Analysis Of Population Genetic Characteristics By MALDI-TOF-MS And Candidate SNPs For Meat Quality In Xueshan Chicken

MALDI-TOF-MS technology is widely used as a high-through genotype platform of single nucleotide polymorphism (SNPs), due to its higher accuracy than that of traditional SSCP-PCR method.This study scanned25SNPs of10genes by MALDI-TOF-MS to verify and make further study on the presence of reported SNPs. Meanwhile, taking Xueshan chicken as the experimental material, we investigated genetic effects of candidated SNPs on meat quality, aiming to identify potential markers for marker assistant selection.1. A total of504chickens in13populations were genotyped for25SNPsassociated with the meat and disease-resistant traits using MALDI-TOF-MS assay. The results showed that SNP2, SNP6, SNP9, SNP10, SNP19and SNP22were not the real SNPs, while other19SNPs were effective.2. The SNP1of ADSL gene, the SNP5of GARS-GART-AIRS gene, the SNP7of AIRC gene, the SNP11of PURH gene and the SNP12of UCP gene had significant effects with some indices of the common meat quality. SNP1of ADSL had significant effects with shear stress in leg muscles and the TT genotype birds had significant higher level than the CC and CT genotype(P<0.01). SNP7of AIRC had significant effects with shear stress in breast muscles and the TT genotype birds had significant higher level than the TC (P<0.01). SNP11of PURH had significant effects with pH in leg muscles and the TT genotype birds had significant higher level than the TC genotype (P<0.05). SNP12of UCP had significant effects with pH in leg muscles and the TC genotype birds had significant higher level than the TT and CC genotype (P<0.05),while there was no significant difference between the TT and CC genotype.3. SNP7of AIRC and SNP4, SNP5of GARS-GART-AIRS had significant effects with the IMP of the chest muscle (P<0.05). The result showed that TC genotype birds in SNP7had significant higher inosine monophosphate (IMP) content in chest muscle than the TT genotype birds (P<0.05).CC genotype birds in SNP4had significant higher IMP content in chest muscle than the AA and AC genotype birds (P<0.05), while there was no significant difference between the AA and AC. TT genotype birds in SNP5had also significant higher IMP content in chest muscle than the CC and CT genotype birds (P<0.01), while there was no significant difference between the CC and CT. The traits of leg musle had the same, but there was no significant difference. We drew the conclusion that these SNPs could be candidate loci that affected muscle IMP content.4. The SNP13of A-FABP gene had significant effects with the intramuscle fat (IMF) content of the leg muscle(P<0.05); the SNP14of THRSP gene had significant effects with the IMF content of the chest muscle(P<0.05);SNP12, SNP13and SNP14all had significant effects with some fatty acid content of chest or leg muscle(P<0.05). In SNP12, the TT genotype birds had significant higher C18:In9c and C18:2n6c content of chest muscle than TC and CC genotype birds (P<0.05); the TT genotype birds had significant higher C16:0content of leg muscle than TC and CC genotype birds (P<0.05). In SNP13, the TT genotype birds had significant higher C16:0content of chest muscle than CT and CC genotype birds (P<0.05). In SNP14, the GA genotype birds had significant higher C16:0, C18:In9c and C18:2n6c content of chest muscle than GG and AA genotype birds (P<0.05). It could be putatively drew that the conclusion that these SNPs could be candidate loci that affected fat traits.5. The haplotype analysis showed that ADSL and GARS-GART-AIRS haplotypes, H7H8(TTCCCT), might be the preponderant haplotype in the trait of IMP content of chest muscle H3114(TTAG) haplotype in UCP and THRSP genes had significant IMF and fatty acid content than the others.