Two Different Copy Number Variations of the CLCN2 Gene in Chinese Cattle and Their Association with Growth Traits

Copy number variation (CNV) can affect gene function and even individual phenotypic traits by changing the transcription and translation level of related genes, and it also plays an important role in species evolution. Chloride voltage-gated channel 2 (CLCN2) encodes a voltage-gated chloride channel (CLC-2), which has a wide organ distribution and is ubiquitously expressed. Based on previous studies, we hypothesize that CLCN2 could be a candidate gene involved in cell volume regulation, transepithelial transport and cell proliferation. This study aimed to explore CNVs in the CLCN2 gene and investigate its association with growth traits in four Chinese cattle breeds (Yunling cattle, Xianan cattle, Qinchuan cattle and Pinan cattle). We identified there are two copy number variation regions (CNV1: 3600 bp, including exon 2–11; CNV2: 4800 bp, including exon 21–22) of the CLCN2 gene. The statistical analysis showed that the CNV1 mutation in the YL cattle population was significantly associated with cannon circumference (p < 0.01). The CNV2 mutation in the XN cattle population had a significant effect on body slanting length, chest girth and body weight (p < 0.05). In the YL cattle, the association analysis of CLCN2 gene CNV1 and CNV2 combination with cannon circumference was significant (p < 0.01). Our results provide evidence that CNV1 and CNV2 in CLCN2 are associated with growth traits in two different cattle populations and could be used as candidate markers for cattle molecular breeding.

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Effect of copy number variation of PLA2G2A gene to growth traits in Chinese cattle

Gene ◽

10.1016/j.gene.2021.146014 ◽

2021 ◽

pp. 146014

Author(s):

Peng Yang ◽

Cuicui Cai ◽

Mengxiao Niu ◽

Xian Liu ◽

Hongli Wang ◽

...

Keyword(s):

Copy Number Variation ◽

Copy Number ◽

Growth Traits ◽

Chinese Cattle ◽

Number Variation

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The combination between NCSTN gene copy number variation and growth traits in Chinese cattle

Animal Biotechnology ◽

10.1080/10495398.2020.1741382 ◽

2020 ◽

pp. 1-5

Author(s):

Yu-Fei Yao ◽

Shijie Lyu ◽

Xianwei Wang ◽

Zijing Zhang ◽

Kaixing Qu ◽

...

Keyword(s):

Copy Number Variation ◽

Copy Number ◽

Growth Traits ◽

Gene Copy Number ◽

Gene Copy ◽

Gene Copy Number Variation ◽

Chinese Cattle ◽

Number Variation

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Copy number variation of GAL3ST1 gene is associated with growth traits of Chinese cattle

Animal Biotechnology ◽

10.1080/10495398.2021.1996385 ◽

2022 ◽

pp. 1-7

Author(s):

Juntong Liang ◽

Xian Liu ◽

Peng Yang ◽

Zhi Yao ◽

Kaixing Qu ◽

...

Keyword(s):

Copy Number Variation ◽

Copy Number ◽

Growth Traits ◽

Chinese Cattle ◽

Number Variation

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Detection and quantitation of copy number variation in the voltage-gated sodium channel gene of the mosquito Culex quinquefasciatus

Scientific Reports ◽

10.1038/s41598-017-06080-8 ◽

2017 ◽

Vol 7 (1) ◽

Cited By ~ 15

Author(s):

Walter Fabricio Silva Martins ◽

Krishanthi Subramaniam ◽

Keith Steen ◽

Henry Mawejje ◽

Triantafillos Liloglou ◽

...

Keyword(s):

Copy Number Variation ◽

Sodium Channel ◽

Culex Quinquefasciatus ◽

Copy Number ◽

Voltage Gated Sodium Channel ◽

Voltage Gated ◽

Channel Gene ◽

Sodium Channel Gene ◽

Number Variation

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Association analysis of KMT2D copy number variation as a positional candidate for growth traits

Gene ◽

10.1016/j.gene.2020.144799 ◽

2020 ◽

Vol 753 ◽

pp. 144799

Author(s):

Jie Cheng ◽

Rui Jiang ◽

Yu Yang ◽

Xiukai Cao ◽

Yongzhen Huang ◽

...

Keyword(s):

Copy Number Variation ◽

Association Analysis ◽

Copy Number ◽

Growth Traits ◽

Positional Candidate ◽

Number Variation

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Novel copy number variation of the KLF3 gene is associated with growth traits in beef cattle

Gene ◽

10.1016/j.gene.2018.08.040 ◽

2019 ◽

Vol 680 ◽

pp. 99-104 ◽

Cited By ~ 5

Author(s):

Jia-Wei Xu ◽

Li Zheng ◽

Li-Juan Li ◽

Yu-fei Yao ◽

He Hua ◽

...

Keyword(s):

Beef Cattle ◽

Copy Number Variation ◽

Copy Number ◽

Growth Traits ◽

Number Variation

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Copy Number Variation of the PIGY Gene in Sheep and Its Association Analysis with Growth Traits

Animals ◽

10.3390/ani10040688 ◽

2020 ◽

Vol 10 (4) ◽

pp. 688 ◽

Cited By ~ 3

Author(s):

Ziting Feng ◽

Xinyu Li ◽

Jie Cheng ◽

Rui Jiang ◽

Ruolan Huang ◽

...

Keyword(s):

Copy Number Variation ◽

Association Analysis ◽

Copy Number ◽

Growth Traits ◽

Gansu Province ◽

Genomic Variation ◽

Association Analyses ◽

Qinghai Province ◽

Real Time Quantitative Pcr ◽

Number Variation

Copy number variation (CNV) is a type of genomic variation with an important effect on animal phenotype. We found that the PIGY gene contains a 3600 bp copy number variation (CNV) region located in chromosome 6 of sheep (Oar_v4.0 36,121,601–36,125,200 bp). This region overlaps with multiple quantitative trait loci related to phenotypes like muscle density and carcass weight. Therefore, in this study, the copy number variation of the PIGY gene was screened in three Chinese sheep breeds, namely, Chaka sheep (CKS, May of 2018, Wulan County, Qinghai Province, China), Hu sheep (HS, May of 2015, Mengjin County, Henan Province, China), and small-tailed Han sheep (STHS, May of 2016, Yongjing, Gansu Province, China). Association analyses were performed on the presence of CNV and sheep body size traits. We used real-time quantitative PCR (qPCR) to detect the CNV for association analysis. According to the results, the loss-type CNV was more common than other types in the three breeds (global average: loss = 61.5%, normal = 17.5%, and gain = 21.0%). The association analysis also showed significant effects of the PIGY gene CNV on body weight, chest circumference, and circumference of the cannon bone of sheep. Sheep with gain-type CNV had better growth traits than those with other types. The results indicate a clear relationship between the PIGY gene CNV and growth traits of sheep, suggesting the use of CNV as a new molecular breeding marker.

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Copy Number Variation of the CADM2 Gene and Its Association with Growth Traits in Yak

Animals ◽

10.3390/ani9121008 ◽

2019 ◽

Vol 9 (12) ◽

pp. 1008 ◽

Cited By ~ 1

Author(s):

Fei Ge ◽

Congjun Jia ◽

Min Chu ◽

Chunnian Liang ◽

Ping Yan

Keyword(s):

Body Weight ◽

Copy Number Variation ◽

Copy Number ◽

Growth Traits ◽

Quantitative Polymerase Chain Reaction ◽

The Body ◽

Gene Copy ◽

Common Source ◽

Economic Traits ◽

Number Variation

Copy number variation (CNV) is currently accepted as a common source of genetic variation. It is reported that CNVs may influence the resistance to disease and complex economic traits, such as residual feed intake, muscle formation, and fat deposition in livestock. Cell adhesion molecule 2 (CADM2) is expressed widely in the brain and adipose tissue and can regulate body weight through the central nervous system. Growth traits are important economic traits for animal selection. In this study, we aimed to explore the effect of CADM2 gene copy number variants on yak growth traits. Here, two CNVs in the CADM2 gene were investigated using the quantitative polymerase chain reaction (qPCR), and the association of the CNVs with growth traits in yak was analyzed using statistical methods by SPSS software. Differences were considered significant if the p value was < 0.05. Statistical analysis indicated significant association of CADM2-CNV2 with the body weight of the Chinese Ashidan yak. A significant effect of CNV2 (p < 0.05) was found on body weight at 6 months. In CNV2, the gain-type copy number variation exhibited greater performance than the other variants, with greater body weight observed at 6 months (p < 0.05). To the best of our knowledge, this is the first attempt to investigate the function of CADM2-CNVs and their association with growth traits in animals. This may be a useful candidate marker in marker-assisted selection of yaks.

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