鸡Lpin1基因3′-UTR遗传变异及其对miRNA结合位点的潜在效应

doi:10.3864/j.issn.0578-1752.2012.08.017

Abstract

Abstract: 【Objective】 This experiment was conducted to study the genetic variation/haplotype of the 3′ -UTR of chicken Lpin1 gene and their distributions among breeds, and their potential effects on miRNA binding sites were predicted. 【Method】According to the chicken Lpin1 genome sequence ( GenBank accession: NC_006090), a pair of specific primers was designed to conduct the genetic variation/haplotype analysis in the 3′ -UTR of chicken Lpin1 gene in different breeds of chickens through direct PCR sequence combined with clone sequencing. 【Result】Eight variable sites were uncovered, these variation sites were all located at the 3′-UTR of chicken Lpin1 gene. Analysis showed the no variation sites were detected from Henan Game chicken in this region, however, six variation sites were detected from Gushi and Lushi chickens. Six variable sites (g.11A＞T, g.77C＞G, g.108_109delinsG, g.110_111delinsG, g.270A＞G and g. 348G＞T) with minor allele frequency ≥5% were selected for haplotype reconstruction, and six haplotypes were detected from six chicken breeds. P1 and P4 were the predominant haplotypes with frequencies ＞30%, respectively, only one haplotype was detected from Henan game chicken. Software prediction showed that g.77C＞G variant could cause the increase/loss of several miRNA binding sites. 【Conclusion】 The results showed that the 3′-UTR of chicken Lpin1 gene was highly polymorphic, the distribution of variable sites and haplotypes in different breeds of chickens had clear difference.

Key words: chicken, Lpin1 gene, 3′-UTR, genetic variation, miRNA target site

LI Su-Ya, ZHANG Jian-Hong, CHEN Wen, HUANG Yan-Qun, SUN Gui-Rong, HAN Rui-Li, KANG Xiang-Tao. Genetic Variation Analysis of 3′-UTR Region of Chicken Lpin1 Gene and the Potential Effect on miRNA Binding Sites[J].Scientia Agricultura Sinica, 2012, 45(8): 1613-1620.

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Genetic Variation Analysis of 3′-UTR Region of Chicken Lpin1 Gene and the Potential Effect on miRNA Binding Sites

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