Polymorphism Identification in the Coding Sequences (ORFs) of the Porcine Pregnancy-Associated Glycoprotein 2-like Gene Subfamily in Pigs

TL;DR

This study identifies genetic variations in a pig gene family linked to pregnancy, providing a new database for future research on reproductive traits.

Contribution

The first report of SNPs and InDels in the ORF of the porcine PAG2-like gene subfamily in crossbreed pigs.

Findings

Sixteen SNPs and one InDel were identified in the PAG2-like gene subfamily of crossbreed pigs.

Ten of the SNPs cause amino acid substitutions, and the InDel affects two specific amino acids.

The findings establish a new database for studying correlations between SNPs and reproductive traits in pigs.

Abstract

Pregnancy-associated glycoproteins (PAGs) are a polygenic family with many scattered genes and pseudogenes resulting from the duplication or fusion of a pseudogene with expression beginning in the trophoblast during the peri-implantation period and continuing in the trophectoderm. In this study, single-nucleotide polymorphism (SNP) and insertion/deletion (InDels) in the open reading frame (nine exons) of crossbreed pigs are reported for the first time. Novel SNPs/InDels were researched using genomic DNA templates isolated from the leukocytes of crossbreed pigs (N = 25), which were amplified, gel-out-purified, and sequenced. Sixteen SNPs and one InDel (g.6961_6966 Ins TGCCAA) were identified in the crossbreed pigs. In silico analysis revealed that among 16 SNPs, only 10 SNPs cause amino acid (aa) substitutions, and InDel codes asparagine (N298) and alanine (A299). The results provide a novel broad-based database (main pattern) that will be critical for future research into the possible correlations between the SNP genotypes of the pPAG2-L subfamily in pigs of various breeds whose reproductive traits are known.

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