Copy Number Variation of the SOX6 Gene and Its Associations with Growth Traits in Ashidan Yak
Abstract
:Simple Summary
Abstract
1. Introduction
2. Materials and Methods
2.1. Animal Welfare
2.2. Body Size Traits and the Blood Samples Collection
2.3. Isolation and Identification of Genomic the DNA and RNA
2.4. Information of Candidate Gene
2.5. Primer Design
2.6. Copy Number Variation Identification and Gene Expression
2.7. CNV Correlation Analysis and Expression Profiling
3. Results
3.1. Expression Profiling of SOX6 Gene and Distribution of Different CNV Types in Yaks
3.2. Correlation between the SOX6-CNV and Four Growth Traits at Different Ages of 311 Yaks
4. Discussion
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
References
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Reagents and Instruments | Manufacturer |
---|---|
EasyPure Blood Genomic DNA Kit | TransGen Biotech, Beijing, China |
Trizol reagent | TransGen Biotech, Beijing, China |
PrimeScript™ Reagent Kit and gDNA Eraser | TaKaRa Bio Inc., Dalian, China |
RNase-free DNase | TaKaRa Bio Inc., Dalian, China |
Thermo Scientific NanoDrop 2000C | ThermoFisher Scientific Inc., Waltham, MA, USA |
LightCycler® 96 Instrument | Roche, Basel, Switzerland |
Level | Gene | Primer Sequence (5′–3′) | Product Length (bp) | Tm (°C) |
---|---|---|---|---|
DNA | SOX6 | F: GCAACTACCACACCGTCACCTC | 114 | 59 |
R: TCCGCCGTCTGTCTTCATACCA | ||||
DNA | BTF | F: AACCAGGAGAAACTCGCCAA | 166 | 59 |
R: TTCGGTGAAATGCCCTCTCG | ||||
mRNA | SOX6 | F: CGTTTGGGCAGGAGTTTGGA | 148 | 60 |
R: CGTTTGGTGGCTGTGGAGTT | ||||
mRNA | β-Actin | F: GCAGGTCATCACCATCGG | 158 | 60 |
R: CCGTGTTGGCGTAGAGGT |
Age | Growth Trait | CNV (Type Mean ± SE) | p Value | ||
---|---|---|---|---|---|
Loss (n = 17) | Normal (n = 182) | Gain (n = 112) | |||
6 months | Body weight (kg) | 83.82 ± 2.826 | 84.45 ± 0.762 | 83.89 ± 0.996 | 0.896 |
Withers height (cm) | 94.94 ± 1.133 a | 94.80 ± 0.410 ab | 93.19 ± 0.475 b | 0.036 * | |
Body length (cm) | 91.76 ± 1.868 | 91.61 ± 0.492 | 92.82 ± 0.422 | 0.829 | |
Chest girth (cm) | 121.76 ± 2.006 b | 124.81 ± 0.569 a | 122.78 ± 0.731 b | 0.047 * | |
12 months | Body weight (kg) | 83.35 ± 3.240 | 83.49 ± 0.778 | 81.13 ± 1.028 | 0.185 |
Withers height (cm) | 90.47 ± 1.275 | 90.77 ± 0.294 | 90.04 ± 0.408 | 0.348 | |
Body length (cm) | 95.35 ± 1.228 | 96.27 ± 0.351 | 95.18 ± 0.459 | 0.156 | |
Chest girth (cm) | 115.76 ± 1.675 | 117.64 ± 0.358 | 116.45 ± 0.511 | 0.090 | |
18 months | Body weight (kg) | 121.55 ± 4.857 | 123.67 ± 1.126 | 121.63 ± 1.308 | 0.487 |
Withers height (cm) | 99.50 ± 1.863 b | 101.03 ± 0.513 b | 102.77 ± 0.537 a | 0.038 * | |
Body length (cm) | 99.86 ± 1.522 | 102.32 ± 0.479 | 101.28 ± 0.519 | 0.160 | |
Chest girth (cm) | 136.79 ± 2.358 | 137.56 ± 0.851 | 139.08 ± 0.850 | 0.434 | |
30 months | Body weight (kg) | 155.64 ± 3.827 | 155.50 ± 1.380 | 155.48 ± 1.625 | 0.999 |
Withers height (cm) | 100.20 ± 1.277 | 100.08 ± 0.451 | 98.86 ± 0.544 | 0.208 | |
Body length (cm) | 113.87 ± 1.591 | 113.81 ± 0.477 | 112.53 ± 0.638 | 0.257 | |
Chest girth (cm) | 147.20 ± 2.066 ab | 148.10 ± 0.722 a | 145.14 ± 0.953 b | 0.045 * |
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Li, X.; Huang, C.; Liu, M.; Dai, R.; Wu, X.; Ma, X.; Chu, M.; Bao, P.; Pei, J.; Guo, X.; et al. Copy Number Variation of the SOX6 Gene and Its Associations with Growth Traits in Ashidan Yak. Animals 2022, 12, 3074. https://doi.org/10.3390/ani12223074
Li X, Huang C, Liu M, Dai R, Wu X, Ma X, Chu M, Bao P, Pei J, Guo X, et al. Copy Number Variation of the SOX6 Gene and Its Associations with Growth Traits in Ashidan Yak. Animals. 2022; 12(22):3074. https://doi.org/10.3390/ani12223074
Chicago/Turabian StyleLi, Xinyi, Chun Huang, Modian Liu, Rongfeng Dai, Xiaoyun Wu, Xiaoming Ma, Min Chu, Pengjia Bao, Jie Pei, Xian Guo, and et al. 2022. "Copy Number Variation of the SOX6 Gene and Its Associations with Growth Traits in Ashidan Yak" Animals 12, no. 22: 3074. https://doi.org/10.3390/ani12223074
APA StyleLi, X., Huang, C., Liu, M., Dai, R., Wu, X., Ma, X., Chu, M., Bao, P., Pei, J., Guo, X., Yan, P., & Liang, C. (2022). Copy Number Variation of the SOX6 Gene and Its Associations with Growth Traits in Ashidan Yak. Animals, 12(22), 3074. https://doi.org/10.3390/ani12223074