 | 10.80 ± 0.68 | 0.356 |
341 | Number of corpus lutea | 1.83 a ± 0.08 | 1.75 ab ± 0.11 | 1.57 b ± 0.13 | 0.288 |
340 | Diameter of corpus luteum (mm) | 10.45 ± 0.54 | 10.30 ± 0.77 | 10.59 ± 0.88 | 0.971 |
285 | Number of mature follicles | 0.43 B ± 0.05 | 0.44 A ± 0.08 | 0.50 A ± 0.11 | 0.827 |
98 | Diameter of mature follicle (mm) | 12.99 B ± 0.58 | 13.11 A ± 0.98 | 11.68 A ± 1.15 | 0.539 |
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Shen, S.; Zhu, L.; Yang, Y.; Bi, Y.; Li, J.; Wang, Y.; Pan, C.; Wang, S.; Lan, X. Exploration of the Polymorphism Distribution of Bovine HMGA2 Gene in Worldwide Breeds and Its Associations with Ovarian Traits. Animals 2024, 14, 796. https://doi.org/10.3390/ani14050796
Shen S, Zhu L, Yang Y, Bi Y, Li J, Wang Y, Pan C, Wang S, Lan X. Exploration of the Polymorphism Distribution of Bovine HMGA2 Gene in Worldwide Breeds and Its Associations with Ovarian Traits. Animals. 2024; 14(5):796. https://doi.org/10.3390/ani14050796
Chicago/Turabian StyleShen, Siyuan, Leijing Zhu, Yuanzhe Yang, Yi Bi, Jie Li, Yongsheng Wang, Chuanying Pan, Shuilian Wang, and Xianyong Lan. 2024. "Exploration of the Polymorphism Distribution of Bovine HMGA2 Gene in Worldwide Breeds and Its Associations with Ovarian Traits" Animals 14, no. 5: 796. https://doi.org/10.3390/ani14050796