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Association between Genetic Polymorphism in the Swine Leukocyte Antigen-DRA Gene and Piglet Diarrhea in Three Chinese Pig Breeds.

Yang QL, Zhao SG, Wang DW, Feng Y, Jiang TT, Huang XY, Gun SB - Asian-australas. J. Anim. Sci. (2014)

Bottom Line: The swine leukocyte antigen (SLA)-DRA locus is noteworthy among other SLA class II loci for its limited variation and has not been investigated in depth.This study was investigated to detect polymorphisms of four exons of SLA-DRA gene and its association with piglet diarrhea in Landrace, Large White and Duroc pigs.No polymorphisms were detected in exon 3, while 2 SNPs (c.178G>A and c.211T>C), 2 SNPs (c.3093A>C and c.3104C>T) and 5 SNPs (c.4167A>G, c.4184A>G, c.4194A>G, c.4246A>G and c.4293G>A) were detected in exon 1, exon 2 and exon 4 respectively, and 1 SNP (c.4081T>C) in intron 3.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Science and Technology, Gansu Agricultural University, Lanzhou 730070, China ; Animal Husbandry and Veterinary Institute of Gansu Province, Pingliang 744000, China .

ABSTRACT
The swine leukocyte antigen (SLA)-DRA locus is noteworthy among other SLA class II loci for its limited variation and has not been investigated in depth. This study was investigated to detect polymorphisms of four exons of SLA-DRA gene and its association with piglet diarrhea in Landrace, Large White and Duroc pigs. No polymorphisms were detected in exon 3, while 2 SNPs (c.178G>A and c.211T>C), 2 SNPs (c.3093A>C and c.3104C>T) and 5 SNPs (c.4167A>G, c.4184A>G, c.4194A>G, c.4246A>G and c.4293G>A) were detected in exon 1, exon 2 and exon 4 respectively, and 1 SNP (c.4081T>C) in intron 3. Statistical results showed that genotype had significant effect on piglet diarrhea, individuals with genotype BC had a higher diarrhea score when compared with the genotypes AA, AB, AC and CC. Futhermore, genotype AC had a higher diarrhea score than the genotype CC in exon 1 (p<0.05); diarrhea scores of genotype AA and BB were higher than those of genotypes AC and CC in exon 2 (p<0.05); individuals with genotype AA had a higher diarrhea score than individuals with genotype AB and BB in exon 4 (p<0.05). Fourteen common haplotypes were founded by haplotype constructing of all SNPs in the three exons, its association with piglet diarrhea appeared that Hap2, 5, 8, 10, and 14 may be the susceptible haplotypes and Hap9 may be the resistant haplotype to piglet diarrhea. The genetic variations identified of the SLA-DRA gene may potentially be functional mutations related to piglet diarrhea.

No MeSH data available.


Related in: MedlinePlus

PCR-SSCP analysis of PCR amplified products for exon 1, exon 2, and exon 4 of the SLA-DRA gene, respectively. Exon 3 with no polymorphism detected in the amplification region is not listed in this figure. (A) PCR-SSCP band patterns for exon 1 on 12% acrylamide:bisacrylamide gel (39:1) after 10 min (250 V) and then 20 h (200 V) of the run at 4°C, (B) PCR-SSCP band patterns for exon 2 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 4°C, (C) PCR-SSCP band patterns exon 4 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 12°C. PCR-SSCP, polymerase chain reaction-single strand conformation polymorphism.
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f1-ajas-27-9-1228: PCR-SSCP analysis of PCR amplified products for exon 1, exon 2, and exon 4 of the SLA-DRA gene, respectively. Exon 3 with no polymorphism detected in the amplification region is not listed in this figure. (A) PCR-SSCP band patterns for exon 1 on 12% acrylamide:bisacrylamide gel (39:1) after 10 min (250 V) and then 20 h (200 V) of the run at 4°C, (B) PCR-SSCP band patterns for exon 2 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 4°C, (C) PCR-SSCP band patterns exon 4 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 12°C. PCR-SSCP, polymerase chain reaction-single strand conformation polymorphism.

Mentions: There was no polymorphism in exon 3 of the DRA locus. Six genotypes were detected in exon 1 and exon 2 (Figure 1A and Figure 1B), respectively. They were defined as AA, AB, BB, AC, CC, and BC. For exon 1, genotypes AA, BC, AC, and CC were detected in all three pig populations, genotype BB was only detected in Duroc. Three alleles were described as: A (A-T), B (G-C), and C (G-T) in this locus (Table 2). Allele C was the most common in Large White with a frequency of 0.55, whereas allele A was predominate in Landrace and Duroc with frequencies of 0.51 and 0.44, respectively.


Association between Genetic Polymorphism in the Swine Leukocyte Antigen-DRA Gene and Piglet Diarrhea in Three Chinese Pig Breeds.

Yang QL, Zhao SG, Wang DW, Feng Y, Jiang TT, Huang XY, Gun SB - Asian-australas. J. Anim. Sci. (2014)

PCR-SSCP analysis of PCR amplified products for exon 1, exon 2, and exon 4 of the SLA-DRA gene, respectively. Exon 3 with no polymorphism detected in the amplification region is not listed in this figure. (A) PCR-SSCP band patterns for exon 1 on 12% acrylamide:bisacrylamide gel (39:1) after 10 min (250 V) and then 20 h (200 V) of the run at 4°C, (B) PCR-SSCP band patterns for exon 2 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 4°C, (C) PCR-SSCP band patterns exon 4 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 12°C. PCR-SSCP, polymerase chain reaction-single strand conformation polymorphism.
© Copyright Policy
Related In: Results  -  Collection

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Show All Figures
getmorefigures.php?uid=PMC4150187&req=5

f1-ajas-27-9-1228: PCR-SSCP analysis of PCR amplified products for exon 1, exon 2, and exon 4 of the SLA-DRA gene, respectively. Exon 3 with no polymorphism detected in the amplification region is not listed in this figure. (A) PCR-SSCP band patterns for exon 1 on 12% acrylamide:bisacrylamide gel (39:1) after 10 min (250 V) and then 20 h (200 V) of the run at 4°C, (B) PCR-SSCP band patterns for exon 2 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 4°C, (C) PCR-SSCP band patterns exon 4 on 10% acrylamide:bisacrylamide gel (29:1) after 30 min (250 V) and then 20 h (200 V) of the run at 12°C. PCR-SSCP, polymerase chain reaction-single strand conformation polymorphism.
Mentions: There was no polymorphism in exon 3 of the DRA locus. Six genotypes were detected in exon 1 and exon 2 (Figure 1A and Figure 1B), respectively. They were defined as AA, AB, BB, AC, CC, and BC. For exon 1, genotypes AA, BC, AC, and CC were detected in all three pig populations, genotype BB was only detected in Duroc. Three alleles were described as: A (A-T), B (G-C), and C (G-T) in this locus (Table 2). Allele C was the most common in Large White with a frequency of 0.55, whereas allele A was predominate in Landrace and Duroc with frequencies of 0.51 and 0.44, respectively.

Bottom Line: The swine leukocyte antigen (SLA)-DRA locus is noteworthy among other SLA class II loci for its limited variation and has not been investigated in depth.This study was investigated to detect polymorphisms of four exons of SLA-DRA gene and its association with piglet diarrhea in Landrace, Large White and Duroc pigs.No polymorphisms were detected in exon 3, while 2 SNPs (c.178G>A and c.211T>C), 2 SNPs (c.3093A>C and c.3104C>T) and 5 SNPs (c.4167A>G, c.4184A>G, c.4194A>G, c.4246A>G and c.4293G>A) were detected in exon 1, exon 2 and exon 4 respectively, and 1 SNP (c.4081T>C) in intron 3.

View Article: PubMed Central - PubMed

Affiliation: College of Animal Science and Technology, Gansu Agricultural University, Lanzhou 730070, China ; Animal Husbandry and Veterinary Institute of Gansu Province, Pingliang 744000, China .

ABSTRACT
The swine leukocyte antigen (SLA)-DRA locus is noteworthy among other SLA class II loci for its limited variation and has not been investigated in depth. This study was investigated to detect polymorphisms of four exons of SLA-DRA gene and its association with piglet diarrhea in Landrace, Large White and Duroc pigs. No polymorphisms were detected in exon 3, while 2 SNPs (c.178G>A and c.211T>C), 2 SNPs (c.3093A>C and c.3104C>T) and 5 SNPs (c.4167A>G, c.4184A>G, c.4194A>G, c.4246A>G and c.4293G>A) were detected in exon 1, exon 2 and exon 4 respectively, and 1 SNP (c.4081T>C) in intron 3. Statistical results showed that genotype had significant effect on piglet diarrhea, individuals with genotype BC had a higher diarrhea score when compared with the genotypes AA, AB, AC and CC. Futhermore, genotype AC had a higher diarrhea score than the genotype CC in exon 1 (p<0.05); diarrhea scores of genotype AA and BB were higher than those of genotypes AC and CC in exon 2 (p<0.05); individuals with genotype AA had a higher diarrhea score than individuals with genotype AB and BB in exon 4 (p<0.05). Fourteen common haplotypes were founded by haplotype constructing of all SNPs in the three exons, its association with piglet diarrhea appeared that Hap2, 5, 8, 10, and 14 may be the susceptible haplotypes and Hap9 may be the resistant haplotype to piglet diarrhea. The genetic variations identified of the SLA-DRA gene may potentially be functional mutations related to piglet diarrhea.

No MeSH data available.


Related in: MedlinePlus