Hostname: page-component-8448b6f56d-sxzjt Total loading time: 0 Render date: 2024-04-16T10:18:18.389Z Has data issue: false hasContentIssue false
  • English
  • Français

Copy number variation of WBP1L gene revealed its association with growth traits across Chinese cattle populations

Published online by Cambridge University Press:  02 September 2022

Jiaqiang Zhang ,
Zijing Zhang ,
Xian Liu ,
Yanan Chai ,
Peng Yang ,
Jungang Li ,
Yajun Huang ,
Lijuan Li ,
Weihong Huang  and
Guojie Yang
...Show all authors
Jiaqiang Zhang
Affiliation:
College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
Zijing Zhang
Affiliation:
Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, People's Republic of China
Xian Liu
Affiliation:
Henan Provincial Animal Husbandry General Station, Zhengzhou, Henan 450008, People's Republic of China
Yanan Chai
Affiliation:
Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, People's Republic of China
Peng Yang
Affiliation:
College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
Jungang Li
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Yajun Huang
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Lijuan Li
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Weihong Huang
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Guojie Yang
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Zengfang Qi
Affiliation:
Jiaxian Animal Husbandry Bureau, Jiaxian, Henan 467100, People's Republic of China
Fuying Chen
Affiliation:
Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, People's Republic of China
Zhiming Li
Affiliation:
Henan Provincial Animal Husbandry General Station, Zhengzhou, Henan 450008, People's Republic of China
Chuzhao Lei
Affiliation:
College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
Qiaoting Shi
Affiliation:
Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, People's Republic of China
Baorui Ru
Affiliation:
Henan Provincial Animal Husbandry General Station, Zhengzhou, Henan 450008, People's Republic of China
Eryao Wang*
Affiliation:
Institute of Animal Husbandry and Veterinary Science, Henan Academy of Agricultural Sciences, Zhengzhou, Henan 450002, People's Republic of China
Yongzhen Huang*
Affiliation:
College of Animal Science and Technology, Northwest A&F University, Yangling, Shaanxi 712100, People's Republic of China
*
Authors for correspondence: Eryao Wang, E-mail: eryaowang@outlook.com; Yongzhen Huang, E-mail: hyzsci@nwafu.edu.cn
Authors for correspondence: Eryao Wang, E-mail: eryaowang@outlook.com; Yongzhen Huang, E-mail: hyzsci@nwafu.edu.cn
Get access Rights & Permissions [Opens in a new window]

Abstract

Copy number variation (CNV) is a very common type of gene variation with high frequency. In recent years, CNV has been paid more attention in various fields, especially in livestock and poultry breeding, which has promoted the progress of breeding. WW domain binding protein 1-like (WBP1L) is a protein coding gene, which plays an important role in cattle populations, and its function has been extensively studied, but it is not clear whether the copy number of the gene can affect the growth and development of cattle populations. In this study, CNV of WBP1L gene was detected in 732 cattle of seven breeds (Qinchuan cattle, QC; Pinan cattle, PN; Yuengling cattle, YL; Xianan cattle, XN; Jiaxian cattle, JX; natural Guyuan cattle, NGY; Jian cattle, JA). In addition, the relationship between CNV and growth phenotype of cattle was studied. The experimental data indicate that the copy number of WBP1L was obviously correlated with heart girth of PN cattle (**P < 0.01), rump length (RL) and body weight (BW) of PN cattle (*P < 0.05), withers height (WH), RL, body length, chest depth and BW of JX cattle (*P < 0.05), WH of NGY cattle (*P < 0.05) and WH of JA cattle (*P < 0.05). It was proved that CNV of WBP1L gene could be used as molecular marker locus for genetic breeding of the above four cattle breeds.

Keywords

AssociationChinese cattlecopy number variations (CNVs)growth traitsWBP1L gene
Type
Animal Research Paper
Information
The Journal of Agricultural Science , Volume 160 , Issue 6 , December 2022 , pp. 528 - 534
Check for updates
Copyright
Copyright © The Author(s), 2022. Published by Cambridge University Press

Access options

Get access to the full version of this content by using one of the access options below. (Log in options will check for institutional or personal access. Content may require purchase if you do not have access.)

Footnotes

*

These authors contributed equally to this work.

References

Ali, S, Srivastava, AK, Chopra, R, Aggarwal, S, Garg, VK, Bhattacharya, SN and Bamezai, RN (2013) IL12B SNPs and copy number variation in IL23R gene associated with susceptibility to leprosy. Journal of Medical Genetics 50, 34–42.CrossRefGoogle ScholarPubMed
Andreassen, OA, Djurovic, S, Thompson, WK, Schork, AJ, Kendler, KS, O'Donovan, MC, Rujescu, D, Werge, T, van de Bunt, M, Morris, AP, McCarthy, MI, International Consortium for Blood Pressure GWAS, Diabetes Genetics Replication and Meta-analysis Consortium, Psychiatric Genomics Consortium Schizophrenia Working Group, Roddey, JC, McEvoy, LK, Desikan, RS and Dale, AM (2013) Improved detection of common variants associated with schizophrenia by leveraging pleiotropy with cardiovascular-disease risk factors. American Journal of Human Genetics 92, 197–209.CrossRefGoogle ScholarPubMed
Borna, S, Drobek, A, Kralova, J, Glatzova, D, Splichalova, I, Fabisik, M, Pokorna, J, Skopcova, T, Angelisova, P, Kanderova, V, Starkova, J, Stanek, P, Matveichuk, OV, Pavliuchenko, N, Kwiatkowska, K, Protty, MB, Tomlinson, MG, Alberich-Jorda, M, Korinek, V and Brdicka, T (2020) Transmembrane adaptor protein WBP1L regulates CXCR4 signalling and murine haematopoiesis. Journal of Cellular and Molecular Medicine 24, 1980–1992.CrossRefGoogle ScholarPubMed
Boyd, ES, Boyd, EH and Brown, LE (1980) The M-wave and CNV in the squirrel monkey: generality of cue modality and of reward. Electroencephalography and Clinical Neurophysiology 49, 66–80.CrossRefGoogle ScholarPubMed
Cardenas, A, Lutz, SM, Everson, TM, Perron, P, Bouchard, L and Hivert, MF (2019) Mediation by placental DNA methylation of the association of prenatal maternal smoking and birth weight. American Journal of Epidemiology 188, 1878–1886.CrossRefGoogle ScholarPubMed
Chen, HI, Einbond, A, Kwak, SJ, Linn, H, Koepf, E, Peterson, S, Kelly, JW and Sudol, M (1997) Characterization of the WW domain of human yes-associated protein and its polyproline-containing ligands. The Journal of Biological Chemistry 272, 17070–17077.CrossRefGoogle ScholarPubMed
Cheng, J, Jiang, R, Cao, X, Huang, Y, Lan, X, Lei, C, Hu, L and Chen, H (2020) Association analysis of KMT2D copy number variation as positional candidate for sheep stature. Gene 2020, 144799.CrossRefGoogle Scholar
Feuk, L, Carson, AR and Scherer, SW (2006) Structural variation in the human genome. Nature Reviews Genetics 7, 85–97.CrossRefGoogle ScholarPubMed
Gheyas, AA and Burt, DW (2013) Microarray resources for genetic and genomic studies in chicken: a review. Genesis (New York, N.Y.: 2000) 51, 337–356.CrossRefGoogle ScholarPubMed
Glessner, JT, Wang, K, Cai, G, Korvatska, O, Kim, CE, Wood, S, Zhang, H, Estes, A, Brune, CW, Bradfield, JP, Imielinski, M, Frackelton, EC, Reichert, J, Crawford, EL, Munson, J, Sleiman, PM, Chiavacci, R, Annaiah, K, Thomas, K, Hou, C, Glaberson, W, Flory, J, Otieno, F, Garris, M, Soorya, L, Klei, L, Piven, J, Meyer, KJ, Anagnostou, E, Sakurai, T, Game, RM, Rudd, DS, Zurawiecki, D, McDougle, CJ, Davis, LK, Miller, J, Posey, DJ, Michaels, S, Kolevzon, A, Silverman, JM, Bernier, R, Levy, SE, Schultz, RT, Dawson, G, Owley, T, McMahon, WM, Wassink, TH, Sweeney, JA, Nurnberger, JI, Coon, H, Sutcliffe, JS, Minshew, NJ, Grant, SF, Bucan, M, Cook, EH, Buxbaum, JD, Devlin, B, Schellenberg, GD and Hakonarson, H (2009) Autism genome-wide copy number variation reveals ubiquitin and neuronal genes. Nature 459, 569–573.CrossRefGoogle ScholarPubMed
Guan, F, Ni, T, Han, W, Lin, H, Zhang, B, Chen, G, Zhu, L, Liu, D and Zhang, T (2020) Evaluation of the relationships of the WBP1L gene with schizophrenia and the general psychopathology scale based on a case-control study. American Journal of Medical Genetics. Part B, Neuropsychiatric Genetics 183, 164–171.CrossRefGoogle ScholarPubMed
Henrichsen, CN, Chaignat, E and Reymond, A (2009) Copy number variants, diseases and gene expression. Human Molecular Genetics 18, R1–R8.CrossRefGoogle ScholarPubMed
Huang, Y, Li, Y, Wang, X, Yu, J, Cai, Y, Zheng, Z, Li, R, Zhang, S, Chen, N, Asadollahpour Nanaei, H, Hanif, Q, Chen, Q, Fu, W, Li, C, Cao, X, Zhou, G, Liu, S, He, S, Li, W, Chen, Y, Chen, H, Lei, C, Liu, M and Jiang, Y (2021) An atlas of CNV maps in cattle, goat and sheep. Science China Life Sciences 64, 1747–1764.CrossRefGoogle ScholarPubMed
Iafrate, AJ, Feuk, L, Rivera, MN, Listewnik, ML, Donahoe, PK, Qi, Y, Scherer, SW and Lee, C (2004) Detection of large-scale variation in the human genome. Nature Genetics 36, 949–951.CrossRefGoogle ScholarPubMed
Jenkins, GM, Goddard, ME, Black, MA, Brauning, R, Auvray, B, Dodds, KG, Kijas, JW, Cockett, N and McEwan, JC (2016) Copy number variants in the sheep genome detected using multiple approaches. BMC Genomics 17, 441.CrossRefGoogle ScholarPubMed
Li, W, Liu, D, Tang, S, Li, D, Han, R, Tian, Y, Li, H, Li, G, Li, W, Liu, X, Kang, X and Li, Z (2019) A multiallelic indel in the promoter region of the cyclin-dependent kinase inhibitor 3 gene is significantly associated with body weight and carcass traits in chickens. Poultry Science 98, 556–565.CrossRefGoogle ScholarPubMed
Li, W, Jing, Z, Cheng, Y, Wang, X, Li, D, Han, R, Li, W, Li, G, Sun, G, Tian, Y, Liu, X, Kang, X and Li, Z (2020) Analysis of four complete linkage sequence variants within a novel lncRNA located in a growth QTL on chromosome 1 related to growth traits in chickens. Journal of Animal Science 98, skaa122.CrossRefGoogle Scholar
Ma, YL, Wen, YF, Cao, XK, Cheng, J, Huang, YZ, Ma, Y, Hu, LY, Lei, CZ, Qi, XL, Cao, H and Chen, H (2019) Copy number variation (CNV) in the IGF1R gene across four cattle breeds and its association with economic traits. Archives Animal Breeding 62, 171–179.CrossRefGoogle ScholarPubMed
MacDonald, JR, Ziman, R, Yuen, RK, Feuk, L and Scherer, SW (2014) The database of genomic variants: a curated collection of structural variation in the human genome. Nucleic Acids Research 42, D986–D992.CrossRefGoogle ScholarPubMed
Meiyappan, M, Birrane, G and Ladias, J (2007) Structural basis for polyproline recognition by the FE65 WW domain. Journal of Molecular Biology 372, 970–980.CrossRefGoogle ScholarPubMed
Mosquera-Caro, M, Helman, P, Veroff, R, Shuster, J, Martin, S, Davidson, G, Potter, J, Harvey, R, Hromas, R, Andries, E, Atlas, S, Wilson, C, Ar, K, Xu, YX, Chen, IM, Carroll, A, Camitta, B and Willman, C (2003) Identification, validation and cloning of a novel gene (OPAL1) and associated genes highly predictive of outcome in pediatric acute lymphoblastic leukemia using gene expression profiling. Blood 102, 4a.Google Scholar
Neveu, B, Spinella, JF, Richer, C, Lagacé, K, Cassart, P, Lajoie, M, Jananji, S, Drouin, S, Healy, J, Hickson, GR and Sinnett, D (2016) CLIC5: a novel ETV6 target gene in childhood acute lymphoblastic leukemia. Haematologica 101, 1534–1543.CrossRefGoogle ScholarPubMed
Pei, J and Grishin, NV (2012) Unexpected diversity in Shisa-like proteins suggests the importance of their roles as transmembrane adaptors. Cellular Signalling 24, 758–769.CrossRefGoogle ScholarPubMed
Vissers, LE and Stankiewicz, P (2012) Microdeletion and microduplication syndromes. Methods in Molecular Biology (Clifton, NJ) 838, 29–75.CrossRefGoogle ScholarPubMed
Xu, Z, Wang, X, Zhang, Z, An, Q, Wen, Y, Wang, D, Liu, X, Li, Z, Lyu, S, Li, L, Wang, E, Ru, B, Xu, Z and Huang, Y (2020) Copy number variation of CADM2 gene revealed its association with growth traits across Chinese Capra hircus (goat) populations. Gene 741, 144519.CrossRefGoogle ScholarPubMed
Yang, M, Lv, J, Zhang, L, Li, M, Zhou, Y, Lan, X, Lei, C and Chen, H (2017 a) Association study and expression analysis of CYP4A11 gene copy number variation in Chinese cattle. Scientific Reports 7, 46599.CrossRefGoogle ScholarPubMed
Yang, L, Wang, YZ, Zhu, HH, Chang, Y, Li, LD, Chen, WM, Long, LY, Zhang, YH, Liu, YR, Lu, J and Qin, YZ (2017 b) PRAME gene copy number variation is related to its expression in multiple myeloma. DNA and Cell Biology 36, 1099–1107.CrossRefGoogle ScholarPubMed
Yang, L, Xu, L, Zhou, Y, Liu, M, Wang, L, Kijas, JW, Zhang, H, Li, L and Liu, GE (2018) Diversity of copy number variation in a worldwide population of sheep. Genomics 110, 143–148.CrossRefGoogle Scholar
Yang, P, Zhang, Z, Xu, J, Qu, K, Lyv, S, Wang, X, Cai, C, Li, Z, Wang, E, Xie, J, Ru, B, Xu, Z, Lei, C, Chen, H, Huang, B and Huang, Y (2020) The association of the copy number variation of the MLLT10 gene with growth traits of Chinese cattle. Animals: An Open Access Journal from MDPI 10, 250.CrossRefGoogle ScholarPubMed
Zhang, Y, Jiang, WK and Gao, LZ (2011) Evolution of microRNA genes in Oryza sativa and Arabidopsis thaliana: an update of the inverted duplication model. PLoS One 6, e28073.CrossRefGoogle ScholarPubMed
Zhang, H, Mo, X, Zhou, Z, Zhu, Z, HuangFu, X, Guo, Z and Zhang, Y (2019) Detection of putative functional single nucleotide polymorphisms in blood pressure loci and validation of association between single nucleotide polymorphism in WBP1L and hypertension in the Chinese Han population. Journal of Cardiovascular Pharmacology 73, 48–55.CrossRefGoogle ScholarPubMed
Zhao, Y, Dong, L, Jiang, C, Wang, X, Xie, J, Rashid, M, Liu, Y, Li, M, Bu, Z, Wang, H, Ma, X, Sun, S, Wang, X, Bo, C, Zhou, T and Kong, L (2020) Distinct nucleotide patterns among three subgenomes of bread wheat and their potential origins during domestication after allopolyploidization. BMC Biology 18, 188.CrossRefGoogle ScholarPubMed