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| SNPs Identification of ITPR1 Gene and Its Correlation with Eggshell Quality Traits in Sansui Ducks (Anas platyrhyncha domestica) |
| LI Jie-Zhang, TAN Guang-Hui, WU Lei, QIN Yuan-Yu, ZHANG Yi-Yu* |
| Key Laboratory of Genetics, Breeding and Reproduction of Plateau Mountain Animals, Ministry of Education/College of Animal Science, Guizhou University, Guiyang 550025, China |
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Abstract Inositol 1,4,5-trisphosphate receptor 1 (ITPR1) is intracellular Ca2+ release channel protein, and could influence the mineralization and quality of eggshell in poultry by regulating the transport and release of calcium ions in the eggshell gland. In this study, the PCR product direct sequencing method and sequence alignment technology were used to identify the ITPR1 genetic variation sites of 186 Sansui duck (Anas platyrhyncha domestica), and the correlation between SNP mutation sites and eggshell quality was analyzed. The results showed that a total of 14 mutation sites were detected in the main functional domain and some introns of Sansui duck ITPR1 gene. There were 5 mutant sites, g.46455T>C, g.46459C>A, g.46564A>G, g.46581A>T, g.46649T>G, detected in the 8th intron. There were 6 mutant sites, g.55537A>G, g.55610T>C, g.55620G>T, g.55664A>G, g.55680C>T, g.55709T>G, detected in the 15th intron. There were 2 mutant sites, g.72601T>G and g.72843A>G, detected in the 30th intron. There was a synonymous mutation site g.124036C>T detected in the 42nd exon. All of the 14 mutation sites produced 3 genotypes, all of which were moderately polymorphic. The chi-square fitness test results showed that the genotype distribution of 14 mutation sites were consistent with the Hardy-Weinberg equilibrium (P>0.05). Based on linkage unbalance analysis,there were strong linkage imbalance between each two sites of g.46455T>C, g.46459C>A, g.46564A>G, g.46581A>T and g.46649T>G. There were strong linkage imbalance between each two sites of g.46581A>T, g.55537A>G, g.55620G>T, g.55664A>G, g.55680C>T and g.55709T>G. There was also strong linkage imbalance between g.72601T>G and g.72843A>G. A total of 13 kinds of haplotypes were found in 14 SNPs, of which H2 (CAGTGACTGTGGGC) was dominant haplotype with a frequency of 0.131, and H11 (TCAATGCGAC) was an inferior haplotype with a frequency of 0.060. The correlation analysis showed that 13 SNPs had significant correlation with eggshell thickness of Sansui duck except g.72843A>G site; Only g.46581A>T site had significant correlation with egg shape index (P<0.05); Except g.55610TC, g.55664AG, g.72601TG and g.72843AG, the other 10 sites had significant correlation on egg weight (P<0.05); g.46459C>A, g.55664A>G and g.124036C>T sites were significantly associated with eggshell weight (P<0.05); Except g.124036C>T site, the other 13 sites were significantly correlated with eggshell strength (P<0.05). In conclusion, the DNA sequence of the main functional domain of ITPR1 gene in the Sansui duck was relatively conservative, while intron genetic variation was abundant. Moreover, the 14 SNPs found in this study were significantly correlated with at least 2 eggshell quality indexes, indicating that the genetic variation of ITPR1 gene might affect eggshell quality and could be used as a genetic marker for the selection of eggshell quality of ducks.
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Received: 12 July 2019
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Corresponding Authors:
* zyy8yyc@163.com
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