Molecular characterization, expression analysis and association study with meat quality traits of porcine TTID gene

• Published in: Molecular biology reports 2013-02, Vol.40 (2), p.1219-1226
• Main Authors: Wang, Jun, Deng, Chang-yan, Xiong, Yuan-zhu, Zuo, Bo
• Format: Article
• Language: English
• Subjects: Amino Acid Motifs; Amino Acid Sequence; Animal Anatomy; Animal Biochemistry; Animals; Base Sequence; Biomedical and Life Sciences; Cloning, Molecular; Cytoskeletal Proteins - chemistry; Cytoskeletal Proteins - genetics; Cytoskeletal Proteins - metabolism; Female; Food Quality; Gene Expression; Gene Frequency; Genetic Association Studies; Genotype; Genotype & phenotype; Histology; Hogs; Introns; Life Sciences; Male; Meat - standards; Meat quality; Molecular biology; Molecular Sequence Data; Morphology; Muscle Proteins - chemistry; Muscle Proteins - genetics; Muscle Proteins - metabolism; Muscle, Skeletal - metabolism; Myocardium - metabolism; Organ Specificity; Phylogeny; Polymorphism, Single Nucleotide; Protein Processing, Post-Translational; Protein Structure, Tertiary; Proteins; RNA, Messenger - genetics; RNA, Messenger - metabolism; Sequence Analysis, DNA; Sequence Homology, Amino Acid; Sus scrofa - genetics
• ISSN: 0301-4851; 1573-4978
• DOI: 10.1007/s11033-012-2164-0

Titin immunoglobulin domain protein (TTID) is localized to the Z-line and binds to alpha-actinin, gamma-filamin. It plays an indispensable role in stabilization and anchorage of thin filaments. In this study, the full-length cDNA sequence was isolated by the reverse transcription-polymerase chain reaction (RT-PCR) and the rapid amplification of cDNA ends (RACE). The TTID sequence was deposited into the Genbank under the accession no. DQ157551. The deduced protein of 499 amino acids showed 93 % identity to the corresponding human and rat sequence. Semi-quantitative RT-PCR revealed porcine TTID gene was expressed highest level in skeletal muscle, at second-highest level in the heart, but only low expression in the fat was detected. Bioinformatics analysis shows the molecular weight of the TTID protein is 55.747 kD with a PI of 9.26. It contains the protein function site of two potential Ig-like domain profiles, six N-myristoylation sites, six potential Casein kinase II phosphorylation sites, eight protein kinase C phosphorylation sites, three N-glycosylation sites, a tyrosine kinase phosphorylation site and a cell attachment sequence site. No putative base substitution was detected in the coding region by comparing sequences of Large White, Landrace and Meishan pig breeds. A T978C single nucleotide polymorphism in the intron 6 of porcine TTID gene was detected by a Hinf I PCR-restriction fragment length polymorphism. Study showed allele frequency differences among four purebreds. Association of the genotypes with meat quality traits showed that different genotypes of porcine TTID gene were significantly associated with meat pH ( m.Biceps Femoris ) ( P