Haesu Ko
National Institute of Animal Science, Korea
Title: Annotation and geneticvariation studyof swine CD(cluster of differentiation) genes
Biography
Biography: Haesu Ko
Abstract
CD (cluster of differentiation) markers are cell surface molecules on immune-related cells such as leucocytes, which have various physiological functions, especially immune responses. CD markers presently range from CD1 to CD371 in human. CD molecules are mostly cell surface proteins encoded by genes. In the case of swine CD genes, it remains less well known by comparison with human CD genes. We defined the structures of the swine CD genes by assembly of transcriptome sequencing data and comparing with multi-species CD genes. Transcriptomic data were produced by RNA sequencing in 15 tissues of pigs in NIAS and obtained from public database such as Ensembl and NCBI. All swine CD genes were annotated on the Korean native pig genome map constructed by de novo assembly. We classified the all annotated swine CD genes by comparing the genomic sequences and finding common motif conserved between them. After annotating swine CD genes, genomic variations were investigated using mapping with paired-end sequencing data of a total of 59 pigs of five breeds. In the study, furthermore, we predicted variant effects on the swine CD genes based on their protein structure-functional relationships. We hope to provide new insights and extend information for understanding of swine immune system based on the genomic variations of the swine CD genes.