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Tibet pig MHC-DQB1 gene polymorphism

Author: YangTao
Tutor: QiangBaYangZong
School: Tibet University
Course: Preventive Veterinary Medicine
Keywords: Tibetan pigs SLA PCR-RFLP SNPs Gene polymorphism
CLC: S828
Type: Master's thesis
Year: 2010
Downloads: 74
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Abstract

Swine major histocompatibility complex (Major Histocompatibility Complex, referred MHC), also known as SLA (Swine Lymphocyte Antigen), namely pig leukocyte antigens. SLA and pig production, reproduction and disease resistance and other traits related, as a marker assisted selection in pig genetics and breeding applications are more and more people's attention. SLA in pig chromosome 7. By the pig MHC class Ⅰ, Ⅲ and Ⅱ three gene clusters or regional components, SLA Ⅰ genes and SLA Ⅲ class of genes located on the short arm of chromosome 7, SLA Ⅱ genes are located on chromosome. Class Ⅱ gene including DRA, DRB, DQA, DQB, DOB, DPA, TAP and LMP and other Asian areas. In this study, Tibet pig MHC-DQB1 gene polymorphism departure for Tibet pig MHC-DQB1 genetic polymorphism study provides a theoretical basis and technical reserve. According to GenBank pig SLA-DQB1 gene complete sequence (accession number NC ₀ 10449.1) designed eight pairs of primers for three varieties of 90 pigs were sequenced to find SNPs. In P1, P2, P3, P8 primers were discovered 13 SNPs. Intron4-1169 位 Tibet pig sequence consists of T → G mutation; Intron4-1159 位 Tibet pig sequence consists of G → C mutation; Intron4-1146 位 Tibet pig sequence consists of C → G mutation; Intron4-1084 位 Tibet pig sequence consists of A → C mutation; Intron4-1000 位 Tibet pig sequence consists of C → G mutation; Intron4-999 位 Tibet pig sequence consists of A → G mutations. Intron3-417 位 Tibet pig sequences from the G → T mutation. Intron2-3348 位 Tibet pig sequence consists of G → A mutation; Intron2-3379 位 Tibet pig sequence consists of C → G mutation. Exon1-104 bits long Landrace and Duroc are missing phenomenon, possession of a pig into the phenomenon. Intron1-300 位 Tibet pig sequence consists of G → A mutation. Intron1-329 位, Intron1-369 位 Tibet pig sequence consists of G → A mutation. Through the website: http://www.cbrc.jp/research/db/TFSEARCH.html on TFSEARCH (ver 1.3) software for 13 mutations before and after the transcription factors were predicted, Intron4-1169, Intron4-1169 位occurring bases T → G, G → C mutation reduced after a regulatory element can predict the binding sites for transcription factors AML-1a (high prediction score 85.4). Intron4-1146 nucleotide occurs C → G mutation after the addition of two regulatory elements can be predicted binding sites for the transcription factors were MZF1 (high prediction score 88.7) and the transcription factor NF-kap (high prediction score 85.2). Intron4-1084 occurring nucleotide A → C mutation can be predicted to reduce the two binding sites of regulatory elements, namely transcription factor GATA-1 (high prediction score 89.0) and the transcription factor GATA-2 ( highest predicted score 85.8). Intron4-1000, Intron4-999 occurs by nucleotide C → G, A → G mutation by the addition of a regulatory element can predict the binding sites for transcription factors MZF1 (high prediction score 94.8), reduced to a regulatory element can be predicted binding sites for transcription factor Sp1 (high prediction score 87.7). Intron3-417 occurs at nucleotide mutation G → T and the second intron occurs at bases 3348 G → A mutation did not cause any potential regulatory elements and changes in protein binding sites. Intron2-3379 nucleotide occurs from the C → G mutation reduced to a regulatory element can predict the binding sites for transcription factors CDP CR (high prediction score 87.7). Exon1-104 bits long are inserted Landrace and Duroc phenomenon, the phenomenon of Tibetan pigs are missing. Intron1-300 occurs by the nucleotide G → A mutation, the addition of a regulatory element can predict the binding sites for transcription factors STATx (high prediction score 86.5), a decrease can be predicted to a regulatory element binding sites for transcription factor IK-2 (high prediction score 86). Intron1-329 G → A mutation, the addition of a regulatory element can predict the binding sites for transcription factors STATx (high prediction score 86.5), a decrease can be predicted to a regulatory element binding sites for transcription Factor IK-2 (high prediction score 86). Intron1-369 occurs by nucleotide G → A mutation increases three to regulatory elements can be predicted binding sites for transcription factor IK-2 (high prediction score 88.6), the transcription factor C / EBPb ( the highest predicted score 88.1), transcription factor Lyf-1 (high prediction score 85.7); reduced to a regulatory element can predict the binding sites for transcription factors MZF1 (high prediction score 91.3). With Dde I endonuclease analysis of SLA-DQB1 Intron3-417 nucleotide mutations, Tibetan pigs in vivo appears AA, AB and BB 3 genotypes, where AB genotype highest 56.00%; BB genotype frequency lowest 18%; frequency of allele A and B, respectively, 54% and 46%. Chi-square analysis showed that Tibetan pigs in vivo SLA-DQB1 Intron3-417 nucleotide Dde I restriction enzyme genotype distributions in Hardy-Weinberg equilibrium. Just Landrace and Duroc genotype BB. The preliminary study found that Tibet has swine MHC-DQB1 genetic polymorphism, for the possession of pig MHC-DQB1 genetic polymorphism study provides some basis, while Tibet pig is a disease-resistant varieties, MHC can be used as genetic markers for animal disease resistance, disease resistance selection in the auxiliary role to play. Tibet pig MHC-DQB1 locus mutation on disease resistance is not the determining factor will be subject to further study.

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