Genome-Wide Association Analysis of Growth Traits in Hu Sheep

Overview

Journal Genes (Basel)

Publisher MDPI

Date 2025 Jan 8

PMID 39766904

Authors

Tingting Li

Feng Xing

Na Zhang

Jieran Chen

Yuting Zhang

Hengqian Yang

Shiyu Peng

Runlin Ma

Qiuyue Liu

Shangquan Gan

Haitao Wang

Affiliations

Soon will be listed here.

Abstract

(1) Background: The Hu sheep is a renowned breed characterized by high reproduction, year-round estrus, and resistance to high humidity and temperature conditions. However, the breed exhibits lower growth rates and meat yields, which necessitate improvements through selective breeding. The integration of molecular markers in sheep breeding programs has the potential to enhance growth performance, reduce breeding cycles, and increase meat production. Currently, the applications of SNP chips for genotyping in conjunction with genome-wide association studies (GWAS) have become a prevalent approach for identifying candidate genes associated with economically significant traits in livestock. (2) Methods: To pinpoint candidate genes influencing growth traits in Hu sheep, we recorded the birth weight, weaning weight, and weights at 3, 4, 5, 6, and 7 months for a total of 567 Hu sheep, and genotyping was performed using the Ovine 40K SNP chip. (3) Results: Through GWAS analysis and KEGG pathway enrichment, we identified three candidate genes associated with birth weight (, , and ). Additionally, we found two candidate genes linked to weaning weight ( and ), with also serving as a shared gene between birth weight and weaning weight traits. Furthermore, we identified eight candidate genes related to monthly weight (, , , , , , , and ). (4) Conclusion: Our findings revealed a total of 13 candidate genetic markers that can be utilized for molecular marker-assisted selection, aiming to improve meat production in sheep breeding programs.

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References

Tuersuntuoheti M, Zhang J, Zhou W, Zhang C, Liu C, Chang Q . Exploring the growth trait molecular markers in two sheep breeds based on Genome-wide association analysis. PLoS One. 2023; 18(3):e0283383. PMC: 10035858. DOI: 10.1371/journal.pone.0283383. View

Liu Y, Wilson S, Wang L, Liu X, Guo Y, Li J . Identification of PLCL1 gene for hip bone size variation in females in a genome-wide association study. PLoS One. 2008; 3(9):e3160. PMC: 2522269. DOI: 10.1371/journal.pone.0003160. View

Guo R, Wu C, Liu F, Dong T, Zhang T . Biomimetic composite hydrogel promotes new bone formation in rat bone defects through regulation of miR-19b-3p/WWP1 axis by loaded extracellular vesicles. J Nanobiotechnology. 2023; 21(1):459. PMC: 10691144. DOI: 10.1186/s12951-023-02201-w. View

Zhou X, Stephens M . Genome-wide efficient mixed-model analysis for association studies. Nat Genet. 2012; 44(7):821-4. PMC: 3386377. DOI: 10.1038/ng.2310. View

Liao Y, Wang Z, Gloria L, Zhang K, Zhang C, Yang R . Genome-Wide Association Studies for Growth Curves in Meat Rabbits Through the Single-Step Nonlinear Mixed Model. Front Genet. 2021; 12:750939. PMC: 8531506. DOI: 10.3389/fgene.2021.750939. View

Zhang X, Liu X, Li F, Yue X . The Differential Composition of Whey Proteomes in Hu Sheep Colostrum and Milk during Different Lactation Periods. Animals (Basel). 2020; 10(10). PMC: 7599680. DOI: 10.3390/ani10101784. View

Cao Y, Song X, Shan H, Jiang J, Xiong P, Wu J . Genome-Wide Association Study of Body Weights in Hu Sheep and Population Verification of Related Single-Nucleotide Polymorphisms. Front Genet. 2020; 11:588. PMC: 7350885. DOI: 10.3389/fgene.2020.00588. View

Dodington D, Yumol J, Yang J, Pollock-Tahiri E, Sivasubramaniyam T, Sacco S . JAK2-IGF1 axis in osteoclasts regulates postnatal growth in mice. JCI Insight. 2021; 6(5). PMC: 8021113. DOI: 10.1172/jci.insight.137045. View

Xia X, Zhang S, Zhang H, Zhang Z, Chen N, Li Z . Assessing genomic diversity and signatures of selection in Jiaxian Red cattle using whole-genome sequencing data. BMC Genomics. 2021; 22(1):43. PMC: 7796570. DOI: 10.1186/s12864-020-07340-0. View

10.

Ghasemi M, Zamani P, Vatankhah M, Abdoli R . Genome-wide association study of birth weight in sheep. Animal. 2019; 13(9):1797-1803. DOI: 10.1017/S1751731118003610. View

11.

Souza C, MacDougall C, Campbell B, McNeilly A, Baird D . The Booroola (FecB) phenotype is associated with a mutation in the bone morphogenetic receptor type 1 B (BMPR1B) gene. J Endocrinol. 2001; 169(2):R1-6. DOI: 10.1677/joe.0.169r001. View

12.

Kury S, van Woerden G, Besnard T, Proietti Onori M, Latypova X, Towne M . De Novo Mutations in Protein Kinase Genes CAMK2A and CAMK2B Cause Intellectual Disability. Am J Hum Genet. 2017; 101(5):768-788. PMC: 5673671. DOI: 10.1016/j.ajhg.2017.10.003. View

13.

Zamani P, Mohammadi H . Comparison of different models for estimation of genetic parameters of early growth traits in the Mehraban sheep. J Anim Breed Genet. 2008; 125(1):29-34. DOI: 10.1111/j.1439-0388.2007.00676.x. View

14.

Ji R, Tao Y . Melanocortin-1 receptor mutations and pigmentation: Insights from large animals. Prog Mol Biol Transl Sci. 2022; 189(1):179-213. DOI: 10.1016/bs.pmbts.2022.03.001. View

15.

Wu S, Anderson M, Wang T, Zhou L, Emery O, Li X . Dynamic transcriptome, accessible genome, and PGR cistrome profiles in the human myometrium. FASEB J. 2020; 34(2):2252-2268. PMC: 10189786. DOI: 10.1096/fj.201902654R. View

16.

Zhang L, Ma X, Xuan J, Wang H, Yuan Z, Wu M . Identification of MEF2B and TRHDE Gene Polymorphisms Related to Growth Traits in a New Ujumqin Sheep Population. PLoS One. 2016; 11(7):e0159504. PMC: 4966928. DOI: 10.1371/journal.pone.0159504. View

17.

Grochowska E, Borys B, Mroczkowski S . Effects of Intronic SNPs in the Myostatin Gene on Growth and Carcass Traits in Colored Polish Merino Sheep. Genes (Basel). 2019; 11(1). PMC: 7016813. DOI: 10.3390/genes11010002. View

18.

Hou G, Yuan Z, Gao X, Li J, Gao H, Chen J . Genetic polymorphisms of the CACNA2D1 gene and their association with carcass and meat quality traits in cattle. Biochem Genet. 2010; 48(9-10):751-9. DOI: 10.1007/s10528-010-9357-9. View

19.

Cha J, Choo H, Srikanth K, Lee S, Son J, Park M . Genome-Wide Association Study Identifies 12 Loci Associated with Body Weight at Age 8 Weeks in Korean Native Chickens. Genes (Basel). 2021; 12(8). PMC: 8394794. DOI: 10.3390/genes12081170. View

20.

Jin C, Chen Y, Yang Z, Shi K, Chen C . A genome-wide association study of growth trait-related single nucleotide polymorphisms in Chinese Yancheng chickens. Genet Mol Res. 2015; 14(4):15783-92. DOI: 10.4238/2015.December.1.30. View