Send to

Choose Destination
Funct Integr Genomics. 2018 Sep;18(5):559-567. doi: 10.1007/s10142-018-0613-0. Epub 2018 May 8.

Integrating CNVs into meta-QTL identified GBP4 as positional candidate for adult cattle stature.

Author information

College of Animal Science and Technology, Northwest A&F University, No.22 Xinong Road, Yangling, 712100, Shaanxi, China.
College of Life Science, Xinyang Normal University, Xinyang, 464000, Henan, China.
Henan Genetic Performance Determination Center for Cattle, Zhengzhou, 450046, Henan, China.
College of Food Science and Engineering, Northwest A&F University, Yangling, 712100, Shaanxi, China.
Biyang Bureau of Animal Husbandry, Biyang, 463700, Henan, China.
Animal Disease Control Center of Haixi Mongolian and Tibetan Autonomous Prefecture, Delingha, 817000, China.
College of Animal Science and Technology, Northwest A&F University, No.22 Xinong Road, Yangling, 712100, Shaanxi, China.


Copy number variation (CNV) of DNA sequences, functionally significant but yet fully ascertained, is believed to confer considerable increments in unexplained heritability of quantitative traits. Identification of phenotype-associated CNVs (paCNVs) therefore is a pressing need in CNV studies to speed up their exploitation in cattle breeding programs. Here, we provided a new avenue to achieve this goal that is to project the published CNV data onto meta-quantitative trait loci (meta-QTL) map which connects causal genes with phenotypes. Any CNVs overlapping meta-QTL therefore will be potential paCNVs. This study reported potential paCNVs in Bos taurus autosome 3 (BTA3). Notably, overview indexes and CNVs both highlighted a narrower region (BTA3 54,500,000-55,000,000 bp, named BTA3_INQTL_6) within one constructed meta-QTL. Then, we ascertained guanylate-binding protein 4 (GBP4) among the nine positional candidate genes was significantly associated with adult cattle stature, including body weight (BW, P < 0.05) and withers height (WHT, P < 0.05), fitting GBP4 CNV either with three levels or with six levels in the model. Although higher copy number downregulated the mRNA levels of GBP2 (P < 0.05) and GBP4 (P < 0.05) in 1-Mb window (54.0-55.0 Mb) in muscle and adipose, additional analyses will be needed to clarify the causality behind the ascertained association.


CNV; Cattle stature; GBP; Meta-analysis; Overview analysis

[Indexed for MEDLINE]

Supplemental Content

Full text links

Icon for Springer
Loading ...
Support Center