Abstract
The Coiled-Coil-Helix-Coiled-Coil-Helix Domain Containing 7 (CHCHD7) gene was located in a growth-related major QTL that participated in the process of bone cells metabolism in animals by regulating mitochondrial copper homeostasis and cytochrome C oxidase assembly. Therefore, we speculated that CHCHD7 gene might be involved in animal growth and body size. Herein, we discovered a 17-bp insertion/deletion (indel) within the goat CHCHD7 gene. Then, we detected this variation in Shaanbei White Cashmere (SBWC, n = 1055) goats and Inner Mongolia White Cashmere (IMWC, n = 743) goats (Alathai type) using the mathematical expectation (ME) method. We then analyzed the correlation between these genotypes and goat body measurement traits. The results showed that the minor allelic frequency (MAF) was 0.011 in SBWC, and 0.048 in IMWC. In SBWC and IMWC, the reaction time by ME method was reduced by 36.78% and 27.59%, respectively, compared to the traditional method of screening samples one by one. Moreover, in SBWC goats, the 17-bp indel was significantly associated with body measurement traits (e.g. body height, and body length) in adults. In IMWC goats, the 17-bp indel was correlated with body measurement traits (e.g. body height) in weaners. In SBWC and IMWC goat populations, the body measurement traits of the individuals homozygous for 17-bp indel were higher than those in heterozygous individuals, except for the case of cannon circumference in IMWC weaners. These findings showed that the 17-bp insertion mutation within the goat CHCHD7 gene significantly affected body morphometric traits, and could provide a basis for marker-assisted selection (MAS) breeding of cashmere goats.
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Abbreviations
- BH:
-
Body height
- BL:
-
Body length
- bp:
-
Base pair
- BW:
-
Body weight
- CC:
-
Cannon circumference
- CcO:
-
Cytochrome C oxidase
- CD:
-
Chest depth
- CHCHD7 :
-
Coiled-coil-helix-coiled-coil-helix domain containing 7
- Cu:
-
Copper
- CW:
-
Chest width
- COX23 :
-
Cytochrome C oxidase assembly homolog
- ERR :
-
Estrogen-related receptor
- ESRR :
-
Estrogen-related receptors
- HG:
-
Heart girth
- HHC:
-
Height at hip cross
- HW:
-
Hip width
- HWE:
-
Hardy–Weinberg equilibrium
- IMWC:
-
Inner Mongolia white cashmere
- InDel:
-
Insertion/deletion
- MAF:
-
Minor allele frequency
- MAS:
-
Marker-assisted selection
- ME:
-
Mathematical expectation
- NGn:
-
The optimal number of individuals in one mixed group
- NRn:
-
Number of individuals in one reaction time
- PCR:
-
Polymerase chain reaction
- PIC:
-
Polymorphism information content
- PLAG1 :
-
Pleiomorphic adenoma gene 1
- pMAF:
-
Predicting minor allelic frequencies
- pRR:
-
Predicting reduction rate
- pRTn:
-
Predicting reaction times by the formulate
- QTL :
-
Quantitative trait locus
- RR:
-
Reduction rate
- RTn:
-
Reaction times
- SBWC:
-
Shaanbei White Cashmere
- SF1 :
-
Steroidogenic factor 1
- SF1F :
-
Vertebrate steroidogenic factor
- SORY :
-
SOX/SRY-sex/testis determining and HMG box factors
- SOX1 :
-
SRY (sex determining region Y)-box 1
- SOX14 :
-
SRY (sex determining region Y)-box 14
- SPSS:
-
Statistical product and service solutions
- SNP:
-
Single nucleotide polymorphisms
- TD-PCR:
-
Touch-down polymerase chain reaction
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Acknowledgements
This work was funded by the Provincial Key Projects of Shaanxi (2014KTDZ02-01). We were very grateful to the Qu Lei’s team membership in Shaanxi Provincial Engineering and Technology Research Center of Cashmere Goats, Yulin University and Life Science Research Center, Yulin University, for the samples collection of SBWC goats. We sincerely thank Ph.D. ZWX, in the College of Animal Science and Technology, Northwest A&F University, for providing experimental instruments and equipment. We greatly thank the staffs of SBWC and IMWC breeding farm, Shaanxi province, P.R. China for their collecting samples.
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HL, XL, and LQ designed the study as well as wrote the paper. HL and XW performed the experiments. HL did the statistical analysis. LQ and HC collected the samples. XL and LQ edited and reviewed the paper.
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Li, H., Wang, X., Chen, H. et al. A 17-bp InDel (rs668420586) within goat CHCHD7 gene located in growth-related QTL affecting body measurement traits. 3 Biotech 10, 441 (2020). https://doi.org/10.1007/s13205-020-02434-8
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DOI: https://doi.org/10.1007/s13205-020-02434-8